notbugAs an Amazon Associate I earn from qualifying purchases.
Want a good read? Try FreeBSD Mastery: Jails (IT Mastery Book 15)
Port details
seqan1 C++ Sequence Analysis Library
1.3.1_4 biology on this many watch lists=0 search for ports that depend on this port Find issues related to this port Report an issue related to this port View this port on Repology. pkg-fallout 1.3.1_4Version of this port present on the latest quarterly branch.
Maintainer: h2+fbsdports@fsfe.org search for ports maintained by this maintainer
Port Added: 2016-05-10 01:05:34
Last Update: 2021-04-06 14:31:07
Commit Hash: 305f148
License: BSD3CLAUSE
Description:
SVNWeb : git : Homepage
pkg-plist: as obtained via: make generate-plist
Expand this list (1989 items)
Collapse this list.
  1. /usr/local/share/licenses/seqan1-1.3.1_4/catalog.mk
  2. /usr/local/share/licenses/seqan1-1.3.1_4/LICENSE
  3. /usr/local/share/licenses/seqan1-1.3.1_4/BSD3CLAUSE
  4. include/seqan.h
  5. include/seqan/LICENSE
  6. include/seqan/align.h
  7. include/seqan/align/align_algorithms.h
  8. include/seqan/align/align_base.h
  9. include/seqan/align/align_cols_base.h
  10. include/seqan/align/align_dynprog.h
  11. include/seqan/align/align_generated_forwards.h
  12. include/seqan/align/align_hirschberg.h
  13. include/seqan/align/align_iterator_base.h
  14. include/seqan/align/align_local_dynprog.h
  15. include/seqan/align/align_local_dynprog_banded.h
  16. include/seqan/align/align_myers.h
  17. include/seqan/align/align_trace.h
  18. include/seqan/align/gaps_array.h
  19. include/seqan/align/gaps_base.h
  20. include/seqan/align/gaps_iterator_base.h
  21. include/seqan/align/gaps_sumlist.h
  22. include/seqan/align/hirschberg_set.h
  23. include/seqan/align/matrix_base.h
  24. include/seqan/basic.h
  25. include/seqan/basic/basic_aggregates.h
  26. include/seqan/basic/basic_allocator_chunkpool.h
  27. include/seqan/basic/basic_allocator_interface.h
  28. include/seqan/basic/basic_allocator_multipool.h
  29. include/seqan/basic/basic_allocator_simple.h
  30. include/seqan/basic/basic_allocator_singlepool.h
  31. include/seqan/basic/basic_allocator_to_std.h
  32. include/seqan/basic/basic_alphabet_interface.h
  33. include/seqan/basic/basic_alphabet_interface2.h
  34. include/seqan/basic/basic_alphabet_simple.h
  35. include/seqan/basic/basic_alphabet_simple_tabs.h
  36. include/seqan/basic/basic_alphabet_trait_basic.h
  37. include/seqan/basic/basic_compare.h
  38. include/seqan/basic/basic_converter.h
  39. include/seqan/basic/basic_counted_ptr.h
  40. include/seqan/basic/basic_debug.h
  41. include/seqan/basic/basic_definition.h
  42. include/seqan/basic/basic_forwards.h
  43. include/seqan/basic/basic_generated_forwards.h
  44. include/seqan/basic/basic_holder.h
  45. include/seqan/basic/basic_holder_dynamic.h
  46. include/seqan/basic/basic_host.h
  47. include/seqan/basic/basic_iterator.h
  48. include/seqan/basic/basic_iterator_adapt_std.h
  49. include/seqan/basic/basic_iterator_adaptor.h
  50. include/seqan/basic/basic_iterator_base.h
  51. include/seqan/basic/basic_iterator_position.h
  52. include/seqan/basic/basic_iterator_simple.h
  53. include/seqan/basic/basic_logvalue.h
  54. include/seqan/basic/basic_metaprogramming.h
  55. include/seqan/basic/basic_operator.h
  56. include/seqan/basic/basic_parallelism.h
  57. include/seqan/basic/basic_pointer.h
  58. include/seqan/basic/basic_profchar.h
  59. include/seqan/basic/basic_profile.h
  60. include/seqan/basic/basic_proxy.h
  61. include/seqan/basic/basic_sse2.h
  62. include/seqan/basic/basic_tag.h
  63. include/seqan/basic/basic_testing.h
  64. include/seqan/basic/basic_transport.h
  65. include/seqan/basic/basic_type.h
  66. include/seqan/basic/basic_volatile_ptr.h
  67. include/seqan/blast.h
  68. include/seqan/blast/blast_base.h
  69. include/seqan/blast/blast_generated_forwards.h
  70. include/seqan/blast/blast_hit.h
  71. include/seqan/blast/blast_hit_iterator.h
  72. include/seqan/blast/blast_hsp.h
  73. include/seqan/blast/blast_hsp_iterator.h
  74. include/seqan/blast/blast_iterator.h
  75. include/seqan/blast/blast_parsing.h
  76. include/seqan/blast/blast_report.h
  77. include/seqan/blast/blast_run.h
  78. include/seqan/blast/blast_stream_hit.h
  79. include/seqan/blast/blast_stream_hit_iterator.h
  80. include/seqan/blast/blast_stream_hsp_iterator.h
  81. include/seqan/blast/blast_stream_report.h
  82. include/seqan/chaining.h
  83. include/seqan/chaining/chain_base.h
  84. include/seqan/chaining/chain_generic.h
  85. include/seqan/chaining/chain_meta_fragment.h
  86. include/seqan/chaining/chain_point.h
  87. include/seqan/chaining/chain_wrapper_point.h
  88. include/seqan/chaining/chaining_generated_forwards.h
  89. include/seqan/chaining/fragment.h
  90. include/seqan/chaining/geom_distribution.h
  91. include/seqan/chaining/range_max_tree.h
  92. include/seqan/chaining/range_tree.h
  93. include/seqan/chaining/rmt_base.h
  94. include/seqan/chaining/rmt_common_algos.h
  95. include/seqan/chaining/rmt_compl_algos.h
  96. include/seqan/chaining/rmt_def_algos.h
  97. include/seqan/chaining/rmt_skip_base_element.h
  98. include/seqan/chaining/rmt_skip_element.h
  99. include/seqan/chaining/rt_base.h
  100. include/seqan/chaining/rt_common_algos.h
  101. include/seqan/chaining/rt_impl.h
  102. include/seqan/chaining/rt_skip_base_element.h
  103. include/seqan/chaining/rt_skip_element.h
  104. include/seqan/chaining/rt_sl_base.h
  105. include/seqan/chaining/rt_sl_compl_algos.h
  106. include/seqan/chaining/rt_sl_def_algos.h
  107. include/seqan/chaining/rt_sl_impl.h
  108. include/seqan/chaining/score_chain.h
  109. include/seqan/chaining/score_chain_sop.h
  110. include/seqan/chaining/score_manhattan.h
  111. include/seqan/chaining/score_zero.h
  112. include/seqan/chaining/skip_base_element.h
  113. include/seqan/chaining/skip_element.h
  114. include/seqan/chaining/skip_list.h
  115. include/seqan/chaining/skip_list_base.h
  116. include/seqan/chaining/skip_list_dynamic.h
  117. include/seqan/chaining/skip_list_impl.h
  118. include/seqan/chaining/skip_list_iterator.h
  119. include/seqan/chaining/skip_list_type.h
  120. include/seqan/chaining/skip_pool_alloc.h
  121. include/seqan/chaining/tree_chain.h
  122. include/seqan/chaining/tree_chain_sop.h
  123. include/seqan/chaining/tree_chain_utils.h
  124. include/seqan/consensus.h
  125. include/seqan/consensus/consensus_base.h
  126. include/seqan/consensus/consensus_generated_forwards.h
  127. include/seqan/consensus/consensus_library.h
  128. include/seqan/consensus/consensus_realign.h
  129. include/seqan/consensus/consensus_score.h
  130. include/seqan/file.h
  131. include/seqan/file/chunk_collector.h
  132. include/seqan/file/cstream.h
  133. include/seqan/file/file_array.h
  134. include/seqan/file/file_base.h
  135. include/seqan/file/file_cstyle.h
  136. include/seqan/file/file_filereader.h
  137. include/seqan/file/file_filereaderiterator.h
  138. include/seqan/file/file_format.h
  139. include/seqan/file/file_format_cgviz.h
  140. include/seqan/file/file_format_embl.h
  141. include/seqan/file/file_format_fasta.h
  142. include/seqan/file/file_format_fasta_align.h
  143. include/seqan/file/file_format_genbank.h
  144. include/seqan/file/file_format_guess.h
  145. include/seqan/file/file_format_mmap.h
  146. include/seqan/file/file_format_raw.h
  147. include/seqan/file/file_forwards.h
  148. include/seqan/file/file_generated_forwards.h
  149. include/seqan/file/file_page.h
  150. include/seqan/file/file_page_raid0.h
  151. include/seqan/file/meta.h
  152. include/seqan/file/stream.h
  153. include/seqan/file/stream_algorithms.h
  154. include/seqan/file/string_external.h
  155. include/seqan/file/string_mmap.h
  156. include/seqan/find.h
  157. include/seqan/find/find_abndm.h
  158. include/seqan/find/find_ahocorasick.h
  159. include/seqan/find/find_base.h
  160. include/seqan/find/find_begin.h
  161. include/seqan/find/find_bndm.h
  162. include/seqan/find/find_bom.h
  163. include/seqan/find/find_generated_forwards.h
  164. include/seqan/find/find_hamming_simple.h
  165. include/seqan/find/find_horspool.h
  166. include/seqan/find/find_multi.h
  167. include/seqan/find/find_multiple_bfam.h
  168. include/seqan/find/find_multiple_shiftand.h
  169. include/seqan/find/find_myers_ukkonen.h
  170. include/seqan/find/find_pattern_base.h
  171. include/seqan/find/find_pex.h
  172. include/seqan/find/find_score.h
  173. include/seqan/find/find_set_horspool.h
  174. include/seqan/find/find_shiftand.h
  175. include/seqan/find/find_shiftor.h
  176. include/seqan/find/find_simple.h
  177. include/seqan/find/find_wild_shiftand.h
  178. include/seqan/find/find_wumanber.h
  179. include/seqan/find2.h
  180. include/seqan/find2/find2_generated_forwards.h
  181. include/seqan/find2/find_approx_dpsearch.h
  182. include/seqan/find2/find_approx_find_begin.h
  183. include/seqan/find2/find_base.h
  184. include/seqan/find2/find_exact_shiftand.h
  185. include/seqan/find2/find_exact_simple.h
  186. include/seqan/find2/find_finder_default.h
  187. include/seqan/find2/find_hamming_simple.h
  188. include/seqan/find2/find_multiple_exact_simple.h
  189. include/seqan/find2/find_pattern_wild_shiftand.h
  190. include/seqan/find_motif.h
  191. include/seqan/find_motif/em_algorithm.h
  192. include/seqan/find_motif/find_motif_base.h
  193. include/seqan/find_motif/find_motif_epatternbranching.h
  194. include/seqan/find_motif/find_motif_generated_forwards.h
  195. include/seqan/find_motif/find_motif_pms1.h
  196. include/seqan/find_motif/find_motif_pmsp.h
  197. include/seqan/find_motif/find_motif_projection.h
  198. include/seqan/find_motif/frequency_distribution.h
  199. include/seqan/find_motif/profile.h
  200. include/seqan/find_motif/pseudocount_base.h
  201. include/seqan/find_motif/pseudocount_mode_c.h
  202. include/seqan/find_motif/pseudocount_mode_p.h
  203. include/seqan/find_motif/sequence_model_types.h
  204. include/seqan/graph_algorithms.h
  205. include/seqan/graph_algorithms/graph_algorithm.h
  206. include/seqan/graph_algorithms/graph_algorithm_heap_tree.h
  207. include/seqan/graph_algorithms/graph_algorithm_hmm.h
  208. include/seqan/graph_algorithms/graph_algorithm_lis_his.h
  209. include/seqan/graph_algorithms/graph_algorithms_generated_forwards.h
  210. include/seqan/graph_align.h
  211. include/seqan/graph_align/graph_align_banded_gotoh.h
  212. include/seqan/graph_align/graph_align_banded_needleman_wunsch.h
  213. include/seqan/graph_align/graph_align_banded_smith_waterman_clump.h
  214. include/seqan/graph_align/graph_align_base.h
  215. include/seqan/graph_align/graph_align_config.h
  216. include/seqan/graph_align/graph_align_generated_forwards.h
  217. include/seqan/graph_align/graph_align_gotoh.h
  218. include/seqan/graph_align/graph_align_hirschberg.h
  219. include/seqan/graph_align/graph_align_interface.h
  220. include/seqan/graph_align/graph_align_needleman_wunsch.h
  221. include/seqan/graph_align/graph_align_smith_waterman.h
  222. include/seqan/graph_align/graph_align_smith_waterman_clump.h
  223. include/seqan/graph_msa.h
  224. include/seqan/graph_msa/graph_align_tcoffee_base.h
  225. include/seqan/graph_msa/graph_align_tcoffee_distance.h
  226. include/seqan/graph_msa/graph_align_tcoffee_guidetree.h
  227. include/seqan/graph_msa/graph_align_tcoffee_io.h
  228. include/seqan/graph_msa/graph_align_tcoffee_kmer.h
  229. include/seqan/graph_msa/graph_align_tcoffee_library.h
  230. include/seqan/graph_msa/graph_align_tcoffee_msa.h
  231. include/seqan/graph_msa/graph_align_tcoffee_progressive.h
  232. include/seqan/graph_msa/graph_align_tcoffee_refinement.h
  233. include/seqan/graph_msa/graph_msa_generated_forwards.h
  234. include/seqan/graph_types.h
  235. include/seqan/graph_types/graph_base.h
  236. include/seqan/graph_types/graph_drawing.h
  237. include/seqan/graph_types/graph_edgestump.h
  238. include/seqan/graph_types/graph_idmanager.h
  239. include/seqan/graph_types/graph_impl_automaton.h
  240. include/seqan/graph_types/graph_impl_directed.h
  241. include/seqan/graph_types/graph_impl_fragment.h
  242. include/seqan/graph_types/graph_impl_hmm.h
  243. include/seqan/graph_types/graph_impl_oracle.h
  244. include/seqan/graph_types/graph_impl_tree.h
  245. include/seqan/graph_types/graph_impl_trie.h
  246. include/seqan/graph_types/graph_impl_undirected.h
  247. include/seqan/graph_types/graph_impl_wordgraph.h
  248. include/seqan/graph_types/graph_interface.h
  249. include/seqan/graph_types/graph_iterator.h
  250. include/seqan/graph_types/graph_iterator_adjacency.h
  251. include/seqan/graph_types/graph_iterator_bfs.h
  252. include/seqan/graph_types/graph_iterator_dfs.h
  253. include/seqan/graph_types/graph_iterator_edge.h
  254. include/seqan/graph_types/graph_iterator_outedge.h
  255. include/seqan/graph_types/graph_iterator_vertex.h
  256. include/seqan/graph_types/graph_property.h
  257. include/seqan/graph_types/graph_types_generated_forwards.h
  258. include/seqan/graph_types/graph_utility_parsing.h
  259. include/seqan/index.h
  260. include/seqan/index/find_index.h
  261. include/seqan/index/find_index_approx.h
  262. include/seqan/index/find_index_esa.h
  263. include/seqan/index/find_index_qgram.h
  264. include/seqan/index/find_quasar.h
  265. include/seqan/index/find_swift.h
  266. include/seqan/index/index_base.h
  267. include/seqan/index/index_bwt.h
  268. include/seqan/index/index_childtab.h
  269. include/seqan/index/index_dfi.h
  270. include/seqan/index/index_esa_algs.h
  271. include/seqan/index/index_esa_algs_multi.h
  272. include/seqan/index/index_esa_base.h
  273. include/seqan/index/index_esa_drawing.h
  274. include/seqan/index/index_esa_stree.h
  275. include/seqan/index/index_generated_forwards.h
  276. include/seqan/index/index_lcp.h
  277. include/seqan/index/index_lcp_tree.h
  278. include/seqan/index/index_manual_forwards.h
  279. include/seqan/index/index_pizzachili.h
  280. include/seqan/index/index_pizzachili_find.h
  281. include/seqan/index/index_pizzachili_string.h
  282. include/seqan/index/index_qgram.h
  283. include/seqan/index/index_qgram_openaddressing.h
  284. include/seqan/index/index_sa_btree.h
  285. include/seqan/index/index_sa_bwtwalk.h
  286. include/seqan/index/index_sa_lss.h
  287. include/seqan/index/index_sa_mm.h
  288. include/seqan/index/index_sa_qsort.h
  289. include/seqan/index/index_shawarma.h
  290. include/seqan/index/index_shims.h
  291. include/seqan/index/index_skew3.h
  292. include/seqan/index/index_skew7.h
  293. include/seqan/index/index_skew7_multi.h
  294. include/seqan/index/index_wotd.h
  295. include/seqan/index/pipe_merger3.h
  296. include/seqan/index/pipe_merger7.h
  297. include/seqan/index/pizzachili_api.h
  298. include/seqan/index/pump_extender3.h
  299. include/seqan/index/pump_extender7.h
  300. include/seqan/index/pump_lcp_core.h
  301. include/seqan/index/pump_separator7.h
  302. include/seqan/index/radix.h
  303. include/seqan/index/repeat_base.h
  304. include/seqan/index/shape_base.h
  305. include/seqan/index/shape_gapped.h
  306. include/seqan/index/shape_onegapped.h
  307. include/seqan/index/shape_predefined.h
  308. include/seqan/index/shape_threshold.h
  309. include/seqan/map.h
  310. include/seqan/map/map_adapter_stl.h
  311. include/seqan/map/map_base.h
  312. include/seqan/map/map_chooser.h
  313. include/seqan/map/map_generated_forwards.h
  314. include/seqan/map/map_skiplist.h
  315. include/seqan/map/map_vector.h
  316. include/seqan/map/sumlist.h
  317. include/seqan/map/sumlist_mini.h
  318. include/seqan/map/sumlist_skip.h
  319. include/seqan/misc/edit_environment.h
  320. include/seqan/misc/misc_base.h
  321. include/seqan/misc/misc_cmdparser.h
  322. include/seqan/misc/misc_dequeue.h
  323. include/seqan/misc/misc_generated_forwards.h
  324. include/seqan/misc/misc_interval_tree.h
  325. include/seqan/misc/misc_long_word.h
  326. include/seqan/misc/misc_map.h
  327. include/seqan/misc/misc_parsing.h
  328. include/seqan/misc/misc_random.h
  329. include/seqan/misc/misc_set.h
  330. include/seqan/misc/misc_svg.h
  331. include/seqan/misc/priority_type_base.h
  332. include/seqan/misc/priority_type_heap.h
  333. include/seqan/modifier.h
  334. include/seqan/modifier/modifier_alphabet.h
  335. include/seqan/modifier/modifier_alphabet_expansion.h
  336. include/seqan/modifier/modifier_functors.h
  337. include/seqan/modifier/modifier_generated_forwards.h
  338. include/seqan/modifier/modifier_iterator.h
  339. include/seqan/modifier/modifier_reverse.h
  340. include/seqan/modifier/modifier_shortcuts.h
  341. include/seqan/modifier/modifier_string.h
  342. include/seqan/modifier/modifier_view.h
  343. include/seqan/parallel.h
  344. include/seqan/parallel/parallel_atomic_misc.h
  345. include/seqan/parallel/parallel_atomic_primitives.h
  346. include/seqan/parallel/parallel_generated_forwards.h
  347. include/seqan/parallel/parallel_macros.h
  348. include/seqan/pipe.h
  349. include/seqan/pipe/pipe_base.h
  350. include/seqan/pipe/pipe_caster.h
  351. include/seqan/pipe/pipe_counter.h
  352. include/seqan/pipe/pipe_echoer.h
  353. include/seqan/pipe/pipe_edit_environment.h
  354. include/seqan/pipe/pipe_filter.h
  355. include/seqan/pipe/pipe_generated_forwards.h
  356. include/seqan/pipe/pipe_iterator.h
  357. include/seqan/pipe/pipe_joiner.h
  358. include/seqan/pipe/pipe_namer.h
  359. include/seqan/pipe/pipe_sampler.h
  360. include/seqan/pipe/pipe_shifter.h
  361. include/seqan/pipe/pipe_source.h
  362. include/seqan/pipe/pipe_tupler.h
  363. include/seqan/pipe/pool_base.h
  364. include/seqan/pipe/pool_mapper.h
  365. include/seqan/pipe/pool_sorter.h
  366. include/seqan/platform.h
  367. include/seqan/platform/platform_gcc.h
  368. include/seqan/platform/platform_generated_forwards.h
  369. include/seqan/platform/platform_mingw.h
  370. include/seqan/platform/platform_solaris.h
  371. include/seqan/platform/platform_windows.h
  372. include/seqan/random.h
  373. include/seqan/random/ext_MersenneTwister.h
  374. include/seqan/random/random_base.h
  375. include/seqan/random/random_generated_forwards.h
  376. include/seqan/random/random_geometric.h
  377. include/seqan/random/random_lognormal.h
  378. include/seqan/random/random_mt19937.h
  379. include/seqan/random/random_normal.h
  380. include/seqan/random/random_rng_functor.h
  381. include/seqan/random/random_shuffle.h
  382. include/seqan/random/random_uniform.h
  383. include/seqan/refinement.h
  384. include/seqan/refinement/graph_algorithm_refine_align.h
  385. include/seqan/refinement/graph_algorithm_refine_aligngraph.h
  386. include/seqan/refinement/graph_algorithm_refine_annotation.h
  387. include/seqan/refinement/graph_algorithm_refine_exact.h
  388. include/seqan/refinement/graph_algorithm_refine_exact_iterative.h
  389. include/seqan/refinement/graph_algorithm_refine_fragment.h
  390. include/seqan/refinement/graph_algorithm_refine_inexact.h
  391. include/seqan/refinement/graph_algorithm_refine_scoring.h
  392. include/seqan/refinement/graph_impl_align.h
  393. include/seqan/refinement/graph_impl_align_adapt.h
  394. include/seqan/refinement/refinement_generated_forwards.h
  395. include/seqan/score.h
  396. include/seqan/score/score_base.h
  397. include/seqan/score/score_edit.h
  398. include/seqan/score/score_generated_forwards.h
  399. include/seqan/score/score_matrix.h
  400. include/seqan/score/score_matrix_data.h
  401. include/seqan/score/score_simple.h
  402. include/seqan/seeds.h
  403. include/seqan/seeds/banded_align.h
  404. include/seqan/seeds/banded_chain_align.h
  405. include/seqan/seeds/banded_chain_align_affine.h
  406. include/seqan/seeds/global_seed_chain.h
  407. include/seqan/seeds/memoryManager_base.h
  408. include/seqan/seeds/memoryManager_int.h
  409. include/seqan/seeds/propertyMap.h
  410. include/seqan/seeds/seedHandlingTags.h
  411. include/seqan/seeds/seedSet_base.h
  412. include/seqan/seeds/seedSet_iterator.h
  413. include/seqan/seeds/seedSet_score.h
  414. include/seqan/seeds/seed_base.h
  415. include/seqan/seeds/seed_multi.h
  416. include/seqan/seeds/seeds_generated_forwards.h
  417. include/seqan/seeds2.h
  418. include/seqan/seeds2/align_chain_banded.h
  419. include/seqan/seeds2/align_dynprog_affine.h
  420. include/seqan/seeds2/align_dynprog_banded_affine.h
  421. include/seqan/seeds2/align_dynprog_banded_linear.h
  422. include/seqan/seeds2/align_dynprog_linear.h
  423. include/seqan/seeds2/basic_iter_indirect.h
  424. include/seqan/seeds2/seeds2_generated_forwards.h
  425. include/seqan/seeds2/seeds_base.h
  426. include/seqan/seeds2/seeds_combination.h
  427. include/seqan/seeds2/seeds_extension.h
  428. include/seqan/seeds2/seeds_global_chaining.h
  429. include/seqan/seeds2/seeds_global_chaining_base.h
  430. include/seqan/seeds2/seeds_global_chaining_gusfield.h
  431. include/seqan/seeds2/seeds_seed_base.h
  432. include/seqan/seeds2/seeds_seed_chained.h
  433. include/seqan/seeds2/seeds_seed_diagonal.h
  434. include/seqan/seeds2/seeds_seed_set_base.h
  435. include/seqan/seeds2/seeds_seed_set_non_scored.h
  436. include/seqan/seeds2/seeds_seed_set_scored.h
  437. include/seqan/seeds2/seeds_seed_set_unordered.h
  438. include/seqan/seeds2/seeds_seed_simple.h
  439. include/seqan/sequence.h
  440. include/seqan/sequence/adapt_array_pointer.h
  441. include/seqan/sequence/adapt_std_list.h
  442. include/seqan/sequence/adapt_std_string.h
  443. include/seqan/sequence/adapt_std_vector.h
  444. include/seqan/sequence/iter_concat_virtual.h
  445. include/seqan/sequence/segment_base.h
  446. include/seqan/sequence/segment_infix.h
  447. include/seqan/sequence/segment_prefix.h
  448. include/seqan/sequence/segment_suffix.h
  449. include/seqan/sequence/sequence_concatenator.h
  450. include/seqan/sequence/sequence_forwards.h
  451. include/seqan/sequence/sequence_generated_forwards.h
  452. include/seqan/sequence/sequence_interface.h
  453. include/seqan/sequence/sequence_lexical.h
  454. include/seqan/sequence/sequence_shortcuts.h
  455. include/seqan/sequence/sequence_stream.h
  456. include/seqan/sequence/string_alloc.h
  457. include/seqan/sequence/string_array.h
  458. include/seqan/sequence/string_base.h
  459. include/seqan/sequence/string_block.h
  460. include/seqan/sequence/string_cstyle.h
  461. include/seqan/sequence/string_packed.h
  462. include/seqan/sequence/string_set_base.h
  463. include/seqan/sequence/string_set_concat_direct.h
  464. include/seqan/sequence/string_set_dependent_generous.h
  465. include/seqan/sequence/string_set_dependent_tight.h
  466. include/seqan/sequence/string_set_owner.h
  467. include/seqan/sequence_journaled.h
  468. include/seqan/sequence_journaled/journal_entries_sorted_array.h
  469. include/seqan/sequence_journaled/journal_entries_unbalanced_tree.h
  470. include/seqan/sequence_journaled/journal_entries_unbalanced_tree_iterator.h
  471. include/seqan/sequence_journaled/journal_entries_unbalanced_tree_node.h
  472. include/seqan/sequence_journaled/journal_entry.h
  473. include/seqan/sequence_journaled/sequence_journaled.h
  474. include/seqan/sequence_journaled/sequence_journaled_forwards.h
  475. include/seqan/sequence_journaled/sequence_journaled_generated_forwards.h
  476. include/seqan/sequence_journaled/sequence_journaled_iterator.h
  477. include/seqan/statistics.h
  478. include/seqan/statistics/statistics_base.h
  479. include/seqan/statistics/statistics_generated_forwards.h
  480. include/seqan/statistics/statistics_markov_model.h
  481. include/seqan/store.h
  482. include/seqan/store/store_align.h
  483. include/seqan/store/store_align_intervals.h
  484. include/seqan/store/store_all.h
  485. include/seqan/store/store_annotation.h
  486. include/seqan/store/store_base.h
  487. include/seqan/store/store_contig.h
  488. include/seqan/store/store_generated_forwards.h
  489. include/seqan/store/store_intervaltree.h
  490. include/seqan/store/store_io.h
  491. include/seqan/store/store_io_bam.h
  492. include/seqan/store/store_io_gff.h
  493. include/seqan/store/store_io_sam.h
  494. include/seqan/store/store_io_ucsc.h
  495. include/seqan/store/store_library.h
  496. include/seqan/store/store_matepair.h
  497. include/seqan/store/store_read.h
  498. include/seqan/system.h
  499. include/seqan/system/file_async.h
  500. include/seqan/system/file_directory.h
  501. include/seqan/system/file_manual_forwards.h
  502. include/seqan/system/file_sync.h
  503. include/seqan/system/system_base.h
  504. include/seqan/system/system_event.h
  505. include/seqan/system/system_generated_forwards.h
  506. include/seqan/system/system_manual_forwards.h
  507. include/seqan/system/system_mutex.h
  508. include/seqan/system/system_sema.h
  509. include/seqan/system/system_thread.h
  510. include/seqan/version.h
  511. share/doc/seqan/ADAPTION.char+array.html
  512. share/doc/seqan/ADAPTION.std_3a_3a_F_I_L_E+_2a.html
  513. share/doc/seqan/ADAPTION.std_3a_3abasic__string.html
  514. share/doc/seqan/ADAPTION.std_3a_3aiostream.html
  515. share/doc/seqan/ADAPTION.std_3a_3alist.html
  516. share/doc/seqan/ADAPTION.std_3a_3avector.html
  517. share/doc/seqan/CLASS_Align.html
  518. share/doc/seqan/CLASS_Align_Cols.html
  519. share/doc/seqan/CLASS_Align_Config.html
  520. share/doc/seqan/CLASS_Align_Quality_Store_Element.html
  521. share/doc/seqan/CLASS_Aligned_Read_Layout.html
  522. share/doc/seqan/CLASS_Aligned_Read_Store_Element.html
  523. share/doc/seqan/CLASS_Allocator.html
  524. share/doc/seqan/CLASS_Async_Request.html
  525. share/doc/seqan/CLASS_Auto_Seq_Format.html
  526. share/doc/seqan/CLASS_Blast_Hit.html
  527. share/doc/seqan/CLASS_Blast_Hsp.html
  528. share/doc/seqan/CLASS_Blast_Report.html
  529. share/doc/seqan/CLASS_Bundle2.html
  530. share/doc/seqan/CLASS_Bundle3.html
  531. share/doc/seqan/CLASS_Bundle5.html
  532. share/doc/seqan/CLASS_Command_Line_Option.html
  533. share/doc/seqan/CLASS_Command_Line_Parser.html
  534. share/doc/seqan/CLASS_Concatenator_Many_To_One.html
  535. share/doc/seqan/CLASS_Contig_File.html
  536. share/doc/seqan/CLASS_Contig_Store_Element.html
  537. share/doc/seqan/CLASS_Dequeue.html
  538. share/doc/seqan/CLASS_Edge_Stump.html
  539. share/doc/seqan/CLASS_External+_Property+_Map.html
  540. share/doc/seqan/CLASS_File.html
  541. share/doc/seqan/CLASS_File_Format.html
  542. share/doc/seqan/CLASS_Finder.html
  543. share/doc/seqan/CLASS_Fragment.html
  544. share/doc/seqan/CLASS_Fragment_Store.html
  545. share/doc/seqan/CLASS_Frequency_Distribution.html
  546. share/doc/seqan/CLASS_Functor_Complement.html
  547. share/doc/seqan/CLASS_Functor_Convert.html
  548. share/doc/seqan/CLASS_Functor_Lowcase.html
  549. share/doc/seqan/CLASS_Functor_Upcase.html
  550. share/doc/seqan/CLASS_Gap_Anchor.html
  551. share/doc/seqan/CLASS_Gaps.html
  552. share/doc/seqan/CLASS_Graph.html
  553. share/doc/seqan/CLASS_Hardwired_Shape.html
  554. share/doc/seqan/CLASS_Holder.html
  555. share/doc/seqan/CLASS_Id_Manager.html
  556. share/doc/seqan/CLASS_Index.html
  557. share/doc/seqan/CLASS_Internal_Map.html
  558. share/doc/seqan/CLASS_Internal_Pointer_Map.html
  559. share/doc/seqan/CLASS_Internal_Raw_Map.html
  560. share/doc/seqan/CLASS_Interval_And_Cargo.html
  561. share/doc/seqan/CLASS_Interval_Tree.html
  562. share/doc/seqan/CLASS_Interval_Tree_Node.html
  563. share/doc/seqan/CLASS_Iter.html
  564. share/doc/seqan/CLASS_Lexical.html
  565. share/doc/seqan/CLASS_Library_Store_Element.html
  566. share/doc/seqan/CLASS_Local_Alignment_Finder.html
  567. share/doc/seqan/CLASS_Map.html
  568. share/doc/seqan/CLASS_Markov_Model.html
  569. share/doc/seqan/CLASS_Mate_Pair_Store_Element.html
  570. share/doc/seqan/CLASS_Matrix.html
  571. share/doc/seqan/CLASS_Memory_Manager.html
  572. share/doc/seqan/CLASS_Modified_Alphabet.html
  573. share/doc/seqan/CLASS_Modified_Iterator.html
  574. share/doc/seqan/CLASS_Modified_String.html
  575. share/doc/seqan/CLASS_Motif_Finder.html
  576. share/doc/seqan/CLASS_Name_Store_Cache.html
  577. share/doc/seqan/CLASS_Pair.html
  578. share/doc/seqan/CLASS_Pattern.html
  579. share/doc/seqan/CLASS_Pdf.html
  580. share/doc/seqan/CLASS_Pipe.html
  581. share/doc/seqan/CLASS_Point_And_Cargo.html
  582. share/doc/seqan/CLASS_Pool.html
  583. share/doc/seqan/CLASS_Priority_Type.html
  584. share/doc/seqan/CLASS_Property_Map.html
  585. share/doc/seqan/CLASS_Proxy.html
  586. share/doc/seqan/CLASS_Pseudocount.html
  587. share/doc/seqan/CLASS_Read_Store_Element.html
  588. share/doc/seqan/CLASS_Rng.html
  589. share/doc/seqan/CLASS_Score.html
  590. share/doc/seqan/CLASS_Seed.html
  591. share/doc/seqan/CLASS_Seed_Set.html
  592. share/doc/seqan/CLASS_Segment.html
  593. share/doc/seqan/CLASS_Shape.html
  594. share/doc/seqan/CLASS_Simple_Type.html
  595. share/doc/seqan/CLASS_String.html
  596. share/doc/seqan/CLASS_String_Set.html
  597. share/doc/seqan/CLASS_Tag_Selector.html
  598. share/doc/seqan/CLASS_To_Std_Allocator.html
  599. share/doc/seqan/CLASS_Triple.html
  600. share/doc/seqan/CLASS_Tuple.html
  601. share/doc/seqan/CONCEPT_Allocator.html
  602. share/doc/seqan/CONCEPT_Container.html
  603. share/doc/seqan/CONCEPT_Finder.html
  604. share/doc/seqan/CONCEPT_Iterator.html
  605. share/doc/seqan/CONCEPT_Pattern.html
  606. share/doc/seqan/CONCEPT_Rooted+_Iterator.html
  607. share/doc/seqan/CONCEPT_Simple+_Type.html
  608. share/doc/seqan/DEMO_All+_Pairs+_Shortest+_Path.html
  609. share/doc/seqan/DEMO_Allocators.html
  610. share/doc/seqan/DEMO_Alphabets.html
  611. share/doc/seqan/DEMO_Approximate+_Searching.html
  612. share/doc/seqan/DEMO_Bellman-_Ford+_Algorithm.html
  613. share/doc/seqan/DEMO_Blast+_Reports.html
  614. share/doc/seqan/DEMO_Breadth-_First+_Search.html
  615. share/doc/seqan/DEMO_Constraint+_Iterator.html
  616. share/doc/seqan/DEMO_Depth-_First+_Search.html
  617. share/doc/seqan/DEMO_Dijkstras+_Algorithm.html
  618. share/doc/seqan/DEMO_Exact+_Searching.html
  619. share/doc/seqan/DEMO_File+_Format+_I_2f_O.html
  620. share/doc/seqan/DEMO_Floyd-_Warshall+_Algorithm.html
  621. share/doc/seqan/DEMO_Global+_Alignments.html
  622. share/doc/seqan/DEMO_H_M_M+_Silent+_States.html
  623. share/doc/seqan/DEMO_H_M_M.html
  624. share/doc/seqan/DEMO_Heaviest+_Increasing+_Subsequence.html
  625. share/doc/seqan/DEMO_Index+_Finder+_String_Set.html
  626. share/doc/seqan/DEMO_Index+_Finder.html
  627. share/doc/seqan/DEMO_Iterator+_Basics.html
  628. share/doc/seqan/DEMO_Kruskals+_Algorithm.html
  629. share/doc/seqan/DEMO_Local+_Alignments.html
  630. share/doc/seqan/DEMO_Longest+_Common+_Subsequence.html
  631. share/doc/seqan/DEMO_Longest+_Increasing+_Subsequence.html
  632. share/doc/seqan/DEMO_Maximal+_Repeats.html
  633. share/doc/seqan/DEMO_Maximal+_Unique+_Matches.html
  634. share/doc/seqan/DEMO_Maximum+_Flow.html
  635. share/doc/seqan/DEMO_Mod_Reverse.html
  636. share/doc/seqan/DEMO_Mod_View.html
  637. share/doc/seqan/DEMO_Motif+_Finder.html
  638. share/doc/seqan/DEMO_Mummy.html
  639. share/doc/seqan/DEMO_Nested+_Modifiers.html
  640. share/doc/seqan/DEMO_Pizza+_26+_Chili+_Index.html
  641. share/doc/seqan/DEMO_Prims+_Algorithm.html
  642. share/doc/seqan/DEMO_Rooted+_Iterators.html
  643. share/doc/seqan/DEMO_Shortest+_Path+in+_D_A_Gs.html
  644. share/doc/seqan/DEMO_String+_Basics.html
  645. share/doc/seqan/DEMO_Strongly+_Connected+_Components.html
  646. share/doc/seqan/DEMO_Suffix+_Array.html
  647. share/doc/seqan/DEMO_Supermaximal+_Repeats.html
  648. share/doc/seqan/DEMO_Topological+_Sort.html
  649. share/doc/seqan/DEMO_Transitive+_Closure.html
  650. share/doc/seqan/DEMO_Wildcard+_Searching.html
  651. share/doc/seqan/FUNCTION.abs_Freq_Of_Letters_In_Seq.html
  652. share/doc/seqan/FUNCTION.abs_Freq_Of_Letters_In_Set_Of_Seqs.html
  653. share/doc/seqan/FUNCTION.add_Argument_Text.html
  654. share/doc/seqan/FUNCTION.add_Child.html
  655. share/doc/seqan/FUNCTION.add_Edge.html
  656. share/doc/seqan/FUNCTION.add_Edges.html
  657. share/doc/seqan/FUNCTION.add_Help_Line.html
  658. share/doc/seqan/FUNCTION.add_Interval.html
  659. share/doc/seqan/FUNCTION.add_Line.html
  660. share/doc/seqan/FUNCTION.add_Option.html
  661. share/doc/seqan/FUNCTION.add_Section.html
  662. share/doc/seqan/FUNCTION.add_Seed.html
  663. share/doc/seqan/FUNCTION.add_Seeds.html
  664. share/doc/seqan/FUNCTION.add_Title_Line.html
  665. share/doc/seqan/FUNCTION.add_Usage_Line.html
  666. share/doc/seqan/FUNCTION.add_Value.html
  667. share/doc/seqan/FUNCTION.add_Version_Line.html
  668. share/doc/seqan/FUNCTION.add_Vertex.html
  669. share/doc/seqan/FUNCTION.adjust_Top.html
  670. share/doc/seqan/FUNCTION.alignment.html
  671. share/doc/seqan/FUNCTION.alignment_Evaluation.html
  672. share/doc/seqan/FUNCTION.all_Pairs_Shortest_Path.html
  673. share/doc/seqan/FUNCTION.allocate.html
  674. share/doc/seqan/FUNCTION.append.html
  675. share/doc/seqan/FUNCTION.append_Aligned_Read.html
  676. share/doc/seqan/FUNCTION.append_Diag.html
  677. share/doc/seqan/FUNCTION.append_Mate_Pair.html
  678. share/doc/seqan/FUNCTION.append_Name.html
  679. share/doc/seqan/FUNCTION.append_Read.html
  680. share/doc/seqan/FUNCTION.append_Seqs.html
  681. share/doc/seqan/FUNCTION.append_Value.html
  682. share/doc/seqan/FUNCTION.argument_Count.html
  683. share/doc/seqan/FUNCTION.argument_Text.html
  684. share/doc/seqan/FUNCTION.array_Clear_Space.html
  685. share/doc/seqan/FUNCTION.array_Construct.html
  686. share/doc/seqan/FUNCTION.array_Construct_Copy.html
  687. share/doc/seqan/FUNCTION.array_Construct_Move.html
  688. share/doc/seqan/FUNCTION.array_Copy.html
  689. share/doc/seqan/FUNCTION.array_Copy_Backward.html
  690. share/doc/seqan/FUNCTION.array_Copy_Forward.html
  691. share/doc/seqan/FUNCTION.array_Destruct.html
  692. share/doc/seqan/FUNCTION.array_Fill.html
  693. share/doc/seqan/FUNCTION.array_Move.html
  694. share/doc/seqan/FUNCTION.array_Move_Backward.html
  695. share/doc/seqan/FUNCTION.array_Move_Forward.html
  696. share/doc/seqan/FUNCTION.assign.html
  697. share/doc/seqan/FUNCTION.assign_Begin_State.html
  698. share/doc/seqan/FUNCTION.assign_Cargo.html
  699. share/doc/seqan/FUNCTION.assign_Cropped_Seq_Id.html
  700. share/doc/seqan/FUNCTION.assign_Emission_Probability.html
  701. share/doc/seqan/FUNCTION.assign_End_State.html
  702. share/doc/seqan/FUNCTION.assign_Next_S.html
  703. share/doc/seqan/FUNCTION.assign_Next_T.html
  704. share/doc/seqan/FUNCTION.assign_Property.html
  705. share/doc/seqan/FUNCTION.assign_Qual.html
  706. share/doc/seqan/FUNCTION.assign_Qual_Id.html
  707. share/doc/seqan/FUNCTION.assign_Qualities.html
  708. share/doc/seqan/FUNCTION.assign_Quality_Value.html
  709. share/doc/seqan/FUNCTION.assign_Root.html
  710. share/doc/seqan/FUNCTION.assign_Seq.html
  711. share/doc/seqan/FUNCTION.assign_Seq_Id.html
  712. share/doc/seqan/FUNCTION.assign_Silent_Status.html
  713. share/doc/seqan/FUNCTION.assign_Source.html
  714. share/doc/seqan/FUNCTION.assign_String_Set.html
  715. share/doc/seqan/FUNCTION.assign_Target.html
  716. share/doc/seqan/FUNCTION.assign_Transition_Probability.html
  717. share/doc/seqan/FUNCTION.assign_Value.html
  718. share/doc/seqan/FUNCTION.assign_Value_By_Id.html
  719. share/doc/seqan/FUNCTION.async_Read_At.html
  720. share/doc/seqan/FUNCTION.async_Write_At.html
  721. share/doc/seqan/FUNCTION.at_Begin.html
  722. share/doc/seqan/FUNCTION.at_End.html
  723. share/doc/seqan/FUNCTION.at_End_Of_Sequence.html
  724. share/doc/seqan/FUNCTION.at_Nil.html
  725. share/doc/seqan/FUNCTION.atomic_Add.html
  726. share/doc/seqan/FUNCTION.atomic_Cas.html
  727. share/doc/seqan/FUNCTION.atomic_Dec.html
  728. share/doc/seqan/FUNCTION.atomic_Inc.html
  729. share/doc/seqan/FUNCTION.atomic_Max.html
  730. share/doc/seqan/FUNCTION.atomic_Min.html
  731. share/doc/seqan/FUNCTION.atomic_Or.html
  732. share/doc/seqan/FUNCTION.atomic_Xor.html
  733. share/doc/seqan/FUNCTION.back.html
  734. share/doc/seqan/FUNCTION.background_Frequency.html
  735. share/doc/seqan/FUNCTION.backward_Algorithm.html
  736. share/doc/seqan/FUNCTION.banded_Alignment.html
  737. share/doc/seqan/FUNCTION.banded_Chain_Alignment.html
  738. share/doc/seqan/FUNCTION.begin.html
  739. share/doc/seqan/FUNCTION.begin_Position.html
  740. share/doc/seqan/FUNCTION.begin_Read.html
  741. share/doc/seqan/FUNCTION.begin_State.html
  742. share/doc/seqan/FUNCTION.begin_Write.html
  743. share/doc/seqan/FUNCTION.bellman_Ford_Algorithm.html
  744. share/doc/seqan/FUNCTION.binomial_Coefficient.html
  745. share/doc/seqan/FUNCTION.blast_23get_Alignment.html
  746. share/doc/seqan/FUNCTION.breadth_First_Search.html
  747. share/doc/seqan/FUNCTION.bundle2.html
  748. share/doc/seqan/FUNCTION.bundle3.html
  749. share/doc/seqan/FUNCTION.bundle5.html
  750. share/doc/seqan/FUNCTION.bwt_At.html
  751. share/doc/seqan/FUNCTION.calculate_Insert_Sizes.html
  752. share/doc/seqan/FUNCTION.calculate_Mate_Indices.html
  753. share/doc/seqan/FUNCTION.can_Parse_String.html
  754. share/doc/seqan/FUNCTION.cancel.html
  755. share/doc/seqan/FUNCTION.capacity.html
  756. share/doc/seqan/FUNCTION.cargo.html
  757. share/doc/seqan/FUNCTION.child_At.html
  758. share/doc/seqan/FUNCTION.child_Vertex.html
  759. share/doc/seqan/FUNCTION.children_Are_Leaves.html
  760. share/doc/seqan/FUNCTION.clear.html
  761. share/doc/seqan/FUNCTION.clear_Edges.html
  762. share/doc/seqan/FUNCTION.clear_Gaps.html
  763. share/doc/seqan/FUNCTION.clear_Reads.html
  764. share/doc/seqan/FUNCTION.clear_Vertices.html
  765. share/doc/seqan/FUNCTION.clipped_Begin_Position.html
  766. share/doc/seqan/FUNCTION.clipped_End_Position.html
  767. share/doc/seqan/FUNCTION.close.html
  768. share/doc/seqan/FUNCTION.col.html
  769. share/doc/seqan/FUNCTION.collect_Leaves.html
  770. share/doc/seqan/FUNCTION.cols.html
  771. share/doc/seqan/FUNCTION.compact_Aligned_Reads.html
  772. share/doc/seqan/FUNCTION.compact_Pair_Match_Ids.html
  773. share/doc/seqan/FUNCTION.compare.html
  774. share/doc/seqan/FUNCTION.complement.html
  775. share/doc/seqan/FUNCTION.complete_Profile.html
  776. share/doc/seqan/FUNCTION.compute_Generous_Capacity.html
  777. share/doc/seqan/FUNCTION.concat.html
  778. share/doc/seqan/FUNCTION.connected_Components.html
  779. share/doc/seqan/FUNCTION.container.html
  780. share/doc/seqan/FUNCTION.convert.html
  781. share/doc/seqan/FUNCTION.convert_Alignment.html
  782. share/doc/seqan/FUNCTION.convert_Impl.html
  783. share/doc/seqan/FUNCTION.convert_Matches_To_Global_Alignment.html
  784. share/doc/seqan/FUNCTION.convert_Pair_Wise_To_Global_Alignment.html
  785. share/doc/seqan/FUNCTION.convert_Pattern_To_Profile.html
  786. share/doc/seqan/FUNCTION.convert_Residue_To_Frequency_Dist.html
  787. share/doc/seqan/FUNCTION.convert_Set_Of_Patterns_To_Profile.html
  788. share/doc/seqan/FUNCTION.count_Characters.html
  789. share/doc/seqan/FUNCTION.count_Children.html
  790. share/doc/seqan/FUNCTION.count_Gaps.html
  791. share/doc/seqan/FUNCTION.count_Occurrences.html
  792. share/doc/seqan/FUNCTION.count_Occurrences_Multiple.html
  793. share/doc/seqan/FUNCTION.cpu_Time.html
  794. share/doc/seqan/FUNCTION.create.html
  795. share/doc/seqan/FUNCTION.create_B_W_Table.html
  796. share/doc/seqan/FUNCTION.create_Childtab.html
  797. share/doc/seqan/FUNCTION.create_Count_Array.html
  798. share/doc/seqan/FUNCTION.create_Interval_Tree.html
  799. share/doc/seqan/FUNCTION.create_Lcp_Table.html
  800. share/doc/seqan/FUNCTION.create_Oracle.html
  801. share/doc/seqan/FUNCTION.create_Oracle_On_Reverse.html
  802. share/doc/seqan/FUNCTION.create_Q_Gram_Index.html
  803. share/doc/seqan/FUNCTION.create_Q_Gram_Index_Dir_Only.html
  804. share/doc/seqan/FUNCTION.create_Q_Gram_Index_S_A_Only.html
  805. share/doc/seqan/FUNCTION.create_Root.html
  806. share/doc/seqan/FUNCTION.create_Source.html
  807. share/doc/seqan/FUNCTION.create_Suffix_Array.html
  808. share/doc/seqan/FUNCTION.create_Suffix_Trie.html
  809. share/doc/seqan/FUNCTION.create_Trie.html
  810. share/doc/seqan/FUNCTION.create_Trie_On_Reverse.html
  811. share/doc/seqan/FUNCTION.create_Wotd_Index.html
  812. share/doc/seqan/FUNCTION.dag_Shortest_Path.html
  813. share/doc/seqan/FUNCTION.database_Name.html
  814. share/doc/seqan/FUNCTION.database_Orientation_Plus.html
  815. share/doc/seqan/FUNCTION.deallocate.html
  816. share/doc/seqan/FUNCTION.degree.html
  817. share/doc/seqan/FUNCTION.dependent.html
  818. share/doc/seqan/FUNCTION.dependent_Source.html
  819. share/doc/seqan/FUNCTION.depth_First_Search.html
  820. share/doc/seqan/FUNCTION.detach.html
  821. share/doc/seqan/FUNCTION.determine_Consensus_Seq.html
  822. share/doc/seqan/FUNCTION.difference.html
  823. share/doc/seqan/FUNCTION.dijkstra.html
  824. share/doc/seqan/FUNCTION.dimension.html
  825. share/doc/seqan/FUNCTION.dir_At.html
  826. share/doc/seqan/FUNCTION.display.html
  827. share/doc/seqan/FUNCTION.display_Result.html
  828. share/doc/seqan/FUNCTION.em.html
  829. share/doc/seqan/FUNCTION.emission_Probability.html
  830. share/doc/seqan/FUNCTION.empty.html
  831. share/doc/seqan/FUNCTION.empty_Parent_Edge.html
  832. share/doc/seqan/FUNCTION.empty_Source.html
  833. share/doc/seqan/FUNCTION.end.html
  834. share/doc/seqan/FUNCTION.end_Diagonal.html
  835. share/doc/seqan/FUNCTION.end_Position.html
  836. share/doc/seqan/FUNCTION.end_Read.html
  837. share/doc/seqan/FUNCTION.end_State.html
  838. share/doc/seqan/FUNCTION.end_Write.html
  839. share/doc/seqan/FUNCTION.erase.html
  840. share/doc/seqan/FUNCTION.erase_Back.html
  841. share/doc/seqan/FUNCTION.expectation.html
  842. share/doc/seqan/FUNCTION.extend_Seed.html
  843. share/doc/seqan/FUNCTION.extend_Seed_Score.html
  844. share/doc/seqan/FUNCTION.extend_Seeds.html
  845. share/doc/seqan/FUNCTION.extend_Seeds_Score.html
  846. share/doc/seqan/FUNCTION.factorial.html
  847. share/doc/seqan/FUNCTION.find.html
  848. share/doc/seqan/FUNCTION.find_Begin.html
  849. share/doc/seqan/FUNCTION.find_Edge.html
  850. share/doc/seqan/FUNCTION.find_Intervals.html
  851. share/doc/seqan/FUNCTION.find_Intervals_Exclude_Touching.html
  852. share/doc/seqan/FUNCTION.find_Motif.html
  853. share/doc/seqan/FUNCTION.find_Vertex.html
  854. share/doc/seqan/FUNCTION.flatten.html
  855. share/doc/seqan/FUNCTION.floyd_Warshall_Algorithm.html
  856. share/doc/seqan/FUNCTION.flush.html
  857. share/doc/seqan/FUNCTION.ford_Fulkerson_Algorithm.html
  858. share/doc/seqan/FUNCTION.forward_Algorithm.html
  859. share/doc/seqan/FUNCTION.fragment_Begin.html
  860. share/doc/seqan/FUNCTION.fragment_Length.html
  861. share/doc/seqan/FUNCTION.front.html
  862. share/doc/seqan/FUNCTION.gap_Value.html
  863. share/doc/seqan/FUNCTION.gap_Value_Impl.html
  864. share/doc/seqan/FUNCTION.generate_Sequence.html
  865. share/doc/seqan/FUNCTION.get_Adjacency_Matrix.html
  866. share/doc/seqan/FUNCTION.get_Alignment.html
  867. share/doc/seqan/FUNCTION.get_Argument_Value.html
  868. share/doc/seqan/FUNCTION.get_Argument_Values.html
  869. share/doc/seqan/FUNCTION.get_Begin_Score.html
  870. share/doc/seqan/FUNCTION.get_Begin_State.html
  871. share/doc/seqan/FUNCTION.get_Bit_Score.html
  872. share/doc/seqan/FUNCTION.get_Cargo.html
  873. share/doc/seqan/FUNCTION.get_Database_Begin.html
  874. share/doc/seqan/FUNCTION.get_Database_End.html
  875. share/doc/seqan/FUNCTION.get_Database_Name.html
  876. share/doc/seqan/FUNCTION.get_Distance_Matrix.html
  877. share/doc/seqan/FUNCTION.get_E_Value.html
  878. share/doc/seqan/FUNCTION.get_E_Value_Cutoff.html
  879. share/doc/seqan/FUNCTION.get_Emission_Probability.html
  880. share/doc/seqan/FUNCTION.get_End_State.html
  881. share/doc/seqan/FUNCTION.get_Fibre.html
  882. share/doc/seqan/FUNCTION.get_First_Covered_Position.html
  883. share/doc/seqan/FUNCTION.get_Frequency.html
  884. share/doc/seqan/FUNCTION.get_Gapped_Kappa.html
  885. share/doc/seqan/FUNCTION.get_Gapped_Lambda.html
  886. share/doc/seqan/FUNCTION.get_Get_Extension.html
  887. share/doc/seqan/FUNCTION.get_Get_Open.html
  888. share/doc/seqan/FUNCTION.get_Id_By_Name.html
  889. share/doc/seqan/FUNCTION.get_Id_Lower_Bound.html
  890. share/doc/seqan/FUNCTION.get_Id_Upper_Bound.html
  891. share/doc/seqan/FUNCTION.get_Kappa.html
  892. share/doc/seqan/FUNCTION.get_Kmer_Similarity_Matrix.html
  893. share/doc/seqan/FUNCTION.get_Lambda.html
  894. share/doc/seqan/FUNCTION.get_Last_Covered_Position.html
  895. share/doc/seqan/FUNCTION.get_Left_Boundary.html
  896. share/doc/seqan/FUNCTION.get_Mate_No.html
  897. share/doc/seqan/FUNCTION.get_Motif.html
  898. share/doc/seqan/FUNCTION.get_Next.html
  899. share/doc/seqan/FUNCTION.get_Next_S.html
  900. share/doc/seqan/FUNCTION.get_Next_T.html
  901. share/doc/seqan/FUNCTION.get_Nil.html
  902. share/doc/seqan/FUNCTION.get_Num_Gaps.html
  903. share/doc/seqan/FUNCTION.get_Occurrence.html
  904. share/doc/seqan/FUNCTION.get_Occurrences.html
  905. share/doc/seqan/FUNCTION.get_Occurrences_Bwt.html
  906. share/doc/seqan/FUNCTION.get_Option_Value_Long.html
  907. share/doc/seqan/FUNCTION.get_Option_Value_Short.html
  908. share/doc/seqan/FUNCTION.get_Option_Values_Long.html
  909. share/doc/seqan/FUNCTION.get_Option_Values_Short.html
  910. share/doc/seqan/FUNCTION.get_Projected_Position.html
  911. share/doc/seqan/FUNCTION.get_Property.html
  912. share/doc/seqan/FUNCTION.get_Query_Begin.html
  913. share/doc/seqan/FUNCTION.get_Query_End.html
  914. share/doc/seqan/FUNCTION.get_Query_Name.html
  915. share/doc/seqan/FUNCTION.get_Read.html
  916. share/doc/seqan/FUNCTION.get_Right_Boundary.html
  917. share/doc/seqan/FUNCTION.get_Root.html
  918. share/doc/seqan/FUNCTION.get_Score.html
  919. share/doc/seqan/FUNCTION.get_Seq_No.html
  920. share/doc/seqan/FUNCTION.get_Seq_Offset.html
  921. share/doc/seqan/FUNCTION.get_Source.html
  922. share/doc/seqan/FUNCTION.get_Step_Size.html
  923. share/doc/seqan/FUNCTION.get_String_Set.html
  924. share/doc/seqan/FUNCTION.get_Successor.html
  925. share/doc/seqan/FUNCTION.get_Swift_Hits.html
  926. share/doc/seqan/FUNCTION.get_Target.html
  927. share/doc/seqan/FUNCTION.get_Transition_Probability.html
  928. share/doc/seqan/FUNCTION.get_Value.html
  929. share/doc/seqan/FUNCTION.get_Value_By_Id.html
  930. share/doc/seqan/FUNCTION.global_Alignment.html
  931. share/doc/seqan/FUNCTION.global_Chaining.html
  932. share/doc/seqan/FUNCTION.global_Msa_Alignment.html
  933. share/doc/seqan/FUNCTION.go_Begin.html
  934. share/doc/seqan/FUNCTION.go_Down.html
  935. share/doc/seqan/FUNCTION.go_End.html
  936. share/doc/seqan/FUNCTION.go_Further.html
  937. share/doc/seqan/FUNCTION.go_Next.html
  938. share/doc/seqan/FUNCTION.go_Nil.html
  939. share/doc/seqan/FUNCTION.go_Previous.html
  940. share/doc/seqan/FUNCTION.go_Right.html
  941. share/doc/seqan/FUNCTION.go_Root.html
  942. share/doc/seqan/FUNCTION.go_Up.html
  943. share/doc/seqan/FUNCTION.guess_File_Format.html
  944. share/doc/seqan/FUNCTION.guess_Format.html
  945. share/doc/seqan/FUNCTION.guess_Format_From_Filename.html
  946. share/doc/seqan/FUNCTION.hamming_Distance.html
  947. share/doc/seqan/FUNCTION.has_Option_Long.html
  948. share/doc/seqan/FUNCTION.has_Option_Short.html
  949. share/doc/seqan/FUNCTION.has_Prefix.html
  950. share/doc/seqan/FUNCTION.hash.html
  951. share/doc/seqan/FUNCTION.hash2.html
  952. share/doc/seqan/FUNCTION.hash2_Next.html
  953. share/doc/seqan/FUNCTION.hash2_Upper.html
  954. share/doc/seqan/FUNCTION.hash_Next.html
  955. share/doc/seqan/FUNCTION.hash_Upper.html
  956. share/doc/seqan/FUNCTION.haystack.html
  957. share/doc/seqan/FUNCTION.heaviest_Increasing_Subsequence.html
  958. share/doc/seqan/FUNCTION.help.html
  959. share/doc/seqan/FUNCTION.help_Text.html
  960. share/doc/seqan/FUNCTION.host.html
  961. share/doc/seqan/FUNCTION.host_Graph.html
  962. share/doc/seqan/FUNCTION.host_Hit.html
  963. share/doc/seqan/FUNCTION.host_Report.html
  964. share/doc/seqan/FUNCTION.id.html
  965. share/doc/seqan/FUNCTION.id_Count.html
  966. share/doc/seqan/FUNCTION.id_In_Use.html
  967. share/doc/seqan/FUNCTION.id_To_Position.html
  968. share/doc/seqan/FUNCTION.in_Degree.html
  969. share/doc/seqan/FUNCTION.index_Bucket_Map.html
  970. share/doc/seqan/FUNCTION.index_Bwt.html
  971. share/doc/seqan/FUNCTION.index_Childtab.html
  972. share/doc/seqan/FUNCTION.index_Counts.html
  973. share/doc/seqan/FUNCTION.index_Counts_Dir.html
  974. share/doc/seqan/FUNCTION.index_Create.html
  975. share/doc/seqan/FUNCTION.index_Dir.html
  976. share/doc/seqan/FUNCTION.index_Lcp.html
  977. share/doc/seqan/FUNCTION.index_Lcpe.html
  978. share/doc/seqan/FUNCTION.index_Raw_S_A.html
  979. share/doc/seqan/FUNCTION.index_Raw_Text.html
  980. share/doc/seqan/FUNCTION.index_Require.html
  981. share/doc/seqan/FUNCTION.index_S_A.html
  982. share/doc/seqan/FUNCTION.index_Shape.html
  983. share/doc/seqan/FUNCTION.index_Supplied.html
  984. share/doc/seqan/FUNCTION.index_Text.html
  985. share/doc/seqan/FUNCTION.infimum_Value_Impl.html
  986. share/doc/seqan/FUNCTION.infix.html
  987. share/doc/seqan/FUNCTION.infix_With_Length.html
  988. share/doc/seqan/FUNCTION.insert.html
  989. share/doc/seqan/FUNCTION.insert_Gap.html
  990. share/doc/seqan/FUNCTION.insert_Gaps.html
  991. share/doc/seqan/FUNCTION.insert_Value.html
  992. share/doc/seqan/FUNCTION.integrate_Align.html
  993. share/doc/seqan/FUNCTION.inverse_Hash.html
  994. share/doc/seqan/FUNCTION.is_Boolean_Option.html
  995. share/doc/seqan/FUNCTION.is_Double_Option.html
  996. share/doc/seqan/FUNCTION.is_Equal.html
  997. share/doc/seqan/FUNCTION.is_Gap.html
  998. share/doc/seqan/FUNCTION.is_Greater.html
  999. share/doc/seqan/FUNCTION.is_Greater_Or_Equal.html
  1000. share/doc/seqan/FUNCTION.is_Hidden_Option.html
  1001. share/doc/seqan/FUNCTION.is_Int_Option.html
  1002. share/doc/seqan/FUNCTION.is_Label_Option.html
  1003. share/doc/seqan/FUNCTION.is_Left_Maximal.html
  1004. share/doc/seqan/FUNCTION.is_Less.html
  1005. share/doc/seqan/FUNCTION.is_Less_Or_Equal.html
  1006. share/doc/seqan/FUNCTION.is_Not_Equal.html
  1007. share/doc/seqan/FUNCTION.is_Option_List.html
  1008. share/doc/seqan/FUNCTION.is_Option_Mandatory.html
  1009. share/doc/seqan/FUNCTION.is_Partially_Left_Extensible.html
  1010. share/doc/seqan/FUNCTION.is_Prefix.html
  1011. share/doc/seqan/FUNCTION.is_Reversed.html
  1012. share/doc/seqan/FUNCTION.is_Right_Terminal.html
  1013. share/doc/seqan/FUNCTION.is_Root.html
  1014. share/doc/seqan/FUNCTION.is_Set_Long.html
  1015. share/doc/seqan/FUNCTION.is_Set_Short.html
  1016. share/doc/seqan/FUNCTION.is_Silent.html
  1017. share/doc/seqan/FUNCTION.is_String_Option.html
  1018. share/doc/seqan/FUNCTION.is_Unique.html
  1019. share/doc/seqan/FUNCTION.iter.html
  1020. share/doc/seqan/FUNCTION.key.html
  1021. share/doc/seqan/FUNCTION.kruskals_Algorithm.html
  1022. share/doc/seqan/FUNCTION.label.html
  1023. share/doc/seqan/FUNCTION.layout_Alignment.html
  1024. share/doc/seqan/FUNCTION.lca.html
  1025. share/doc/seqan/FUNCTION.lcp.html
  1026. share/doc/seqan/FUNCTION.lcp_At.html
  1027. share/doc/seqan/FUNCTION.lcp_Length.html
  1028. share/doc/seqan/FUNCTION.lcpe_At.html
  1029. share/doc/seqan/FUNCTION.left_Boundary.html
  1030. share/doc/seqan/FUNCTION.left_Diagonal.html
  1031. share/doc/seqan/FUNCTION.left_Dim0.html
  1032. share/doc/seqan/FUNCTION.left_Dim1.html
  1033. share/doc/seqan/FUNCTION.left_Position.html
  1034. share/doc/seqan/FUNCTION.length.html
  1035. share/doc/seqan/FUNCTION.load_Contig.html
  1036. share/doc/seqan/FUNCTION.load_Contigs.html
  1037. share/doc/seqan/FUNCTION.load_Reads.html
  1038. share/doc/seqan/FUNCTION.load_Score_Matrix.html
  1039. share/doc/seqan/FUNCTION.local_Alignment.html
  1040. share/doc/seqan/FUNCTION.lock_Contig.html
  1041. share/doc/seqan/FUNCTION.lock_Contigs.html
  1042. share/doc/seqan/FUNCTION.log2.html
  1043. share/doc/seqan/FUNCTION.logarithmize.html
  1044. share/doc/seqan/FUNCTION.long_Name.html
  1045. share/doc/seqan/FUNCTION.longest_Common_Subsequence.html
  1046. share/doc/seqan/FUNCTION.longest_Increasing_Subsequence.html
  1047. share/doc/seqan/FUNCTION.lower_Bound_Aligned_Reads.html
  1048. share/doc/seqan/FUNCTION.map_23add.html
  1049. share/doc/seqan/FUNCTION.map_23cargo.html
  1050. share/doc/seqan/FUNCTION.map_23erase.html
  1051. share/doc/seqan/FUNCTION.map_23erase_All.html
  1052. share/doc/seqan/FUNCTION.map_23find.html
  1053. share/doc/seqan/FUNCTION.map_23has_Key.html
  1054. share/doc/seqan/FUNCTION.map_23insert.html
  1055. share/doc/seqan/FUNCTION.map_23value.html
  1056. share/doc/seqan/FUNCTION.map_Value.html
  1057. share/doc/seqan/FUNCTION.match_Refinement.html
  1058. share/doc/seqan/FUNCTION.max_Value.html
  1059. share/doc/seqan/FUNCTION.maximum_Distance.html
  1060. share/doc/seqan/FUNCTION.min_Value.html
  1061. share/doc/seqan/FUNCTION.motif_Count.html
  1062. share/doc/seqan/FUNCTION.move.html
  1063. share/doc/seqan/FUNCTION.move_Source.html
  1064. share/doc/seqan/FUNCTION.move_Value.html
  1065. share/doc/seqan/FUNCTION.mt_Rand.html
  1066. share/doc/seqan/FUNCTION.mt_Rand_Double.html
  1067. share/doc/seqan/FUNCTION.mt_Rand_Init.html
  1068. share/doc/seqan/FUNCTION.multi_Local_Alignment.html
  1069. share/doc/seqan/FUNCTION.needle.html
  1070. share/doc/seqan/FUNCTION.next_S.html
  1071. share/doc/seqan/FUNCTION.next_T.html
  1072. share/doc/seqan/FUNCTION.node_Depth.html
  1073. share/doc/seqan/FUNCTION.node_Hull_Predicate.html
  1074. share/doc/seqan/FUNCTION.node_Predicate.html
  1075. share/doc/seqan/FUNCTION.node_Up.html
  1076. share/doc/seqan/FUNCTION.normalize.html
  1077. share/doc/seqan/FUNCTION.num_Children.html
  1078. share/doc/seqan/FUNCTION.num_Edges.html
  1079. share/doc/seqan/FUNCTION.num_Hits.html
  1080. share/doc/seqan/FUNCTION.num_Hsps.html
  1081. share/doc/seqan/FUNCTION.num_Tree_Edges.html
  1082. share/doc/seqan/FUNCTION.num_Vertices.html
  1083. share/doc/seqan/FUNCTION.obtain_I_D.html
  1084. share/doc/seqan/FUNCTION.obtain_Id.html
  1085. share/doc/seqan/FUNCTION.open.html
  1086. share/doc/seqan/FUNCTION.open_Temp.html
  1087. share/doc/seqan/FUNCTION.ord_Value.html
  1088. share/doc/seqan/FUNCTION.order_Occurrences.html
  1089. share/doc/seqan/FUNCTION.out_Degree.html
  1090. share/doc/seqan/FUNCTION.parent_Edge_First_Char.html
  1091. share/doc/seqan/FUNCTION.parent_Edge_Label.html
  1092. share/doc/seqan/FUNCTION.parent_Edge_Length.html
  1093. share/doc/seqan/FUNCTION.parent_Rep_Length.html
  1094. share/doc/seqan/FUNCTION.parent_Vertex.html
  1095. share/doc/seqan/FUNCTION.parse.html
  1096. share/doc/seqan/FUNCTION.parse_String.html
  1097. share/doc/seqan/FUNCTION.pick_Random_Number.html
  1098. share/doc/seqan/FUNCTION.pop.html
  1099. share/doc/seqan/FUNCTION.pos_Globalize.html
  1100. share/doc/seqan/FUNCTION.pos_Local_To_X.html
  1101. share/doc/seqan/FUNCTION.pos_Localize.html
  1102. share/doc/seqan/FUNCTION.pos_Of_Max.html
  1103. share/doc/seqan/FUNCTION.position.html
  1104. share/doc/seqan/FUNCTION.position_Range.html
  1105. share/doc/seqan/FUNCTION.position_Range_No_Clip.html
  1106. share/doc/seqan/FUNCTION.position_To_Id.html
  1107. share/doc/seqan/FUNCTION.prefix.html
  1108. share/doc/seqan/FUNCTION.prepend_Value.html
  1109. share/doc/seqan/FUNCTION.prims_Algorithm.html
  1110. share/doc/seqan/FUNCTION.print_Alignment.html
  1111. share/doc/seqan/FUNCTION.print_Debug_Level.html
  1112. share/doc/seqan/FUNCTION.progressive_Alignment.html
  1113. share/doc/seqan/FUNCTION.property.html
  1114. share/doc/seqan/FUNCTION.push.html
  1115. share/doc/seqan/FUNCTION.quality_Value.html
  1116. share/doc/seqan/FUNCTION.query_Name.html
  1117. share/doc/seqan/FUNCTION.query_Orientation_Plus.html
  1118. share/doc/seqan/FUNCTION.range.html
  1119. share/doc/seqan/FUNCTION.rawsa_At.html
  1120. share/doc/seqan/FUNCTION.rawtext_At.html
  1121. share/doc/seqan/FUNCTION.re_Align.html
  1122. share/doc/seqan/FUNCTION.read.html
  1123. share/doc/seqan/FUNCTION.read_At.html
  1124. share/doc/seqan/FUNCTION.read_Feature.html
  1125. share/doc/seqan/FUNCTION.read_Line_Type.html
  1126. share/doc/seqan/FUNCTION.read_Meta.html
  1127. share/doc/seqan/FUNCTION.refresh.html
  1128. share/doc/seqan/FUNCTION.release_All.html
  1129. share/doc/seqan/FUNCTION.release_I_D.html
  1130. share/doc/seqan/FUNCTION.release_Id.html
  1131. share/doc/seqan/FUNCTION.remove_All_Children.html
  1132. share/doc/seqan/FUNCTION.remove_Child.html
  1133. share/doc/seqan/FUNCTION.remove_Edge.html
  1134. share/doc/seqan/FUNCTION.remove_Gap.html
  1135. share/doc/seqan/FUNCTION.remove_Gaps.html
  1136. share/doc/seqan/FUNCTION.remove_In_Edges.html
  1137. share/doc/seqan/FUNCTION.remove_Out_Edges.html
  1138. share/doc/seqan/FUNCTION.remove_Value_By_Id.html
  1139. share/doc/seqan/FUNCTION.remove_Vertex.html
  1140. share/doc/seqan/FUNCTION.rep_Length.html
  1141. share/doc/seqan/FUNCTION.replace.html
  1142. share/doc/seqan/FUNCTION.representative.html
  1143. share/doc/seqan/FUNCTION.required_Arguments.html
  1144. share/doc/seqan/FUNCTION.reserve.html
  1145. share/doc/seqan/FUNCTION.resize.html
  1146. share/doc/seqan/FUNCTION.resize_Edge_Map.html
  1147. share/doc/seqan/FUNCTION.resize_Space.html
  1148. share/doc/seqan/FUNCTION.resize_Vertex_Map.html
  1149. share/doc/seqan/FUNCTION.reverse.html
  1150. share/doc/seqan/FUNCTION.reverse_Complement.html
  1151. share/doc/seqan/FUNCTION.rewind.html
  1152. share/doc/seqan/FUNCTION.right_Boundary.html
  1153. share/doc/seqan/FUNCTION.right_Diagonal.html
  1154. share/doc/seqan/FUNCTION.right_Dim0.html
  1155. share/doc/seqan/FUNCTION.right_Dim1.html
  1156. share/doc/seqan/FUNCTION.right_Position.html
  1157. share/doc/seqan/FUNCTION.root.html
  1158. share/doc/seqan/FUNCTION.row.html
  1159. share/doc/seqan/FUNCTION.rows.html
  1160. share/doc/seqan/FUNCTION.sa_At.html
  1161. share/doc/seqan/FUNCTION.score.html
  1162. share/doc/seqan/FUNCTION.score_Gap.html
  1163. share/doc/seqan/FUNCTION.score_Gap_Extend.html
  1164. share/doc/seqan/FUNCTION.score_Gap_Extend_Horizontal.html
  1165. share/doc/seqan/FUNCTION.score_Gap_Extend_Vertical.html
  1166. share/doc/seqan/FUNCTION.score_Gap_Horizontal.html
  1167. share/doc/seqan/FUNCTION.score_Gap_Open.html
  1168. share/doc/seqan/FUNCTION.score_Gap_Open_Horizontal.html
  1169. share/doc/seqan/FUNCTION.score_Gap_Open_Vertical.html
  1170. share/doc/seqan/FUNCTION.score_Gap_Vertical.html
  1171. share/doc/seqan/FUNCTION.score_Limit.html
  1172. share/doc/seqan/FUNCTION.score_Match.html
  1173. share/doc/seqan/FUNCTION.score_Mismatch.html
  1174. share/doc/seqan/FUNCTION.score_Seed.html
  1175. share/doc/seqan/FUNCTION.scoring_Scheme.html
  1176. share/doc/seqan/FUNCTION.seed_Score.html
  1177. share/doc/seqan/FUNCTION.seek.html
  1178. share/doc/seqan/FUNCTION.sequence_Id.html
  1179. share/doc/seqan/FUNCTION.set.html
  1180. share/doc/seqan/FUNCTION.set_Begin.html
  1181. share/doc/seqan/FUNCTION.set_Begin_Position.html
  1182. share/doc/seqan/FUNCTION.set_Default_Score_Matrix.html
  1183. share/doc/seqan/FUNCTION.set_End.html
  1184. share/doc/seqan/FUNCTION.set_End_Position.html
  1185. share/doc/seqan/FUNCTION.set_Eof.html
  1186. share/doc/seqan/FUNCTION.set_Haystack.html
  1187. share/doc/seqan/FUNCTION.set_Help_Text.html
  1188. share/doc/seqan/FUNCTION.set_Host.html
  1189. share/doc/seqan/FUNCTION.set_Left_Diagonal.html
  1190. share/doc/seqan/FUNCTION.set_Left_Dim0.html
  1191. share/doc/seqan/FUNCTION.set_Left_Dim1.html
  1192. share/doc/seqan/FUNCTION.set_Left_Position.html
  1193. share/doc/seqan/FUNCTION.set_Long_Name.html
  1194. share/doc/seqan/FUNCTION.set_Maximum_Distance.html
  1195. share/doc/seqan/FUNCTION.set_Needle.html
  1196. share/doc/seqan/FUNCTION.set_Option_Type.html
  1197. share/doc/seqan/FUNCTION.set_Position.html
  1198. share/doc/seqan/FUNCTION.set_Quality_Value.html
  1199. share/doc/seqan/FUNCTION.set_Right_Diagonal.html
  1200. share/doc/seqan/FUNCTION.set_Right_Dim0.html
  1201. share/doc/seqan/FUNCTION.set_Right_Dim1.html
  1202. share/doc/seqan/FUNCTION.set_Right_Position.html
  1203. share/doc/seqan/FUNCTION.set_Score.html
  1204. share/doc/seqan/FUNCTION.set_Score_Gap.html
  1205. share/doc/seqan/FUNCTION.set_Score_Gap_Extend.html
  1206. share/doc/seqan/FUNCTION.set_Score_Gap_Open.html
  1207. share/doc/seqan/FUNCTION.set_Score_Limit.html
  1208. share/doc/seqan/FUNCTION.set_Score_Match.html
  1209. share/doc/seqan/FUNCTION.set_Score_Mismatch.html
  1210. share/doc/seqan/FUNCTION.set_Scoring_Scheme.html
  1211. share/doc/seqan/FUNCTION.set_Short_Name.html
  1212. share/doc/seqan/FUNCTION.set_Source.html
  1213. share/doc/seqan/FUNCTION.set_Step_Size.html
  1214. share/doc/seqan/FUNCTION.set_Strings.html
  1215. share/doc/seqan/FUNCTION.set_Value.html
  1216. share/doc/seqan/FUNCTION.shape_To_String.html
  1217. share/doc/seqan/FUNCTION.share_Resources.html
  1218. share/doc/seqan/FUNCTION.short_Help.html
  1219. share/doc/seqan/FUNCTION.short_Name.html
  1220. share/doc/seqan/FUNCTION.shrink_To_Fit.html
  1221. share/doc/seqan/FUNCTION.shuffle.html
  1222. share/doc/seqan/FUNCTION.silent_Status.html
  1223. share/doc/seqan/FUNCTION.size.html
  1224. share/doc/seqan/FUNCTION.slow_Nj_Tree.html
  1225. share/doc/seqan/FUNCTION.sort_Aligned_Reads.html
  1226. share/doc/seqan/FUNCTION.source.html
  1227. share/doc/seqan/FUNCTION.source_Begin.html
  1228. share/doc/seqan/FUNCTION.source_End.html
  1229. share/doc/seqan/FUNCTION.source_Length.html
  1230. share/doc/seqan/FUNCTION.source_Segment.html
  1231. share/doc/seqan/FUNCTION.source_Vertex.html
  1232. share/doc/seqan/FUNCTION.split.html
  1233. share/doc/seqan/FUNCTION.start_Diagonal.html
  1234. share/doc/seqan/FUNCTION.string_Set.html
  1235. share/doc/seqan/FUNCTION.string_Set_Limits.html
  1236. share/doc/seqan/FUNCTION.string_To_Shape.html
  1237. share/doc/seqan/FUNCTION.strongly_Connected_Components.html
  1238. share/doc/seqan/FUNCTION.suffix.html
  1239. share/doc/seqan/FUNCTION.sum.html
  1240. share/doc/seqan/FUNCTION.sum_Of_Pairs_Score.html
  1241. share/doc/seqan/FUNCTION.supremum_Value_Impl.html
  1242. share/doc/seqan/FUNCTION.swap.html
  1243. share/doc/seqan/FUNCTION.sys_Time.html
  1244. share/doc/seqan/FUNCTION.target.html
  1245. share/doc/seqan/FUNCTION.target_Vertex.html
  1246. share/doc/seqan/FUNCTION.tell.html
  1247. share/doc/seqan/FUNCTION.text_At.html
  1248. share/doc/seqan/FUNCTION.to_C_String.html
  1249. share/doc/seqan/FUNCTION.to_Lower.html
  1250. share/doc/seqan/FUNCTION.to_Source_Position.html
  1251. share/doc/seqan/FUNCTION.to_Upper.html
  1252. share/doc/seqan/FUNCTION.to_View_Position.html
  1253. share/doc/seqan/FUNCTION.topological_Sort.html
  1254. share/doc/seqan/FUNCTION.transition_Probability.html
  1255. share/doc/seqan/FUNCTION.transitive_Closure.html
  1256. share/doc/seqan/FUNCTION.transpose.html
  1257. share/doc/seqan/FUNCTION.triplet_Library_Extension.html
  1258. share/doc/seqan/FUNCTION.unlock_And_Free_Contig.html
  1259. share/doc/seqan/FUNCTION.unlock_And_Free_Contigs.html
  1260. share/doc/seqan/FUNCTION.unlock_Contig.html
  1261. share/doc/seqan/FUNCTION.unlock_Contigs.html
  1262. share/doc/seqan/FUNCTION.upgma_Tree.html
  1263. share/doc/seqan/FUNCTION.upper_Bound_Aligned_Reads.html
  1264. share/doc/seqan/FUNCTION.value.html
  1265. share/doc/seqan/FUNCTION.value_By_Id.html
  1266. share/doc/seqan/FUNCTION.value_Construct.html
  1267. share/doc/seqan/FUNCTION.value_Construct_Move.html
  1268. share/doc/seqan/FUNCTION.value_Destruct.html
  1269. share/doc/seqan/FUNCTION.variance.html
  1270. share/doc/seqan/FUNCTION.version.html
  1271. share/doc/seqan/FUNCTION.viterbi_Algorithm.html
  1272. share/doc/seqan/FUNCTION.wait_For.html
  1273. share/doc/seqan/FUNCTION.weight.html
  1274. share/doc/seqan/FUNCTION.window_Find_Begin.html
  1275. share/doc/seqan/FUNCTION.window_Find_End.html
  1276. share/doc/seqan/FUNCTION.window_Find_Next.html
  1277. share/doc/seqan/FUNCTION.write.html
  1278. share/doc/seqan/FUNCTION.write_At.html
  1279. share/doc/seqan/FUNCTION.write_Contigs.html
  1280. share/doc/seqan/FUNCTION.zscore.html
  1281. share/doc/seqan/FUNCTION_Allocator_23clear.html
  1282. share/doc/seqan/FUNCTION_Automaton_23label.html
  1283. share/doc/seqan/FUNCTION_Blast_23get_Blast_Match_Score.html
  1284. share/doc/seqan/FUNCTION_Fileformat_23read.html
  1285. share/doc/seqan/FUNCTION_Fileformat_23write.html
  1286. share/doc/seqan/FUNCTION_Graph_23assign_Source.html
  1287. share/doc/seqan/FUNCTION_Graph_23is_Leaf.html
  1288. share/doc/seqan/FUNCTION_Graph_23is_Root.html
  1289. share/doc/seqan/FUNCTION_Index_23is_Leaf.html
  1290. share/doc/seqan/FUNCTION_Pipelining_23front.html
  1291. share/doc/seqan/FUNCTION_Priority_Type_23pop.html
  1292. share/doc/seqan/FUNCTION_Priority_Type_23push.html
  1293. share/doc/seqan/FUNCTION_Priority_Type_23top.html
  1294. share/doc/seqan/INDEXPAGE_Adaption.html
  1295. share/doc/seqan/INDEXPAGE_Class.html
  1296. share/doc/seqan/INDEXPAGE_Concept.html
  1297. share/doc/seqan/INDEXPAGE_Demo.html
  1298. share/doc/seqan/INDEXPAGE_Function.html
  1299. share/doc/seqan/INDEXPAGE_Metafunction.html
  1300. share/doc/seqan/INDEXPAGE_Shortcut.html
  1301. share/doc/seqan/INDEXPAGE_Spec.html
  1302. share/doc/seqan/INDEXPAGE_Tag.html
  1303. share/doc/seqan/INDEX_Adaption.html
  1304. share/doc/seqan/INDEX_Class.html
  1305. share/doc/seqan/INDEX_Class_Aggregates.html
  1306. share/doc/seqan/INDEX_Class_Alignments.html
  1307. share/doc/seqan/INDEX_Class_Basic.html
  1308. share/doc/seqan/INDEX_Class_Blast.html
  1309. share/doc/seqan/INDEX_Class_Fragment+_Store.html
  1310. share/doc/seqan/INDEX_Class_Graph.html
  1311. share/doc/seqan/INDEX_Class_Index.html
  1312. share/doc/seqan/INDEX_Class_Input_2f_Output.html
  1313. share/doc/seqan/INDEX_Class_Map.html
  1314. share/doc/seqan/INDEX_Class_Markov_Model.html
  1315. share/doc/seqan/INDEX_Class_Miscellaneous.html
  1316. share/doc/seqan/INDEX_Class_Modifier.html
  1317. share/doc/seqan/INDEX_Class_Motif+_Search.html
  1318. share/doc/seqan/INDEX_Class_Pipelining.html
  1319. share/doc/seqan/INDEX_Class_Random.html
  1320. share/doc/seqan/INDEX_Class_Searching.html
  1321. share/doc/seqan/INDEX_Class_Seed+_Handling.html
  1322. share/doc/seqan/INDEX_Class_Sequences.html
  1323. share/doc/seqan/INDEX_Concept.html
  1324. share/doc/seqan/INDEX_Demo.html
  1325. share/doc/seqan/INDEX_Demo_Basics.html
  1326. share/doc/seqan/INDEX_Demo_Graph.html
  1327. share/doc/seqan/INDEX_Demo_Index.html
  1328. share/doc/seqan/INDEX_Demo_Miscellaneous.html
  1329. share/doc/seqan/INDEX_Demo_Modifier.html
  1330. share/doc/seqan/INDEX_Demo_Motif+_Search.html
  1331. share/doc/seqan/INDEX_Demo_Searching.html
  1332. share/doc/seqan/INDEX_Demo_System.html
  1333. share/doc/seqan/INDEX_Function.html
  1334. share/doc/seqan/INDEX_Function.sequences.html
  1335. share/doc/seqan/INDEX_Function_Alignments.html
  1336. share/doc/seqan/INDEX_Function_Alphabets.html
  1337. share/doc/seqan/INDEX_Function_Array+_Handling.html
  1338. share/doc/seqan/INDEX_Function_Atomic+_Operations.html
  1339. share/doc/seqan/INDEX_Function_Blast.html
  1340. share/doc/seqan/INDEX_Function_Chaining.html
  1341. share/doc/seqan/INDEX_Function_Class._Align.html
  1342. share/doc/seqan/INDEX_Function_Class.html
  1343. share/doc/seqan/INDEX_Function_Comparisons.html
  1344. share/doc/seqan/INDEX_Function_Containers.html
  1345. share/doc/seqan/INDEX_Function_Content+_Manipulation.html
  1346. share/doc/seqan/INDEX_Function_Dependent+_Objects.html
  1347. share/doc/seqan/INDEX_Function_Fragment+_Store.html
  1348. share/doc/seqan/INDEX_Function_Graph.html
  1349. share/doc/seqan/INDEX_Function_Index.html
  1350. share/doc/seqan/INDEX_Function_Input_2f_Output.html
  1351. share/doc/seqan/INDEX_Function_Iteration.html
  1352. share/doc/seqan/INDEX_Function_Map.html
  1353. share/doc/seqan/INDEX_Function_Memory.html
  1354. share/doc/seqan/INDEX_Function_Misc.html
  1355. share/doc/seqan/INDEX_Function_Miscellaneous.html
  1356. share/doc/seqan/INDEX_Function_Miscellaneous_3a.html
  1357. share/doc/seqan/INDEX_Function_Modifier.html
  1358. share/doc/seqan/INDEX_Function_Modifiers.html
  1359. share/doc/seqan/INDEX_Function_Motif+_Search.html
  1360. share/doc/seqan/INDEX_Function_Pipelining.html
  1361. share/doc/seqan/INDEX_Function_Random.html
  1362. share/doc/seqan/INDEX_Function_Scoring.html
  1363. share/doc/seqan/INDEX_Function_Searching.html
  1364. share/doc/seqan/INDEX_Function_Seed+_Handling.html
  1365. share/doc/seqan/INDEX_Function_Sequences.html
  1366. share/doc/seqan/INDEX_Metafunction.html
  1367. share/doc/seqan/INDEX_Metafunction_Basic.html
  1368. share/doc/seqan/INDEX_Metafunction_Index.html
  1369. share/doc/seqan/INDEX_Metafunction_Map.html
  1370. share/doc/seqan/INDEX_Metafunction_Miscellaneous.html
  1371. share/doc/seqan/INDEX_Metafunction_Searching.html
  1372. share/doc/seqan/INDEX_Metafunction_Sequences.html
  1373. share/doc/seqan/INDEX_Page.html
  1374. share/doc/seqan/INDEX_Shortcut.html
  1375. share/doc/seqan/INDEX_Shortcut_Input_2f_Output.html
  1376. share/doc/seqan/INDEX_Shortcut_Iterators.html
  1377. share/doc/seqan/INDEX_Shortcut_Modifier.html
  1378. share/doc/seqan/INDEX_Shortcut_Pattern+_Matching.html
  1379. share/doc/seqan/INDEX_Shortcut_Scoring.html
  1380. share/doc/seqan/INDEX_Shortcut_Strings.html
  1381. share/doc/seqan/INDEX_Spec.html
  1382. share/doc/seqan/INDEX_Spec_Aggregates.html
  1383. share/doc/seqan/INDEX_Spec_Alignments.html
  1384. share/doc/seqan/INDEX_Spec_Allocators.html
  1385. share/doc/seqan/INDEX_Spec_Alphabets.html
  1386. share/doc/seqan/INDEX_Spec_Blast.html
  1387. share/doc/seqan/INDEX_Spec_Chaining.html
  1388. share/doc/seqan/INDEX_Spec_Files.html
  1389. share/doc/seqan/INDEX_Spec_Graph.html
  1390. share/doc/seqan/INDEX_Spec_Holders.html
  1391. share/doc/seqan/INDEX_Spec_Index.html
  1392. share/doc/seqan/INDEX_Spec_Iterators.html
  1393. share/doc/seqan/INDEX_Spec_Map.html
  1394. share/doc/seqan/INDEX_Spec_Miscellaneous.html
  1395. share/doc/seqan/INDEX_Spec_Modifier.html
  1396. share/doc/seqan/INDEX_Spec_Motif+_Search.html
  1397. share/doc/seqan/INDEX_Spec_Pattern+_Matching.html
  1398. share/doc/seqan/INDEX_Spec_Pipelining.html
  1399. share/doc/seqan/INDEX_Spec_Proxies.html
  1400. share/doc/seqan/INDEX_Spec_Random.html
  1401. share/doc/seqan/INDEX_Spec_Scoring.html
  1402. share/doc/seqan/INDEX_Spec_Searching.html
  1403. share/doc/seqan/INDEX_Spec_Seed+_Handling.html
  1404. share/doc/seqan/INDEX_Spec_Segments.html
  1405. share/doc/seqan/INDEX_Spec_Sequences.html
  1406. share/doc/seqan/INDEX_Spec_Strings.html
  1407. share/doc/seqan/INDEX_Tag.html
  1408. share/doc/seqan/INDEX_Tag_Fragment+_Store.html
  1409. share/doc/seqan/INDEX_Tag_Index.html
  1410. share/doc/seqan/INDEX_Tag_Miscellaneous.html
  1411. share/doc/seqan/INDEX_Tag_Motif+_Search.html
  1412. share/doc/seqan/INDEX_Tag_Random.html
  1413. share/doc/seqan/INDEX_Tag_Scoring.html
  1414. share/doc/seqan/INDEX_Tag_Searching.html
  1415. share/doc/seqan/INDEX_Tag_Seed+_Handling.html
  1416. share/doc/seqan/INDEX_Tag_Strings.html
  1417. share/doc/seqan/MEMFUNC.~_Holder.html
  1418. share/doc/seqan/MEMFUNC_Adaptor_Iterator_23_Iter.html
  1419. share/doc/seqan/MEMFUNC_Align_Quality_Store_Element_23_Align_Quality_Store_Element.html
  1420. share/doc/seqan/MEMFUNC_Aligned_Read_Store_Element_23_Aligned_Read_Store_Element.html
  1421. share/doc/seqan/MEMFUNC_Bottom_Up+_Iterator_23_Iterator.html
  1422. share/doc/seqan/MEMFUNC_Chained_Seed_23_Seed.html
  1423. share/doc/seqan/MEMFUNC_Command_Line_Option_23_Command_Line_Option.html
  1424. share/doc/seqan/MEMFUNC_Command_Line_Parser_23_Command_Line_Parser.html
  1425. share/doc/seqan/MEMFUNC_Concat_Virtual+_Iterator_23_Iter.html
  1426. share/doc/seqan/MEMFUNC_Concatenator_Many_To_One_23_Concatenator_Many_To_One.html
  1427. share/doc/seqan/MEMFUNC_Contig_Store_Element_23_Contig_Store_Element.html
  1428. share/doc/seqan/MEMFUNC_Ext_String_23_String.html
  1429. share/doc/seqan/MEMFUNC_Filter_23_Pipe.html
  1430. share/doc/seqan/MEMFUNC_Finder_23_Finder.html
  1431. share/doc/seqan/MEMFUNC_Fragment_23_Fragment.html
  1432. share/doc/seqan/MEMFUNC_Gap_Anchor_23_Gap_Anchor.html
  1433. share/doc/seqan/MEMFUNC_Gaps_23_Gaps.html
  1434. share/doc/seqan/MEMFUNC_Generic_Shape_23_Shape.html
  1435. share/doc/seqan/MEMFUNC_Geometric+_Pdf_23_Pdf.html
  1436. share/doc/seqan/MEMFUNC_Holder.html
  1437. share/doc/seqan/MEMFUNC_Infix_Segment_23_Segment.html
  1438. share/doc/seqan/MEMFUNC_Interval_And_Cargo_23_Interval_And_Cargo.html
  1439. share/doc/seqan/MEMFUNC_Interval_Tree_23_Interval_Tree.html
  1440. share/doc/seqan/MEMFUNC_Interval_Tree_Node_23_Interval_Tree_Node.html
  1441. share/doc/seqan/MEMFUNC_Library_Store_Element_23_Library_Store_Element.html
  1442. share/doc/seqan/MEMFUNC_Local_Alignment_Finder_23_Local_Alignment_Finder.html
  1443. share/doc/seqan/MEMFUNC_Log-_Normal+_Pdf_23_Pdf.html
  1444. share/doc/seqan/MEMFUNC_Markov_Model_23_Markov_Model.html
  1445. share/doc/seqan/MEMFUNC_Markov_Model_23build.html
  1446. share/doc/seqan/MEMFUNC_Markov_Model_23emitted_Probability.html
  1447. share/doc/seqan/MEMFUNC_Markov_Model_23read.html
  1448. share/doc/seqan/MEMFUNC_Markov_Model_23set.html
  1449. share/doc/seqan/MEMFUNC_Markov_Model_23write.html
  1450. share/doc/seqan/MEMFUNC_Mate_Pair_Store_Element_23_Mate_Pair_Store_Element.html
  1451. share/doc/seqan/MEMFUNC_Max_Repeats+_Iterator_23_Iterator.html
  1452. share/doc/seqan/MEMFUNC_Mersenne+_Twister+_Rng_23_Rng.html
  1453. share/doc/seqan/MEMFUNC_Multi_Mems+_Iterator_23_Iterator.html
  1454. share/doc/seqan/MEMFUNC_Mums+_Iterator_23_Iterator.html
  1455. share/doc/seqan/MEMFUNC_Namer_23_Pipe.html
  1456. share/doc/seqan/MEMFUNC_Normal+_Pdf_23_Pdf.html
  1457. share/doc/seqan/MEMFUNC_One_Gapped_Shape_23_Shape.html
  1458. share/doc/seqan/MEMFUNC_Pair_23_Pair.html
  1459. share/doc/seqan/MEMFUNC_Pipe_23_Pipe.html
  1460. share/doc/seqan/MEMFUNC_Point_And_Cargo_23_Point_And_Cargo.html
  1461. share/doc/seqan/MEMFUNC_Position_Iterator_23_Iter.html
  1462. share/doc/seqan/MEMFUNC_Prefix_Segment_23_Segment.html
  1463. share/doc/seqan/MEMFUNC_Read_Store_Element_23_Read_Store_Element.html
  1464. share/doc/seqan/MEMFUNC_Rng+_Functor_23_Rng.html
  1465. share/doc/seqan/MEMFUNC_Rng_23operator_28_29.html
  1466. share/doc/seqan/MEMFUNC_Score+_Matrix_23_Score.html
  1467. share/doc/seqan/MEMFUNC_Score_23_Score.html
  1468. share/doc/seqan/MEMFUNC_Seed_Set_23_Seed_Set.html
  1469. share/doc/seqan/MEMFUNC_Shape_23_Shape.html
  1470. share/doc/seqan/MEMFUNC_Simple_Seed_23_Seed.html
  1471. share/doc/seqan/MEMFUNC_Simple_Shape_23_Shape.html
  1472. share/doc/seqan/MEMFUNC_Suffix_Segment_23_Segment.html
  1473. share/doc/seqan/MEMFUNC_Super_Max_Repeats+_Iterator_23_Iterator.html
  1474. share/doc/seqan/MEMFUNC_Super_Max_Repeats_Fast+_Iterator_23_Iterator.html
  1475. share/doc/seqan/MEMFUNC_To_Std_Allocator.html
  1476. share/doc/seqan/MEMFUNC_Top_Down+_Iterator_23_Iterator.html
  1477. share/doc/seqan/MEMFUNC_Top_Down_History+_Iterator_23_Iterator.html
  1478. share/doc/seqan/MEMFUNC_Triple_23_Triple.html
  1479. share/doc/seqan/MEMVAR_Align_Quality_Store_Element_23errors.html
  1480. share/doc/seqan/MEMVAR_Align_Quality_Store_Element_23pair_Score.html
  1481. share/doc/seqan/MEMVAR_Align_Quality_Store_Element_23score.html
  1482. share/doc/seqan/MEMVAR_Aligned_Read_Layout_23contig_Rows.html
  1483. share/doc/seqan/MEMVAR_Aligned_Read_Store_Element_23_I_N_V_A_L_I_D___I_D.html
  1484. share/doc/seqan/MEMVAR_Aligned_Read_Store_Element_23begin_Pos.html
  1485. share/doc/seqan/MEMVAR_Aligned_Read_Store_Element_23contig_Id.html
  1486. share/doc/seqan/MEMVAR_Aligned_Read_Store_Element_23end_Pos.html
  1487. share/doc/seqan/MEMVAR_Aligned_Read_Store_Element_23gaps.html
  1488. share/doc/seqan/MEMVAR_Aligned_Read_Store_Element_23id.html
  1489. share/doc/seqan/MEMVAR_Aligned_Read_Store_Element_23pair_Match_Id.html
  1490. share/doc/seqan/MEMVAR_Aligned_Read_Store_Element_23read_Id.html
  1491. share/doc/seqan/MEMVAR_Bundle2_23in1.html
  1492. share/doc/seqan/MEMVAR_Bundle2_23in2.html
  1493. share/doc/seqan/MEMVAR_Bundle3_23in1.html
  1494. share/doc/seqan/MEMVAR_Bundle3_23in2.html
  1495. share/doc/seqan/MEMVAR_Bundle3_23in3.html
  1496. share/doc/seqan/MEMVAR_Bundle5_23in1.html
  1497. share/doc/seqan/MEMVAR_Bundle5_23in2.html
  1498. share/doc/seqan/MEMVAR_Bundle5_23in3.html
  1499. share/doc/seqan/MEMVAR_Bundle5_23in4.html
  1500. share/doc/seqan/MEMVAR_Bundle5_23in5.html
  1501. share/doc/seqan/MEMVAR_Concat_Direct_23concat.html
  1502. share/doc/seqan/MEMVAR_Contig_File_23file_Name.html
  1503. share/doc/seqan/MEMVAR_Contig_File_23first_Contig_Id.html
  1504. share/doc/seqan/MEMVAR_Contig_File_23format.html
  1505. share/doc/seqan/MEMVAR_Contig_Store_Element_23_I_N_V_A_L_I_D___I_D.html
  1506. share/doc/seqan/MEMVAR_Contig_Store_Element_23file_Begin_Pos.html
  1507. share/doc/seqan/MEMVAR_Contig_Store_Element_23file_End_Pos.html
  1508. share/doc/seqan/MEMVAR_Contig_Store_Element_23file_Id.html
  1509. share/doc/seqan/MEMVAR_Contig_Store_Element_23gaps.html
  1510. share/doc/seqan/MEMVAR_Contig_Store_Element_23seq.html
  1511. share/doc/seqan/MEMVAR_Contig_Store_Element_23usage.html
  1512. share/doc/seqan/MEMVAR_Fragment_Store_23align_Quality_Store.html
  1513. share/doc/seqan/MEMVAR_Fragment_Store_23aligned_Read_Store.html
  1514. share/doc/seqan/MEMVAR_Fragment_Store_23aligned_Read_Tag_Store.html
  1515. share/doc/seqan/MEMVAR_Fragment_Store_23annotation_Name_Store.html
  1516. share/doc/seqan/MEMVAR_Fragment_Store_23annotation_Store.html
  1517. share/doc/seqan/MEMVAR_Fragment_Store_23contig_File_Store.html
  1518. share/doc/seqan/MEMVAR_Fragment_Store_23contig_Name_Store.html
  1519. share/doc/seqan/MEMVAR_Fragment_Store_23contig_Store.html
  1520. share/doc/seqan/MEMVAR_Fragment_Store_23library_Name_Store.html
  1521. share/doc/seqan/MEMVAR_Fragment_Store_23library_Store.html
  1522. share/doc/seqan/MEMVAR_Fragment_Store_23mate_Pair_Name_Store.html
  1523. share/doc/seqan/MEMVAR_Fragment_Store_23mate_Pair_Store.html
  1524. share/doc/seqan/MEMVAR_Fragment_Store_23read_Name_Store.html
  1525. share/doc/seqan/MEMVAR_Fragment_Store_23read_Seq_Store.html
  1526. share/doc/seqan/MEMVAR_Fragment_Store_23read_Store.html
  1527. share/doc/seqan/MEMVAR_Gap_Anchor_23gap_Pos.html
  1528. share/doc/seqan/MEMVAR_Gap_Anchor_23seq_Pos.html
  1529. share/doc/seqan/MEMVAR_Interval_And_Cargo_23cargo.html
  1530. share/doc/seqan/MEMVAR_Interval_And_Cargo_23i1.html
  1531. share/doc/seqan/MEMVAR_Interval_And_Cargo_23i2.html
  1532. share/doc/seqan/MEMVAR_Interval_Tree_Node_23center.html
  1533. share/doc/seqan/MEMVAR_Interval_Tree_Node_23list1.html
  1534. share/doc/seqan/MEMVAR_Interval_Tree_Node_23list2.html
  1535. share/doc/seqan/MEMVAR_Library_Store_Element_23mean.html
  1536. share/doc/seqan/MEMVAR_Library_Store_Element_23std.html
  1537. share/doc/seqan/MEMVAR_Markov_Model_23order.html
  1538. share/doc/seqan/MEMVAR_Markov_Model_23stationary_Distribution.html
  1539. share/doc/seqan/MEMVAR_Markov_Model_23transition.html
  1540. share/doc/seqan/MEMVAR_Mate_Pair_Store_Element_23_I_N_V_A_L_I_D___I_D.html
  1541. share/doc/seqan/MEMVAR_Mate_Pair_Store_Element_23lib_Id.html
  1542. share/doc/seqan/MEMVAR_Mate_Pair_Store_Element_23read_Id[2].html
  1543. share/doc/seqan/MEMVAR_Name_Store_Cache_23_Name_Store_Cache.html
  1544. share/doc/seqan/MEMVAR_Open_Addressing_23alpha.html
  1545. share/doc/seqan/MEMVAR_Pair_23i1.html
  1546. share/doc/seqan/MEMVAR_Pair_23i2.html
  1547. share/doc/seqan/MEMVAR_Point_And_Cargo_23cargo.html
  1548. share/doc/seqan/MEMVAR_Point_And_Cargo_23point.html
  1549. share/doc/seqan/MEMVAR_Read_Store_Element_23_I_N_V_A_L_I_D___I_D.html
  1550. share/doc/seqan/MEMVAR_Read_Store_Element_23mate_Pair_Id.html
  1551. share/doc/seqan/MEMVAR_Tag_Selector_23tag_Id.html
  1552. share/doc/seqan/MEMVAR_Triple_23i1.html
  1553. share/doc/seqan/MEMVAR_Triple_23i2.html
  1554. share/doc/seqan/MEMVAR_Triple_23i3.html
  1555. share/doc/seqan/METAFUNCTION_Allows_Fast_Random_Access.html
  1556. share/doc/seqan/METAFUNCTION_Alphabet.html
  1557. share/doc/seqan/METAFUNCTION_Bits_Per_Value.html
  1558. share/doc/seqan/METAFUNCTION_Bytes_Per_Value.html
  1559. share/doc/seqan/METAFUNCTION_Cargo.html
  1560. share/doc/seqan/METAFUNCTION_Col.html
  1561. share/doc/seqan/METAFUNCTION_Cols.html
  1562. share/doc/seqan/METAFUNCTION_Comparator.html
  1563. share/doc/seqan/METAFUNCTION_Compare_Type.html
  1564. share/doc/seqan/METAFUNCTION_Concatenator.html
  1565. share/doc/seqan/METAFUNCTION_Container.html
  1566. share/doc/seqan/METAFUNCTION_Convert.html
  1567. share/doc/seqan/METAFUNCTION_Deepest_Spec.html
  1568. share/doc/seqan/METAFUNCTION_Default_Find_Begin_Pattern_Spec.html
  1569. share/doc/seqan/METAFUNCTION_Default_Finder.html
  1570. share/doc/seqan/METAFUNCTION_Default_Get_Iterator_Spec.html
  1571. share/doc/seqan/METAFUNCTION_Default_Index_Creator.html
  1572. share/doc/seqan/METAFUNCTION_Default_Index_Spec.html
  1573. share/doc/seqan/METAFUNCTION_Default_Index_String_Spec.html
  1574. share/doc/seqan/METAFUNCTION_Default_Iterator_Spec.html
  1575. share/doc/seqan/METAFUNCTION_Default_Overflow_Explicit.html
  1576. share/doc/seqan/METAFUNCTION_Default_Overflow_Implicit.html
  1577. share/doc/seqan/METAFUNCTION_Default_Pattern.html
  1578. share/doc/seqan/METAFUNCTION_Default_Prefix_Order.html
  1579. share/doc/seqan/METAFUNCTION_Difference.html
  1580. share/doc/seqan/METAFUNCTION_Edge_Descriptor.html
  1581. share/doc/seqan/METAFUNCTION_Edge_Id_Handler.html
  1582. share/doc/seqan/METAFUNCTION_Edge_Type.html
  1583. share/doc/seqan/METAFUNCTION_Fibre.html
  1584. share/doc/seqan/METAFUNCTION_Gapped_Value_Type.html
  1585. share/doc/seqan/METAFUNCTION_Get_Source.html
  1586. share/doc/seqan/METAFUNCTION_Get_V_S_Tree_Iterator_Traits.html
  1587. share/doc/seqan/METAFUNCTION_Get_Value.html
  1588. share/doc/seqan/METAFUNCTION_Haystack.html
  1589. share/doc/seqan/METAFUNCTION_Hit.html
  1590. share/doc/seqan/METAFUNCTION_Host.html
  1591. share/doc/seqan/METAFUNCTION_Hsp.html
  1592. share/doc/seqan/METAFUNCTION_Id.html
  1593. share/doc/seqan/METAFUNCTION_Infix.html
  1594. share/doc/seqan/METAFUNCTION_Insertion_Buffer.html
  1595. share/doc/seqan/METAFUNCTION_Integral_For_Value.html
  1596. share/doc/seqan/METAFUNCTION_Is_Contiguous.html
  1597. share/doc/seqan/METAFUNCTION_Is_Integral.html
  1598. share/doc/seqan/METAFUNCTION_Is_Sequence.html
  1599. share/doc/seqan/METAFUNCTION_Is_Simple.html
  1600. share/doc/seqan/METAFUNCTION_Iter_Complement_Const.html
  1601. share/doc/seqan/METAFUNCTION_Iter_Make_Const.html
  1602. share/doc/seqan/METAFUNCTION_Iterator.html
  1603. share/doc/seqan/METAFUNCTION_Journal_Type.html
  1604. share/doc/seqan/METAFUNCTION_Key.html
  1605. share/doc/seqan/METAFUNCTION_L_E_N_G_T_H.html
  1606. share/doc/seqan/METAFUNCTION_List_Type.html
  1607. share/doc/seqan/METAFUNCTION_Map_Value.html
  1608. share/doc/seqan/METAFUNCTION_Max_Value.html
  1609. share/doc/seqan/METAFUNCTION_Min_Value.html
  1610. share/doc/seqan/METAFUNCTION_Motif.html
  1611. share/doc/seqan/METAFUNCTION_Needle.html
  1612. share/doc/seqan/METAFUNCTION_Pex_Multi_Finder.html
  1613. share/doc/seqan/METAFUNCTION_Position.html
  1614. share/doc/seqan/METAFUNCTION_Prefix.html
  1615. share/doc/seqan/METAFUNCTION_Reference.html
  1616. share/doc/seqan/METAFUNCTION_Row.html
  1617. share/doc/seqan/METAFUNCTION_Rows.html
  1618. share/doc/seqan/METAFUNCTION_S_A_Value.html
  1619. share/doc/seqan/METAFUNCTION_Scoring_Scheme.html
  1620. share/doc/seqan/METAFUNCTION_Size.html
  1621. share/doc/seqan/METAFUNCTION_Source.html
  1622. share/doc/seqan/METAFUNCTION_Spec.html
  1623. share/doc/seqan/METAFUNCTION_Std_Container_Iterator.html
  1624. share/doc/seqan/METAFUNCTION_String_Set_Type.html
  1625. share/doc/seqan/METAFUNCTION_Suffix.html
  1626. share/doc/seqan/METAFUNCTION_Value.html
  1627. share/doc/seqan/METAFUNCTION_Value_Size.html
  1628. share/doc/seqan/METAFUNCTION_Vertex_Descriptor.html
  1629. share/doc/seqan/METAFUNCTION_Vertex_Id_Handler.html
  1630. share/doc/seqan/METAFUNCTION_W_E_I_G_H_T.html
  1631. share/doc/seqan/METAFUNCTION_Weight.html
  1632. share/doc/seqan/PAGE.dddoc.html
  1633. share/doc/seqan/PAGE_Glossary.html
  1634. share/doc/seqan/SHORTCUT_Blosum30.html
  1635. share/doc/seqan/SHORTCUT_Blosum45.html
  1636. share/doc/seqan/SHORTCUT_Blosum62.html
  1637. share/doc/seqan/SHORTCUT_Blosum80.html
  1638. share/doc/seqan/SHORTCUT_Char_Iterator.html
  1639. share/doc/seqan/SHORTCUT_Char_String.html
  1640. share/doc/seqan/SHORTCUT_Dna5_Iterator.html
  1641. share/doc/seqan/SHORTCUT_Dna5_String.html
  1642. share/doc/seqan/SHORTCUT_Dna5_String_Complement.html
  1643. share/doc/seqan/SHORTCUT_Dna5_String_Reverse.html
  1644. share/doc/seqan/SHORTCUT_Dna5_String_Reverse_Complement.html
  1645. share/doc/seqan/SHORTCUT_Dna_Iterator.html
  1646. share/doc/seqan/SHORTCUT_Dna_String.html
  1647. share/doc/seqan/SHORTCUT_Dna_String_Complement.html
  1648. share/doc/seqan/SHORTCUT_Dna_String_Reverse.html
  1649. share/doc/seqan/SHORTCUT_Dna_String_Reverse_Complement.html
  1650. share/doc/seqan/SHORTCUT_Edit_Distance_Score.html
  1651. share/doc/seqan/SHORTCUT_Iupac_Iterator.html
  1652. share/doc/seqan/SHORTCUT_Iupac_String.html
  1653. share/doc/seqan/SHORTCUT_Mod_Complement_Dna.html
  1654. share/doc/seqan/SHORTCUT_Mod_Complement_Dna5.html
  1655. share/doc/seqan/SHORTCUT_Mod_Complement_Rna.html
  1656. share/doc/seqan/SHORTCUT_Mod_Complement_Rna5.html
  1657. share/doc/seqan/SHORTCUT_Multi_Fasta.html
  1658. share/doc/seqan/SHORTCUT_Multi_Seq_File.html
  1659. share/doc/seqan/SHORTCUT_Myers_Ukkonen.html
  1660. share/doc/seqan/SHORTCUT_Myers_Ukkonen_Banded.html
  1661. share/doc/seqan/SHORTCUT_Myers_Ukkonen_Global.html
  1662. share/doc/seqan/SHORTCUT_Myers_Ukkonen_Global_Banded.html
  1663. share/doc/seqan/SHORTCUT_Pam120.html
  1664. share/doc/seqan/SHORTCUT_Pam200.html
  1665. share/doc/seqan/SHORTCUT_Pam250.html
  1666. share/doc/seqan/SHORTCUT_Pam40.html
  1667. share/doc/seqan/SHORTCUT_Peptide.html
  1668. share/doc/seqan/SHORTCUT_Peptide_Iterator.html
  1669. share/doc/seqan/SHORTCUT_Rna5_Iterator.html
  1670. share/doc/seqan/SHORTCUT_Rna5_String.html
  1671. share/doc/seqan/SHORTCUT_Rna5_String_Complement.html
  1672. share/doc/seqan/SHORTCUT_Rna5_String_Reverse.html
  1673. share/doc/seqan/SHORTCUT_Rna5_String_Reverse_Complement.html
  1674. share/doc/seqan/SHORTCUT_Rna_Iterator.html
  1675. share/doc/seqan/SHORTCUT_Rna_String.html
  1676. share/doc/seqan/SHORTCUT_Rna_String_Complement.html
  1677. share/doc/seqan/SHORTCUT_Rna_String_Reverse.html
  1678. share/doc/seqan/SHORTCUT_Rna_String_Reverse_Complement.html
  1679. share/doc/seqan/SHORTCUT_Simple_Score.html
  1680. share/doc/seqan/SHORTCUT_Unicode_Iterator.html
  1681. share/doc/seqan/SHORTCUT_Unicode_String.html
  1682. share/doc/seqan/SHORTCUT_Vtml200.html
  1683. share/doc/seqan/SPEC_Abndm_Algo.html
  1684. share/doc/seqan/SPEC_Adaptor+_Iterator.html
  1685. share/doc/seqan/SPEC_Adjacency+_Iterator.html
  1686. share/doc/seqan/SPEC_Aho_Corasick.html
  1687. share/doc/seqan/SPEC_Align_Col_Iterator.html
  1688. share/doc/seqan/SPEC_Alignment+_Graph.html
  1689. share/doc/seqan/SPEC_Alloc+_String.html
  1690. share/doc/seqan/SPEC_Alphabet+_Expansion.html
  1691. share/doc/seqan/SPEC_Amino_Acid.html
  1692. share/doc/seqan/SPEC_Anchor_Gaps.html
  1693. share/doc/seqan/SPEC_Array+_String.html
  1694. share/doc/seqan/SPEC_Array_Gaps.html
  1695. share/doc/seqan/SPEC_Async.html
  1696. share/doc/seqan/SPEC_Automaton.html
  1697. share/doc/seqan/SPEC_Basic_Info.html
  1698. share/doc/seqan/SPEC_Bfam.html
  1699. share/doc/seqan/SPEC_Bfam_3c_Oracle_3e.html
  1700. share/doc/seqan/SPEC_Bfam_3c_Trie_3e.html
  1701. share/doc/seqan/SPEC_Bfs+_Iterator.html
  1702. share/doc/seqan/SPEC_Bit+_Compressed+_Pair.html
  1703. share/doc/seqan/SPEC_Bit+_Packed+_Tuple.html
  1704. share/doc/seqan/SPEC_Blast_N.html
  1705. share/doc/seqan/SPEC_Blast_P.html
  1706. share/doc/seqan/SPEC_Block+_String.html
  1707. share/doc/seqan/SPEC_Bndm_Algo.html
  1708. share/doc/seqan/SPEC_Bottom_Up+_Iterator.html
  1709. share/doc/seqan/SPEC_C_Mode.html
  1710. share/doc/seqan/SPEC_C_Style+_String.html
  1711. share/doc/seqan/SPEC_Caster.html
  1712. share/doc/seqan/SPEC_Chained.html
  1713. share/doc/seqan/SPEC_Chained_Seed.html
  1714. share/doc/seqan/SPEC_Chunk+_Pool+_Allocator.html
  1715. share/doc/seqan/SPEC_Concat_Direct.html
  1716. share/doc/seqan/SPEC_Concat_Virtual+_Iterator.html
  1717. share/doc/seqan/SPEC_Counter.html
  1718. share/doc/seqan/SPEC_Counting+_Id_Manager.html
  1719. share/doc/seqan/SPEC_D_P_Search.html
  1720. share/doc/seqan/SPEC_Dependent.html
  1721. share/doc/seqan/SPEC_Dfs+_Preorder+_Iterator.html
  1722. share/doc/seqan/SPEC_Directed+_Graph.html
  1723. share/doc/seqan/SPEC_Dna.html
  1724. share/doc/seqan/SPEC_Dna5.html
  1725. share/doc/seqan/SPEC_Dna5_Q.html
  1726. share/doc/seqan/SPEC_Dna_Q.html
  1727. share/doc/seqan/SPEC_E_Pattern_Branching.html
  1728. share/doc/seqan/SPEC_Echoer.html
  1729. share/doc/seqan/SPEC_Edge+_Iterator.html
  1730. share/doc/seqan/SPEC_Edit_Distance.html
  1731. share/doc/seqan/SPEC_Edit_Environment.html
  1732. share/doc/seqan/SPEC_Exact_Fragment.html
  1733. share/doc/seqan/SPEC_Exact_Reversable_Fragment.html
  1734. share/doc/seqan/SPEC_External+_String.html
  1735. share/doc/seqan/SPEC_File+_Reader+_String.html
  1736. share/doc/seqan/SPEC_Filter.html
  1737. share/doc/seqan/SPEC_Finite.html
  1738. share/doc/seqan/SPEC_Full_Info.html
  1739. share/doc/seqan/SPEC_Gapped_Shape.html
  1740. share/doc/seqan/SPEC_Generic_Shape.html
  1741. share/doc/seqan/SPEC_Geometric+_Pdf.html
  1742. share/doc/seqan/SPEC_Hamming_Simple_Finder.html
  1743. share/doc/seqan/SPEC_Hierarchical.html
  1744. share/doc/seqan/SPEC_Hit_Iterator.html
  1745. share/doc/seqan/SPEC_Hmm.html
  1746. share/doc/seqan/SPEC_Horspool.html
  1747. share/doc/seqan/SPEC_Hsp_Iterator.html
  1748. share/doc/seqan/SPEC_Index_Dfi.html
  1749. share/doc/seqan/SPEC_Index_Esa.html
  1750. share/doc/seqan/SPEC_Index_Q_Gram.html
  1751. share/doc/seqan/SPEC_Index_Wotd.html
  1752. share/doc/seqan/SPEC_Infix_Segment.html
  1753. share/doc/seqan/SPEC_Interval+_Tree+_Node.html
  1754. share/doc/seqan/SPEC_Iterator+_Proxy.html
  1755. share/doc/seqan/SPEC_Iupac.html
  1756. share/doc/seqan/SPEC_Joiner.html
  1757. share/doc/seqan/SPEC_Journaled+_String.html
  1758. share/doc/seqan/SPEC_Log-_Normal+_Pdf.html
  1759. share/doc/seqan/SPEC_M_Map+_String.html
  1760. share/doc/seqan/SPEC_Mapper_Config.html
  1761. share/doc/seqan/SPEC_Mapper_Config_Size.html
  1762. share/doc/seqan/SPEC_Mapper_Spec.html
  1763. share/doc/seqan/SPEC_Max_Repeats+_Iterator.html
  1764. share/doc/seqan/SPEC_Memory_Manager_Index.html
  1765. share/doc/seqan/SPEC_Memory_Manager_Pointer.html
  1766. share/doc/seqan/SPEC_Mersenne+_Twister+_Rng.html
  1767. share/doc/seqan/SPEC_Mod_Reverse.html
  1768. share/doc/seqan/SPEC_Mod_View.html
  1769. share/doc/seqan/SPEC_Multi+_Pool+_Allocator.html
  1770. share/doc/seqan/SPEC_Multi_Bfam.html
  1771. share/doc/seqan/SPEC_Multi_Bfam_3c_Oracle_3e.html
  1772. share/doc/seqan/SPEC_Multi_Mems+_Iterator.html
  1773. share/doc/seqan/SPEC_Multi_Seed.html
  1774. share/doc/seqan/SPEC_Multiple_Shift_And.html
  1775. share/doc/seqan/SPEC_Mums+_Iterator.html
  1776. share/doc/seqan/SPEC_Myers.html
  1777. share/doc/seqan/SPEC_Namer.html
  1778. share/doc/seqan/SPEC_Non_Hierarchical.html
  1779. share/doc/seqan/SPEC_Non_Scored+_Seed_Set.html
  1780. share/doc/seqan/SPEC_Normal+_Pdf.html
  1781. share/doc/seqan/SPEC_One_Gapped_Shape.html
  1782. share/doc/seqan/SPEC_Open_Addressing.html
  1783. share/doc/seqan/SPEC_Oracle.html
  1784. share/doc/seqan/SPEC_Out-_Edge+_Iterator.html
  1785. share/doc/seqan/SPEC_Owner.html
  1786. share/doc/seqan/SPEC_P_Mode.html
  1787. share/doc/seqan/SPEC_Packed+_Pair.html
  1788. share/doc/seqan/SPEC_Packed+_String.html
  1789. share/doc/seqan/SPEC_Packed+_Triple.html
  1790. share/doc/seqan/SPEC_Pex.html
  1791. share/doc/seqan/SPEC_Pizza+_26+_Chili+_Index.html
  1792. share/doc/seqan/SPEC_Pizza+_26+_Chili+_String.html
  1793. share/doc/seqan/SPEC_Pms1.html
  1794. share/doc/seqan/SPEC_Pmsp.html
  1795. share/doc/seqan/SPEC_Points+_Only+_Tree+_Node.html
  1796. share/doc/seqan/SPEC_Pool_Config.html
  1797. share/doc/seqan/SPEC_Pool_Config_Size.html
  1798. share/doc/seqan/SPEC_Pool_Spec.html
  1799. share/doc/seqan/SPEC_Position+_Iterator.html
  1800. share/doc/seqan/SPEC_Prefix_Segment.html
  1801. share/doc/seqan/SPEC_Priority_Heap.html
  1802. share/doc/seqan/SPEC_Projection.html
  1803. share/doc/seqan/SPEC_Rna.html
  1804. share/doc/seqan/SPEC_Rna5.html
  1805. share/doc/seqan/SPEC_Rng+_Functor.html
  1806. share/doc/seqan/SPEC_Sampler.html
  1807. share/doc/seqan/SPEC_Score+_Chain_So_P.html
  1808. share/doc/seqan/SPEC_Score+_Manhattan.html
  1809. share/doc/seqan/SPEC_Score+_Matrix.html
  1810. share/doc/seqan/SPEC_Score+_Zero.html
  1811. share/doc/seqan/SPEC_Scored+_Seed_Set.html
  1812. share/doc/seqan/SPEC_Set_Horspool.html
  1813. share/doc/seqan/SPEC_Shift_And.html
  1814. share/doc/seqan/SPEC_Shift_Or.html
  1815. share/doc/seqan/SPEC_Shifter.html
  1816. share/doc/seqan/SPEC_Simple+_Allocator.html
  1817. share/doc/seqan/SPEC_Simple+_Finder.html
  1818. share/doc/seqan/SPEC_Simple+_Score.html
  1819. share/doc/seqan/SPEC_Simple_Iterator.html
  1820. share/doc/seqan/SPEC_Simple_Seed.html
  1821. share/doc/seqan/SPEC_Simple_Shape.html
  1822. share/doc/seqan/SPEC_Single+_Pool+_Allocator.html
  1823. share/doc/seqan/SPEC_Skiplist.html
  1824. share/doc/seqan/SPEC_Sorter_Config.html
  1825. share/doc/seqan/SPEC_Sorter_Config_Size.html
  1826. share/doc/seqan/SPEC_Sorter_Spec.html
  1827. share/doc/seqan/SPEC_Source.html
  1828. share/doc/seqan/SPEC_Store_Report.html
  1829. share/doc/seqan/SPEC_Stream_Report.html
  1830. share/doc/seqan/SPEC_Striped.html
  1831. share/doc/seqan/SPEC_Suffix_Segment.html
  1832. share/doc/seqan/SPEC_Sumlist_Gaps.html
  1833. share/doc/seqan/SPEC_Super_Max_Repeats+_Iterator.html
  1834. share/doc/seqan/SPEC_Super_Max_Repeats_Fast+_Iterator.html
  1835. share/doc/seqan/SPEC_Swift.html
  1836. share/doc/seqan/SPEC_Swift_Local.html
  1837. share/doc/seqan/SPEC_Swift_Semi_Global.html
  1838. share/doc/seqan/SPEC_Sync.html
  1839. share/doc/seqan/SPEC_Top_Down+_Iterator.html
  1840. share/doc/seqan/SPEC_Top_Down_History+_Iterator.html
  1841. share/doc/seqan/SPEC_Trace_Back.html
  1842. share/doc/seqan/SPEC_Tree.html
  1843. share/doc/seqan/SPEC_Trie.html
  1844. share/doc/seqan/SPEC_Tristate+_Holder.html
  1845. share/doc/seqan/SPEC_Tupler.html
  1846. share/doc/seqan/SPEC_Undirected+_Graph.html
  1847. share/doc/seqan/SPEC_Ungapped_Shape.html
  1848. share/doc/seqan/SPEC_Uniform+_Pdf.html
  1849. share/doc/seqan/SPEC_V_S_Tree+_Iterator.html
  1850. share/doc/seqan/SPEC_Vector_Set.html
  1851. share/doc/seqan/SPEC_Vertex+_Iterator.html
  1852. share/doc/seqan/SPEC_Wild_Shift_And.html
  1853. share/doc/seqan/SPEC_Word+_Graph.html
  1854. share/doc/seqan/SPEC_Wu_Manber.html
  1855. share/doc/seqan/TAG.sort_Aligned_Read+_Tags.html
  1856. share/doc/seqan/TAG_Alignment+_Graph+_Combination.html
  1857. share/doc/seqan/TAG_Alignment+_Graph+_Format.html
  1858. share/doc/seqan/TAG_Allocator+_Usage.html
  1859. share/doc/seqan/TAG_Consensus+_Calling.html
  1860. share/doc/seqan/TAG_Default.html
  1861. share/doc/seqan/TAG_Distance+_Calculation.html
  1862. share/doc/seqan/TAG_Dot_Drawing.html
  1863. share/doc/seqan/TAG_E_S_A+_Index+_Fibres.html
  1864. share/doc/seqan/TAG_Empty_Edges.html
  1865. share/doc/seqan/TAG_External_Config.html
  1866. share/doc/seqan/TAG_External_Config_Large.html
  1867. share/doc/seqan/TAG_External_Config_Size.html
  1868. share/doc/seqan/TAG_File+_Format.html
  1869. share/doc/seqan/TAG_Find_Infix.html
  1870. share/doc/seqan/TAG_Find_Prefix.html
  1871. share/doc/seqan/TAG_Global+_Alignment+_Algorithms.html
  1872. share/doc/seqan/TAG_Graph+_Iterator.html
  1873. share/doc/seqan/TAG_Hamming_Distance.html
  1874. share/doc/seqan/TAG_Hide_Empty_Edges.html
  1875. share/doc/seqan/TAG_Index+_Find+_Algorithm.html
  1876. share/doc/seqan/TAG_Interval_Tree+_Centers.html
  1877. share/doc/seqan/TAG_Interval_Tree+_Node+_Types.html
  1878. share/doc/seqan/TAG_Iterator+_Spec.html
  1879. share/doc/seqan/TAG_Levenshtein_Distance.html
  1880. share/doc/seqan/TAG_Local+_Alignment+_Algorithms.html
  1881. share/doc/seqan/TAG_Logical+_Values.html
  1882. share/doc/seqan/TAG_Mean_Std_Dev.html
  1883. share/doc/seqan/TAG_Move+_Switch.html
  1884. share/doc/seqan/TAG_Mu_Sigma.html
  1885. share/doc/seqan/TAG_Nothing.html
  1886. share/doc/seqan/TAG_Omops.html
  1887. share/doc/seqan/TAG_Oops.html
  1888. share/doc/seqan/TAG_Overflow+_Strategy.html
  1889. share/doc/seqan/TAG_Pizza+_26+_Chili+_Index+_Fibres.html
  1890. share/doc/seqan/TAG_Pizza+_26+_Chili+_Index+_Tags.html
  1891. share/doc/seqan/TAG_Postorder.html
  1892. share/doc/seqan/TAG_Postorder_Empty_Edges.html
  1893. share/doc/seqan/TAG_Prefix+_Order.html
  1894. share/doc/seqan/TAG_Preorder.html
  1895. share/doc/seqan/TAG_Preorder_Empty_Edges.html
  1896. share/doc/seqan/TAG_Q_Gram+_Index+_Fibres.html
  1897. share/doc/seqan/TAG_Seed+_Adding.html
  1898. share/doc/seqan/TAG_Seed+_Extension.html
  1899. share/doc/seqan/TAG_Seed_Set.html
  1900. share/doc/seqan/TAG_Segment+_Match+_Generation.html
  1901. share/doc/seqan/TAG_Simple.html
  1902. share/doc/seqan/TAG_Tag_List.html
  1903. share/doc/seqan/TAG_Tcm.html
  1904. share/doc/seqan/TAG_Upgma+_Configurator.html
  1905. share/doc/seqan/TAG_W_O_T_D+_Index+_Fibres.html
  1906. share/doc/seqan/TAG_Zoops.html
  1907. share/doc/seqan/TYPEDEF_Aligned_Read_Store_Element_23_T_Gap_Anchors.html
  1908. share/doc/seqan/TYPEDEF_Aligned_Read_Store_Element_23_T_Pos.html
  1909. share/doc/seqan/TYPEDEF_Aligned_Read_Store_Element_23_T_Spec.html
  1910. share/doc/seqan/TYPEDEF_Contig_Store_Element_23_T_Contig_Seq.html
  1911. share/doc/seqan/TYPEDEF_Contig_Store_Element_23_T_Gap_Anchors.html
  1912. share/doc/seqan/TYPEDEF_Contig_Store_Element_23_T_Pos.html
  1913. share/doc/seqan/TYPEDEF_Contig_Store_Element_23_T_Spec.html
  1914. share/doc/seqan/TYPEDEF_Fragment_Store_23_T_Align_Quality_Store.html
  1915. share/doc/seqan/TYPEDEF_Fragment_Store_23_T_Aligned_Read_Store.html
  1916. share/doc/seqan/TYPEDEF_Fragment_Store_23_T_Aligned_Read_Tag_Store.html
  1917. share/doc/seqan/TYPEDEF_Fragment_Store_23_T_Annotation_Name_Store.html
  1918. share/doc/seqan/TYPEDEF_Fragment_Store_23_T_Annotation_Store.html
  1919. share/doc/seqan/TYPEDEF_Fragment_Store_23_T_Contig_File_Store.html
  1920. share/doc/seqan/TYPEDEF_Fragment_Store_23_T_Contig_Name_Store.html
  1921. share/doc/seqan/TYPEDEF_Fragment_Store_23_T_Contig_Store.html
  1922. share/doc/seqan/TYPEDEF_Fragment_Store_23_T_Library_Name_Store.html
  1923. share/doc/seqan/TYPEDEF_Fragment_Store_23_T_Library_Store.html
  1924. share/doc/seqan/TYPEDEF_Fragment_Store_23_T_Mate_Pair_Name_Store.html
  1925. share/doc/seqan/TYPEDEF_Fragment_Store_23_T_Mate_Pair_Store.html
  1926. share/doc/seqan/TYPEDEF_Fragment_Store_23_T_Read_Name_Store.html
  1927. share/doc/seqan/TYPEDEF_Fragment_Store_23_T_Read_Seq_Store.html
  1928. share/doc/seqan/TYPEDEF_Fragment_Store_23_T_Read_Store.html
  1929. share/doc/seqan/alignment.cpp
  1930. share/doc/seqan/alignmentGraph.png
  1931. share/doc/seqan/alignment_local.cpp
  1932. share/doc/seqan/allocator.cpp
  1933. share/doc/seqan/alphabet.cpp
  1934. share/doc/seqan/automatonGraph.png
  1935. share/doc/seqan/blast_report.cpp
  1936. share/doc/seqan/dddoc.js
  1937. share/doc/seqan/dddoc_empty.gif
  1938. share/doc/seqan/dddoc_html.css
  1939. share/doc/seqan/dddoc_minus.gif
  1940. share/doc/seqan/dddoc_plus.gif
  1941. share/doc/seqan/directedGraph.png
  1942. share/doc/seqan/file_format.cpp
  1943. share/doc/seqan/find_approx.cpp
  1944. share/doc/seqan/find_exact.cpp
  1945. share/doc/seqan/find_motif.cpp
  1946. share/doc/seqan/find_wild.cpp
  1947. share/doc/seqan/graph_algo_bfs.cpp
  1948. share/doc/seqan/graph_algo_dfs.cpp
  1949. share/doc/seqan/graph_algo_flow_fordfulkerson.cpp
  1950. share/doc/seqan/graph_algo_his.cpp
  1951. share/doc/seqan/graph_algo_lcs.cpp
  1952. share/doc/seqan/graph_algo_lis.cpp
  1953. share/doc/seqan/graph_algo_path_allpairs.cpp
  1954. share/doc/seqan/graph_algo_path_bellmanford.cpp
  1955. share/doc/seqan/graph_algo_path_dag.cpp
  1956. share/doc/seqan/graph_algo_path_dijkstra.cpp
  1957. share/doc/seqan/graph_algo_path_floydwarshall.cpp
  1958. share/doc/seqan/graph_algo_path_transitive.cpp
  1959. share/doc/seqan/graph_algo_scc.cpp
  1960. share/doc/seqan/graph_algo_topsort.cpp
  1961. share/doc/seqan/graph_algo_tree_kruskal.cpp
  1962. share/doc/seqan/graph_algo_tree_prim.cpp
  1963. share/doc/seqan/graph_hmm.cpp
  1964. share/doc/seqan/graph_hmm_silent.cpp
  1965. share/doc/seqan/index.html
  1966. share/doc/seqan/index_find.cpp
  1967. share/doc/seqan/index_find_stringset.cpp
  1968. share/doc/seqan/index_maxrepeats.cpp
  1969. share/doc/seqan/index_mummy.cpp
  1970. share/doc/seqan/index_mums.cpp
  1971. share/doc/seqan/index_node_predicate.cpp
  1972. share/doc/seqan/index_sufarray.cpp
  1973. share/doc/seqan/index_supermaxrepeats.cpp
  1974. share/doc/seqan/iterator.cpp
  1975. share/doc/seqan/modifier_modreverse.cpp
  1976. share/doc/seqan/modifier_modview.cpp
  1977. share/doc/seqan/modifier_nested.cpp
  1978. share/doc/seqan/pizzachili.cpp
  1979. share/doc/seqan/rooted_iterator.cpp
  1980. share/doc/seqan/searchfile.js
  1981. share/doc/seqan/seqan_logo.gif
  1982. share/doc/seqan/seqan_logo_large.png
  1983. share/doc/seqan/shape_predefined.h
  1984. share/doc/seqan/treeGraph.png
  1985. share/doc/seqan/trieGraph.png
  1986. share/doc/seqan/undirectedGraph.png
  1987. @owner
  1988. @group
  1989. @mode
Collapse this list.
Dependency lines:
  • seqan1>0:biology/seqan1
Conflicts:
CONFLICTS:
  • seqan-[2-9]*
Conflicts Matches:
There are no Conflicts Matches for this port. This is usually an error.
To install the port: cd /usr/ports/biology/seqan1/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/seqan1
  • pkg install seqan1
PKGNAME: seqan1
Flavors: there is no flavor information for this port.
distinfo:
Packages (timestamps in pop-ups are UTC):
seqan1
ABIlatestquarterly
FreeBSD:11:aarch641.3.1_41.3.1_4
FreeBSD:11:amd641.3.1_41.3.1_4
FreeBSD:11:armv61.3.1_31.3.1_4
FreeBSD:11:i3861.3.1_41.3.1_4
FreeBSD:11:mips--
FreeBSD:11:mips641.3.1_31.3.1_4
FreeBSD:12:aarch641.3.1_41.3.1_4
FreeBSD:12:amd641.3.1_41.3.1_4
FreeBSD:12:armv61.3.1_41.3.1_4
FreeBSD:12:armv71.3.1_41.3.1_4
FreeBSD:12:i3861.3.1_41.3.1_4
FreeBSD:12:mips--
FreeBSD:12:mips641.3.1_41.3.1_4
FreeBSD:12:powerpc64-1.3.1_4
FreeBSD:13:aarch641.3.1_41.3.1_4
FreeBSD:13:amd641.3.1_41.3.1_4
FreeBSD:13:armv61.3.1_41.3.1_4
FreeBSD:13:armv71.3.1_41.3.1_4
FreeBSD:13:i3861.3.1_41.3.1_4
FreeBSD:13:mips--
FreeBSD:13:mips641.3.1_41.3.1_4
FreeBSD:13:powerpc641.3.1_41.3.1_4
FreeBSD:14:aarch641.3.1_4-
FreeBSD:14:amd641.3.1_4-
FreeBSD:14:armv61.3.1_4-
FreeBSD:14:armv71.3.1_4-
FreeBSD:14:i3861.3.1_4-
FreeBSD:14:mips--
FreeBSD:14:mips641.3.1_4-
FreeBSD:14:powerpc641.3.1_4-
 

There are no ports dependent upon this port

Configuration Options:
Options name:

USES:

Master Sites:
Expand this list (1 items)
Collapse this list.
  1. http://ftp.seqan.de/releases/
Collapse this list.

Number of commits found: 5

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
06 Apr 2021 14:31:07
 files touched by this commit commit hash:305f148f482daf30dcf728039d03d019f88344eb  1.3.1_4
mat search for other commits by this committer
Remove # $FreeBSD$ from Makefiles.
17 Sep 2019 19:21:45
Original commit files touched by this commit Revision:512232  1.3.1_4
tobik search for other commits by this committer
Fix some misspelled or duplicated LICENSE_*
19 Jul 2016 11:04:14
Original commit files touched by this commit Revision:418767  1.3.1_4
mat search for other commits by this committer
When there is a do-install target, do not use a post-install target, do
everything at once.  Sometime, rename post-install into a options helper
target.

I did not fix ports that were such a mess that I could not figure out
what they really wanted to do.  I also did not change ports that had
some version of an auto-plist code in post-install, for the same reason.

With hat:	portmgr
Sponsored by:	Absolight
19 May 2016 10:21:25
Original commit files touched by this commit Revision:415498  1.3.1_3
amdmi3 search for other commits by this committer
- Fix trailing whitespace in pkg-descrs, categories [a-f]*

Approved by:	portmgr blanket
10 May 2016 01:05:23
Original commit files touched by this commit Revision:414898  1.3.1_3
junovitch search for other commits by this committer
biology/seqan: update 1.3.1 -> 2.1.1
biology/seqan1: create port from current SeqAn 1.3.1 for legacy usage
UPDATING: document SeqAn updates and seqan1 port for legacy usage

PR:		204127
Submitted by:	Hannes Hauswedell <h2+fbsdports@fsfe.org>

Number of commits found: 5