Port details on branch 2022Q3 |
- minimap2 Pairwise aligner for genomic and spliced nucleotide sequences
- 2.28_1 biology =0 2.27_1Version of this port present on the latest quarterly branch.
- Maintainer: jwb@FreeBSD.org
- Port Added: 2019-04-24 18:04:07
- Last Update: 2024-04-17 22:52:15
- Commit Hash: 507fa8a
- License: MIT
- WWW:
- https://github.com/lh3/minimap2
- Description:
- Minimap2 is a versatile sequence alignment program that aligns DNA or mRNA
sequences against a large reference database. Typical use cases include:
(1) mapping PacBio or Oxford Nanopore genomic reads to the human genome
(2) finding overlaps between long reads with error rate up to ~15%
(3) splice-aware alignment of PacBio Iso-Seq or Nanopore cDNA or Direct RNA
readsagainst a reference genome
(4) aligning Illumina single- or paired-end reads
(5) assembly-to-assembly alignment
(6) full-genome alignment between two closely related species with divergence
below ~15%
- ¦ ¦ ¦ ¦
- Manual pages:
- FreshPorts has no man page information for this port.
- pkg-plist: as obtained via:
make generate-plist - Dependency lines:
-
- minimap2>0:biology/minimap2
- To install the port:
- cd /usr/ports/biology/minimap2/ && make install clean
- To add the package, run one of these commands:
- pkg install biology/minimap2
- pkg install minimap2
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.- PKGNAME: minimap2
- Flavors: there is no flavor information for this port.
- distinfo:
- TIMESTAMP = 1713393837
SHA256 (lh3-minimap2-v2.28_GH0.tar.gz) = 5ea6683b4184b5c49f6dbaef2bc5b66155e405888a0790d1b21fd3c93e474278
SIZE (lh3-minimap2-v2.28_GH0.tar.gz) = 260341
Packages (timestamps in pop-ups are UTC):
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Build dependencies:
-
- simde>0 : devel/simde
- gmake>=4.4.1 : devel/gmake
- This port is required by:
- for Run
-
- biology/biostar-tools
Configuration Options:
- No options to configure
- Options name:
- biology_minimap2
- USES:
- gmake localbase
- FreshPorts was unable to extract/find any pkg message
- Master Sites:
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