Fast, reliable protein-coding gene prediction for prokaryotic genomes.
Features:
* Predicts protein-coding genes: Prodigal provides fast, accurate protein-coding
gene predictions in GFF3, Genbank, or Sequin table format.
* Handles draft genomes and metagenomes: Prodigal runs smoothly on finished
genomes, draft genomes, and metagenomes.
* Runs quickly: Prodigal analyzes the E. coli K-12 genome in 10 seconds on a
modern MacBook Pro.
* Runs unsupervised: Prodigal is an unsupervised machine learning algorithm. It
does not need to be provided with any training data, and instead automatically
learns the properties of the genome from the sequence itself, including RBS
motif usage, start codon usage, and coding statistics.
* Handles gaps and partial genes: The user can specify if Prodigal should build
genes across runs of N's as well as how to handle genes at the edges of
contigs.
* Identifies translation initiation sites: Prodigal predicts the correct
translation initiation site for most genes, and can output information about
every potential start site in the genome, including confidence score, RBS
motif, and much more.
Remove WWW entries moved into port Makefiles
Commit b7f05445c00f has added WWW entries to port Makefiles based on
WWW: lines in pkg-descr files.
This commit removes the WWW: lines of moved-over URLs from these
pkg-descr files.
Approved by: portmgr (tcberner)
Add WWW entries to port Makefiles
It has been common practice to have one or more URLs at the end of the
ports' pkg-descr files, one per line and prefixed with "WWW:". These
URLs should point at a project website or other relevant resources.
Access to these URLs required processing of the pkg-descr files, and
they have often become stale over time. If more than one such URL was
present in a pkg-descr file, only the first one was tarnsfered into
the port INDEX, but for many ports only the last line did contain the
port specific URL to further information.
There have been several proposals to make a project URL available as
a macro in the ports' Makefiles, over time.
(Only the first 15 lines of the commit message are shown above )
