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Port details
stringtie Transcript assembly and quantification for RNA-seq
1.3.4.d 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
Maintainer: mzaki@niid.go.jp search for ports maintained by this maintainer
Port Added: 11 Jul 2018 21:32:56
License: ART20 MIT
StringTie is a fast and highly efficient assembler of RNA-seq alignments into
potential transcripts. The input can be the alignments of raw reads as usual;
it also accepts longer assembled sequences. The output can be processed by
downstream software including Ballgown, Cuffdiff, etc.

Citation:
Pertea et al. (2015) StringTie enables improved reconstruction of a
transcriptome from RNA-seq reads.
Nature Biotechnology 33: 290-295 doi:10.1038/nbt.3122

WWW: http://www.ccb.jhu.edu/software/stringtie/
SVNWeb : Homepage : PortsMon
    Pseudo-pkg-plist information, but much better, from make generate-plist
    Expand this list (5 items)
  1. bin/stringtie
  2. /usr/local/share/licenses/stringtie-1.3.4.d/catalog.mk
  3. /usr/local/share/licenses/stringtie-1.3.4.d/LICENSE
  4. /usr/local/share/licenses/stringtie-1.3.4.d/ART20
  5. /usr/local/share/licenses/stringtie-1.3.4.d/MIT
  6. Collapse this list.

To install the port: cd /usr/ports/biology/stringtie/ && make install clean
To add the package: pkg install stringtie

PKGNAME: stringtie

distinfo:

TIMESTAMP = 1530582079
SHA256 (stringtie-1.3.4d.tar.gz) = b1962d0108146ce7fea39d069b5e5de918e0e21daef9e1425ec9b778094d6ae6
SIZE (stringtie-1.3.4d.tar.gz) = 438025


NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.

Build dependencies:
  1. gmake : devel/gmake
There are no ports dependent upon this port

Configuration Options
     No options to configure

USES:
gmake

Master Sites:
  1. http://ccb.jhu.edu/software/stringtie/dl/

Number of commits found: 1

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
11 Jul 2018 21:32:39
Original commit files touched by this commit  1.3.4.d
Revision:474480
yuri search for other commits by this committer
New port: biology/stringtie: Transcript assembly and quantification for RNA-seq

PR:		229480
Submitted by:	Motomichi Matsuzaki <mzaki@niid.go.jp>

Number of commits found: 1

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