cufflinks_1.3.0-2_amd64.deb


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Description

cufflinks - Transcript assembly, differential expression and regulation for RNA-Seq

Property Value
Distribution Debian 7 (Wheezy)
Repository Debian Nonfree amd64
Package name cufflinks
Package version 1.3.0
Package release 2
Package architecture amd64
Package type deb
Installed size 5.69 KB
Download size 1018.17 KB
Official Mirror ftp.br.debian.org
Cufflinks assembles transcripts, estimates their abundances, and tests for
differential expression and regulation in RNA-Seq samples. It accepts aligned
RNA-Seq reads and assembles the alignments into a parsimonious set of
transcripts. Cufflinks then estimates the relative abundances of these
transcripts based on how many reads support each one.

Alternatives

Package Version Architecture Repository
cufflinks - - -

Requires

Name Value
dpkg >= 1.15.6
libboost-thread1.49.0 >= 1.49.0-1
libc6 >= 2.7
libgcc1 >= 1:4.1.1
libstdc++6 >= 4.6
python >= 2.6.6-3~
zlib1g >= 1:1.2.3.3

Download

Type URL
Binary Package cufflinks_1.3.0-2_amd64.deb
Source Package cufflinks

Install Howto

  1. Update the package index:
    # sudo apt-get update
  2. Install cufflinks deb package:
    # sudo apt-get install cufflinks

Files

Path
/usr/bin/compress_gtf
/usr/bin/cuffcompare
/usr/bin/cuffdiff
/usr/bin/cufflinks
/usr/bin/cuffmerge
/usr/bin/gffread
/usr/bin/gtf_to_sam
/usr/share/doc/cufflinks/AUTHORS
/usr/share/doc/cufflinks/README
/usr/share/doc/cufflinks/changelog.Debian.gz
/usr/share/doc/cufflinks/copyright
/usr/share/man/man1/compress_gtf.1.gz
/usr/share/man/man1/cuffcompare.1.gz
/usr/share/man/man1/cuffdiff.1.gz
/usr/share/man/man1/cufflinks.1.gz
/usr/share/man/man1/cuffmerge.1.gz
/usr/share/man/man1/gffread.1.gz
/usr/share/man/man1/gtf_to_sam.1.gz

Changelog

2012-05-24 - Charles Plessy <plessy@debian.org>
cufflinks (1.3.0-2) unstable; urgency=low
[ Charles Plessy ]
* Normalised and summarised debian/copyright.
[ Carlos Borroto ]
* Added tophat to Enhances
[ Andreas Tille ]
* debian/upstream: Added references as specified in tasks file
* debian/copyright: Added Upstream-Contact e-mail
* debian/patches/gcc-4.7.patch: Fix gcc-4.7 build issue
Closes: #672744
2012-01-06 - Charles Plessy <plessy@debian.org>
cufflinks (1.3.0-1) unstable; urgency=low
[ Alexandre Mestiashvili ]
* New upstream release
* Fixed spelling error.
* Updated source version
[ Charles Plessy ]
* Removed quilt patch management, and rely on dpkg-dev exclusively.
2011-12-11 - Charles Plessy <plessy@debian.org>
cufflinks (1.2.1-1) unstable; urgency=low
[ Alexandre Mestiashvili ]
* New upstream release
* added patch to fix bam.h location .
* debian/rules invoke autoreconf
* debian/rules added overrides for dh_auto_clean and dh_clean
* added missing dependency - quilt .We use dh_quilt_patch,
dh_quilt_unpatch helpers
* debian/control added dependency python (>=2.6.6-3~) for source package
* debian/control added dependency python (>=2.6.6-3~) for binary package
[ Andreas Tille ]
* Added myself to uploaders
* Debhelper 8 (control+compat)
* debian/watch: removed dh-make template from watch file
* debian/rules: invoke autotools_dev
[ Charles Plessy ]
* Switch to non-free section because of the locfit license (debian/control).
* Added myself to Uploaders (debian/control).
* Compress binary package with xz (debian/rules).
* Pre-depend on dpkg (>= 1.15.6) for xz compression (Ubuntu LTS).
2011-06-08 - Alex Mestiashvili <alex@biotec.tu-dresden.de>
cufflinks (1.0.3-1) UNRELEASED; urgency=low
[ Alex Mestiashvili ]
* added docs
* added missing dependency
* libbam-dev provides necessary headers only from 0.1.16 version .
Fixed in control file.
[ Charles Plessy ]
* Add debian/gbp.conf to show the package is managed with git-buildpackage.
* Converted Debian copyright file to machine-readable format (DEP 5).
* Reviewed copyright and license notices, and found that locfit is non-freeā€¦
[ Alex Mestiashvili ]
* Imported Upstream version 1.0.3 (bugfix)
2011-05-24 - Alex Mestiashvili <alex@biotec.tu-dresden.de>
cufflinks (1.0.2-1) UNRELEASED; urgency=low
* Initial release (Closes: #627799)

See Also

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cuneiform_1.1.0+dfsg-4_amd64.deb multi-language OCR system
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doc-rfc-experimental_20120225-2_all.deb Experimental RFCs
doc-rfc-fyi-bcp_20120225-2_all.deb FYI and BCP RFCs
doc-rfc-informational_20120225-2_all.deb Informational RFCs
doc-rfc-misc_20120225-2_all.deb Historic and draft RFCs
doc-rfc-old-std_20120225-2_all.deb Old Standard RFCs
doc-rfc-others_20120225-2_all.deb Old experimental and unclassified RFCs
doc-rfc-std-proposed_20120225-2_all.deb Proposed Standard RFCs
doc-rfc-std_20120225-2_all.deb Standard RFCs
doc-rfc_20120225-2_all.deb RFC documents metapackage
doom-wad-shareware_1.9.fixed-2_all.deb Shareware game files for the 3D game Doom
dynamips_0.2.7-0.2.8RC2-5.1_amd64.deb Cisco 7200/3600/3725/3745/2600/1700 Router Emulator
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