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

Property Value
Distribution Debian 10 (Buster)
Repository Debian Nonfree amd64
Package name cufflinks
Package version 2.2.1+dfsg.1
Package release 3+b1
Package architecture amd64
Package type deb
Installed size 10.01 KB
Download size 1.43 MB
Official Mirror
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.


Package Version Architecture Repository
cufflinks_2.2.1+dfsg.1-3+b1_i386.deb 2.2.1+dfsg.1 i386 Debian Nonfree
cufflinks - - -


Name Value
libboost serialization1.67.0
libboost system1.67.0
libboost thread1.67.0
libc6 >= 2.23
libgcc1 >= 1:4.0
libstdc++6 >= 5.2
python -
zlib1g >= 1:


Type URL
Binary Package cufflinks_2.2.1+dfsg.1-3+b1_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




2018-10-18 - Andreas Tille <>
cufflinks (2.2.1+dfsg.1-3) unstable; urgency=medium
* XS-Autobuild: yes
* d/rules: no manual inforcement of compression which is default
* debhelper 11
* Point Vcs fields to
* Standards-Version: 4.2.1
2017-11-02 - Alexandre Mestiashvili <>
cufflinks (2.2.1+dfsg.1-2) unstable; urgency=medium
[ Steffen Moeller ]
* debian/upstream/metadata:
- Added references to software catalogues.
- yamllint cleanliness
[ Alexandre Mestiashvili ]
* Add patch fixing FTBFS with upcoming boost1.65+, Closes: #880375
thanks to Dimitri John Ledkov <>
* Bump Standards-Version to 4.1.1
2017-09-05 - Alexandre Mestiashvili <>
cufflinks (2.2.1+dfsg.1-1) unstable; urgency=medium
[ Mattia Rizzolo ]
* add a closes to the previous changelog entry
[ Alexandre Mestiashvili ]
* Update d/watch
* Update d/copyright, add Files-Excluded section,
use https for copyrigth-format, add Upstream-Name
* New upstream version 2.2.1+dfsg.1
* Update d/rules, use variables provided by /usr/share/dpkg/
* Add patch fixing ftbfs with gcc-7, Closes: #871234
thanks to Jeff Epler <>
* Update 0003-fix_includes_path.patch and 0001-fix_spelling.patch
* Bump Standards-Version in d/control
2016-08-16 - Andreas Tille <>
cufflinks (2.2.1-3) unstable; urgency=medium
* Use unversioned libboost.  (Thanks for the hint to Gianfranco Costamagna)
Closes: 833760
* Fix gcc-6.1 build issue caused by an unmaintained code copy of liblemon.
Thanks for the hint to Graham Inggs <>
Closes: #833493
2016-07-12 - Andreas Tille <>
cufflinks (2.2.1-2) unstable; urgency=medium
* Watch file pointing to Github
* cme fix dpkg-control
* Use libboost 1.60
Closes: #797280, #822121
* hardening=+all
2014-05-16 - Alexandre Mestiashvili <>
cufflinks (2.2.1-1) unstable; urgency=medium
* d/control: cme fix dpkg-control
* Imported Upstream version 2.2.1
2014-04-11 - Alexandre Mestiashvili <>
cufflinks (2.2.0-1) unstable; urgency=medium
[ James McCoy ]
* Move debian/upstream to debian/upstream/metadata
[ Alexandre Mestiashvili ]
* Imported Upstream version 2.2.0
* d/rules:
- link to the serialization library "-lboost_serialization"
- generate man pages automatically with help2man
- separate rule for manpage for gffread as it doesn't return usage
message when executed without arguments
* d/control:
- use canonical VCS-* fields
- updated Standards-Version
- Build-Depends: add help2man
* d/patches/gffread_show_usage.patch: fix wrong USAGE indentation causing
buffer overflow in gffread when using -h, --help and some other arguments
* d/*.1: removed obsoleted manpages
* d/copyright: updated Source, Copyright years
2013-10-23 - Dmitrijs Ledkovs <>
cufflinks (2.1.1-4) unstable; urgency=low
* Force use boost_system, boost_thread when linking. Fixing FTBFS in
* Enable parallel build.
2013-09-07 - Dmitrijs Ledkovs <>
cufflinks (2.1.1-3) unstable; urgency=low
* Rebuild against boost1.54.
2013-05-23 - Dmitrijs Ledkovs <>
cufflinks (2.1.1-2) unstable; urgency=low
* Fix failing to build from source against boost1.53. (Closes: #709252)

See Also

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doc-rfc-experimental_20181229-2_all.deb Experimental RFCs
doc-rfc-fyi-bcp_20181229-2_all.deb FYI and BCP RFCs
doc-rfc-informational_20181229-2_all.deb Informational RFCs
doc-rfc-misc_20181229-2_all.deb Historic and draft RFCs
doc-rfc-old-std_20181229-2_all.deb Old Standard RFCs
doc-rfc-others_20181229-2_all.deb Old experimental and unclassified RFCs
doc-rfc-std-proposed_20181229-2_all.deb Proposed Standard RFCs
doc-rfc-std_20181229-2_all.deb Standard RFCs
doc-rfc_20181229-2_all.deb RFC documents metapackage