ssake_3.8.4-1_all.deb


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Description

ssake - genomics application for assembling millions of very short DNA sequences

Property Value
Distribution Ubuntu 16.04 LTS (Xenial Xerus)
Repository Ubuntu Universe i386
Package name ssake
Package version 3.8.4
Package release 1
Package architecture all
Package type deb
Installed size 127 B
Download size 29.37 KB
Official Mirror archive.ubuntu.com
The Short Sequence Assembly by K-mer search and 3′ read Extension
(SSAKE) is a genomics application for aggressively assembling
millions of short nucleotide sequences by progressively searching for
perfect 3′-most k-mers using a DNA prefix tree. SSAKE is designed to
help leverage the information from short sequences reads by
stringently clustering them into contigs that can be used to
characterize novel sequencing targets.

Alternatives

Package Version Architecture Repository
ssake_3.8.4-1_all.deb 3.8.4 all Ubuntu Universe
ssake - - -

Requires

Name Value
libperl4-corelibs-perl -
perl -
perl << 5.12.3-7
python -

Download

Type URL
Binary Package ssake_3.8.4-1_all.deb
Source Package ssake

Install Howto

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

Files

Path
/usr/bin/ssake
/usr/bin/tqs
/usr/share/doc/ssake/README.Debian
/usr/share/doc/ssake/TQS.readme
/usr/share/doc/ssake/changelog.Debian.gz
/usr/share/doc/ssake/copyright
/usr/share/man/man1/ssake.1.gz
/usr/share/man/man1/tqs.1.gz
/usr/share/ssake/makeFastaFileFromScaffolds.pl
/usr/share/ssake/makePairedOutput.pl
/usr/share/ssake/makePairedOutput2EQUALfiles.pl
/usr/share/ssake/makePairedOutput2UNEQUALfiles.pl
/usr/share/ssake/nLength.pl

Changelog

2016-01-27 - Andreas Tille <tille@debian.org>
ssake (3.8.4-1) unstable; urgency=medium
* New upstream version
2015-07-06 - Andreas Tille <tille@debian.org>
ssake (3.8.3-1) unstable; urgency=medium
* New upstream version
* cme fix dpkg-control
* insert '#!/bin/sh' line into example scripts
2014-07-19 - Andreas Tille <tille@debian.org>
ssake (3.8.2-1) unstable; urgency=medium
* New upstream version
* Fixed watch file
* Prevent sending e-mail to upstream in case of successfull test
2014-01-18 - Andreas Tille <tille@debian.org>
ssake (3.8.1-1) unstable; urgency=medium
* New upstream version
Closes: #735836
* debian/control:
- cme fix dpkg-control
- debhelper 9
* debian/rules: cdbs -> dh
* debian/watch: fixed to report last version
* add autopkgtest
2012-02-11 - Charles Plessy <plessy@debian.org>
ssake (3.8-2) unstable; urgency=low
[ A. Costa ]
* Corrected a typo in debian/ssake.1 (Closes: #650469). 
[ Charles Plessy ]
* Depend on libperl4-corelibs-perl | perl (<< 5.12.3-7).
Closes: #659428.
2011-08-15 - Charles Plessy <plessy@debian.org>
ssake (3.8-1) unstable; urgency=low
* New upstream version 30% faster than the previous release.  Additional
assembly control has been implemented (-w) that limits the generation of
low depth of coverage contigs.
* Use Debhelper 8 (debian/control, debian/compat).
* Corrected VCS URLs (debian/control).
* Incremented Standards-Version to indicate conformance with Policy 3.9.2.
(debian/control, changes needed.)
* Implement rudimentary regression tests (debian/rules).
2010-11-25 - Andreas Tille <tille@debian.org>
ssake (3.7-1) unstable; urgency=low
* New upstream version
* Standards-Version: 3.9.1 (no changes needed)
* debian/rules: reflect upstream renamed testdir
2010-06-24 - Andreas Tille <tille@debian.org>
ssake (3.5-1) unstable; urgency=low
* New upstream version
* debian/source/format: Switched to source format 3.0 (quilt)
* debian/control:
- Standards-Version: 3.8.4 (no changes needed)
* debian/rules
- fixed cut-n-pasto
2009-06-23 - Charles Plessy <plessy@debian.org>
ssake (3.4-1) unstable; urgency=low
* New upstream release.
- Fixed a bug in PET routine.  User can now track read position and
individual base coverage for reads *fully embedded* within contigs,
using the -c option.
- Version 3.4 exploits paired-end reads to explore possible contig merges
within scaffolds (Consecutive contigs >= -z bases must overlap by -m
bases or more).
* debian/control:
- Incremented Standards-Version to indicate conformance with Policy 3.8.2.
(No changes needed.)
- Using the Unicode ‘prime’ character for the 3′ direction (cosmetic).
* Simplified debian/copyright according to latest discussions about the
machine-readable format.
2009-03-07 - Charles Plessy <plessy@debian.org>
ssake (3.2.1-2) unstable; urgency=low
* debian/control:
- ssake and ssake-exmamples now depend on ${misc:Depends}.
- ssake-examples suggests ssake instead of depending.
- Reduced redundancy in the description of ssake.
- Gave a specific description to ssake-examples.
* debian/ssake.docs, debian/reference: added BibTeX-formatted reference.
* debian/copyright:
- Corrected the identity of the upstream maintainer.
- Points to the version 2 of the GNU GPL.
- added myself to the Hall of Fame.

See Also

Package Description
ssdeep_2.13-2_i386.deb recursive piecewise hashing tool
ssed_3.62-7_i386.deb The super sed stream editor
ssft_0.9.13_all.deb Shell Scripts Frontend Tool
ssh-agent-filter_0.4.1-1_i386.deb filtering proxy for ssh-agent
ssh-askpass-fullscreen_0.3-3.1_i386.deb Under Gnome2, asks user for a passphrase for ssh-add
ssh-askpass-gnome_7.2p2-4_i386.deb interactive X program to prompt users for a passphrase for ssh-add
ssh-askpass_1.2.4.1-9_i386.deb under X, asks user for a passphrase for ssh-add
ssh-contact-client_0.7-1_i386.deb establish SSH connections to your IM contacts using Telepathy (client)
ssh-contact-service_0.7-1_i386.deb establish SSH connections to your IM contacts using Telepathy (server)
ssh-contact_0.7-1_all.deb establish SSH connections to your IM contacts using Telepathy (metapackage)
ssh-cron_1.01.00-1_i386.deb cron daemon allowing ssh keys with passphrases to be used
ssh-krb5_7.2p2-4_all.deb secure shell client and server (transitional package)
sshcommand_0~20160110.1~2795f65-1_all.deb turn SSH into a thin client specifically for your command
sshfp_1.2.2-4_all.deb DNS SSHFP records generator
sshfs_2.5-1ubuntu1_i386.deb filesystem client based on SSH File Transfer Protocol
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