seqprep_1.1-4ubuntu1_i386.deb


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Description

seqprep - stripping adaptors and/or merging paired reads of DNA sequences with overlap

Property Value
Distribution Ubuntu 16.04 LTS (Xenial Xerus)
Repository Ubuntu Universe i386
Package name seqprep
Package version 1.1
Package release 4ubuntu1
Package architecture i386
Package type deb
Installed size 86 B
Download size 25.88 KB
Official Mirror archive.ubuntu.com
SeqPrep is a program to merge paired end Illumina reads that are overlapping
into a single longer read. It may also just be used for its adapter trimming
feature without doing any paired end overlap. When an adapter sequence is
present, that means that the two reads must overlap (in most cases) so they
are forcefully merged. When reads do not have adapter sequence they must be
treated with care when doing the merging, so a much more specific approach is
taken. The default parameters were chosen with specificity in mind, so that
they could be ran on libraries where very few reads are expected to overlap.
It is always safest though to save the overlapping procedure for libraries
where you have some prior knowledge that a significant portion of the reads
will have some overlap.

Alternatives

Package Version Architecture Repository
seqprep_1.1-4ubuntu1_amd64.deb 1.1 amd64 Ubuntu Universe
seqprep - - -

Requires

Name Value
libc6 >= 2.4
zlib1g >= 1:1.1.4

Download

Type URL
Binary Package seqprep_1.1-4ubuntu1_i386.deb
Source Package seqprep

Install Howto

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

Files

Path
/usr/bin/seqprep
/usr/share/doc/seqprep/README.html
/usr/share/doc/seqprep/changelog.Debian.gz
/usr/share/doc/seqprep/copyright
/usr/share/man/man1/seqprep.1.gz

Changelog

2016-03-21 - Steve Langasek <steve.langasek@ubuntu.com>
seqprep (1.1-4ubuntu1) xenial; urgency=medium
* Add missing test dep on python (don't assume it's installed).
2015-09-28 - Andreas Tille <tille@debian.org>
seqprep (1.1-4) unstable; urgency=medium
* Really apply patch created by Graham Inggs
Closes: #789829
2015-07-07 - Andreas Tille <tille@debian.org>
seqprep (1.1-3) unstable; urgency=medium
[ Andreas Tille ]
* make sure autopkgtest script will not fail when cleaning up
[ Graham Inggs ]
* enable building with gcc-5
* fix clean target
* replace all instances of the 'float' datatype in SeqPrep.c with 'double'
Closes: #789829
2015-06-21 - Andreas Tille <tille@debian.org>
seqprep (1.1-2) unstable; urgency=medium
* Do not try fiddle around with arch all files in arch indep builds
Closes: #789488
2015-02-20 - Andreas Tille <tille@debian.org>
seqprep (1.1-1) unstable; urgency=medium
* Initial Upload to Debian
Closes: #778838
2015-02-19 - Tim Booth <tbooth@ceh.ac.uk>
seqprep (1.1-0biolinux1) trusty; urgency=medium
* Initial release for Bio-Linux.

See Also

Package Description
seqtk_1.0-1_i386.deb Fast and lightweight tool for processing sequences in the FASTA or FASTQ format
ser2net_2.9.1-1_i386.deb Serial port to network proxy
serdi_0.22.0~dfsg0-2_i386.deb lightweight RDF syntax library - serdi tool
serf_0.6.4~ds1-1_i386.deb Service orchestration and management tool
servefile_0.4.4-1_all.deb serve or receive files from shell via a small HTTP server
serverspec-runner_0.2.4-2_all.deb simple execution framework for serverspec
serverstats_0.8.2-11ubuntu1_all.deb simple tool for creating graphs using rrdtool
service-wrapper_3.5.26-3_i386.deb Jar daemon wrapper
set6x86_1.5-14_i386.deb Cyrix/IBM 5x86/6x86 CPU configuration tool
setbfree_0.8.0-1_i386.deb DSP tonewheel organ
setcd_1.5-6_i386.deb Control the behaviour of your cdrom device
setools-gui_3.3.8+20151215-2_i386.deb GUI tools for Security Enhanced Linux policy analysis
setools_3.3.8+20151215-2_i386.deb tools for Security Enhanced Linux policy analysis
sextractor_2.19.5+dfsg-4_i386.deb Source extractor for astronomical images
seyon_2.20c-32_i386.deb Full-featured native X11 communications program
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