pirs_2.0.2+dfsg-6_i386.deb


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Description

pirs - Profile based Illumina pair-end Reads Simulator

Property Value
Distribution Ubuntu 17.10 (Artful Aardvark)
Repository Ubuntu Universe i386
Package name pirs
Package version 2.0.2+dfsg
Package release 6
Package architecture i386
Package type deb
Installed size 381 B
Download size 114.73 KB
Official Mirror archive.ubuntu.com
The program pIRS can be used for simulating Illumina PE reads, with a
series of characters generated by Illumina sequencing platform, such as
insert size distribution, sequencing error(substitution, insertion,
deletion), quality score and GC content-coverage bias.
The insert size follows a normal distribution, so users should set the
mean value and standard deviation. Usually the standard deviation is set
as 1/20 of the mean value. The normal distribution by Box-Muller method
is simulated.
The program simulates sequencing error, quality score and GC content-
coverage bias according to the empirical distribution profile. Some
default profiles counted from lots of real sequencing data are provided.
To simulate reads from diploid genome, users should simulate the diploid
genome sequence firstly by setting the ratio of heterozygosis SNP,
heterozygosis InDel and structure variation.

Alternatives

Package Version Architecture Repository
pirs_2.0.2+dfsg-6_amd64.deb 2.0.2+dfsg amd64 Ubuntu Universe
pirs - - -

Requires

Name Value
fonts-liberation -
gnuplot -
libc6 >= 2.4
libgcc1 >= 1:4.2
libgomp1 >= 4.9
libgzstream0 -
libstdc++6 >= 5.2
pirs-profiles -
zlib1g >= 1:1.2.0.2

Download

Type URL
Binary Package pirs_2.0.2+dfsg-6_i386.deb
Source Package pirs

Install Howto

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

Files

Path
/usr/bin/alignment_stator
/usr/bin/baseCalling_Matrix_analyzer
/usr/bin/baseCalling_Matrix_calculator
/usr/bin/baseCalling_Matrix_calculator.0
/usr/bin/baseCalling_Matrix_merger
/usr/bin/baseCalling_Matrix_merger.old
/usr/bin/gc_coverage_bias
/usr/bin/gc_coverage_bias_plot
/usr/bin/gethist
/usr/bin/ifollowQ
/usr/bin/ifollowQmerge
/usr/bin/ifollowQplot
/usr/bin/ifqQ
/usr/bin/indelstat_sam_bam
/usr/bin/itilestator
/usr/bin/loess
/usr/bin/pifollowQmerge
/usr/bin/pirs
/usr/lib/pirs/alignment_stator.pl
/usr/lib/pirs/baseCalling_Matrix_analyzer.pl
/usr/lib/pirs/baseCalling_Matrix_calculator.0.pl
/usr/lib/pirs/baseCalling_Matrix_calculator.pl
/usr/lib/pirs/baseCalling_Matrix_merger.old.pl
/usr/lib/pirs/baseCalling_Matrix_merger.pl
/usr/lib/pirs/gc_coverage_bias_plot.pl
/usr/lib/pirs/gethist.pl
/usr/lib/pirs/ifollowQ.pl
/usr/lib/pirs/ifollowQmerge.pl
/usr/lib/pirs/ifollowQplot.pl
/usr/lib/pirs/ifqQ.pl
/usr/lib/pirs/indelstat_sam_bam.pl
/usr/lib/pirs/itilestator.pl
/usr/lib/pirs/loess.pl
/usr/lib/pirs/pifollowQmerge.pl
/usr/share/doc/pirs/README.gz
/usr/share/doc/pirs/changelog.Debian.gz
/usr/share/doc/pirs/copyright
/usr/share/doc/pirs/strator_readme.txt

Changelog

2017-09-14 - Andreas Tille <tille@debian.org>
pirs (2.0.2+dfsg-6) unstable; urgency=medium
* Do not disable PIE (thanks for the patch to Adrian Bunk <bunk@debian.org>)
Closes: #865655
* Standards-Version: 4.1.0 (no changes needed)
* Depends: s/ttf-liberation/fonts-liberation/
Closes: #861367
* Drop autoreconf dependency which is useless with debhelper 10
* d/rules: Do not parse d/changelog
* Remove unused lintian override
2017-01-14 - John Paul Adrian Glaubitz <glaubitz@physik.fu-berlin.de>
pirs (2.0.2+dfsg-5.1) unstable; urgency=medium
* Non-maintainer upload.
* Add patch to remove -mtune from compiler flags for gcContCvgBias
* Don't disable SSE2 support on kfreebsd-amd64 and x32
2017-01-14 - Andreas Tille <tille@debian.org>
pirs (2.0.2+dfsg-5) unstable; urgency=medium
* Do not use non-free font arial.ttf but rather LiberationSans-Regular.ttf
from ttf-liberation (this also fixes autopkgtest)
2016-12-19 - Andreas Tille <tille@debian.org>
pirs (2.0.2+dfsg-4) unstable; urgency=medium
* Really fix build for -A
Closes: #847339
2016-12-07 - Andreas Tille <tille@debian.org>
pirs (2.0.2+dfsg-3) unstable; urgency=medium
* Fix build for -A
Closes: #847339
* debhelper 10
* d/watch: version=4
2016-11-30 - Ghislain Antony Vaillant <ghisvail@gmail.com>
pirs (2.0.2+dfsg-2) unstable; urgency=medium
* Team upload.
[ Ghislain Antony Vaillant ]
* Add patch fixing spelling of sse2 option.
* Disable SSE2 optimization for all but amd64.
Thanks to John Paul Adrian Glaubitz for reporting (Closes: #846330)
2016-08-29 - Andreas Tille <tille@debian.org>
pirs (2.0.2+dfsg-1) unstable; urgency=medium
* Initial release (Closes: #835935)

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piwi_0.8+20041206-4_all.deb P(erl|relude) IDS Web Interface - A frontend to your Prelude database
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