fastqc_0.11.8+dfsg-2_all.deb


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Description

fastqc - quality control for high throughput sequence data

Property Value
Distribution Debian 10 (Buster)
Repository Debian Main i386
Package filename fastqc_0.11.8+dfsg-2_all.deb
Package name fastqc
Package version 0.11.8+dfsg
Package release 2
Package architecture all
Package type deb
Category interface::graphical interface::x11 role::program science
Homepage http://www.bioinformatics.babraham.ac.uk/projects/fastqc/
License -
Maintainer Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Download size 376.77 KB
Installed size 545.00 KB
FastQC aims to provide a simple way to do some quality control checks on
raw sequence data coming from high throughput sequencing pipelines. It
provides a modular set of analyses which you can use to give a quick
impression of whether your data has any problems of which you should
be aware before doing any further analysis.
The main functions of FastQC are
* Import of data from BAM, SAM or FastQ files (any variant)
* Providing a quick overview to tell you in which areas there may
be problems
* Summary graphs and tables to quickly assess your data
* Export of results to an HTML based permanent report
* Offline operation to allow automated generation of reports without
running the interactive application

Alternatives

Package Version Architecture Repository
fastqc_0.11.8+dfsg-2_all.deb 0.11.8+dfsg all Debian Main
fastqc - - -

Requires

Name Value
default-jre -
libcommons-math3-java -
libfindbin-libs-perl -
libhtsjdk-java -
libjbzip2-java -

Download

Type URL
Mirror ftp.br.debian.org
Binary Package fastqc_0.11.8+dfsg-2_all.deb
Source Package fastqc

Install Howto

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

Files

Path
/etc/fastqc/Configuration/adapter_list.txt
/etc/fastqc/Configuration/contaminant_list.txt
/etc/fastqc/Configuration/limits.txt
/usr/bin/fastqc
/usr/share/applications/fastqc.desktop
/usr/share/doc/fastqc/README.Debian
/usr/share/doc/fastqc/README.txt
/usr/share/doc/fastqc/changelog.Debian.gz
/usr/share/doc/fastqc/changelog.gz
/usr/share/doc/fastqc/copyright
/usr/share/doc/fastqc/examples/example.fastq.gz
/usr/share/doc/fastqc/examples/toy.bam
/usr/share/doc/fastqc/examples/toy.sam
/usr/share/icons/hicolor/32x32/apps/fastqc_icon.png
/usr/share/java/fastqc-0.11.8.jar
/usr/share/java/fastqc.jar
/usr/share/man/man1/fastqc.1.gz

Changelog

2019-05-21 - Dylan Aïssi <daissi@debian.org>
fastqc (0.11.8+dfsg-2) unstable; urgency=medium
* Team upload.
[ Jelmer Vernooij ]
* Trim trailing whitespace.
* Use secure copyright file specification URI.
[ Michael R. Crusoe ]
* debian/fastqc.desktop: Update path to the icon.
[ Dylan Aïssi ]
* Update d/patches/htsjdk-api.patch to fix processing
of SAM/BAM files (Closes: #897109). Thanks to Chris Norman.
2018-10-17 - Steffen Moeller <moeller@debian.org>
fastqc (0.11.8+dfsg-1) unstable; urgency=medium
* New upstream release.
* Standards-Version: 4.2.1
2018-04-27 - Andreas Tille <tille@debian.org>
fastqc (0.11.7+dfsg-1) unstable; urgency=medium
[ Steffen Moeller ]
* debian/upstream/metadata: Added references to
OMICtools, SciCrunch, bio.tools registries
[ Andreas Tille ]
* New upstream version
* Standards-Version: 4.1.4
* Point Vcs-fields to Salsa
* debhelper 11
* Depends: libfindbin-libs-perl
Closes: #896931
* Drop alternative Depends: java7-runtime
* Set Java 9 as build target
2016-12-08 - Sascha Steinbiss <satta@debian.org>
fastqc (0.11.5+dfsg-6) unstable; urgency=medium
* Team upload.
* Avoid use of SAMFileReader to fix FTBFS.
Closes: #846708
* Add autopkgtest cases and accompanying test data
for SAM/BAM input files.
* Make sure jar dependencies are found. Before fixing this,
htsjdk classes were not found at runtime. This problem only
surfaced with BAM/SAM inputs, which were not tested so far.
2016-11-22 - Andreas Tille <tille@debian.org>
fastqc (0.11.5+dfsg-5) unstable; urgency=medium
[ Gilles Filippini ]
* New patch drop-fast5.patch to temporarily drop support for fast5
file format. This way we can drop the build-dependency on
libsis-jhdf5-java which doesn't support HDF5 1.10 yet (#842815).
fast5 files can easily be converted to fastq using poretools.
Closes: #844760
[ Andreas Tille ]
* debhelper 10
* d/watch: version=4
2016-09-01 - Dylan Aïssi <bob.dybian@gmail.com>
fastqc (0.11.5+dfsg-4) unstable; urgency=low
* Team upload.
* Fix autopkgtest: add depend to unzip.
* Install upstream changelog using dh_installchangelogs.
2016-07-28 - Canberk Koç <canberkkoc@gmail.com>
fastqc (0.11.5+dfsg-3) unstable; urgency=medium
* Team upload.
[ Canberk Koç ]
* Autopkgtest added
[ Andreas Tille ]
* cme fix dpkg-control
2016-04-06 - Steffen Moeller <moeller@debian.org>
fastqc (0.11.5+dfsg-2) unstable; urgency=medium
* Reintroduced omitted Configuration directory
2016-03-20 - Andreas Tille <tille@debian.org>
fastqc (0.11.5+dfsg-1) unstable; urgency=medium
[ Steffen Moeller ]
* Contribued EDAM ontology description to
debian/upstream/edam
[ Andreas Tille ]
* New upstream version
* Add compression method to watch file
* cme fix dpkg-control
2016-01-14 - Andreas Tille <tille@debian.org>
fastqc (0.11.4+dfsg-3) unstable; urgency=medium
* Build-Depends: libhtsjdk-java | libsam-java and try to enable
htsjdk.jar in Build system

See Also

Package Description
fastqtl-doc_2.184+dfsg-6_all.deb QTL mapper in cis for molecular phenotypes - documentation
fasttree_2.1.10-2_i386.deb phylogenetic trees from alignments of nucleotide or protein sequences
fastx-toolkit_0.0.14-6_i386.deb FASTQ/A short nucleotide reads pre-processing tools
fatattr_1.0.1-14_i386.deb Utility to control attributes on a FAT filesystem
fatcat_1.0.5-1_i386.deb FAT filesystem explore, extract, repair, and forensic tool
fathom_1.0+git.20190120.0439ca-1_i386.deb Command-line for probing Syzygy tablebases
fatrace_0.13-2_i386.deb report system wide file access events
fatresize_1.0.2-11_i386.deb FAT16/FAT32 filesystem resizer
fatsort_1.3.365-1+b1_i386.deb utility for sorting FAT directory structures
faucc_20180503-1_i386.deb C compiler generating Intel code for 16bit/32bit CPUs
fauhdlc_20180504-2_i386.deb experimental VHDL compiler and interpreter
faumachine-data_20180503-4_all.deb Virtual machine running in user mode -- data files
faust-common_2.14.4~repack2-1_all.deb functional programming language for realtime audio applications - common files
faust_2.14.4~repack2-1_i386.deb functional programming language for realtime audio applications
faustworks_0.5~repack0-6_i386.deb IDE for Faust dsp programming language
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