subread_1.5.0-p1+dfsg-2_i386.deb


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Description

subread - toolkit for processing next-gen sequencing data

Distribution: Ubuntu 16.04 LTS (Xenial Xerus)
Repository: Ubuntu Universe i386
Package name: subread
Package version: 1.5.0
Package release: p1+dfsg-2
Package architecture: i386
Package type: deb
Installed size: 6.85 KB
Download size: 542.38 KB
Official Mirror: archive.ubuntu.com
Subread aligner can be used to align both gDNA-seq and RNA-seq reads. Subjunc aligner was specified designed for the detection of exon-exon junction. For the mapping of RNA-seq reads, Subread performs local alignments and Subjunc performs global alignments.

Alternatives

    Download

    Source package: subread

    Install Howto

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

    Files

    • /usr/bin/exactSNP
    • /usr/bin/featureCounts
    • /usr/bin/subindel
    • /usr/bin/subjunc
    • /usr/bin/subread-align
    • /usr/bin/subread-buildindex
    • /usr/lib/subread/coverageCount
    • /usr/lib/subread/propmapped
    • /usr/lib/subread/qualityScores
    • /usr/lib/subread/removeDup
    • /usr/lib/subread/repair
    • /usr/lib/subread/subread-fullscan
    • /usr/share/doc/subread/README.Debian
    • /usr/share/doc/subread/README.txt
    • /usr/share/doc/subread/changelog.Debian.gz
    • /usr/share/doc/subread/copyright
    • /usr/share/man/man1/coverageCount.1.gz
    • /usr/share/man/man1/exactSNP.1.gz
    • /usr/share/man/man1/featureCounts.1.gz
    • /usr/share/man/man1/propmapped.1.gz
    • /usr/share/man/man1/qualityScores.1.gz
    • /usr/share/man/man1/removeDup.1.gz
    • /usr/share/man/man1/repair.1.gz
    • /usr/share/man/man1/subindel.1.gz
    • /usr/share/man/man1/subjunc.1.gz
    • /usr/share/man/man1/subread-align.1.gz
    • /usr/share/man/man1/subread-buildindex.1.gz
    • /usr/share/man/man1/subread-fullscan.1.gz

    Changelog

    2016-01-18 - Alexandre Mestiashvili <alex@biotec.tu-dresden.de> subread (1.5.0-p1+dfsg-2) unstable; urgency=medium * d/control: remove hurd-i386 and mipsel due to failing tests

    2016-01-05 - Alexandre Mestiashvili <alex@biotec.tu-dresden.de> subread (1.5.0-p1+dfsg-1) unstable; urgency=medium * Imported Upstream version 1.5.0-p1+dfsg * d/patches: refresh and remove applied patches

    2015-11-06 - Alexandre Mestiashvili <alex@biotec.tu-dresden.de> subread (1.5.0+dfsg-1) unstable; urgency=medium * Imported Upstream version 1.5.0+dfsg * no PDF documentation in this release * removed globalReassembly and subtools binaries, added "repair" tool

    2015-09-05 - Alexandre Mestiashvili <alex@biotec.tu-dresden.de> subread (1.4.6-p5+dfsg-1) unstable; urgency=medium * Imported Upstream version 1.4.6-p5+dfsg * Build and install SubreadUsersGuide.pdf

    2015-07-06 - Alexandre Mestiashvili <alex@biotec.tu-dresden.de> subread (1.4.6-p4+dfsg-1) unstable; urgency=medium * d/patches/arch_specific_flags.patch: set the optimization level to -03 because -O levels higher than 3 have no effect. * Imported Upstream version 1.4.6-p4+dfsg

    2015-05-21 - Alexandre Mestiashvili <alex@biotec.tu-dresden.de> subread (1.4.6-p3+dfsg-2) unstable; urgency=medium * d/changelog: upload to unstable, forgot to include the amd64 architecture in d/contorl * d/control: added amd64 to Architecture

    2015-05-19 - Alexandre Mestiashvili <alex@biotec.tu-dresden.de> subread (1.4.6-p3+dfsg-1) unstable; urgency=medium * d/changelog: upload to unstable * d/rules: enable -fsigned-char for all architectures * d/patches/arch_specific_flags.patch: use -O2 instead of -O9 * d/control: not building for powerpc, mips, s390x, see d/README.source * d/README.source: merge with d/README.Debian-source describe the reason for not building on some architectures * Imported Upstream version 1.4.6-p3+dfsg

    2015-05-18 - Alexandre Mestiashvili <alex@biotec.tu-dresden.de> subread (1.4.6-p2+dfsg-4) experimental; urgency=medium * d/rules: add -msse3 and -mtune=generic for i386/amd64 * d/patches: merge hardening and gcc_flags_cleanup patches * d/patches: updated and renamed getopt4exactSNP.patch to getopt.patch fixed 2 more issues with wrong assignment for the getopt_long function

    2015-05-13 - Alexandre Mestiashvili <alex@biotec.tu-dresden.de> subread (1.4.6-p2+dfsg-3) experimental; urgency=medium * d/patches/getopt4exactSNP.patch: attempt to fix #784929

    2015-05-10 - Alexandre Mestiashvili <alex@biotec.tu-dresden.de> subread (1.4.6-p2+dfsg-2) unstable; urgency=medium * d/patches/gcc_flags_cleanup.patch: remove -mtune=core2 and mmmx,msse* flags Closes: #784780 * d/rules: use override_dh_installexamples-indep, Closes: #784782 * d/README.Debian-source: mention doc/SubreadUserGuide.pdf removal

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