mafft_7.205-1_amd64.deb


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Description

mafft - Multiple alignment program for amino acid or nucleotide sequences

Distribution: Debian 8 (Jessie)
Repository: Debian Main amd64
Package name: mafft
Package version: 7.205
Package release: 1
Package architecture: amd64
Package type: deb
Installed size: 7.52 KB
Download size: 757.28 KB
Official Mirror: ftp.br.debian.org
MAFFT is a multiple sequence alignment program which offers three accuracy-oriented methods: * L-INS-i (probably most accurate; recommended for <200 sequences; iterative refinement method incorporating local pairwise alignment information), * G-INS-i (suitable for sequences of similar lengths; recommended for <200 sequences; iterative refinement method incorporating global pairwise alignment information), * E-INS-i (suitable for sequences containing large unalignable regions; recommended for <200 sequences), and five speed-oriented methods: * FFT-NS-i (iterative refinement method; two cycles only), * FFT-NS-i (iterative refinement method; max. 1000 iterations), * FFT-NS-2 (fast; progressive method), * FFT-NS-1 (very fast; recommended for >2000 sequences; progressive method with a rough guide tree), * NW-NS-PartTree-1 (recommended for ∼50,000 sequences; progressive method with the PartTree algorithm).

Alternatives

Requires

    Download

    Binary package: mafft_7.205-1_amd64.deb
    Source package: mafft

    Install Howto

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

    Files

    • /usr/bin/mafft
    • /usr/bin/mafft-homologs
    • /usr/lib/mafft/bin/einsi
    • /usr/lib/mafft/bin/fftns
    • /usr/lib/mafft/bin/fftnsi
    • /usr/lib/mafft/bin/ginsi
    • /usr/lib/mafft/bin/linsi
    • /usr/lib/mafft/bin/mafft
    • /usr/lib/mafft/bin/mafft-distance
    • /usr/lib/mafft/bin/mafft-einsi
    • /usr/lib/mafft/bin/mafft-fftns
    • /usr/lib/mafft/bin/mafft-fftnsi
    • /usr/lib/mafft/bin/mafft-ginsi
    • /usr/lib/mafft/bin/mafft-homologs.rb
    • /usr/lib/mafft/bin/mafft-linsi
    • /usr/lib/mafft/bin/mafft-nwns
    • /usr/lib/mafft/bin/mafft-nwnsi
    • /usr/lib/mafft/bin/mafft-profile
    • /usr/lib/mafft/bin/mafft-qinsi
    • /usr/lib/mafft/bin/mafft-randomcore.rb
    • /usr/lib/mafft/bin/mafft-xinsi
    • /usr/lib/mafft/bin/nwns
    • /usr/lib/mafft/bin/nwnsi
    • /usr/lib/mafft/lib/mafft/addsingle
    • /usr/lib/mafft/lib/mafft/contrafoldwrap
    • /usr/lib/mafft/lib/mafft/countlen
    • /usr/lib/mafft/lib/mafft/disttbfast
    • /usr/lib/mafft/lib/mafft/dndblast
    • /usr/lib/mafft/lib/mafft/dndfast7
    • /usr/lib/mafft/lib/mafft/dndpre
    • /usr/lib/mafft/lib/mafft/dvtditr
    • /usr/lib/mafft/lib/mafft/f2cl
    • /usr/lib/mafft/lib/mafft/getlag
    • /usr/lib/mafft/lib/mafft/mafft-distance
    • /usr/lib/mafft/lib/mafft/mafft-profile
    • /usr/lib/mafft/lib/mafft/mafftash_premafft.pl
    • /usr/lib/mafft/lib/mafft/makedirectionlist
    • /usr/lib/mafft/lib/mafft/mccaskillwrap
    • /usr/lib/mafft/lib/mafft/multi2hat3s
    • /usr/lib/mafft/lib/mafft/pair2hat3s
    • /usr/lib/mafft/lib/mafft/pairash
    • /usr/lib/mafft/lib/mafft/pairlocalalign
    • /usr/lib/mafft/lib/mafft/regtable2seq
    • /usr/lib/mafft/lib/mafft/replaceu
    • /usr/lib/mafft/lib/mafft/restoreu
    • /usr/lib/mafft/lib/mafft/score
    • /usr/lib/mafft/lib/mafft/seekquencer_premafft.pl
    • /usr/lib/mafft/lib/mafft/seq2regtable
    • /usr/lib/mafft/lib/mafft/setcore
    • /usr/lib/mafft/lib/mafft/setdirection
    • /usr/lib/mafft/lib/mafft/sextet5
    • /usr/lib/mafft/lib/mafft/splittbfast
    • /usr/lib/mafft/lib/mafft/tbfast
    • /usr/lib/mafft/lib/mafft/version
    • /usr/share/doc/mafft/changelog.Debian.gz
    • /usr/share/doc/mafft/copyright
    • /usr/share/doc/mafft/test/sample
    • /usr/share/doc/mafft/test/sample.allowshift
    • /usr/share/doc/mafft/test/sample.dpparttree
    • /usr/share/doc/mafft/test/sample.fftns2
    • /usr/share/doc/mafft/test/sample.fftnsi
    • /usr/share/doc/mafft/test/sample.gins1
    • /usr/share/doc/mafft/test/sample.ginsi
    • /usr/share/doc/mafft/test/sample.ginsi.allowshift
    • /usr/share/doc/mafft/test/sample.lins1
    • /usr/share/doc/mafft/test/sample.linsi
    • /usr/share/doc/mafft/test/sample.parttree
    • /usr/share/doc/mafft/test/samplerna
    • /usr/share/doc/mafft/test/samplerna.qinsi
    • /usr/share/doc/mafft/test/samplerna.xinsi
    • /usr/share/man/man1/einsi.1.gz
    • /usr/share/man/man1/fftns.1.gz
    • /usr/share/man/man1/fftnsi.1.gz
    • /usr/share/man/man1/ginsi.1.gz
    • /usr/share/man/man1/linsi.1.gz
    • /usr/share/man/man1/mafft-einsi.1.gz
    • /usr/share/man/man1/mafft-fftns.1.gz
    • /usr/share/man/man1/mafft-fftnsi.1.gz
    • /usr/share/man/man1/mafft-ginsi.1.gz
    • /usr/share/man/man1/mafft-homologs.1.gz
    • /usr/share/man/man1/mafft-linsi.1.gz
    • /usr/share/man/man1/mafft-profile.1.gz
    • /usr/share/man/man1/mafft.1.gz

    Changelog

    2014-10-23 - Andreas Tille <tille@debian.org> mafft (7.205-1) unstable; urgency=medium * New upstream version

    2014-10-05 - Charles Plessy <plessy@debian.org> mafft (7.187-1) unstable; urgency=medium * New upstream release. * Conforms to Policy 3.9.6.

    2014-08-04 - Andreas Tille <tille@debian.org> mafft (7.164-1) unstable; urgency=medium * New upstream version

    2014-07-13 - Charles Plessy <plessy@debian.org> mafft (7.158-1) unstable; urgency=medium * New upstream release.

    2014-06-18 - Charles Plessy <plessy@debian.org> mafft (7.157-1) unstable; urgency=medium * New upstream release. * debian/control - Added substitution variable ${perl:Depends}, used by Debhelper. - Recommend libwww-perl used by the script ‘seekquencer_premafft.pl’.

    2014-04-12 - Charles Plessy <plessy@debian.org> mafft (7.149-1) unstable; urgency=medium * New upstream release.

    2014-03-30 - Charles Plessy <plessy@debian.org> mafft (7.147-1) unstable; urgency=medium * New upstream release.

    2014-01-19 - Charles Plessy <plessy@debian.org> mafft (7.130-1) unstable; urgency=low * New upstream release. * Correct ‘XS-Testsuite’ to ‘Testsuite’ in debian/control.

    2013-11-30 - Charles Plessy <plessy@debian.org> mafft (7.127-1) unstable; urgency=low * New upstream release. * debian/tests/with-example-data: Don't write progress to stderr on success. Closes: #728190, thanks to Martin Pitt <martin.pitt@ubuntu.com>. * Conforms with Policy 3.9.5. * Pass CPPFLAGS within CFLAGS.

    2013-10-16 - Charles Plessy <plessy@debian.org> mafft (7.123-1) unstable; urgency=low * New upstream version. * Correct watch file, which was downloading the non-free version. This error did not affect the current stable release of Debian. * debian/tests/with-example-data: disable multithreading to stabilise output.

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