toppred_1.10-1_i386.deb


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Description

toppred - transmembrane topology prediction

Distribution: Ubuntu 16.04 LTS (Xenial Xerus)
Repository: Ubuntu Universe i386
Package name: toppred
Package version: 1.10
Package release: 1
Package architecture: i386
Package type: deb
Installed size: 154 B
Download size: 57.91 KB
Official Mirror: archive.ubuntu.com
Toppred is a program to determine the topology of a transmembrane protein based on G. von Heijne algorithm. Each sequence from seq data in fasta format is processed, and toppred generate the Hydrophobycity profile of the sequence, and the corresponding hydrophobycities values in the file sequence-ID.hydro. Furthermore, the predicted topologies are represented as png images. Each topology is stored in file sequence-ID-number.png The hydrophobicity profile is computed using a window formed by a core rectangular window of size n, flanked by 2 triangular windows of size q. NB rectangular and triangular mean that the ponderation values inside those windows are respectively constant and variable. This program is a new implementation of the original toppred program, based on G. von Heijne algorithm

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    Download

    Binary package: toppred_1.10-1_i386.deb
    Source package: toppred

    Install Howto

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

    Files

    • /usr/bin/toppred
    • /usr/share/doc/toppred/README.test
    • /usr/share/doc/toppred/changelog.Debian.gz
    • /usr/share/doc/toppred/copyright
    • /usr/share/doc/toppred/run-unit-test
    • /usr/share/doc/toppred/examples/data/CYTEXT-scale
    • /usr/share/doc/toppred/examples/data/GES-scale
    • /usr/share/doc/toppred/examples/data/GVH-scale
    • /usr/share/doc/toppred/examples/data/KD-scale
    • /usr/share/doc/toppred/examples/data/Makefile.am
    • /usr/share/doc/toppred/examples/data/Makefile.gz
    • /usr/share/doc/toppred/examples/data/Makefile.in.gz
    • /usr/share/doc/toppred/examples/data/toppred.dtd
    • /usr/share/doc/toppred/examples/test/Makefile.am
    • /usr/share/doc/toppred/examples/test/Makefile.gz
    • /usr/share/doc/toppred/examples/test/Makefile.in.gz
    • /usr/share/doc/toppred/examples/test/construct_topos.test
    • /usr/share/doc/toppred/examples/test/detect_segments.test
    • /usr/share/doc/toppred/examples/test/first_seg.err
    • /usr/share/doc/toppred/examples/test/first_seg.fasta
    • /usr/share/doc/toppred/examples/test/first_seg.out
    • /usr/share/doc/toppred/examples/test/hydro.test
    • /usr/share/doc/toppred/examples/test/last_seg.err
    • /usr/share/doc/toppred/examples/test/last_seg.fasta
    • /usr/share/doc/toppred/examples/test/last_seg.out
    • /usr/share/doc/toppred/examples/test/math.test
    • /usr/share/doc/toppred/examples/test/min_seqlen.err
    • /usr/share/doc/toppred/examples/test/min_seqlen.fasta
    • /usr/share/doc/toppred/examples/test/min_seqlen.out
    • /usr/share/doc/toppred/examples/test/more_calc.err
    • /usr/share/doc/toppred/examples/test/more_calc.fasta
    • /usr/share/doc/toppred/examples/test/more_calc.out.gz
    • /usr/share/doc/toppred/examples/test/naming.test
    • /usr/share/doc/toppred/examples/test/no_error.err
    • /usr/share/doc/toppred/examples/test/no_seg.err
    • /usr/share/doc/toppred/examples/test/no_seg.fasta
    • /usr/share/doc/toppred/examples/test/no_seg.out
    • /usr/share/doc/toppred/examples/test/only_put.err
    • /usr/share/doc/toppred/examples/test/only_put.fasta
    • /usr/share/doc/toppred/examples/test/only_put.out
    • /usr/share/doc/toppred/examples/test/seq-test
    • /usr/share/doc/toppred/examples/test/seq_anonymous.err
    • /usr/share/doc/toppred/examples/test/seq_anonymous.fasta
    • /usr/share/doc/toppred/examples/test/seq_zero_div.fasta
    • /usr/share/doc/toppred/examples/test/seqlen.test
    • /usr/share/doc/toppred/examples/test/too_many_put.err
    • /usr/share/doc/toppred/examples/test/too_many_put.fasta
    • /usr/share/doc/toppred/examples/test/too_many_put.out
    • /usr/share/doc/toppred/examples/test/toppred.test
    • /usr/share/man/man1/toppred.1.gz
    • /usr/share/toppred/CYTEXT-scale
    • /usr/share/toppred/GES-scale
    • /usr/share/toppred/GVH-scale
    • /usr/share/toppred/KD-scale
    • /usr/share/toppred/toppred.dtd

    Changelog

    2015-01-31 - Andreas Tille <tille@debian.org> toppred (1.10-1) unstable; urgency=low * Initial release (Closes: #776709)

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