tm-align_20150914+dfsg-1_i386.deb


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Description

tm-align - structual alignment of proteins

Distribution: Ubuntu 16.04 LTS (Xenial Xerus)
Repository: Ubuntu Universe i386
Package name: tm-align
Package version: 20150914+dfsg
Package release: 1
Package architecture: i386
Package type: deb
Installed size: 472 B
Download size: 41.04 KB
Official Mirror: archive.ubuntu.com
TM-align is a computer algorithm for protein structure alignment using dynamic programming. The scoring is performed by the TM-score rotation matrix. This is similar to the RMSD in that unaligned portions of the structure influence the scoring less than the more structurally conserved regions.

Alternatives

    Download

    Source package: tm-align

    Install Howto

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

    Files

    • /usr/bin/TMalign
    • /usr/bin/TMscore
    • /usr/share/doc/tm-align/README.Debian
    • /usr/share/doc/tm-align/changelog.Debian.gz
    • /usr/share/doc/tm-align/copyright
    • /usr/share/man/man1/TMalign.1.gz
    • /usr/share/man/man1/TMscore.1.gz

    Changelog

    2015-09-23 - Andreas Tille <tille@debian.org> tm-align (20150914+dfsg-1) unstable; urgency=medium * New homepage * New upstream version * cme fix dpkg-control * dversionmangle in d/watch

    2014-08-07 - Andreas Tille <tille@debian.org> tm-align (20140601+dfsg-1) unstable; urgency=medium * New upstream version * Use Files-Excluded consequently (in rules:get-orig-source, drop d/get-orig-source, adapt d/watch from dversionmangle to uversionmangle)

    2014-02-13 - Andreas Tille <tille@debian.org> tm-align (20130511+dfsg-2) unstable; urgency=medium * Fix Vcs location * move debian/upstream to debian/upstream/metadata * cme fix dpkg-control

    2013-08-02 - Andreas Tille <tille@debian.org> tm-align (20130511+dfsg-1) unstable; urgency=low * New upstream version * debian/copyright: - Add Files-Excluded to document what was removed from original source * debian/watch: enable handling of +dfsg suffix * debian/get-orig-source: use new uscan of available * debian/upstream: more detailed information * debian/control: - cme fix dpkg-control - use anonscm in Vcs fields

    2012-06-29 - Andreas Tille <tille@debian.org> tm-align (20120507-1) unstable; urgency=low * New upstream version * debian/rules: Add hardening options

    2012-03-08 - Andreas Tille <tille@debian.org> tm-align (20120124-1) unstable; urgency=low [ Charles Plessy ] * debian/upstream: renamed from upstream-metadata.yaml [ Andreas Tille ] * New upstream version * debian/upstream: - Fixed typo (s/TITILE/TITLE/) - Moved DOI+PMID to references * debian/control: Standards-Version: 3.9.3 (no changes needed) * debhelper 9 (control+compat) * debian/changelog: DEP5 verified using cme fix dpkg-copyright

    2011-10-21 - Andreas Tille <tille@debian.org> tm-align (20111012-1) unstable; urgency=low * New upstream release * Enhances t-coffee * Standards-Version: 3.9.2 (no changes needed) * Debhelper 8 (control + compat) * Fixed Vcs fields

    2011-02-05 - Steffen Moeller <moeller@debian.org> tm-align (20110130-2) unstable; urgency=low * New upstream version (Closes: #447505) - 2011/01/30: An open source license is attached to the program * Reverting changelog to keep the history.

    2011-01-30 - Andreas Tille <tille@debian.org> tm-align (20110130-1) UNRELEASED; urgency=low * Initial release.

    2011-01-30 - Tim Booth <tbooth@ceh.ac.uk> tm-align (20110124-1) UNRELEASED; urgency=low * New upstream version - 2005/06/01: A small bug of two-point superposition was fixed. - 2005/10/19: the program was reformed so that the alignment results are not dependent on the specific compilers. - 2006/06/20: select 'A' if there is altLoc when reading PDB file. - 2007/02/27: rotation matrix from Chain-1 to Chain-2 was added. - 2007/04/18: added options with TM-score normalized by average length, shorter length, or longer length of two structures. - 2007/05/23: added additional output file 'TM.sup_all' for showing all atoms while 'TM.sup' is only for aligned atoms - 2007/09/19: added a new feature alignment to deal with the problem of aligning fractional structures (e.g. protein interfaces). - 2007/10/16: A bug for irregular bond-length models was fixed. - 2009/03/14: A new initial alignment was added and previous initial alignments are further enhanced. This change increased accuracy by 4% but increases CPU cost by 40%. - 2009/08/20: A bug for asymmetry alignment result was fixed. - 2010/08/02: A new RMSD matrix was used to remove obsolete statements. Staled subroutines were deleted. - 2011/01/03: The length of pdb file names were extended to 500 - 2011/01/24: Fixed a bug on output file name created on 2011/01/03 * Tweaked get-orig-source in rules to spot version in upstream file * New standards version 3.9.4

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