Author: tille Date: 2012-05-25 11:48:20 +0000 (Fri, 25 May 2012) New Revision: 11001
Added: trunk/packages/logomat-m/ trunk/packages/logomat-m/trunk/ trunk/packages/logomat-m/trunk/debian/ trunk/packages/logomat-m/trunk/debian/changelog trunk/packages/logomat-m/trunk/debian/compat trunk/packages/logomat-m/trunk/debian/control trunk/packages/logomat-m/trunk/debian/copyright trunk/packages/logomat-m/trunk/debian/upstream Log: Inject data from med-bio task file as machine readable packaging files to enable machine-readable gatherer fetching it Added: trunk/packages/logomat-m/trunk/debian/changelog =================================================================== --- trunk/packages/logomat-m/trunk/debian/changelog (rev 0) +++ trunk/packages/logomat-m/trunk/debian/changelog 2012-05-25 11:48:20 UTC (rev 11001) @@ -0,0 +1,5 @@ +logomat-m (0.0.20091119-1) unstable; urgency=low + + * Initial release + + -- Andreas Tille <[email protected]> Thu, 24 May 2012 14:30:13 +0200 Added: trunk/packages/logomat-m/trunk/debian/compat =================================================================== --- trunk/packages/logomat-m/trunk/debian/compat (rev 0) +++ trunk/packages/logomat-m/trunk/debian/compat 2012-05-25 11:48:20 UTC (rev 11001) @@ -0,0 +1 @@ +9 Added: trunk/packages/logomat-m/trunk/debian/control =================================================================== --- trunk/packages/logomat-m/trunk/debian/control (rev 0) +++ trunk/packages/logomat-m/trunk/debian/control 2012-05-25 11:48:20 UTC (rev 11001) @@ -0,0 +1,27 @@ +Source: logomat-m +Section: science +Priority: optional +Maintainer: Debian Med Packaging Team <[email protected]> +DM-Upload-Allowed: yes +Uploaders: Andreas Tille <[email protected]> +Build-Depends: debhelper (>= 9) +Standards-Version: 3.9.3 +Homepage: http://www.sanger.ac.uk/resources/software/logomat-m/ +Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/logomat-m/trunk/ +Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/logomat-m/trunk/ + +Package: logomat-m +Architecture: any +Depends: ${shlibs:Depends}, ${misc:Depends} +Description: visualize central aspects of Profile Hidden Markov Models (pHMMs) + Profile Hidden Markov Models (pHMMs) are a widely used tool for + protein family research. We present a method to visualize all of + their central aspects graphically, thus generalizing the concept of + sequence logos introduced by Schneider and Stephens. For each + emitting state of the pHMM, we display a stack of letters. As for + sequence logos, the stack height is determined by the deviation of + the position's letter emission frequencies from the background + frequencies of the letters. As a new feature, the stack width now + visualizes both the probability of reaching the state (the hitting + probability) and the expected number of letters the state emits + during a pass through the model (the expected contribution). Added: trunk/packages/logomat-m/trunk/debian/copyright =================================================================== --- trunk/packages/logomat-m/trunk/debian/copyright (rev 0) +++ trunk/packages/logomat-m/trunk/debian/copyright 2012-05-25 11:48:20 UTC (rev 11001) @@ -0,0 +1,11 @@ +Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ +Upstream-Name: LogoMat-M +Source: ftp://ftp.sanger.ac.uk/pub4/resources/software/logomat-m/ + +Files: * +Copyright: © -2009 ??? +License: Artistic + +Files: debian/* +Copyright: © 2012 Andreas Tille <[email protected]> +License: Artistic Added: trunk/packages/logomat-m/trunk/debian/upstream =================================================================== --- trunk/packages/logomat-m/trunk/debian/upstream (rev 0) +++ trunk/packages/logomat-m/trunk/debian/upstream 2012-05-25 11:48:20 UTC (rev 11001) @@ -0,0 +1,11 @@ +Reference: + Author: Benjamin Schuster-Böckler and Jörg Schultz and Sven Rahmann + Title: HMM Logos for visualization of protein families + Journal: BMC Bioinformatics + Year: 2004 + Volume: 5 + Pages: 7 + DOI: 10.1186/1471-2105-5-7 + PMID: 14736340 + URL: http://www.biomedcentral.com/1471-2105/5/7 + eprint: http://www.biomedcentral.com/content/pdf/1471-2105-5-7.pdf _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
