[Blends-commit] r2677 - /projects/med/trunk/debian-med/tasks/bio

[tille at users.alioth.debian.org]

Author: tille
Date: Thu Feb 17 14:30:47 2011
New Revision: 2677

URL: http://svn.debian.org/wsvn/blends/?sc=1&rev=2677
Log:
Added x-tandem-pipeline

Modified:
    projects/med/trunk/debian-med/tasks/bio

Modified: projects/med/trunk/debian-med/tasks/bio
URL: http://svn.debian.org/wsvn/blends/projects/med/trunk/debian-med/tasks/bio?rev=2677&op=diff
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio (original)
+++ projects/med/trunk/debian-med/tasks/bio Thu Feb 17 14:30:47 2011
@@ -3536,6 +3536,30 @@
  an analogy with beads flowing uphill on the surface of the gel image and
  on the analysis of their paths
 
+Depends: x-tandem-pipeline
+Homepage: http://pappso.inra.fr/bioinfo/xtandempipeline/
+License: GPL
+Language: Java
+Pkg-Description: peptide/protein identification from MS/MS mass spectra
+ X!Tandem is an open-source software performing peptide/protein
+ identification from MS/MS mass spectra. X!Tandem is fast and accurate,
+ but the Global Proteome Machine (GPM) is relatively limited regarding
+ the processing of identification results. X!Tandem pipeline is an
+ alternative to the installation of the GPM on local servers.  X!Tandem
+ pipeline performs database searching and matching on a list of MS/MS
+ runs in one shot, using a list of easily user selected paramaters and
+ databases.  X!Tandem pipeline also performs filtering of data according
+ to statistical values at peptide and protein levels. The results are
+ stored into TSV (Tab Separated Values) files. Moreover, redundancy of
+ protein databases are fully filtered as follows :
+  * proteins identified without specific peptides compared to others are
+    eliminated;
+  * proteins identified with the same pool of peptides are assembled;
+  * proteins are grouped by function (identified with at least one common
+    peptide), and the specific peptides for each sub-group of proteins are
+    indicated.
+
+
 
 Comment: Several related R packages are listed at CRAN:
          http://cran.r-project.org/web/views/Genetics.html