[Blends-commit] r2714 - /projects/med/trunk/debian-med/tasks/bio

[tille at users.alioth.debian.org]

Author: tille
Date: Thu Mar 17 19:46:57 2011
New Revision: 2714

URL: http://svn.debian.org/wsvn/blends/?sc=1&rev=2714
Log:
Added squizz

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=2714&op=diff
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio (original)
+++ projects/med/trunk/debian-med/tasks/bio Thu Mar 17 19:46:57 2011
@@ -3584,7 +3584,7 @@
  AmpliconNoise is a collection of programs for the removal of noise from 454
  sequenced PCR amplicons. It involves two steps the removal of noise from the
  sequencing itself and the removal of PCR point errors. This project also includes
- the Perseus algorithm for chimera removal. 
+ the Perseus algorithm for chimera removal.
 Remark: High relevance for NGS
 
 Depends: forge
@@ -3668,6 +3668,21 @@
  opportunities for building reference sequences and carrying out accurate
  analyses of unexplored genomes in a cost effective way.
 
+Depends: squizz
+License: GPLv2
+Language: C
+Homepage: ftp://ftp.pasteur.fr/pub/gensoft/projects/squizz/
+Responsible: Olivier Sallou <olivier.sallou at irisa.fr>
+WNPP: 618689
+Description: sequence/alignment format checker
+ Squizz is a sequence/alignment format checker, but it has some
+ conversion capabilities too.
+ .
+ Most common sequence and alignment formats are supported:
+  - EMBL, FASTA, GCG, GDE, GENBANK, IG, NBRF, PIR (codata), RAW, and
+    SWISSPROT.
+  - CLUSTAL, FASTA, MEGA, MSF, NEXUS, PHYLIP (interleaved and sequential) and
+    STOCKHOLM.
 
 
 Comment: Several related R packages are listed at CRAN: