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 <[email protected]>
+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:
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