[Blends-commit] r2692 - /projects/med/trunk/debian-med/tasks/bio

Mon Feb 28 12:29:14 UTC 2011

Author: tille
Date: Mon Feb 28 12:29:08 2011
New Revision: 2692

URL: http://svn.debian.org/wsvn/blends/?sc=1&rev=2692
Log:
Added forge

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=2692&op=diff
==============================================================================

--- projects/med/trunk/debian-med/tasks/bio (original)
+++ projects/med/trunk/debian-med/tasks/bio Mon Feb 28 12:29:08 2011
@@ -3580,6 +3580,31 @@
  the Perseus algorithm for chimera removal. 
 Remark: High relevance for NGS
 
+Depends: forge
+Homepage: http://combiol.org/forge/
+License: Apache 2.0
+Pkg-Description: genome assembler for mixed read types
+ Forge Genome Assembler is a parallel, MPI based genome assembler for
+ mixed read types.
+ .
+ Forge is a classic "Overlap layout consensus" genome assembler written
+ by Darren Platt and Dirk Evers. Implemented in C++ and using the
+ parallel MPI library, it runs on one or more machines in a network and
+ can scale to very large numbers of reads provided there is enough
+ collective memory on the machines used. It generates a full consensus
+ alignment of all reads, can handle mixtures of sanger, 454 and illumina
+ reads. There is some support for solid color space and it includes built
+ in tools for vector trimming and contamination screening.
+ .
+ Forge and was originally developed at Exelixis and they have kindly
+ agreed to place the software which underwent much subsequent development
+ outside Exelixis, into the public domain. Forge works with most of the
+ common MPI implementations.
+Remark: Competitor to MIRA2 and wgs-assembler
+ This package was requested by William Spooner <whs at eaglegenomics.com> as
+ a competitor to MIRA2 and wgs-assembler.
+
+
 Comment: Several related R packages are listed at CRAN:
          http://cran.r-project.org/web/views/Genetics.html
 Comment: There is a Gentoo page featuring some projects we do not have mentioned here:


