Bug 140147

Summary: [NEW PORT] biology/velvet: Sequence assembler for very short reads
Product: Ports & Packages Reporter: Motomichi Matsuzaki <mzaki>
Component: Individual Port(s)Assignee: Dmitry Marakasov <amdmi3>
Status: Closed FIXED    
Severity: Affects Only Me CC: mzaki
Priority: Normal    
Version: Latest   
Hardware: Any   
OS: Any   
Attachments:
Description Flags
velvet-0.7.55.shar none

Description Motomichi Matsuzaki 2009-10-31 18:10:00 UTC 
Velvet is a de novo genomic assembler specially designed for short read
sequencing technologies, such as Solexa or 454, developed by Daniel Zerbino
and Ewan Birney at the European Bioinformatics Institute (EMBL-EBI).

Citation:

Velvet: algorithms for de novo short read assembly using de Bruijn graphs.
D.R. Zerbino and E. Birney. Genome Research 18: 821-829 (2008)

WWW: http://www.ebi.ac.uk/~zerbino/velvet/

Generated with FreeBSD Port Tools 0.99
Comment 1 Dmitry Marakasov freebsd_committer freebsd_triage 2009-11-07 01:15:58 UTC 
Responsible Changed
From-To: freebsd-ports-bugs->amdmi3

I'll take it.
Comment 2 Dmitry Marakasov freebsd_committer freebsd_triage 2009-11-07 01:24:03 UTC 
State Changed
From-To: open->closed

New port added. Thanks!
Comment 3 dfilter service freebsd_committer freebsd_triage 2009-11-07 01:24:13 UTC 
amdmi3      2009-11-07 01:23:59 UTC

  FreeBSD ports repository

  Modified files:
    biology              Makefile 
  Added files:
    biology/velvet       Makefile distinfo pkg-descr 
    biology/velvet/files patch-Makefile 
                         patch-contrib-VelvetOptimiser-VelvetOptimiser.pl 
                         patch-src-run.c 
  Log:
  Velvet is a de novo genomic assembler specially designed for short read
  sequencing technologies, such as Solexa or 454, developed by Daniel Zerbino
  and Ewan Birney at the European Bioinformatics Institute (EMBL-EBI).
  
  Citation:
  
  Velvet: algorithms for de novo short read assembly using de Bruijn graphs.
  D.R. Zerbino and E. Birney. Genome Research 18: 821-829 (2008)
  
  WWW: http://www.ebi.ac.uk/~zerbino/velvet/
  
  PR:             140147
  Submitted by:   Motomichi Matsuzaki <mzaki@m.u-tokyo.ac.jp>
  
  Revision  Changes    Path
  1.115     +1 -0      ports/biology/Makefile
  1.1       +89 -0     ports/biology/velvet/Makefile (new)
  1.1       +3 -0      ports/biology/velvet/distinfo (new)
  1.1       +38 -0     ports/biology/velvet/files/patch-Makefile (new)
  1.1       +92 -0     ports/biology/velvet/files/patch-contrib-VelvetOptimiser-VelvetOptimiser.pl (new)
  1.1       +11 -0     ports/biology/velvet/files/patch-src-run.c (new)
  1.1       +10 -0     ports/biology/velvet/pkg-descr (new)
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