Debian Bug report logs - #692332
ITP: sga -- A de novo genome assembler based on the concept of string graphs. The major goal of SGA is to be very memory efficient, which is achieved by using a compressed representation of DNA sequence reads.

Package: wnpp; Maintainer for wnpp is wnpp@debian.org;

Reported by: debian-med@lists.debian.org

Date: Mon, 5 Nov 2012 02:24:01 UTC

Owned by: "Michael R. Crusoe" <mcrusoe@asu.edu>

Severity: wishlist

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Report forwarded to debian-bugs-dist@lists.debian.org, wnpp@debian.org, "Michael R. Crusoe" <mcrusoe@asu.edu>:
Bug#692332; Package wnpp. (Mon, 05 Nov 2012 02:24:03 GMT) Full text and rfc822 format available.

Acknowledgement sent to Michael Crusoe <michael.crusoe@gmail.com>:
New Bug report received and forwarded. Copy sent to wnpp@debian.org, "Michael R. Crusoe" <mcrusoe@asu.edu>. (Mon, 05 Nov 2012 02:24:03 GMT) Full text and rfc822 format available.

Message #5 received at submit@bugs.debian.org (full text, mbox):

From: Michael Crusoe <michael.crusoe@gmail.com>
To: Debian Bug Tracking System <submit@bugs.debian.org>
Subject: ITP: sga -- A de novo genome assembler based on the concept of string graphs. The major goal of SGA is to be very memory efficient, which is achieved by using a compressed representation of DNA sequence reads.
Date: Sun, 4 Nov 2012 19:20:46 -0700
[Message part 1 (text/plain, inline)]
Package: wnpp
Severity: wishlist
Owner: "Michael R. Crusoe" <mcrusoe@asu.edu>

* Package name    : sga
  Version         : 0.9.35
  Upstream Author : Jared Simpson <js18@sanger.ac.uk>
* URL             : https://github.com/jts/sga
* License         : GPLv3
  Programming Lang: C++
  Description     : A de novo genome assembler based on the concept of
string graphs. The major goal of SGA is to be very memory efficient, which
is achieved by using a compressed representation of DNA sequence reads.

SGA is a de novo assembler for DNA sequence reads. It is based on Gene
Myers' string graph
formulation of assembly and uses the FM-index/Burrows-Wheeler transform to
efficiently
find overlaps between sequence reads. The core algorithms are described in
this paper:

http://bioinformatics.oxfordjournals.org/cgi/content/abstract/26/12/i367
[Message part 2 (text/html, inline)]

Changed Bug submitter to 'debian-med@lists.debian.org' from 'Michael Crusoe <michael.crusoe@gmail.com>' Request was from Michael Crusoe <michael.crusoe@gmail.com> to control@bugs.debian.org. (Mon, 05 Nov 2012 19:12:02 GMT) Full text and rfc822 format available.

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