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[Savannah-register-public] [task #7778] Submission of myrialign

From: Paul Harrison
Subject: [Savannah-register-public] [task #7778] Submission of myrialign
Date: Mon, 18 Feb 2008 21:53:12 +0000
User-agent: Mozilla/5.0 (X11; U; Linux i686; en-US; rv: Gecko/20070508 Iceweasel/ (Debian-


                 Summary: Submission of myrialign
                 Project: Savannah Administration
            Submitted by: pfh
            Submitted on: Monday 02/18/2008 at 21:53
         Should Start On: Monday 02/18/2008 at 00:00
   Should be Finished on: Thursday 02/28/2008 at 00:00
                Category: Project Approval
                Priority: 5 - Normal
                  Status: None
                 Privacy: Public
        Percent Complete: 0%
             Assigned to: None
             Open/Closed: Open
         Discussion Lock: Any
                  Effort: 0.00



A new project has been registered at Savannah 
This project account will remain inactive until a site admin approves or
discards the registration.

= Registration Administration =

While this item will be useful to track the registration process, *approving
or discarding the registration must be done using the specific Group
<> page*,
accessible only to site administrators, effectively *logged as site
administrators* (superuser):

* Group Administration

= Registration Details =

* Name: *myrialign*
* System Name:  *myrialign*
* Type: non-GNU software & documentation
* License: GNU General Public License v3 or later


==== Description: ====
This is bioinformatics software to align short reads produced by a short read
genome sequencer to a reference genome. It can use a Cell Broadband Engine to
accellerate alignments if available, for example on a PlayStation 3 running

A sequencing run might produce several million short reads. A typical next
step is to align all of these reads to a reference genome, to see what
differences exist: Single Nucleotide Pair changes, insertions, and deletions.

Myrialign performs brute force Smith-Waterman alignment using a variant on
the "bitap" algorithm that aligns several thousand reads in parallel. It uses
bit-parallelism, multiple processors, and Cell SPUs if available.

Unlike other reference genome alignment software, heuristics and hashtable
lookups are not used. Myrialign will find alignments with any number of errors
up to a user specified cutoff. The emphasis is on doing full Smith-Waterman
alignment fast.

==== Tarball URL: ====


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