Howdy,

Lastz is available on galaxy but configured for mapping of Roche 454 short reads.  It's not appropriate to use that interface for whole genome alignment.

You probably already know this, but lastz can be found at the Miller Lab webpage,
http://www.bx.psu.edu/miller_lab
as the third item under "Software".  There is also a link from there to documentation.

One further point... Inbar refers to lastz as a "multiple sequence alignment tool".  This is not correct, it is purely a pairwise aligner.  For multiple sequence alignment you could use multiz or TBA, which are also available at the Miller Lab webpage.

Bob H


On Oct 13, 2010, at 6:28 AM, Abhay Krishna wrote:

Yes Lastz is available for NGS Roche 454 platform in stable version of Galaxy
whether it is still available for generic multiple sequence alignment, I dont know.

Abhay



On 13 October 2010 11:41, Inbar Plaschkes <inbar.plaschkes@gmail.com> wrote:
Dear galaxy team,
I would like to know whether it is possible to perform LastZ (multiple sequence alignment tool for aligning different genomes to each other) ?
if so then how ? is there a tutorial you can refer me to ?
many thanks
Inbar 

--
______________________________________________________________
Inbar Plaschkes
Bioinformatics Core Facility
National Institute for Biotechnology in the Negev
Building 51, room 314
Ben-Gurion University of the Negev
Beer-Sheva 84105, Israel
 
Email: inbar.plaschkes@gmail.com
Tel: 08-6479034 054-7915931
Fax: 08-6472983
 
http://bioinfo.bgu.ac.il

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