Difference between revisions of "ALLPATHS-LG"
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{{App_Location|app={{#var:app}}|{{#var:ver}}}} | {{App_Location|app={{#var:app}}|{{#var:ver}}}} | ||
==Available versions== | ==Available versions== | ||
| − | * 39099 (Nov 2011) | + | * 39099 (Nov 2011). |
| − | * 40122 (Jan 04, 2011) | + | * 40122 (Jan 04, 2011). |
| + | * 41655 (Apr 27, 2012) - default. | ||
<!-- --> | <!-- --> | ||
{{#if: {{#var: mod}}|==Running the application using modules== | {{#if: {{#var: mod}}|==Running the application using modules== | ||
Revision as of 21:13, 4 May 2012
Description
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ALLPATHS-LG is a short read assembler. It has been designed to use reads
produced by new sequencing technology machines such as the Illumina Genome
Analyzer. This version has been optimized for, but not necessarily limited
to, reads of length 100 bases. ALLPATHS is not designed to assemble Sanger
or 454 FLX reads, or a mix of these with short reads.
Template:App Location
Available versions
- 39099 (Nov 2011).
- 40122 (Jan 04, 2011).
- 41655 (Apr 27, 2012) - default.
Running the application using modules
To use allpathslg with the environment modules system at HPC the following commands are available:
Get module information for allpaths-lg:
$module spider allpathslg
Load the default application module:
$module load allpathslg
The modulefile for this software adds the directory with executable files to the shell execution PATH and sets the following environment variables:
- HPC_ALLPATHSLG_DIR - directory where allpathslg is located.
- HPC_ALLPATHSLG_BIN - executable directory
- HPC_ALLPATHSLG_DOC - documentation directory