Difference between revisions of "SOAPdenovo-Trans"
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HPC_SOAPDENOVOTRANS_BIN - directory where SOAPdenov-Trans binaries are located | HPC_SOAPDENOVOTRANS_BIN - directory where SOAPdenov-Trans binaries are located | ||
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| + | * HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory | ||
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{{#if: {{#var: exe}}|==How To Run== | {{#if: {{#var: exe}}|==How To Run== | ||
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Revision as of 17:22, 10 August 2012
Description
SOAPdenovo-Trans is a de novo transcriptome assembler basing on the SOAPdenovo framework, adapt to alternative splicing and different expression level among transcripts.The assembler provides a more accurate, complete and faster way to construct the full-length transcript sets.
Execution Environment and Modules
To use SOAPdenovo-Trans with the environment modules system at HPC the following commands are available:
Get module information for soapdenovo-trans:
$module spider soapdenovo-trans
Load the default application module:
$module load soapdenovo-trans
The modulefile for this software adds the directory with executable files to the shell execution PATH and sets the following environment variables:
HPC_SOAPDENOVOTRANS_DIR - directory where SOAPdenovo-Trans is located. HPC_SOAPDENOVOTRANS_BIN - directory where SOAPdenov-Trans binaries are located
System Variables
- HPC_{{#uppercase:soapdenovo-trans}}_DIR - installation directory