Difference between revisions of "SOAPdenovo-Trans"
Jump to navigation
Jump to search
Moskalenko (talk | contribs) m (Text replace - "Usage policy" to "Usage Policy") |
Moskalenko (talk | contribs) m (Text replace - "<!--Run-->" to "==System Variables== * HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory <!--Run--> ") |
||
Line 41: | Line 41: | ||
HPC_SOAPDENOVOTRANS_BIN - directory where SOAPdenov-Trans binaries are located | HPC_SOAPDENOVOTRANS_BIN - directory where SOAPdenov-Trans binaries are located | ||
+ | ==System Variables== | ||
+ | * HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory | ||
<!--Run--> | <!--Run--> | ||
+ | |||
{{#if: {{#var: exe}}|==How To Run== | {{#if: {{#var: exe}}|==How To Run== | ||
DOUBLE_CLICK_TO_WRITE_INSTRUCTIONS_ON_RUNNING_THE_ACTUAL_BINARY | DOUBLE_CLICK_TO_WRITE_INSTRUCTIONS_ON_RUNNING_THE_ACTUAL_BINARY |
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