Difference between revisions of "SOAPdenovo"
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Moskalenko (talk | contribs) m (Text replacement - "#uppercase" to "uc") |
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*{{#var:app}} | *{{#var:app}} | ||
==System Variables== | ==System Variables== | ||
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_DIR - installation directory |
* HPC_SOAPDENOVO_BIN - executable directory | * HPC_SOAPDENOVO_BIN - executable directory | ||
{{#if: {{#var: exe}}|==How To Run== | {{#if: {{#var: exe}}|==How To Run== | ||
Revision as of 21:24, 6 December 2019
Description
SOAPdenovo is a novel short-read assembly method that can build a de novo draft assembly for the human-sized genomes. The program is specially designed to assemble Illumina GA short reads. It creates new opportunities for building reference sequences and carrying out accurate analyses of unexplored genomes in a cost effective way.
31, 63 and 127 maximum kmer size versions are available as SOAPdenovo31mer (SOAPdenovo binary), SOAPdenovo-63mer, and SOAPdenovo-127mer binaries.
soapdenovo/2.04 module includes GapCloser.
Required Modules
Serial
- soapdenovo
System Variables
- HPC_SOAPDENOVO_DIR - installation directory
- HPC_SOAPDENOVO_BIN - executable directory
Validation
- Validate 4/5/2018