Difference between revisions of "Canu"
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==System Variables== | ==System Variables== | ||
* HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory | * HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory | ||
| + | * HPC_{{#uppercase:{{#var:app}}}}_BIN - executable directory | ||
| + | * HPC_{{#uppercase:{{#var:app}}}}_DOC - documentation directory | ||
| + | |||
<!--Configuration--> | <!--Configuration--> | ||
{{#if: {{#var: conf}}|==Configuration== | {{#if: {{#var: conf}}|==Configuration== | ||
Revision as of 15:53, 19 June 2017
Description
Canu is a fork of the Celera Assembler designed for high-noise single-molecule sequencing (such as the PacBio RSII or Oxford Nanopore MinION).
Required Modules
Serial
- canu
- gcc/5.2.0
System Variables
- HPC_{{#uppercase:canu}}_DIR - installation directory
- HPC_{{#uppercase:canu}}_BIN - executable directory
- HPC_{{#uppercase:canu}}_DOC - documentation directory
Additional Information
When running Canu you should specify Memory and CPU usage in your command. e.g.
#SBATCH --cpus-per-task=8 #SBATCH --mem=10g
-maxThreads=8 -maxMemory=10g
Citation
If you publish research that uses canu you have to cite it as follows: