Difference between revisions of "Sambamba"
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Moskalenko (talk | contribs) (Created page with "Category:SoftwareCategory:BioinformaticsCategory:NGS {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|sambamba}} |{{#vardefine:url|http://lomereiter.github.io/sa...") |
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[http://lomereiter.github.io/sambamba/docs/sambamba-view.html Sambamba Documentation] | [http://lomereiter.github.io/sambamba/docs/sambamba-view.html Sambamba Documentation] | ||
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| − | == | + | ==Environment Modules== |
| − | + | Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application. | |
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==System Variables== | ==System Variables== | ||
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_DIR - installation directory |
<!--Configuration--> | <!--Configuration--> | ||
{{#if: {{#var: conf}}|==Configuration== | {{#if: {{#var: conf}}|==Configuration== | ||
Latest revision as of 20:33, 12 August 2022
Description
Sambamba is a high performance modern robust and fast tool for working with SAM and BAM files. Sambamba is written in the D programming language and because of efficient use of modern multicore CPUs it is usually much faster than samtools. Current parallelised functionality is an important subset of samtools functionality, including view, index, sort, markdup, and depth.
Environment Modules
Run module spider sambamba to find out what environment modules are available for this application.
System Variables
- HPC_SAMBAMBA_DIR - installation directory