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* [[abacas]] | * [[abacas]] | ||
* [[BamQC]] | * [[BamQC]] | ||
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Revision as of 14:18, 27 June 2016
Contents
Usage of Cluster
Programs
- abacas
- BamQC
- BLAST
- blast2go: b2g4pipe
- bowtie2
- CAFE
- cd-hit
- diamond
- ensembl
- JBrowse
- kallisto
- multiqc
- MUMmer
- OrthoFinder
- PGAP
- prokka
- pyrad
- python
- samtools
- SPAdes
- sra-tools
- srst2
- stacks
- velvet
Queue Manager Tips
A cluster is a shared resource with different users running different types of analyses. Nearly all clusters use a piece of software called a queue manager to fairly share out the resource. The queue manager on marvin is called Grid Engine, and it has several commands available, all beginning with q and with qsub being the most commonly used as it submits a command via a jobscript to be processed. Here are some tips:
