Difference between revisions of "BAM-matcher"
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Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application. | Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application. | ||
==System Variables== | ==System Variables== | ||
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_DIR - installation directory |
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_BIN - executable directory |
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_EXE - example directory |
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_CONF - config directory |
<!--Configuration--> | <!--Configuration--> | ||
Latest revision as of 21:07, 6 December 2019
Description
A simple tool for determining whether two BAM files contain reads sequenced from the same sample or patient by counting genotype matches at common SNPs.
BAM-matcher is most useful at comparing whole-genome-sequencing (WGS), whole-exome-sequencing (WES) and RNA-sequencing (RNA-seq) human data, but can also be customised to compare panel data or non-human data.
Environment Modules
Run module spider bam-matcher to find out what environment modules are available for this application.
System Variables
- HPC_BAM-MATCHER_DIR - installation directory
- HPC_BAM-MATCHER_BIN - executable directory
- HPC_BAM-MATCHER_EXE - example directory
- HPC_BAM-MATCHER_CONF - config directory
Citation
If you publish research that uses bam-matcher you have to cite it as follows: