Difference between revisions of "MCScanX"
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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}}}}_INC - include directory |
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_DAT - data directory |
<!--Configuration--> | <!--Configuration--> | ||
Latest revision as of 21:21, 6 December 2019
Description
MCScan is an algorithm to scan multiple genomes or subgenomes to identify putative homologous chromosomal regions, then align these regions using genes as anchors. MCScanX toolkit implements an adjusted MCScan algorithm for detection of synteny and collinearity and extends the software by incorporating 15 utility programs for display and further analyses.
Environment Modules
Run module spider mcscanx to find out what environment modules are available for this application.
System Variables
- HPC_MCSCANX_DIR - installation directory
- HPC_MCSCANX_BIN - executable directory
- HPC_MCSCANX_INC - include directory
- HPC_MCSCANX_DAT - data directory
Citation
If you publish research that uses mcscanx you have to cite it as follows: