Difference between revisions of "MetaGeneMark"
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(Created page with "Category:SoftwareCategory:BiologyCategory:Genomics {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|genemark}} |{{#vardefine:url|http://exon.gatech.edu/GeneMark/...") |
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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 |
<!--Configuration--> | <!--Configuration--> | ||
{{#if: {{#var: conf}}|==Configuration== | {{#if: {{#var: conf}}|==Configuration== | ||
Latest revision as of 21:22, 6 December 2019
Description
GeneMarki(MetaGenemark) is documented as the most accurate prokaryotic gene finder. GeneMark.hmm-P and GeneMark.hmm-E programs are predicting genes and intergenic regions in a sequence as a whole. They use the Hidden Markov models reflecting the "grammar" of gene organization. The GeneMark.hmm (P and E) programs identify the maximum likely parse of the whole DNA sequence into protein coding genes (with possible introns) and intergenic regions.
Environment Modules
Run module spider genemark to find out what environment modules are available for this application.
System Variables
- HPC_GENEMARK_DIR - installation directory