Difference between revisions of "REPdenovo"
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| − | [[Category:Software]][[Category:Biology]][[Category:Phylogenetics | + | [[Category:Software]][[Category:Biology]][[Category:Phylogenetics]] |
{|<!--CONFIGURATION: REQUIRED--> | {|<!--CONFIGURATION: REQUIRED--> | ||
|{{#vardefine:app|repdenovo}} | |{{#vardefine:app|repdenovo}} | ||
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<!--Modules--> | <!--Modules--> | ||
| − | == | + | ==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 |
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_BIN - executable directory |
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_DOC - documentation directory |
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_EXE - sample directory |
<!--Configuration--> | <!--Configuration--> | ||
{{#if: {{#var: conf}}|==Configuration== | {{#if: {{#var: conf}}|==Configuration== | ||
Latest revision as of 21:43, 21 August 2022
Description
REPdenovo is designed for constructing repeats directly from sequence reads. It based on the idea of frequent k-mer assembly. REPdenovo provides many functionalities, and can generate much longer repeats than existing tools. The overall pipeline is shown in the mannual file. REPdenovo supports the following main functionalities.
Environment Modules
Run module spider repdenovo to find out what environment modules are available for this application.
System Variables
- HPC_REPDENOVO_DIR - installation directory
- HPC_REPDENOVO_BIN - executable directory
- HPC_REPDENOVO_DOC - documentation directory
- HPC_REPDENOVO_EXE - sample directory
Citation
If you publish research that uses repdenovo you have to cite it as follows: