Difference between revisions of "REPdenovo"
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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== | ||
Revision as of 21:24, 6 December 2019
[[Category:Phylogenetics[]
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.
Required Modules
Serial
- gcc/5.2.0
- repdenovo
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: