Difference between revisions of "MetaVelvet"
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==System Variables== | ==System Variables== | ||
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_DIR - Installation directory |
| − | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_BIN - Executable directory |
<!--Configuration--> | <!--Configuration--> | ||
{{#if: {{#var: conf}}|==Configuration== | {{#if: {{#var: conf}}|==Configuration== | ||
Revision as of 21:21, 6 December 2019
Description
Velvet is a de novo genomic assembler specially designed for short read sequencing technologies, such as Solexa or 454 or SOLiD
MetaVelvet is a single-genome and de Bruijn-graph based assembler Velvet modified and extended for de novo metagenome assembly. The fundamental ideas are first decomposing de Bruijn graph constructed from mixed short reads into individual sub-graphs and second building scaffolds based on every decomposed de Bruijn sub-graph as isolate species genome.
Note that MetaVelvet is based on an older version of Velvet than those available on our system.
Required Modules
System Variables
- HPC_METAVELVET_DIR - Installation directory
- HPC_METAVELVET_BIN - Executable directory
Validation
- Validated 4/5/2018