Difference between revisions of "MetaVelvet"
Jump to navigation
Jump to search
Moskalenko (talk | contribs) (Created page with "Category:SoftwareCategory:NGSCategory:MetagenomicsCategory:Assembler {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|metavelvet}} |{{#vardefine:url|http://m...") |
Moskalenko (talk | contribs) |
||
| Line 1: | Line 1: | ||
| − | [[Category:Software]][[Category:NGS]][[Category:Metagenomics]][[Category:Assembler]] | + | [[Category:Software]][[Category:NGS]][[Category:Metagenomics]][[Category:Assembler]][[Category:Bioinformatics]] |
{|<!--CONFIGURATION: REQUIRED--> | {|<!--CONFIGURATION: REQUIRED--> | ||
|{{#vardefine:app|metavelvet}} | |{{#vardefine:app|metavelvet}} | ||
Revision as of 20:43, 21 September 2012
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_{{#uppercase:metavelvet}}_DIR - Installation directory
- HPC_{{#uppercase:metavelvet}}_BIN - Executable directory