Difference between revisions of "MetaCV"

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[[Category:Software]]
 
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{|<!--CONFIGURATION: REQUIRED-->
 
{|<!--CONFIGURATION: REQUIRED-->
|{{#vardefine:app|metacv}}
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|{{#vardefine:app|MetaCV}}
 
|{{#vardefine:url|http://metacv.sourceforge.net/}}
 
|{{#vardefine:url|http://metacv.sourceforge.net/}}
 
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{{#if: {{#var: citation}}|==Citation==
 
{{#if: {{#var: citation}}|==Citation==
 
If you publish research that uses {{#var:app}} you have to cite it as follows:
 
If you publish research that uses {{#var:app}} you have to cite it as follows:
Liu JM, Wang HF, Yang HX, Zhang YZ, Wang JF, Zhao FQ, Qi J. Composition based classification of short metagenomic sequences elucidates the landscapes of taxonomic and functional enrichment of microorganisms. Nucleic Acids Research 2012.
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: Liu JM, Wang HF, Yang HX, Zhang YZ, Wang JF, Zhao FQ, Qi J. Composition based classification of short metagenomic sequences elucidates the landscapes of taxonomic and functional enrichment of microorganisms. Nucleic Acids Research 2012.
 
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Revision as of 18:04, 12 August 2014

Description

MetaCV website  

MetaCV is a composition and phylogeny-based algorithm to classify very short metagenomic reads (75-100 bp) into specific taxonomic and functional groups. It performs (for both sensitivity and specificity) as good as BlastX-based methods on simulated short reads, but runs 300 times faster, thus provides fast and accurate analysis on huge amount of NGS data.

Required Modules

modules documentation

  • intel/2013
  • metacv

System Variables

  • HPC_{{#uppercase:MetaCV}}_DIR
  • HPC_{{#uppercase:MetaCV}}_BIN
  • HPC_{{#uppercase:MetaCV}}_DB




Citation

If you publish research that uses MetaCV you have to cite it as follows:

Liu JM, Wang HF, Yang HX, Zhang YZ, Wang JF, Zhao FQ, Qi J. Composition based classification of short metagenomic sequences elucidates the landscapes of taxonomic and functional enrichment of microorganisms. Nucleic Acids Research 2012.