PGAP: pan-genomes analysis pipeline.
Bioinformatics
; 28(3): 416-8, 2012 Feb 01.
Article
em En
| MEDLINE
| ID: mdl-22130594
SUMMARY: With the rapid development of DNA sequencing technology, increasing bacteria genome data enable the biologists to dig the evolutionary and genetic information of prokaryotic species from pan-genome sight. Therefore, the high-efficiency pipelines for pan-genome analysis are mostly needed. We have developed a new pan-genome analysis pipeline (PGAP), which can perform five analytic functions with only one command, including cluster analysis of functional genes, pan-genome profile analysis, genetic variation analysis of functional genes, species evolution analysis and function enrichment analysis of gene clusters. PGAP's performance has been evaluated on 11 Streptococcus pyogenes strains. AVAILABILITY: PGAP is developed with Perl script on the Linux Platform and the package is freely available from http://pgap.sf.net. CONTACT: junyu@big.ac.cn; xiaojingfa@big.ac.cn SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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1
Base de dados:
MEDLINE
Assunto principal:
Streptococcus pyogenes
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Software
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Genoma Bacteriano
Idioma:
En
Ano de publicação:
2012
Tipo de documento:
Article