PGAP
Computational Tool
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General Information
DescriptionPan-genomes analysis pipeline
Homepagehttp://pgap.sf.net
Publications
PGAP: pan-genomes analysis pipeline
Yongbing Zhao; Jiayan Wu; Junhui Yang; Shixiang Sun; Jingfa Xiao; Jun Yu
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.
DOI: https://doi.org/10.1093/bioinformatics/btr655
Metrics:
89
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