"V体育官网入口" Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The . gov means it’s official VSports app下载. Federal government websites often end in . gov or . mil. Before sharing sensitive information, make sure you’re on a federal government site. .

Https

The site is secure. The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely. V体育官网.

. 2012 Feb 1;28(3):416-8.
doi: 10.1093/bioinformatics/btr655. Epub 2011 Nov 29.

PGAP: pan-genomes analysis pipeline

Yongbing Zhao  1 , Jiayan Wu, Junhui Yang, Shixiang Sun, Jingfa Xiao, Jun Yu
Affiliations

PGAP: pan-genomes analysis pipeline

Yongbing Zhao et al. Bioinformatics. .

Abstract

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 VSports手机版. 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 V体育安卓版. .

Contact: junyu@qiuluzeuv.cn; xiaojingfa@qiuluzeuv.cn

Supplementary information: Supplementary data are available at Bioinformatics online. VSports最新版本.

PubMed Disclaimer

References

    1. Bayjanov J.R., et al. PanCGHweb: a web-tool for genotype-calling in pangenome CGH data. Bioinformatics. 2010;26:1526–1527. - PMC (V体育ios版) - PubMed
    1. Brittnacher M.J., et al. PGAT: a multi-strain analysis resource for microbial genomes. Bioinformatics. 2011;27:2429–2430. - PMC - PubMed
    1. D'Auria G., et al. Legionella pneumophila pangenome reveals strain-specific virulence factors. BMC Genomics. 2010;11:181. - PMC - PubMed
    1. Fleischmann R.D., et al. Whole-genome random sequencing and assembly of Haemophilus influenzae Rd. Science. 1995;269:496–512. - PubMed
    1. Hiller N.L., et al. Comparative genomic analyses of seventeen Streptococcus pneumoniae strains: insights into the pneumococcal supragenome. J. Bacteriol. 2007;189:8186–8195. - PMC - PubMed

Publication types (V体育官网)