PGAP pipeline

PGAP specifications


Unique identifier OMICS_08611
Alternative names Pan-Genome Analysis Pipeline, NCBI_PGAP
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Perl
Computer skills Advanced
Stability Stable
Maintained Yes


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  • person_outline Jun Yu <>

Publication for Pan-Genome Analysis Pipeline

PGAP citation

PMCID: 4506816

[…] 32 strains published previously were retrieved from the ftp server of ncbi [20]., for all of the 49 bifidobacterial strains included in this study, a pan-genome calculation was performed using the pgap [21]. the orf content of each genome was organised into functional gene clusters using the gene family (gf) method. under the gf method, the total protein sequences of each strain were mixed […]

PGAP institution(s)
CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China
PGAP funding source(s)
National Basic Research Program (973 Program) (No. 2010CB126604); Special Foundation Work Program (No. 2009FY120100), Ministry of Science and Technology of the People's Republic of China; National Science Foundation of China (No. 31071163)

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