Tool:BPGA - Bacterial Pan Genome Analysis pipeline

Question

[bpgatool]

BPGA is a fast pan-genome analysis tool for microbial genomes. Along with regular pan genome profiles, BPGA also provides detailed statistics and sequences with their downstream analysis like KEGG/COG assignments and phylogeny based on core, MLST as well as pan genome. In addition, it also studies genes with extreme/atypical GC contents as that of the genomic GC content, sub-grouping of large datasets etc..

BPGA Sourceforge Page.
BPGA HomePage.

It was recently published in Scientific Reports.

Any suggestions for further improving the tool are welcome.

[nosheenqureshi1994]

does it give us the name of all those genes which are core genes?

Answer 1

[ambrinaakbar]

Hi, would this software helpful to find out variants in whole MLST database?

Answer 2

[Dattatray Mongad]

How can I update COG and KEGG data for using it with BPGA?

[Naren]

COG is 2003 database with update on 2014. As of my knowledge it has not been updated since. So BPGA uses this only. You can use KAAS to re-annotate the fasta file.