Genome Profiler

Genome Profiler (GeP) is a program to perform whole-genome multilocus sequence typing (wgMLST) analysis for bacterial isolates.

Please note that this program is designed to run in Unix-like operating systems such as Mac OS X or Linux.

GeP uses conserved gene neighborhoods (CGN) to resolve gene paralogy. This approach allows the differentiation of orthologs from recently duplicated paralogs, which are often indistinguishable by pairwise sequence alignment.

For more details, please see our publication: http://jcm.asm.org/content/53/5/1765.abstract

Update 11th Sep. 2018:
This project will stop updating at Sourceforge. Please download the latest version from:
https://github.com/jizhang-nz

Update 4th Oct. 2017:
version: 2.1
bugs fixed.

Update 8th Sep 2015:
When using a multi-Fasta file of the the allele sequences (nt) as reference (switch -n), please use only CAPITAL letters A, T, G and C for the sequences. This bug will be fixed in the next version.