pangenome of mycobacterium

Question

[manasa22.reddy]

hi everyone ,

I have to construct a pan genome considering 65 strains of mycobcterium sp., can anyone suggest what language will be more comfortable for this job, either r or perl ??

and please suggest me a rough outline for consturcting pangenome.

[Coryza]

Kind of a broad question. Have you at all googled? This might help you; http://www.ncbi.nlm.nih.gov/pubmed/25781462

Answer 1

[HG]

Hi If you have draft/close genome you can do it using LS_BSR  pipeline

https://github.com/jasonsahl/LS-BSR