Question: How to obtain compile core gene sequences from Roary?
gravatar for ethanfoo360
7 months ago by
ethanfoo3600 wrote:

Hi guys, I would like to know how to obtain every single sequence of core genes from each organism from my Roary output to build phylogenetic trees out of. I've already run Roary and have the Gene Absence_Presence file, but it seems like it would take forever to check through every single gene identifier and try to match it with the sequence from the respective organism. Is there any code that I could use to maybe quickly parse through all these identifiers and give me the fasta files for each sequence? I'm still very new to coding so any help would be great. Thanks so much!

core genes roary pangenomics • 279 views
ADD COMMENTlink written 7 months ago by ethanfoo3600
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1847 users visited in the last hour