I used parsnp on 26 bacterial genomes from the same subspecies, each about 2.8 Mb in length. The reference genome is a single chromosome, but all of the other genomes are in contigs.
I am only getting 2% for my core percentage score and I'm only seeing results for a tiny bit of the snp heatmap (see attached image).
I'm not sure what's wrong, does anyone have an idea?
Hi,
I used parsnp on 26 bacterial genomes from the same subspecies, each about 2.8 Mb in length. The reference genome is a single chromosome, but all of the other genomes are in contigs.
I am only getting 2% for my core percentage score and I'm only seeing results for a tiny bit of the snp heatmap (see attached image).
I'm not sure what's wrong, does anyone have an idea?
Thanks! Korin