I have matrix with SNP calling for several positions in 6 bacterial genomes relative to a ref. sample. (generated using snippy)
gene position wt sample_1 sample_2 ... nm_1234 123 A C T nm_1234 129 G T A
Now my goal is to find the distance between the different species and display it on a nice plot like this :
Any suggestions on hoe to approach this? Thanks!