Hi All,

I have matrix with SNP calling for several positions in 6 bacterial genomes relative to a ref. sample. (generated using snippy)

For example:

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!