Changing distance matrix to scoring matrix to use in alignment software ? (attempt to aligning monomers)
Hey everyone, I would like to align monemers based on tajima-nei distance. I have already generated the distance matrix and the monemers have the same alphabet as amino acids
For example 2 sequences I have would be.
seq1 RAKGKGTGKGKGV
seq2 RKGAKGVNMKG
I am trying to use muscle and use a custom matrix, but I am having trouble converting distance matrix to scoring matrix
Do you guys have any suggestion how to do that ?
Thank you so much
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Elephantdumbo •
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