Conversion of multiple sequence alignment file formats
Working on a multiple sequence alignment project, I wanted to calculate a distance matrix from a MSA dataset generated by progressiveMauve. The MSA file is in xmfa format. I could not find a tool that calculates a distance matrix directly from the xmfa file, so I searched for conversion utilities to other MSA formats, such as phylip, maf, or msa.
This biostars forum entry always came out at top but the links provided there are dead.
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