Hello,
I am looking for a tool thgat can convert some PSL alignments to MAF format. Since MAF includes the sequence and PSL does not, I imagine that I would also need to provide some FASTA or 2bit files to make it work.
Does such a tool exist? Or do I need to write my own?
I have written such a tool, which is available here.
It requires a version of BioPython that can write MAF files, like this one, at least until this pull request or something like it is merged.
Cool! For anyone with an issue with BioPython, here is an alternative from CGAT: https://github.com/CGATOxford/cgat/blob/master/CGAT/scripts/psl2gff.py
Log in to answer this question.
