Question: Maf or hal alignment format conversion
gravatar for susan.klein
3.7 years ago by
susan.klein50 wrote:



I am using progressiveCactus and I want to view the alignments and extract a consensus sequence. I don't want to use the UCSC genome browser. Does anyone know how to convert from hal or maf format (the only two that can be output or converted by this software) to something more universally readable? e.g. by Geneious. Alternatively a way to get the consensus from the alignment would be useful. Biopython does not seem to do it yet. I have read that BioRuby does, but I don't want to have to learn a whole new programming language just to do one conversion.



alignment • 1.3k views
ADD COMMENTlink modified 3.7 years ago • written 3.7 years ago by susan.klein50
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1777 users visited in the last hour