[EMBOSS] Batch alignments?
robin at hms.harvard.edu
Fri Jan 28 19:51:27 UTC 2011
Given a set of fasta files, each an ordered list of coding sequences for a set of highly homologous (viral) genomes, is there some straightforward way of generating a file with alignments of the coding sequences other than doing each one manually (around a 100 genes).
That is, if each file is of the form:
I want to align each set of homologous genes. I've used matcher and needle to do a gene at a time, but it would be nice to batch this.
Harvard Medical School
PS: Embarrassingly enough, I am using v3.0.0 of emboss (Mac OS X 10.6.5). Can I just install a new version or do I have to uninstall everything first? Looking for the minimum fuss route.
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