[Bioperl-l] genbank (blast) alignments
Thomas Keller
kellert at ohsu.edu
Wed Jul 22 17:17:03 UTC 2009
Greetings,
Blast 2.2.21 has a multi-sequence alignment feature that is really
handy: put in the accession number of the refseq in one sequence field
and a concatenated fasta file of the Sanger reads to align in the
second box and it does the alignments. Unfortunately, the output is a
series of alignments rather than the more useful msf format with all
reads aligned with the reference.
Is there a bioperl module that reads the blast alignments and converts
it to an msf alignment?
thanks,
Tom
kellert at ohsu.edu
503-494-2442
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