[Bioperl-l] GuessSeqFormat GFF vs VCF
dan.kortschak at adelaide.edu.au
Mon Mar 28 21:12:55 EDT 2011
I'm going through the BEDTools wrapper to bring it up to date. A number
BEDTools executables now accept GFF and VCF as well as BED format input
Part of the WrapperBase::CommandExts give acceptable input formats, so
I'm adding to GuessSeqFormat guessers for GFF and VCF, which from the
point of view of a stateless guesser, are indistinguishable unless (and
I don't like this idea), GFF is additionally defined as not VCF and VCF
is additionally defined as not VCF (these can be identified from the
##gff-version and ##fileformat=VCF lines).
Can people provide their thoughts on this?
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