[Biopython-dev] Reading sequences: FormatIO, SeqIO, etc
Michiel de Hoon
mdehoon at c2b2.columbia.edu
Sun Jul 30 21:20:50 EDT 2006
Peter (BioPython Dev) wrote:
> QUESTION: What do you all tend to use?
I use the stuff in Bio.Fasta, but actually just because it's in the
documentation. From your timings, and also because I'm not smart enough
to be able to understand Martel, let alone maintain Martel-based
parsers, I'm pretty much in favor of Bio.SeqIO.
> Should I draft a "questionnaire"
> to be posted on the main discussion list (and the announcements?).
By all means, yes. In the questionnaire, be sure to separate the issue
of parser internals (Martel vs. pure Python) from the issue of how the
results should be formatted (Fasta.Record or SeqRecord).
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