[Biopython-dev] FDist: more Population Genetics code

Tiago Antão tiagoantao at gmail.com
Wed Jan 3 13:16:30 UTC 2007


I have submitted another enhancement bug, with support for FDist. It
allows to generate and parse Fdist files and to control fdist
applications. There are also a couple of utility functions. FDist is a
niche application (mainly used to detect selection in animal
genetics). Not the most fundamental one to support, but it is
currently one that I am working on, thus, the code.

Regarding my summited code for GenePop, I have summited a different
version on bugzilla.  The main difference, is that I moved everything
from Bio to Bio.PopGen.

Before I continue putting code on bugzilla I would like to know if it
is worthwhile doing it... Any opinions on the code submitted or if any
changes are required? I would really like to continue converting my
code to BioPython, but only if it has any possibility of ending up
being useful/included in distribution somewhere in the future... ;)

I am currently working on code related to SimCoal2, Arlequin and
general statistics (Fst, heterozygosity, ...). Which will probably be
ready quite soon (ie, next two weeks). This is more mainstream than

I have some other code lying around mainly related to HapMap, but I
will only submit it after reviewing and reusing it again. This is more
distant future ... like a couple of months.


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