[BioPython] Lowess function for nonparametric regression
Michiel Jan Laurens de Hoon
mdehoon at ims.u-tokyo.ac.jp
Thu May 6 08:35:34 EDT 2004
Brad Chapman wrote:
> The Lowess.py under Bio makes the most sense under the current
> scheme, but I guess I'm not sure if that is the overall best thing.
> Do you think it would be more useful to have a "Stats" module or
> something which would collect some of these various useful
> statistics bits into an easier to find place then scattered
> throughout Bio? I don't really think we need a deep directory
> structure, but maybe something analogous to Bio/SeqUtils.
>
> On the other hand, I guess I'm not sure if this would lead to moving
> a lot of modules under Bio to there, which might be too much of a
> mess.
I had a look at the other modules under Bio. There are a couple of supervised
learning routines there, but they wouldn't fit well as part of a Bio.Statistics
module. However, there are a couple of other statistics-related routines that
would be nice to have in Biopython (e.g. routines to estimate probability
density functions or alternative non-parametric regression models). So I would
argue for a Bio.Statistics module containing the Lowess function for now and
hopefully other routines later, but keep the existing modules under Bio where
they are.
--Michiel.
--
Michiel de Hoon, Assistant Professor
University of Tokyo, Institute of Medical Science
Human Genome Center
4-6-1 Shirokane-dai, Minato-ku
Tokyo 108-8639
Japan
http://bonsai.ims.u-tokyo.ac.jp/~mdehoon
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