[Biopython-dev] [Biopython] Google Summer of Code 2014 - Call for project ideas

Peter Cock p.j.a.cock at googlemail.com
Mon Feb 3 12:31:37 UTC 2014

On Mon, Feb 3, 2014 at 4:22 AM, Saket Choudhary <saketkc at gmail.com> wrote:
> I would like to propose a QC module for NGS & Microarray data.
> Essentially a fastQC[1] and limma[2], respectively ported to
> Biopython.
> [1] http://www.bioinformatics.babraham.ac.uk/projects/fastqc/
> [2] http://bioconductor.org/packages/devel/bioc/html/limma.html

Hi Saket,

What did you have in mind for 'porting' fastQC? Recreating it in
Python alone doesn't seem like a sensible use of time & effort.
Are there particular functions etc you think make sense to have
available as a library of code?

For limma, the linear model side would fall nicely under SciPy,
eg http://scikit-learn.org/stable/modules/linear_model.html
However, Biopython's existing microarray support could do
with some love.


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