[Biopython] Biopython project under OBF for GSoC 2018

[Sourav Singh]

The project on RNA sequencing as an assay for gene expression.

I found a literature about the subject-
https://www.ncbi.nlm.nih.gov/pubmed/27585245
but I will need a better understanding and a discussion in terms of
software engineering perspective.

Regards,


On Wed, Mar 7, 2018 at 5:36 PM, Peter Cock <p.j.a.cock at googlemail.com>
wrote:

> Do you mean a project working with RNA secondary structure,
> or RNA sequencing?
>
> Peter
>
> On Wed, Mar 7, 2018 at 8:39 AM, Sourav Singh <ssouravsingh12 at gmail.com>
> wrote:
> > Hello,
> >
> > I am interested in the project mentioned above and I am working on a
> > proposal for the same.
> >
> > Would anyone be interested to take a look and make suggestions?
> >
> > Regards,
> >
> > Sourav
> >
> > Sent from my Phone.Excuse any mistakes and brevity.
> >
> > On Feb 28, 2018 5:02 PM, "Sourav Singh" <ssouravsingh12 at gmail.com>
> wrote:
> >>
> >> Hello,
> >>
> >> The topic looks interesting to me. Are there any resources which touch
> >> upon the subject of the project?
> >>
> >> Regards,
> >>
> >> Sourav
> >>
> >> Sent from my Phone.Excuse any mistakes and brevity.
> >>
> >> On Feb 28, 2018 3:26 PM, "Peter Cock" <p.j.a.cock at googlemail.com>
> wrote:
> >>>
> >>> On Tue, Feb 27, 2018 at 11:33 PM, Sourav Singh <
> ssouravsingh12 at gmail.com>
> >>> wrote:
> >>> > Hello,
> >>> >
> >>> > Thanks for the reply!
> >>> >
> >>> > For RNA Seq, Are we talking about adding modules for parsing of RNA
> >>> > secondary structure and nucleotides? If so, The project looks
> >>> > interesting to
> >>> > me. The only problem is I don't see the branch created by Kristian
> >>> > Rothner,
> >>> > so the code may need to be written from scratch.
> >>>
> >>> No, although that's an interesting area in itself - and has been talked
> >>> about before for GSoC.
> >>>
> >>> I meant RNA sequencing as a quantitative assay for gene expression,
> >>> as an alternative to the older microarray technology used for gene
> >>> expression analysis. This is a vast area and I don't immediately see
> >>> a project idea here for Biopython.
> >>>
> >>> > I am also a bit worried about whether there would be anyone willing
> to
> >>> > mentor a project for Biopython.
> >>>
> >>> Yes, sadly that is currently a bottleneck.
> >>>
> >>> Peter
>
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