[Biopython-dev] Moving Bio.Motif documentation into Tutorial.tex

Bartek Wilczynski barwil at gmail.com
Tue Oct 26 20:46:50 UTC 2010

Hi all,

I've added the Bio.Motif section to the tutorial and pushed this to github.
I was able to build the tutorial in pdf, but I'm not sure about the html
version and whether it works for other people.

Any other comments are welcome as well


On Tue, Oct 19, 2010 at 2:45 PM, Peter <biopython at maubp.freeserve.co.uk>wrote:

> On Tue, Oct 19, 2010 at 1:34 PM, Bartek Wilczynski <barwil at gmail.com>
> wrote:
> > Hi,
> >
> > I've started to look into merging Bio.Motif docs with the Tutorial. I
> have a
> > few questions:
> > - First, I need to find a good place in the tutorial to put it.
> >    One possibility is to make a separate chapter for it, another option
> is
> > to put it as a subchapter in chapter 15 (cookbook).
> >    I think it would be better to make it a separate chapter, similar to
> one
> > the ones discussing Bio.popgen or bio.phylo, So i thought it would make
> > sense to create it as a new chapter 13, entitled Sequence motif analysis
> > with Bio.Motif
> I agree, create a new chapter (and add yourself to the authors list).
> I'd definitely put it before the "Cookbook Chapter", and between the
> Phylogenetics and "Supervised learning methods" chapters seems
> reasonable.
> > -second, I have links and references to papers in there. The question
> would
> > be should I remove those to keep to the style of the tutorial
> Keep them - links to external webpages are fine - they work well in both
> and HTML. For references we currently don't have a formal bibliography -
> but
> we do have some existing case of links to papers already, e.g.
> http://biopython.org/DIST/docs/tutorial/Tutorial.html#sec:SeqIO-fastq-conversion
> Peter

Bartek Wilczynski
Postdoctoral fellow
EMBL, Furlong group
Meyerhoffstrasse 1,
69012 Heidelberg,
tel: +49 6221 387 8433

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