[Biopython-dev] Cross-links between tracks in GenomeDiagram

[Peter Cock]

On Thu, Nov 17, 2011 at 11:51 AM, Brad Chapman <chapmanb at 50mail.com> wrote:
>
> Peter;
>
>> Something I've been working on this month in discussion with Leighton
>> is some enhancements to GenomeDiagram, driven partly by a figure
>> I wanted to draw for a paper. The code is here,
>> https://github.com/peterjc/biopython/tree/gd-links
>
> Awesome. The direction you are pushing this is great. I'd definitely
> love to see this in the next release.

Cool. It will end up being a graphics heavy release at this rate :)

>> Also try the file Doc/example/ACT_example.py which mimics
>> a simple two-reference ACT diagram:
>> https://github.com/peterjc/biopython/blob/gd-links/Doc/examples/ACT_example.py
>>
>> Simple linear output (split into three fragments) shown here:
>> http://twitter.com/#!/pjacock/status/136509137826754560
>
> Really nice. My only suggestion would be to combine the examples and
> outputs together in the Cookbook. One of the best ways to learn plotting
> and drawing packages is by looking through examples, finding one that
> most closely matches what you want, and then iterating until you get at
> what you need.

Unless I can find a nicer small sample dataset (or make one) which
includes an inversion, I plan to use that ACT sample data in the
tutorial - basically taking the user though the ACT_example.py
script.

Peter