[gt-users] New feature announcement

[Sascha Steinbiss]

Brent Pedersen wrote:
>>> is it possible to specify the "z-index" of each feature type for
>>> stacked/collapsed features? it seems to know to draw CDS on top,
>>> but is there any way to specify the order explicitly -- and/or to
>>> specify the bar_height per-feature_type, rather than per-image.
>>> how does it determine from the track_selector_func what y-order the
>>> features are drawn in?

I have found the time to work further on these suggestions and completed 
a first implementation of the ideas. It can be found in my 'barheight' 
branch in github (git://github.com/satta/genometools.git) and brings the 
following additions:

- it is now possible to assign the bar_height to each type separately 
(and, of course, still globally in the 'format' section), and

- each type can now have a 'z_index' style option (which is an integer). 
The z-indices of collapsed types determine the order in which features 
are drawn. Particularly, types with higher index numbers are drawn on 
top of types with lower numbers. Types with no z-index numbers are 
always drawn below those with indices and their internal ordering is 
determined alphabetically.

Up to now, tracks are also ordered alphabetically by their track 
identifier, except custom tracks which are always drawn in the order 
they were added to the diagram, and below all type tracks. However, am 
planning to introduce an interface in which tracks (including custom 
tracks) can be reordered using diagram_* methods like a list. I will be 
able to do this if I find the time (at the moment, I need to dedicate 
more time to other projects which were neglected prior to revision 
submission).

Feel free to test the new features, and let me know if problems arise or 
in case you have any more suggestions.

Sascha


-- 
Sascha Steinbiss
Zentrum für Bioinformatik
Universität Hamburg
Bundesstr. 43
20146 Hamburg
Germany

Email:  steinbiss at zbh.uni-hamburg.de
URL:    http://www.zbh.uni-hamburg.de/steinbiss
Phone:  +49 (40) 42838 7322
FAX:    +49 (40) 42838 7312