Hello James, 

On Mar 8, 2011, at 1:23 AM, James Taylor wrote:

> Davide, see bx.bbi.bigwig_file.BigWigFile

I'm trying to... :-)

> Implemented in Cython, there is also some BigBed support with a common class 
> (bbi_file) for the indexing and aggregation pieces.
> This is currently read only. Also, not tested exhaustively on different types 
> of bigwig, but I believe we have most cases correct.

read only is fine for me (at least at the moment). I see the method to get data 
from a bigwig file is BigWigFile.query(), is it?
What is the summary_size one must specify? Data are returned as statistics of 
the region between chr:start-end, the number of statistics is given by 
summary_size. In my mind the summary_size could be the number of "chunks" 
between start and end. Unfortunately I see that I can specify summary_size > 
(end - start) hence I don't know what summary_size is :-)


Davide Cittaro, PhD

Cogentech - Consortium for Genomic Technologies
via adamello, 16
20139 Milano

tel.: +39(02)574303007
e-mail: davide.citt...@ifom-ieo-campus.it

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