Version 0.7.9

[Davide Cittaro]

Hi all, 

This weekend I had some time to thing about bigwig output. As you may know, dspchip doesn't have a native bigwig handler so it wraps some UCSC binaries (wigToBigWig). bigWig is not appendable (or, at least, wigToBigWig can't append data to an existing bigWig file) so for every chromosome I had to:

convert chr(N -1).bigwig to bedgraph

append new data

convert everything into chrN.bigwig.

This is a waste of time...

For this reason the main change in v0.7.9 is simply a final step to convert bedgraph to bigwig...

Also, I've been trying to improve bedgraph writing time... unfortunately if you specify a stepsize = 10, it will take up to 10 minutes for longer chromosomes (i.e. human chr1) when most values are not zero (those are skipped).

Download link: http://dspchip.googlecode.com/files/dspchip-0.7.9.tar.gz

d

/*

Davide Cittaro, PhD

Cogentech - Consortium for Genomic Technologies

via adamello, 16

20139 Milano

Italy

tel.: +39(02)574303007

e-mail: davide....@ifom-ieo-campus.it

*/

[Davide Cittaro]

I've realized there was a bug that prevented a correct bedgraph -> bigwig conversion... If you ever downloaded v0.7.9 download it again, or update your svn repository...

d

--

Davide Cittaro

daweo...@gmail.com

http://daweonline.googlepages.com/