Comparing/normalizing two bigWigs

[LacquerHead]

Hi all,

Just wondering about a good method to see bigWigs normalized to one another in the genome browser, based on read count? Have used deepTools to compare and get fold change and have done scaling factors, but basically need to see two bigwigs side by side that have been normalized according to read count. Thanks!

LH

[dpryan]

The bigWigs weren't already normalized? If you have some value that you just want to divide (or multiply) everything by then I can write a short python script for that. If you want them normalized against each other but to then have individual bigWig files, you can use bigwigCompare from deepTools with "--ratio first" and then "--ratio second".