Adding NGS data to the UCSC genome browser

[ulz_peter]

Hi aer.

As faras as I know, the chrom.sizes is a text-based file having chromosome names in the first column and it's size in the second. I used the chromInfo.txt file from UCSC Genome browser for the bed to BigBed Conversion, it can be downloaded here (hg19 version):

http://hgdownload.cse.ucsc.edu/goldenPath/hg19/database/chromInfo.txt.gz

I don't remember if you need to delete the third column before using it with the conversion tools...

[aer]

Hi ulz_peter,
thank you very much! The BigBed conversion worked and the IGV tool was a very good advice. With IGV I can work with my BAM files and it works very well.
Thanks again to all!

[Jim Robinson]

IGV & Bigwig / bigbed

Hi,

I realize this is an old thread, but the latest IGV release (2.0.3) now supports reading bigwig and bigbed files directly, either local or remote.

-- Jim

[aer]

Thank you very much for the advice!