SEQanswers - View Single Post - RNA-Seq: ENCODE whole-genome data in the UCSC genome browser (2011 update).

hsmart · 11-24-2010, 02:08 PM

Dear All,

We generated ChIP-seq and RNA-seq data few cell-lines. I want to visualize these data in UCSC Genome Browser. How can I make appropriate files similar to ENCODE density plots for ChIP-seq data?
http://genome.ucsc.edu/cgi-bin/hgTra...gsid=173185756

Should I include all the reads or only reads after peak finding software?

Thanks for your help,

Best wishes,

Rakesh

11-24-2010, 02:08 PM	#2
hsmart Member Location: Maryland Join Date: Dec 2009 Posts: 15	Dear All, We generated ChIP-seq and RNA-seq data few cell-lines. I want to visualize these data in UCSC Genome Browser. How can I make appropriate files similar to ENCODE density plots for ChIP-seq data? http://genome.ucsc.edu/cgi-bin/hgTra...gsid=173185756 Should I include all the reads or only reads after peak finding software? Thanks for your help, Best wishes, Rakesh