Latest
Open
RNA-Seq
ChIP-Seq
SNP
Assembly
Forum
Planet
All »
Home
Log In
Question: Displaying Macs Peaks At Ucsc
0
gravatar for Steven Okino
7.5 years ago by
Steven Okino • 10
Steven Okino • 10 wrote:
Hello, I am new to Galaxy and am trying to analyze some ChIP-Seq data. I groomed illumina FASTQ data and used Bowtie to map it to hg18. I then used MACS to call ChIP-Seq peaks; over 13,000 were identified. Analysis of individual peaks shows good consistency with ENCODE data sets on UCSC, so I know the ChIP-Seq worked. However, when I try to display the results at UCSC main I get the following error message on the UCSC browser: What am I doing wrong? Please advise. Thank you, Steven Okino
alignment bowtie • 1.2k views
ADD COMMENT • link •
modified 7.4 years ago by Jennifer Hillman Jackson ♦ 25k • written 7.5 years ago by Steven Okino • 10
0
gravatar for Jennifer Hillman Jackson
7.4 years ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:
Hi Steven, From the graphic, it looks like negative coordinates are in your file (?). Changing these to be "0" will likely help with the display. The rest of the BED formatting appears to be fine. If you are still having problems or would like more specific help, please share a history link ("Options" -> "Share or Publish"). You can send directly to me if you want to keep the data private, off-list, Best, Jen Galaxy team -- Jennifer Jackson http://usegalaxy.org/ http://galaxyproject.org/
ADD COMMENT • link written 7.4 years ago by Jennifer Hillman Jackson ♦ 25k
Please log in to add an answer.

Similar posts • Search »

Content
Help
Access
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 175 users visited in the last hour