Latest
Open
RNA-Seq
ChIP-Seq
SNP
Assembly
Forum
Planet
All »
Home
Log In
Question: ORegAnno options in get data
0
gravatar for ybogoch
24 months ago by
ybogoch • 0
ybogoch • 0 wrote:

Hi In the UCSC Genome Browser on Human Dec. 2013 (GRCh38/hg38) Assembly there is the orregano track. In the browser there is an option for choosing just TFBS or miRNA binding sites. Is there any way to do this in galaxy when getting the info (Get data:UCSC Main table browser)

Thanks Yoel
galaxy • 439 views
ADD COMMENT • link •
modified 24 months ago by Jennifer Hillman Jackson ♦ 25k • written 24 months ago by ybogoch • 0
0
gravatar for Jennifer Hillman Jackson
24 months ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

Not specifically, but there are many text search/selection functions. Some interpret the datatype with custom filters. Others act on the data as tabular. You can also compare datasets (subtract, common line, distinct lines).

The list of potential tools is too long to list as much depends on the input format. Try a tool search using the datatype to start. Then review tools in the group Text Manipulation and Join, Subtract and Group.

If you want to share a snippet of the file (where format is preserved) and note which value you wish to filter on, we can offer more specific advice.

The other route is do the manipulation at UCSC Browser, then move the new filtered track into Galaxy for downstream analysis.

Thanks, Jen, Galaxy team
ADD COMMENT • link written 24 months 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: 178 users visited in the last hour