Question: Jumping To The Next Bed Coordinate In The Ucsc Genome Browser Across Different Chromosomes
1
gravatar for CrazyB
6.8 years ago by
CrazyB210
United States
CrazyB210 wrote:

A similar question has been posted before. By playing with "configure" under UCSC genome browser, indeed, arrows would appear on both sides of the display window, which allow users to visualize the next/prior item on the custom track. However, I have data on different chromosomes, and it seems that the navigation arrow only stays in the same chromosome and cannot jump across different chromosomes - which doesn't seem to make sense as each item (in the file uploaded in the custom track) is labelled by chr#, followed by coordinates. Does this happen to other users as well? Or Did I make any mistakes in setting up the browser to visualize custom tracks? Great many thanks !

ucsc • 1.7k views
ADD COMMENTlink written 6.8 years ago by CrazyB210
1

I am posting below the response from UCSC for people who might be interested in such a function.

"We have considered that functionality but are unlikely to implement it in the foreseeable future as it carries with it a number of complications. Instead we suggest the following workaround:

Go to the Table Browser genome.ucsc.edu/cgi-bin/hgTables and select your track and table of interest. Then select:

region: genome output format: hyperlinks to Genome Browser

upon clicking "get output" this will give you a list of links to each of the items in your track of interest - allowing you to navigate between regions on "adjacent" chromosomes."

ADD REPLYlink written 6.8 years ago by CrazyB210
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