Question: Download large tracks on the UCSC browser
gravatar for fatstrat389
6.5 years ago by
United States
fatstrat38930 wrote:

I am trying to download GERP scores from the UCSC Table browser, but it seems that it does not like it if I try to download too much data at once. Basically I am trying to get GERP scores for all available loci in HG19, but when I use the UCSC table browser I get the following error:

carefulAlloc: Allocated too much memory - more than 6,442,450,941 bytes (6,442,461,325)

Is there any way I can use FTP or something to get all of these GERP scores, or should I be looking somewhere else?



genome • 2.0k views
ADD COMMENTlink modified 6.5 years ago by Alex Reynolds31k • written 6.5 years ago by fatstrat38930
gravatar for Alex Reynolds
6.5 years ago by
Alex Reynolds31k
Seattle, WA USA
Alex Reynolds31k wrote:

Perhaps use the track downloads available from the Sidow Lab GERP site (6.3 GB is definitely a lot of data to try to shovel through a browser).

ADD COMMENTlink modified 10 months ago by RamRS30k • written 6.5 years ago by Alex Reynolds31k

I actually have the Sidow Lab downloads already. The problem is I don't know which loci the GERP scores are associated with. The readme they provide alludes to .maf file that may be used to map GERP scores to loci but I am not sure where to find that either. That is why I decided to download the UCSC track instead.

ADD REPLYlink written 6.5 years ago by fatstrat38930
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