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uploading files to the UCSC

hi Guys,

I am trying to upload my BED files to the UCSC but it gives error because the BED file is too big. I tried to also wig file but still too big. would you please let me know how I can upload my files to the UCSC.

thanks

alignment genome assembly
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updated by ablanchetcohen ablanchetcohen • written by ashkan ashkan

See this page for additional details on how to do what @Sandeep said below. You would need access to a web server that would have to allow inbound hhtp/ftp connections from UCSC Genome Browser (there are 5 IP addresses).

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written by GenoMax GenoMax

How large is your BED file? If it's below 20MB you can upload it to the Ensembl browser. Check the tutorial page on Use my own data in Ensembl. It's above, you will need to host the data on a ftp, http. Not sure if you submitted your data to the Track Hub Registry, it could do the trick and be easier than having the BED file on a server.

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written by Denise CS Denise CS

2 answers

  1. Convert the files to the bigWig format. The bigWig files will be much smaller, and much faster to view.
  2. Put the files on a public web server, and just provide to the UCSC Genome Browser the link to the files on the Web server.
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written by ablanchetcohen ablanchetcohen

You have to put the file on an http or a ftp server and then provide the link for the same to UCSC. That should work for a big file.

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written by Sandeep Sandeep

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