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Old 09-23-2011, 02:45 AM   #1
ayushraman
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Location: Houston

Join Date: Jul 2009
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Default Importing Genome in IGB and Chip Seq data in IGV

Does any body knows how to import Genomes like T. brucei (which is not present in IGB browser) into IGB browser ?

Also, I tried using IGV (which has this genome) but when I loaded the ChIP-Seq Wig file (output from MACS) in the IGV, it doesn't show me any peaks. Any advice or hints will be highly appreciated.
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Old 09-24-2011, 06:42 AM   #2
Jim Robinson
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Default

Hi, does the wig file end with a ".wig" extension? Another problem might be a mismatch in chromosome / contig names. Finally, if the file is large you will be happier the wig to "TDF" format with igvtools, or bigwig.

If you want to post a few lines of the file I can advise further.

Jim


Quote:
Originally Posted by ayushraman View Post
Does any body knows how to import Genomes like T. brucei (which is not present in IGB browser) into IGB browser ?

Also, I tried using IGV (which has this genome) but when I loaded the ChIP-Seq Wig file (output from MACS) in the IGV, it doesn't show me any peaks. Any advice or hints will be highly appreciated.
Jim Robinson is offline   Reply With Quote
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