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Old 03-12-2012, 02:52 PM   #1
Location: Germany

Join Date: Jun 2011
Posts: 24
Default viewing bed files into IGV


I need to ask, does anyone know how to view bed file using IGV?

my file is like that:
#chrom chromStart chromEnd
chr21 9434178 9434609
chr21 9434178 9434609
chr21 9508110 9508214
chr21 9516607 9516987
chr21 9903013 9903230
chr21 9903013 9903230
chr21 9905661 9906613
chr21 9907217 9907519
chr21 9907241 9907415
chr21 9907597 9908258
chr21 9983939 9984155

WhenI tried to open the file by IGV, nothing happens..

Please let me know if there are any other genome browsers that Ican use.

mhadidi2002 is offline   Reply With Quote
Old 03-12-2012, 11:14 PM   #2
Senior Member
Location: Berlin

Join Date: Jul 2011
Posts: 156

Did you name the file ".bed"? Then IGV should load it. It should add the track at the bottom, below the "Genes" track (if you have one), sometimes you have to scroll down to see it.
arvid is offline   Reply With Quote

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