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Old 05-10-2011, 02:23 PM   #3
2004rs
Junior Member
 
Location: CA

Join Date: May 2011
Posts: 2
Default how to do this in Galaxy?

Another newbie question - is this capability integrated into Galaxy? I am having trouble figuring out the Galaxy "Operating on Genomic Intervals" tools capabilities. I have sequencing reads mapped using bowtie and would like to find the read count for reads that fall into genomic intervals tables downloaded from the UCSC Table Browswer, like sno/miRNAs or RefSeq genes.
Alternatively I can go outside Galaxy and use some of the tools that kopi-o suggested.
Thanks!
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