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Old 02-10-2011, 07:53 AM   #3
Yilong Li
Location: WTSI

Join Date: Dec 2010
Posts: 41

This is how I am running it right now. I have a file called, that contains the shell script you posted above.Then I am just running dindel (step 3) using the options

--outputRealignedBAM --processRealignedBAM
Seems to work fine with me.
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