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Old 08-18-2010, 08:03 AM   #1
shangool
Junior Member
 
Location: Austria

Join Date: Aug 2010
Posts: 5
Default SAM file error

Hi,
I want to map pair end reads seq., and look at the seq with IGV, by sampe command, the SAM file is empty but when I make SAM files with samse command everything is fine. With IGV also the files from samse command have the same numbers in the same position in Forward and Reverse seq., but in the SAM file from sampe command all the numbers are shifted and this file is really strange!!
Would you help me?
Thanks
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