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Old 02-13-2013, 06:26 AM   #1
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Location: United Kingdom

Join Date: Feb 2013
Posts: 9
Default GSNAP Error message "splicesites file has a negative distance"


I am working with an RNASeq project and am trying to use GSNAP for the same. Splicesites are created with a few warning messages using gff3_splicesites from GMAP package. However, when I use that file further for alignment then, I get an error message "splicesites file has a negative distance XXXX in entry Y ...exiting"

I was wondering if anyone has faced this problem before and does anyone know a fix to this?

Thanks in advance.
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