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CNV module VS SV module: very tiny overlap
I'm running GenomeStrip 2.0.1592 both SV and CNV modules on the same sample NA12878.
But I'm getting a very tiny overlap between the "Pass" Calls.
Range SVcalls CNVcalls Overlap
1 0 0 0
300 0 0 0
500 43 0 0
700 112 154 1
1000 393 805 3
5000 107 24 2
10000 36 3 1
50000 15 0 0
I think there is something wrong with the CNV module. In fact one problem might be I'm getting many fragment calls, as pointed out already in this discussion:
Can you please help me out with that?
Any help would much appreciated.
Thanks a lot in advance.