How to interpret CNV result and do visualization
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7.7 years ago
ShirleyDai ▴ 50

Hi, I used exomeCNV to do CNV analysis for my WXS data. The main output file (cnv.txt) is as follows:

chr probe_start probe_end coverage targeted.base sequenced.base copy.number logR ratio spec sens average.coverage chr1 32757708 32799227 232042 41520 0 2 -0.1757 0.885337846269121 0.999999992699122 0.999999989882057 5.58868015414258 chr10 17270258 129924468 1989663 144219 0 2 0.0607 1.04297169111272 1 1 13.7961225636012 chr11 65779462 69469242 167587 14885 0 2 0.0408 1.0286840921128 0.999999194656567 0.999999144658339 11.2587840107491 chr12 69201971 130856877 650008 71795 0 2 -0.0616 0.958200851083797 1 1 9.05366668988091 chr13 48877883 49056026 527620 178144 0 2 -0.0774298007670454 0.947744575561477 1 0.9999 2.96176127178013 chr14 105235687 105262080 243824 26394 0 2 -0.109 0.927230546435463 0.999999997045043 0.999999995272007 9.23785708873229

Who knows how to interpret this and what software is suitable for visualization? How can see which part is amplification, duplication or deletion?

Thanks!

CNV exomeCNV visualization • 2.0k views
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