CNVnator bin_size is too small
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6.4 years ago
chenyufanxin ▴ 20

Hi, I have 120× whole genome sequencing data with read length around 150bp. In order to make the ratio of average RD and standard deviation 4-5, I tried many different bin_sizes. And I found that when bin_size is 60, the ratio is 4.86709 which meets the requirement. But 60 is too small ,is it normal?

File ren.root
Average RD per bin (1-22) is 53.5458 +- 11.0016 4.86709
Average RD per bin (X,Y)  is 60.7957 +- 12.5815 4.83217
sequence alignment genome • 1.3k views
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