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Are Ns counted into DEPTH?
Many thanks for the extremely fast tool!
In the doc it says:
DEPTH The total depth at the position SUM(A, C, T, G, DEL)
While from our test data, it seems that Ns are also counted into DEPTH:
REF POS REF_BASE DEPTH A C G T N INS DEL REF_SKIP FAIL NEAR_MAX_DEPTH
chr1 2228805 G 37139 51 1 23423 9 13655 0 0 0 118 false
chr1 2228806 C 37206 1 32028 0 6 5171 0 0 0 120 false
chr1 2228807 A 37344 30049 17 3 8 7267 0 0 0 119 false
chr1 2228808 C 37977 4 32878 1 4 5090 0 0 0 119 false
chr1 2228809 C 38104 2 34457 0 4 3641 0 0 0 119 false
chr1 2228810 C 38400 2 34764 0 6 3628 1 0 0 119 false
chr1 2228811 G 38413 18 1 23571 1 14817 0 5 0 119 false
chr1 2228812 G 38541 2 0 33592 0 4947 0 0 0 119 false
Could you comment on whether if this in intentional?
Thanks!