Entering edit mode
8.0 years ago
claudia_io_p
•
0
I do GBS with tassel and my vcf file have a lot SNPs with the same position. And I have a lot of question:
Why do SNPs appear with the same position but different values of NS, DP, among others? What does that mean? And what is the cause?
an example of this:
1 523343 S1_523343 A G 20 PASS NS=260;DP=6608;AF=0,46
1 590610 S1_590610 A T 20 PASS NS=266;DP=10670;AF=0,01
1 590610 S1_590610 A T 20 PASS NS=275;DP=10713;AF=0,01
1 592230 S1_592230 A T 20 PASS NS=266;DP=12953;AF=0,26
1 592230 S1_592230 A T 20 PASS NS=273;DP=12999;AF=0,26
