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problem with Tajima's D and ROH for DCMS #23

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spchavan10 opened this issue May 3, 2024 · 0 comments
Open

problem with Tajima's D and ROH for DCMS #23

spchavan10 opened this issue May 3, 2024 · 0 comments

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@spchavan10
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Does anyone knows how to setup Tajima's D file for converting the D scores to p-values by using stat-to-pvalue function.
I mean what should be the window size for that?
"CHROM" "BIN_START" "N_SNPS" "TajimaD"
1 0 2 0.150434
1 500000 2 0.961961
1 1000000 4 -0.392816
1 1500000 2 -0.385007
1 2000000 8 0.717065
1 2500000 8 -0.429805
1 3000000 8 0.423718
1 3500000 6 0.685038
1 4000000 6 0.309805

Here it shows TajimaD score for n_snps, but how should i correlate this with other methods used in the DCMS (like iHS, where IHS score is calculated for each SNP).
Will it be viable if I take bin size or Window size 50 or 100, for obtaining D-score for each SNP?

And What about ROH, how does it works in the DCMS ?

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