This version of xpclr is good at calculating the xpclr value of big dataset.
However, there exists a question that I can not understand. Why does some SNPs were filtered by xplcr ? The related information come from the log information like this 👍
2020-08-05 00:29:49 : INFO : 63,443 SNPs excluded as invariant or singleton in population 2
2020-08-05 00:29:49 : INFO : 862,709/926,152 SNPs included in the analysis (93.15%)
Are there some standards to filter these SNPs ? or Why these SNPs were filtered ?
Hi @hardingnj ,
This version of xpclr is good at calculating the xpclr value of big dataset.
However, there exists a question that I can not understand. Why does some SNPs were filtered by xplcr ? The related information come from the log information like this 👍
2020-08-05 00:29:49 : INFO : 63,443 SNPs excluded as invariant or singleton in population 2 2020-08-05 00:29:49 : INFO : 862,709/926,152 SNPs included in the analysis (93.15%)
Are there some standards to filter these SNPs ? or Why these SNPs were filtered ?
Could you provide a suggestion, please ?
Thanks a lot, hardingnj.
Yours,
Yuan