LDdecay

/PopLDdecay/bin/PopLDdecay -InVCF ../00.filter/all.varFilter.vcf.gz -SubPop popid.txt -MaxDist 500 -OutStat ld.stat

老师,用上面这个命令,但是跑出来是0,用的是自己的数据,前一步都还正常,不知道popid.txt如何设置,这里是按照示例文件,放了所有样品的集合,但是跑出来是如下这样

the Number of subPop samples[found in VCF] is 0

sub Group Population szie is too small, SubGroup sample size: 0

##begin pair-wise R^2 cal. after filter Remain SNP Number :     0

#% number bin is        1

1%......-->100%.......          ALL done

Used [perl  ../bin/Plot_XX.pl ] to Plot the LDdecay


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  • Wang J 提出于 2022-11-04 16:14