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Old 06-26-2014, 01:09 AM   #1
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Location: India

Join Date: Dec 2013
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Thumbs up Weir And Cockerham Fst from PLINK(bed/bim/fam) input files

I want to calculate markerwise Weir And Cockerham Fst for certain differentiating markers. I have my data in PLINK(bed/bim/fam) format. I have scourged the internet for packages to calculate the fst but very few seem to support native plink format directly as an input.

There exists snpstats(bioconductor R package) but the method of calculation seems to be a non standard one.

Can anyone suggest an R package/software that can calculate Fst(preferebly Weir And Cockerham) from PLINK format data as input?
themysticgeek is offline   Reply With Quote

fst, gwas, plink

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