How to Extract Values for SNPs by each chromosome and position using --window
Hello Folks, How to extract values or data for SNPs rs11020655 & rs7277175 by each chromosome using .bed file I have tried this
%%bash
# --from-kb 0 --to-kb 1000
for i in 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 X Y M
do
plink --bfile Obesity_Send --chr %i --recode --out chr-%i-results --noweb
done
please help
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Pierre Lindenbaum
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written
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Raju •
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written
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Raju •
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if you do have a bed file overlapping the two snps and your vcfs are indexed, the command should be: