How do I get ConsistencyDupSNP.sh file required for genotype consistency quality control step of genotyping data obtained from GSA 24 v2.0 ?

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Abhijeet Singh

What program are you using for the analysis?

Pooja Singh

Abhijeet Singh Analysis is performed in plink and for this step I am referring following article. Article Illumina human exome genotyping array clustering and quality control

Since this is a code/script file, it could not be uploaded as .sh. Please remove .txt from file before use (attached: ConsistencyDupSNP.sh). Try if it works.

source: https://github.com/slzhao/ExonChipProcessing/blob/master/ConsistencyDupSNP.sh