Dear members,
I have 250 samples which I want to do Quality Control and Imputation. These are distributed in 4 different datasets and 3 different array types.
(1) HumanCoreExome-12v1-1_A. 12 samples (2) InfiniumCoreExome-24v1-1_A 34 + 88 samples (3) InfiniumCoreExome-24v1-3_A1. 116 samples
gencall.smajor18.bed #143648 / gencall.smajor18.bim #551004 variants / gencall.smajor18.fam #116 people
gencall.smajor14.bed #14492 / gencall.smajor14.bim #542585 variants / gencall.smajor14.fam #12 people
gencall.smajor16.bed #81892 / gencall.smajor.16.bim #551839 variants / gencall.smajor.16.fam #34 people
gencall.smajor17.bed #109727 / gencall.smajor17.bim #551839 variants / gencall.smajor17.fam #88people
To my understanding, I should keep only the common variants across the 3 different types of arrays. What is the most convenient way to do such procedure?
