Question: Extracting Patient Ids From Imputed Genotype Data
1
gravatar for Sheila
5.9 years ago by
Sheila300
United States
Sheila300 wrote:

Can you extract the patient IDs from a imputed genotype data done by MACH? If so, how? I know you can obtain the SNP names but what about the patients?

gwas imputation • 1.3k views
ADD COMMENTlink modified 5.9 years ago by zx87547.3k • written 5.9 years ago by Sheila300
1
gravatar for zx8754
5.9 years ago by
zx87547.3k
London
zx87547.3k wrote:

As far as I know MACH output .mldose file looks like this:

64745 MLDOSE 1 1 0 1 1 1 1 2
64746 MLDOSE 0 2 0 2 2 2 0 2
64747 MLDOSE 0 2 0 2 2 2 0 2
64748 MLDOSE 0 2 1 2 2 2 0 2

Where first column is PatientIDs, so cut -f1 -d" " > myPatientIDs.txt should give you PatientIDs.

ADD COMMENTlink written 5.9 years ago by zx87547.3k
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