Question: Dosage data single probability to PLINK format
0
gravatar for smb2174
19 months ago by
smb21740
smb21740 wrote:

Hi All,

I have imputed dosage file with just one probability any software that can convert it to PLINK ped/map files? Unfortunately gtool only take the 3 probabilities dosage files

thanks!

imputation • 959 views
ADD COMMENTlink modified 4 months ago by chrchang5233.6k • written 19 months ago by smb21740
1
gravatar for chrchang523
4 months ago by
chrchang5233.6k
United States
chrchang5233.6k wrote:
  1. Use plink 2.0’s —import-dosage and —make-bed flags to generate plink bed/bim/fam files. —hard-call-threshold can be used to control which dosage values get rounded to the nearest integer vs. converted to a missing call.
  2. plink 1.x’s —recode command converts bed/bim/fam to ped/map.
ADD COMMENTlink written 4 months ago by chrchang5233.6k
0
gravatar for chenhongyao6694
4 months ago by
chenhongyao66940 wrote:

I meet the same problem as you,and I wonder that if you have solved the problem.Which software did you use to convert the dosage file to PLINK files? thanks.

ADD COMMENTlink written 4 months ago by chenhongyao66940
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