Hi everyone,
I have vcf file in dosage format like 0/0, 0/1 and etc. After filtering for quality, I need to impute the missing value using BEAGLE software so that my variants can be in float numeric format in order to combine with phenotypic data for further analysis. Apart from BEAGLE, if there is any other software that is much easier to use, I would not mind.
Could someone help me with script and guide me through imputation, please. 
Which imputation program are you going to use?