Hi,

I need to change the affection status in my PLINK files (data1.bed, data1.bim, data1.fam) **to '2' for all samples**. To do this, I was thinking of:

1\. Convert bed to ped using:

    plink --bfile data1 --recode --tab --out data2

2\. Copy `data1.fam` as `data2.fam`

3\. Change the 6th column of both the `data2.fam` and `data2.ped` files so that the new affection status is '2' for everything

4\. Convert the modified ped file back to bed using:

    plink --ped data2.ped --map data2.map

Do these steps look complete and correct for what I am trying to do?

Thanks
You could:

1) Change the affected status in the fam file. Smaller file, less steps.

or

2) Use the option `--pheno` to use an alternate phenotype.