I am using putty to run plink for this data analysis.
I have been asked to perform a QC on a subset of data from a given dataset. I have used the command to keep the data (plink --bfile data --keep mydata.txt) and it has saved the necessary files as a .txt file.
When I enter (plink --file mydata --maf 0.05) it states that no mydata.ped file exists?
How do I overcome this problem?
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written
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tom.d.brocklehurst •
Changing it to mydata.bed then prompts it to say: ERROR: No file (mydata.bed) exists
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Is this question essentially a duplicate of Creation of a .BED file from .txt ?
I think it might be
We'll close it then.