Adding sex and phenotype data to plink datasets

[hilyatuz zahroh]

Dear Chris and everyone,

I run GWAS data analysis with plink and found out that my data has so many missing sex and phenotypes (literally almost all missing). I have this data on a separate file. 
Is there any way to add this missing data into binary file of link?

Thank you 

Best regards,
Hilya

[hilyatuz zahroh]

Dear Chris and everyone,

I run GWAS data analysis with plink and found out that my data has so many missing sex and phenotypes (literally almost all missing). I have this data on a separate file.

Is there any way to add this missing data into the binary file of Plink?

[Bagmi Pattanaik]

Hi

You could do following the instructions here  https://www.cog-genomics.org/plink/1.9/data

as you have mentioned you have the information about the sex and phenotype in another file, you could create .txt file according to the instruction.

plink --file --update-sex sex.txt --pheno pheno.txt

Hope this helps.

Bagmi

[hilyatuz zahroh]

Hi Bagmi,

Thank you very much for answering my question. Is it possible to run this function on bfile? Or will this only work on --file?
Thank you once again.

Hilya

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