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Can someone tell me the code to make a subset, as I only want certain samples and I can’t merge with the whole dataset
Thanks
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--keep samples2keep.txt
Provide it a file with a list of sample IDs to retain.
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(09-20-2024, 01:35 PM)AimSmall Wrote: --keep samples2keep.txt
Provide it a file with a list of sample IDs to retain.
Can you provide me with the rest of the command as well thanks
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plink(version number) --bfile "dataset" --keep extractlist --make-bed --out "your sample"
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(09-20-2024, 02:02 PM)AimSmall Wrote: plink(version number) --bfile "dataset" --keep extractlist --make-bed --out "your sample"
Is their a way of doing it for eigenstrat format, because the dataset is in eigrnstrat. Wouldn’t they output it in a different format?
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I don't know. I don't deal in eigenstrat, I convert them as the tools I utilize prefer plink format.
Which code to make a subset?
