Is there a ways to control .fam order?

Caterina

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Aug 2, 2024, 9:55:07 AM8/2/24

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When using --keep <file> flag and providing the list of samples, how is the order set?

Does it keep the order in <file> or it keeps the order in original final (with samples removed)?

I am asking cause another software that uses plink is required to put all the files in the same order as .fam file, so I wanted to know if it was possible to tweak this order.

Or is it simply alphabetically?

Caterina

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Aug 2, 2024, 9:57:28 AM8/2/24

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Sorry for the typo: Is there a way*

Christopher Chang

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Aug 2, 2024, 11:59:45 AM8/2/24

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https://www.cog-genomics.org/plink/2.0/data#indiv_sort

Caterina

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Aug 2, 2024, 12:38:32 PM8/2/24

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Can --indiv-sort 'file'/'f' be used with .bed .bim .fam files? or must it be with .pvar .psam .pgen files?

On Friday, August 2, 2024 at 5:59:45 PM UTC+2 chrch...@gmail.com wrote:

https://www.cog-genomics.org/plink/2.0/data#indiv_sort

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