Plink2. psam file missing in 1000G Phase3
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5.5 years ago
Mr Locuace ▴ 180

Hello, here there is a merged file with all 1000G Phase3 chromosomes:

https://www.cog-genomics.org/plink/2.0/resources#1kg_phase3

They provide the .pgen.zst, .pvar.zst and unannotated .pvar.zst files, but no -psam.zst file. Is there any way to create a psam file out of the two former files, so I can output a binary file after some filtering?

Thanks !

plink2 • 1.8k views
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Entering edit mode
5.5 years ago

"(Quick start: just download the three boldfaced links, and then decompress the .pgen.zst.)"

Look for the third boldfaced link on the top of the page.

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