Entering edit mode
2.5 years ago
giusdalt95
▴
10
Good morning, I would like to convert a merged VCF in a Plink compressed format (.pgen, .psam and .pvar files), so I run
plink2 --vcf MyMerged.vcf.gz --make-pgen --zst-level 3 --out MySamples
It basically works, as it produces such files:
ls -1 MySamples
MySamples.pgen
MySamples.psam
MySamples.pvar
Nevertheless, I'd need a "MySamples.pgen.zst" file in order to perform some operations, e.g. visualize the resulting matrix in R (see here for more details). Could anybody help me out? Thanks in advance
