prep_pgen: Read .pgen file into R
In simingz/ctwas: Adjusting for genetic confounders in transcriptome-wide association studies improves discovery of risk genes of complex traits
View source: R/ctwas_read_data.R
prep_pgen R Documentation
Read .pgen file into R
Description
Read .pgen file into R
Usage
prep_pgen(pgenf, pvarf)
Arguments
pgenf
.pgen file or .bed file
pvarf
.pvar file or .bim file with have proper
header. Matching 'pgenf'.
Value
A matrix of allele count for each variant (columns) in each sample
(rows). ALT allele in pvar file is counted (A1 allele in .bim file is the ALT
allele).
simingz/ctwas documentation built on July 16, 2025, 6:30 p.m.
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View source: R/ctwas_read_data.R
| prep_pgen | R Documentation |
Read .pgen file into R
Description
Read .pgen file into R
Usage
prep_pgen(pgenf, pvarf)
Arguments
pgenf |
.pgen file or .bed file |
pvarf |
.pvar file or .bim file with have proper header. Matching 'pgenf'. |
Value
A matrix of allele count for each variant (columns) in each sample (rows). ALT allele in pvar file is counted (A1 allele in .bim file is the ALT allele).
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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