Read genotypes and sample metadata
Usage
read_genotypes(
bed_prefix = NULL,
vcf = NULL,
csv = NULL,
sample_metadata = NULL
)
Arguments
- bed_prefix
Path prefix to PLINK bed/bim/fam (optional)
- vcf
Path to VCF/VCF.GZ (optional)
- csv
Path to CSV file with sample IDs in first column and SNPs in remaining columns (optional)
- sample_metadata
CSV with columns: ID, Sex (M/F), BirthYear (optional)
Value
A list with $G (matrix 0/1/2), $ids (character), $map (data.frame), $meta (data.frame)