Genotype Files in Sandbox

FinnGen updates genotype data in each Data Release and makes these files available to Sandbox users.

Sandbox directory

Since Data Release 4 genotype data is available in the following sandbox directory:

/finngen/library-red/finngen_R[RELEASE]

The genotype data of releases 1-3 can be found from:

/finngen/library-red/finngen_R[RELEASE]_core_analysis_results

Data files

The data files are described in the following sections:

Imputed genotypes in VCF format

Imputed genotypes in BGEN format

Imputed genotypes in PLINK format

Chip data

Imputed HLA alleles

Principal components analysis (PCA) data

Kinship data

Analysis covariates

Polygenic risk scores (PRS)

Genetic relationships (GRM)

Mosaic chromosomal alternations (mCA)

Prune data (R9)

Imputed STR genotypes (R8)

See Release Notes to view all data releases to the Sandbox.

Note. If multiple versions of the same files exist, use the newest. Readmes should describe the version differences.