Skip to main content

Table 3 Genotyping file information

From: PRS-on-Spark (PRSoS): a novel, efficient and flexible approach for generating polygenic risk scores

 

Genotyping file format

File size (GB)

SNP count

PRSice v1.25

Array Data

.bim/.bed/.fam

0.03

316,480

Imputed HC

.bim/.bed/.fam

1.66

17,434,284

Imputed PP

.gen/.fam

29.02

17,434,284

PRSoS

Array Data

.gen/.sample

0.51

316,480

Imputed HC

.gen/.sample

28.09

17,434,284

Imputed PP

.gen/.sample

29.02

17,434,284

  1. The file size and SNP count provide an idea of how much data processing needs to be done by each software in our analysis. The file formats that we used in PRSice and PRSoS are different due to differences in file compatibility. All files have the same sample size (N = 264)
Back to article page

BMC Bioinformatics

ISSN: 1471-2105

Contact us