PlinkSummary: Summary of PLINK format genotype dataset

Usage

PlinkSummary(DataDir, ResultDir = tempdir(), finput)

Arguments

DataDir: A character string for the file path of the input PLINK binary files.
ResultDir: A character string for the file path of the PLINK program to be set up.
finput: Character string, specifying the prefix of the input PLINK binary files. This file needs to be in DataDir.

Value

This function is called for its side effect: printing summary statistics to the console. It returns NULL invisibly.

Examples

DataDir <- GXwasR:::GXwasR_data()
ResultDir <- tempdir()
finput <- "GXwasR_example"

x <- PlinkSummary(DataDir, ResultDir, finput)
#> ℹ Dataset: GXwasR_example
#> ℹ Number of missing phenotypes: 0
#> ℹ Number of males: 125
#> ℹ Number of females: 151
#> ℹ This is case-control data
#> ℹ Number of cases: 108
#> ℹ Number of controls: 168
#> ℹ Number of cases in males: 53
#> ℹ Number of controls in males: 72
#> ℹ Number of cases in females: 55
#> ℹ Number of controls in females: 96
#> ℹ Number of chromosomes: 12
#>   - Chr: 1
#>   - Chr: 2
#>   - Chr: 3
#>   - Chr: 4
#>   - Chr: 5
#>   - Chr: 6
#>   - Chr: 7
#>   - Chr: 8
#>   - Chr: 9
#>   - Chr: 10
#>   - Chr: 23
#>   - Chr: 24
#> ℹ Total number of SNPs: 26527
#> ℹ Total number of samples: 276