Create a Quality Control report for loci

Return QC information to assess loci (MAF, missingness and HWE test).

Usage

qc_report_loci(.x, ...)

# S3 method for class 'tbl_df'
qc_report_loci(.x, ...)

# S3 method for class 'grouped_df'
qc_report_loci(.x, ...)

Arguments

.x

a gen_tibble object.

...

currently unused the HWE test.

Value

a tibble with 3 elements: maf, missingness and hwe_p

Examples

example_gt <- example_gt("grouped_gen_tbl")

example_gt %>% qc_report_loci()
#> # A tibble: 6 × 4
#>   snp_id    maf missingness hwe_p
#>   <chr>   <dbl>       <dbl> <dbl>
#> 1 rs1    0.5          0       1.5
#> 2 rs2    0.417        0.143   1.5
#> 3 rs3    0.0714       0       1.5
#> 4 rs4    0.25         0.143   1.5
#> 5 rs5    0.417        0.143   1.5
#> 6 rs6    0.25         0.143   1.5