Creates a CUSTOM_data object — CUSTOM

Creates a CUSTOM_data object from a tibble or data-frame of custom genomic features.

Usage

CUSTOM_data(dat, keep_rownames_as = NULL)

Arguments

dat: Tibble of custom genomic features. See Details.
keep_rownames_as: Character, the name of the column in which to save the rownames of the input data-frame. Default value is NULL, i.e. rownames will be discarded.

Value

A CUSTOM_data object, i.e. a tibble.

Details

The input data should have one row per marker, and at least the following columns:

chromosome: character column, chromosome on which the feature is located.
position: numeric, the physical position of the feature along the chromosome (in bp) OR
start and end: numeric, starting and end position of the feature (in bp). If there is no position column, it will be constructed as the middle value (mean) between start and end. If there is a position column but no start and/or end columns, these will be set to the values in the position column.
score: numeric, score to be used for the genomic feature.

Examples

x <- get_example_data()

CUSTOM_data(x[["GWAS"]])
#> # A tibble: 35,481 × 6
#>    id                  chromosome position score    start      end
#>    <chr>               <chr>         <dbl> <dbl>    <dbl>    <dbl>
#>  1 ST4.03ch00_45467783 ST4.03ch00 45467783 0.191 45467783 45467783
#>  2 ST4.03ch01_88589716 ST4.03ch01 88589716 1.84  88589716 88589716
#>  3 ST4.03ch02_48614228 ST4.03ch02 48614228 0.381 48614228 48614228
#>  4 ST4.03ch03_62263578 ST4.03ch03 62263578 0.661 62263578 62263578
#>  5 ST4.03ch04_72139135 ST4.03ch04 72139135 0.640 72139135 72139135
#>  6 ST4.03ch05_52040302 ST4.03ch05 52040302 0.346 52040302 52040302
#>  7 ST4.03ch06_59434834 ST4.03ch06 59434834 1.13  59434834 59434834
#>  8 ST4.03ch07_56713057 ST4.03ch07 56713057 0.213 56713057 56713057
#>  9 ST4.03ch08_56937627 ST4.03ch08 56937627 0.843 56937627 56937627
#> 10 ST4.03ch09_61537423 ST4.03ch09 61537423 0.512 61537423 61537423
#> # ℹ 35,471 more rows