dot-split_coord_fragments_in_BED: Splits a BED12 file into separate regions

In ActiveDriverWGS: A Driver Discovery Tool for Cancer Whole Genomes

Splits a BED12 file into separate regions

Description

Splits a BED12 file into separate regions

Usage

.split_coord_fragments_in_BED(i, coords)

Arguments

i	The i-th row of the coords data frame which needs to be split into separate elements
coords	The coords data frame which is the imported BED12 file

Value

A data frame containing the following columns for a given BED12 identifier

chr

autosomal chromosomes as chr1 to chr22 and sex chromosomes as chrX and chrY

start

the start position of the element in base 0 coordinates (BED format)

end

the end position of the element in base 0 coordinates (BED format)

id

the element identifier - if the element contains multiple segments such as exons, each segment should be a separate row with the segment coordinates and the element identifier as id. Elements can be coding or noncoding such as exons of protein coding genes or active enhancers.

ActiveDriverWGS documentation built on Sept. 3, 2022, 5:05 p.m.