Sample K562 RBP Binding Peaks — sample

A curated dataset of RNA-binding protein (RBP) peak calls from the K562 cell line, provided for testing and demonstration of the RNAPeaks visualization functions.

Usage

sample_bed

Format

A data frame with the following columns:

chr: Chromosome identifier (without "chr" prefix, e.g., "1", "X")
start: Peak start coordinate (0-based, BED convention)
end: Peak end coordinate (1-based, BED convention)
tag: Protein or peak identifier
score: Peak score or confidence value
strand: Genomic strand ("+" or "-")

Source

ENCODE Project (https://www.encodeproject.org/)

Examples

data(sample_bed)
head(sample_bed)
#>   chr    start      end           tag score strand
#> 1  21  8401778  8401840 AARS_K562_IDR  1000      +
#> 2  19  4035770  4035869 AARS_K562_IDR  1000      +
#> 3  11 93721690 93721719 AARS_K562_IDR  1000      +
#> 4  19  2270224  2270300 AARS_K562_IDR  1000      +
#> 5   m    12167    12208 AARS_K562_IDR  1000      +
#> 6  16  2760062  2760143 AARS_K562_IDR  1000      +

if (FALSE) { # \dontrun{
  data(sample_bed)
  data(gtf_human)
  PlotGene(bed = sample_bed, geneID = "GAPDH", gtf = gtf_human)
} # }