calculate_relative_overlap1d {idr2d} | R Documentation

## Relative Anchor Overlap of two Peaks

### Description

Calculates the overlap between anchor A of interaction 1 and anchor A of interaction 2, as well as anchor B of interaction 1 and anchor B of interaction 2. The overlap (in nucleotides) is then normalized by the length of the anchors.

### Usage

    calculate_relative_overlap1d(peak1_start, peak1_end, peak2_start, peak2_end)

### Arguments

`peak1_start` | integer vector; genomic start coordinate(s) of peak in replicate 1
`peak1_end` | integer vector; genomic end coordinate(s) of peak in replicate 1
`peak2_start` | integer vector; genomic start coordinate(s) of peak in replicate 2
`peak2_end` | integer vector; genomic end coordinate(s) of peak in replicate 2

### Value

numeric vector; relative overlaps between peak pairs

### Examples

    # 100% overlap
    calculate_relative_overlap1d(100, 120,
                             100, 120)

    # 50% overlap
    calculate_relative_overlap1d(100, 120,
                             100, 110)

    # negative overlap
    calculate_relative_overlap1d(100, 120,
                             130, 140)

    # larger negative overlap
    calculate_relative_overlap1d(100, 120,
                             200, 220)

    # vectorized example
    calculate_relative_overlap1d(c(100, 100, 100, 100),
                             c(120, 120, 120, 120),
                             c(100, 100, 130, 200),
                             c(120, 110, 140, 220))

[Package idr2d version 1.4.0 Index]