calculate_midpoint_distance2d {idr2d} | R Documentation

## Distance between Anchor Midpoints of two Interactions

### Description

Calculates the distance in nucleotides between the anchor midpoints of two interactions, which is the sum of the distance between midpoints of anchor A in interaction 1 and anchor A in interaction 2, and the distance between midpoints of anchor B in interaction 1 and anchor B in interaction 2.

Note: all anchors must be on the same chromosome; start coordinate is always less than end coordinate

### Usage

    calculate_midpoint_distance2d(
      int1_anchor_a_start,
      int1_anchor_a_end,
      int1_anchor_b_start,
      int1_anchor_b_end,
      int2_anchor_a_start,
      int2_anchor_a_end,
      int2_anchor_b_start,
      int2_anchor_b_end
    )

### Arguments

`int1_anchor_a_start` | integer vector; genomic start coordinate(s) of anchor A in replicate 1 interaction
`int1_anchor_a_end` | integer vector; genomic end coordinate(s) of anchor A in replicate 1 interaction
`int1_anchor_b_start` | integer vector; genomic start coordinate(s) of anchor B in replicate 1 interaction
`int1_anchor_b_end` | integer vector; genomic end coordinate(s) of anchor B in replicate 1 interaction
`int2_anchor_a_start` | integer vector; genomic start coordinate(s) of anchor A in replicate 2 interaction
`int2_anchor_a_end` | integer vector; genomic end coordinate(s) of anchor A in replicate 2 interaction
`int2_anchor_b_start` | integer vector; genomic start coordinate(s) of anchor B in replicate 2 interaction
`int2_anchor_b_end` | integer vector; genomic end coordinate(s) of anchor B in replicate 2 interaction

### Value

positive integer vector; distances between interaction pairs

### Examples

    # identical, zero distance
    calculate_midpoint_distance2d(100, 120, 240, 260,
                                  100, 120, 240, 260)

    # centered, zero distance
    calculate_midpoint_distance2d(100, 120, 240, 260,
                                  90, 130, 230, 270)

    # off by 10 per anchor
    calculate_midpoint_distance2d(100, 120, 240, 250,
                                  110, 130, 230, 240)

    # off by 10 (anchor B only)
    calculate_midpoint_distance2d(100, 120, 240, 250,
                                  90, 130, 250, 260)

    # vectorized example
    calculate_midpoint_distance2d(c(100, 100, 100, 100),
                                  c(120, 120, 120, 120),
                                  c(240, 240, 240, 240),
                                  c(260, 260, 250, 250),
                                  c(100, 90, 110, 90),
                                  c(120, 130, 130, 130),
                                  c(240, 230, 230, 250),
                                  c(260, 270, 240, 260))

[Package idr2d version 1.4.0 Index]