intervalsDist {HiTC} | R Documentation

## intervalsDist

### Description

Compute the distance of intrachromosomal contacts of a 'C' experiment

### Usage

    intervalsDist(x, use.zero=TRUE)

### Arguments

`x` | object that inherits from class `HTCexp`
`use.zero` | if FALSE, the distance for non interacting regions (zero counts) are not reported

### Details

If A and B are the two sets of intervals and s and e, the start and end of an interval, the distance is calculated as :

\min(|A_e - B_s|, |A_s - B_e|)

Only intrachromsomal contact maps can be use for this operation.

### Value

A matrix of distances between genomic intervals

### Author(s)

N. Servant

### See Also

`HTCexp-class`

### Examples

    data(Nora_5C)

    ## Calculate distances between primers/intervals
    d<-intervalsDist(E14$chrXchrX)

[Package HiTC version 1.32.0 Index]