GenomicInteractions {GenomicInteractions} | R Documentation

## Function to create a GenomicInteractions object

### Description

Create GenomicInteractions objects from two GRanges ojects.

### Usage

    GenomicInteractions(anchor1, anchor2, counts, ...)

    ## S4 method for signature 'GRanges,GRanges,numeric'
    GenomicInteractions(anchor1, anchor2,
      counts, ...)

    ## S4 method for signature 'GInteractions,ANY,ANY'
    GenomicInteractions(anchor1)

    ## S4 method for signature 'GInteractions,numeric,ANY'
    GenomicInteractions(anchor1, anchor2)

    ## S4 method for signature 'numeric,numeric,GRanges'
    GenomicInteractions(anchor1, anchor2,
      counts, ...)

      ## S4 method for signature 'GRanges,GRanges,GenomicRanges_OR_missing'
    GenomicInteractions(anchor1,
      anchor2, counts, ...)

      ## S4 method for signature 'missing,missing,GenomicRanges_OR_missing'
    GenomicInteractions(anchor1,
      anchor2, counts, ...)

    ## S4 method for signature 'ANY,ANY,ANY'
    GenomicInteractions(anchor1, anchor2, counts, ...)

### Arguments

`anchor1, anchor2` | GRanges objects.
`counts` | An integer vector, defaults to 1.
`...` | Additional data to be added to mcols

### Value

a GenomicInteractions object

### Examples

    library(GenomicRanges)

    anchor.one = GRanges(c("chr1", "chr1", "chr1", "chr1"), IRanges(c(10, 20, 30, 20), width=5))
    anchor.two = GRanges(c("chr1", "chr1", "chr1", "chr2"), IRanges(c(100, 200, 300, 50), width=5))
    interaction_counts = sample(1:10, 4)
    test <- GenomicInteractions(anchor.one, anchor.two, counts=interaction_counts)

[Package GenomicInteractions version 1.14.0 Index]