InteractionMatrix Class — InteractionMatrix-class • mariner

The `InteractionMatrix` class extends the `InteractionSet` to provide an interface for accessing the count matrix pulled from Hi-C data.

Usage

InteractionMatrix(assays, interactions, ...)

# S4 method for ANY,GInteractions
InteractionMatrix(assays, interactions, ...)

# S4 method for missing,missing
InteractionMatrix(assays, interactions, ...)

# S4 method for InteractionMatrix
show(object)

# S4 method for InteractionMatrix
rbind(..., deparse.level = 1)

# S4 method for InteractionMatrix
cbind(..., deparse.level = 1)

Arguments

assays, interactions: See ?InteractionSet
...: InteractionMatrix objects to be combined column-wise. All objects must be the same class.
object: InteractionMatrix object.
deparse.level: An integer scalar; see `?base::cbind` for a description of this argument.

Value

An InteractionMatrix (see description)

Details

This class is constructed with the `pullHicPixels()` function when all paired ranges define a single pixel.

See also

[InteractionSet::InteractionSet]

Examples

InteractionMatrix()
#> class: InteractionMatrix 
#> dim: count matrix with 0 interactions and 0 file(s)
#> metadata(0):
#> assays(0):
#> rownames: NULL
#> rowData names(0):
#> colnames: NULL
#> colData names(0):
#> type: GInteractions
#> regions: 0