plotInteractions: Plots a contact map of interactions of each sample of an RNA...

In JLP-BioInf/comradesOO: Analysis of RNA Crosslinking Data

Plots a contact map of interactions of each sample of an RNA (interactor) on the RNA of interest

Description

Plots a contact map of interactions of each sample of an RNA (interactor) on the RNA of interest

Usage

plotInteractions(
  cds,
  rna,
  interactor,
  directory = 0,
  a = 1,
  b = 50,
  c = 1,
  d = 50,
  h = 3
)

Arguments

cds	A rnaCrosslinkDataSet object
rna	The RNA of interest
interactor	The RNA to show interactions with
directory	An output directory for the heatmap (use 0 for no output)
a	To make a subsetted plot (left value on x)
b	To make a subsetted plot (right value on x) (use 'max' to plot the whole RNA strand length)
c	To make a subsetted plot (left value on y)
d	To make a subsetted plot (right value on y) (use 'max' to plot the whole RNA strand length)
h	Height of image (inches) (only useful if plotting)

Value

A heatmap of interactions of the RNA (interactor) on the RNA of interest

Examples

cds = makeExamplernaCrosslinkDataSet()

plotInteractions(cds,
            rna = "transcript1",
            interactor = "transcript2",
            b = "max",
            d = "max")

JLP-BioInf/comradesOO documentation built on April 28, 2024, 4:22 a.m.