CDplotWrapper: CDplotWrapper

In ETHZ-INS/enrichMiR: enrichMiR: miRNA target enrichment analysis

CDplotWrapper

Description

A wrapper around CDplot to work directly with DEA results and a target sets as inputs.

Usage

CDplotWrapper(
  dea,
  sets,
  setName,
  k = 3,
  addN = FALSE,
  by = c("auto", "sites", "score", "best_stype", "type"),
  sameFreq = NULL,
  line.size = 1.2,
  point.size = 0.8,
  checkSynonyms = TRUE,
  pvals = FALSE,
  ...
)

Arguments

dea	A named numeric vector containing the signal for each feature, or a DEA results data.frame (such as produced by major DEA packages, i.e. edgeR, DESeq2 or limma).
sets	The target sets object.
setName	The name of the set to plot in 'sets'.
k	The number of groups to form. Only applicable if by = "sites" or "score".
addN	Logical; whether to add group sizes to their names
by	The variable by which to form the groups; either "sites", "score", "best_stype" or "type". If unspecified, will determine the best depending on the available annotation data.
sameFreq	Logical; whether to divide so as to obtained groups with similar frequencies (rather than groups of similar width)
line.size	Size of the line.
point.size	Size of the points.
pvals	Logical; whether to print the p-values of KS tests between sets
...	Any other argument passed to CDplot.

Value

A ggplot.

ETHZ-INS/enrichMiR documentation built on July 20, 2024, 12:03 a.m.