enrichPlot: enrichPlot

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

enrichPlot

Description

Plots the results of an miRNA enrichment analysis

Usage

enrichPlot(
  res,
  enr.field = c("enrichment", "normalizedEnrichment", "beta", "coefficient",
    "combined.coef"),
  size.field = c("overlap", "set_size"),
  col.field = NULL,
  sig.field = "FDR",
  max.sig.thres = 100,
  min.enr.thres = NULL,
  label.sig.thres = 0.05,
  label.enr.thres = 0,
  label.field = NULL,
  maxLabels = 10,
  opacity = 0.5,
  repel = TRUE
)

Arguments

res	The results of an enrichment analysis, as obtained by the 'getResults' function.
enr.field	The column determining the x axis.
size.field	The column determining the size of the circles.
col.field	The column determining the color of the circles.
sig.field	The column to use as significance or y axis (default 'FDR').
max.sig.thres	The maximum FDR below which to plot. Alternatively, if a number > 1, indicates the number of top points to plot.
min.enr.thres	The minumum (absolute) fold-enrichment above which to plot.
label.sig.thres	The FDR threshold above which to plot the names of the enriched sets (default 0.05).
label.enr.thres	The (absolute) enrichment threshold above which to plot the names of the enriched sets.
label.field	The field to use as labels (defaults to row.names)
maxLabels	The maximum number of labels to plot (default 10).
opacity	The opacity of the bubbles, ranging from 0 to 1 (default 0.5).
repel	Logical; whether to plot labels with 'ggrepel'. This is the default behaviour, but should be turned off if you plan to pass the result to 'ggplotly'.

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