plot_enrich_gsea: plot_enrich_gsea

In soulong/bioTools: a bundle of tools faciliating RNAseq DGEs analysis, enrichment analysis

plot_enrich_gsea

Description

dotplot for enrich result from enrich_GSEA

Usage

plot_enrich_gsea(
  enrichment,
  show_category = 10,
  plot_type = "dot",
  filter_by = "-log10(p.adjust)",
  color_by = "NES",
  color_range = c("blue2", "red2"),
  size_by = "Count",
  size_range = c(2, 6),
  text_len_limit = 40,
  facet_by = NULL,
  facet_scales = "free_y"
)

Arguments

enrichment	data.frame, from GSEA enrichment, result can be merged from multi enrichment, grouping info can be viewed by facet
show_category	integer, show enriched category number
plot_type	character, one of dot, bar
filter_by	character, filter show_category by which column, one of -log10(p.adjust), NES, Count
color_by	character, map point color, one of -log10(p.adjust), NES, Count
color_range	two element character vector, mapping color range, from low to high, for gsea plot, the value of NSE = 0 will be white color
size_by	character, map point size, currently, only Count avaible for gseaResult
size_range	two element numeric vector, mapping point size, from low to high only works if plot_type is dot
text_len_limit	integer, wrap y-axis text length
facet_by	character, facet plot by which column in enrichment, default avaible value is direction, user use add aditional column in enrichment
facet_scales	character, facet scales, one of free_y, free_x, "free, fixed, only works if facet_by is not NULL

Value

ggplot2 object

soulong/bioTools documentation built on Aug. 23, 2023, 1:35 a.m.