plot_GO_comparison: Make scatter plots of GO enrichment results

In yuliangwang/talklr: Uncover Perturbed Ligand-Receptor Pairs

Description

This function makes scatter plots of GO enrichment results. Diagonal line denotes equal enrichment. GO terms with higher enrichment in talklr pairs are in green; GO terms with higher enrichment in DEG approach are in orange Axis are drawn to scale. Longer axis means larger values.

Usage

plot_GO_comparison(
  go_deg,
  go_product,
  interesting,
  fdr_thresh,
  diff_thresh,
  filename
)

Arguments

go_deg	enrichment table for ligand-receptor pairs identified by the DEG approach. Two required columns are GO.ID and FDR
go_product	enrichment table for ligand-receptor pairs identified by talklr
interesting	a character vector of GO terms to be visualized
fdr_thresh	FDR threshold above which a GO is considered significant
diff_thresh	if differences of -log10(FDR) between the two appraoches are larger than this threshold, the GO terms will be labeled.
filename	name of the file where the scatter plot will be saved.

Value

A scatter plot named filename

yuliangwang/talklr documentation built on Feb. 17, 2020, 5:02 a.m.