goseq_trees: Make fun trees a la topgo from goseq data.

In elsayed-lab/hpgltools: A pile of (hopefully) useful R functions

Make fun trees a la topgo from goseq data.

Description

This seeks to force goseq data into a format suitable for topGO and then use its tree plotting function to make it possible to see significantly increased ontology trees.

Usage

goseq_trees(
  goseq,
  goid_map = "id2go.map",
  score_limit = 0.01,
  overwrite = FALSE,
  selector = "topDiffGenes",
  pval_column = "adj.P.Val"
)

Arguments

goseq	Data from goseq.
goid_map	File to save go id mapping.
score_limit	Score limit for the coloring.
overwrite	Overwrite the trees?
selector	Function for choosing genes.
pval_column	Column to acquire pvalues.

Value

A plot!

See Also

[Ramigo]

elsayed-lab/hpgltools documentation built on May 9, 2024, 5:02 a.m.