| go.results.to.latex {cellTree} | R Documentation |
Outputs or writes result tables of Gene Ontology enrichment testing in LaTeX format.
go.results.to.latex(go.results, tex.file.name = "go_terms.tex", topic.colors = rainbow(length(go.results$all)))
go.results |
GO Enrichment result list object, such as returned by |
tex.file.name |
String (optional). If not |
topic.colors |
RGB colour vector (optional). Colors to use for each topic. |
GO enrichment results in LaTeX format
# Load pre-computed LDA model for skeletal myoblast RNA-Seq data from HSMMSingleCell package:
data(HSMM_lda_model)
# Load GO mapping database for 'homo sapiens':
library(org.Hs.eg.db)
# Compute GO enrichment sets for each topic:
go.results = compute.go.enrichment(HSMM_lda_model, org.Hs.eg.db, bonferroni.correct=TRUE)
# Output LaTeX tables for GO results
latex.table = go.results.to.latex(go.results, tex.file.name='go_results.tex')
# [Optional] compile LaTeX to PDF (need to have LaTeX binaries installed):
library('tools')
texi2pdf('go_results.tex')
library('Biobase')
openPDF('go_results.pdf')