createHTMLReport | R Documentation |
Make GO-Term analysis and print out Report
createHTMLReport(
dat,
output_path,
save_excel = TRUE,
significance_cutoff = 0.05,
do_gse = TRUE,
simplify_ontologies = TRUE,
use_background = TRUE,
store_r_objects = TRUE,
simplify_cutoff = 0.7,
save_plots_as_pdf = TRUE
)
dat |
Dataframe containing variables |
output_path |
Path to HTML output |
save_excel |
Save GO-terms to Excel files |
significance_cutoff |
Specify the cutoff which entries are considered significant |
do_gse |
Conduct GSE analysis |
simplify_ontologies |
Run time-consuming ontology simplification |
use_background |
Use background genes for the analysis |
store_r_objects |
Store clusterProfiler R objects as compressed RDS files to output_path |
simplify_cutoff |
See clusterProfiler::simplify |
save_plots_as_pdf |
Export all plots as PDF to output_path/plots |
cummeRbund cuff object
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