hyp_to_table: Export hyp/multihyp object to table

In montilab/hypeR: An R Package For Geneset Enrichment Workflows

Export hyp/multihyp object to table

Description

Export hyp/multihyp object to table

Usage

hyp_to_table(hyp_obj, file_path, sep = "\t", cols = NULL, versioning = TRUE)

Arguments

hyp_obj	A hyp or multihyp object
file_path	A file path for hyp objects and directory for multihyp objects
sep	The field separator string
cols	Dataframe columns to include
versioning	Add header with versioning information

Examples

genesets <- msigdb_gsets("Homo sapiens", "C2", "CP:KEGG")

signature <- c("IDH3B","DLST","PCK2","CS","PDHB","PCK1","PDHA1","LOC642502",
               "PDHA2","LOC283398","FH","SDHD","OGDH","SDHB","IDH3A","SDHC",
               "IDH2","IDH1","OGDHL","PC","SDHA","SUCLG1","SUCLA2","SUCLG2")

hyp_obj <- hypeR(signature, genesets, background=2522)

hyp_to_table(hyp_obj, file_path="pathways.txt")

montilab/hypeR documentation built on Oct. 29, 2023, 12:01 p.m.