get_path_res: Get and save pathway results for ebfit object

In hms-dbmi/drugseqr: GUI to Explore Single-Cell and Bulk RNA-Seq from Fastq to Pathways and Perturbations

Get and save pathway results for ebfit object

Description

Used to avoid code reuse for single-cell and bulk

Usage

get_path_res(
  de,
  goana_path,
  gs_dir,
  species = "Hs",
  genego = NULL,
  gonames = NULL,
  coef = ncol(de),
  nmin = 50,
  max_fdr = 0.05,
  min_abs_logfc = 0
)

Arguments

de	Result of fit_ebayes or link[crossmeta]{get_top_table}
goana_path	Path to save goana Gene Ontology result

Value

List with GO and KEGG results

hms-dbmi/drugseqr documentation built on Feb. 15, 2024, 10:38 p.m.