diff --git a/man/gene_set_enrichment.Rd b/man/gene_set_enrichment.Rd index cf8889a4..bae5ff3a 100644 --- a/man/gene_set_enrichment.Rd +++ b/man/gene_set_enrichment.Rd @@ -42,6 +42,18 @@ into \code{layerB-layerA}.} \value{ A table in long format with the enrichment results using \code{\link[stats:fisher.test]{stats::fisher.test()}}. +\itemize{ +\item \code{OR} odds ratio. +\item \code{Pval} p-value for \code{fisher.test()}. +\item \code{test} group or layer in the \code{modeling_results}. +\item \code{NumSig} Number of genes from the gene set present in \code{modeling_results} & +with \code{fdr < fdr_cut} and \code{t_stat > 0} (unless reverse = TRUE) for \code{test} in +modeling results. +\item \code{SetSize} Number of genes from \code{modeling_results} present in \code{gene_set}. +\item \code{ID} name of gene set. +\item \code{model_type} record of input model type from \verb{modeling results}. +\item \code{fdr_cut} record of input \code{frd_cut}. +} } \description{ Using the layer-level (group-level) data, this function evaluates whether