Compute pairwise Fisher tests for gene usage

Given a data.frame of gene counts per group, performs Fisher's Exact Test for all pairwise group combinations for each gene.

Usage

TS_compute_pairwise_fisher(df, gene_var, group_var, p_adj_method = "hochberg")

Arguments

df

A data.frame or tibble containing at least two columns: one for genes and one for groups.

gene_var

String; name of the column in df that identifies the gene (e.g. "gene_list").

group_var

String; name of the column in df that identifies the group (e.g. "named_clusters").

p_adj_method

String; method for multiple-testing correction passed to p.adjust (default: "hochberg").

Value

A tibble with columns: gene, group1, group2, p_value, p_adj, p_sig