Gene set membership matrix generator

gsmemmat_generator.R

library(msigdbr)
library(dplyr)
msigdbr(category = "C8") %>% 
  dplyr::select(gs_name, gene_symbol) %>% 
  distinct(gs_name, gene_symbol) %>% 
  mutate(val = 1) %>% 
  pivot_wider(
    id_cols = gs_name, names_from = gene_symbol, 
    values_from = val, 
    values_fill = 0
  ) %>% 
  tibble::column_to_rownames("gs_name") 

This will create a data.frame where rownames are gene sets and columns are gene symbols. Change the arguments in msigdbr() in order to change the species and the gene sets.

Values are 0 or 1 depending on membership of each gene in each gene set