calculate_row_col_exclusivity_weights: Calculate the weights for the Row-Column-Exclusivity test
In jhrcook/wext: Weighted Exclusivity Test (WExT)

View source: R/calculate_row_col_exclusivity_weights.R

The weight for each mutation in the Row-Column-Exclusivity test cannot be calculated exactly for most use cases because there is no closed formula and a very large number of possible matrices to consider. Thus, the weights are calculated empirically from a sufficiently large number of samples of possible matrices.

1 2	calculate_row_col_exclusivity_weights(dat, sample_col, mutgene_col, Q = 100, quiet = TRUE)

`dat`	tibble with mutation information
`sample_col`	column of samples names (quoted)
`mutgene_col`	column of genes that are mutated (quoted)
`Q`	number of permutation matrices to use (default is 100)
`quiet`	boolean for showing messages as run permutations (default is `TRUE`)

library(wext)
calculate_row_col_exclusivity_weights(dat = simple_dataset,
                                      sample_col = sample_name,
                                      mutgene_col = mutated_gene,
                                      Q = 5)