Description Usage Arguments Value See Also Examples
View source: R/cos_sim_matrix.R
Computes all pairwise cosine similarities between the mutational profiles provided in the two mutation count matrices. The cosine similarity is a value between 0 (distinct) and 1 (identical) and indicates how much two vectors are alike.
1 | cos_sim_matrix(mut_matrix1, mut_matrix2)
|
mut_matrix1 |
96 mutation count matrix (dimensions: 96 mutations X n samples) |
mut_matrix2 |
96 mutation count matrix (dimensions: 96 mutations X m samples) |
Matrix with pairwise cosine similarities (dimensions: n mutational profiles X m mutational profiles)
mut_matrix
,
fit_to_signatures
,
plot_cosine_heatmap
1 2 3 4 5 6 7 8 9 10 11 | ## Get signatures
signatures <- get_known_signatures()
## See the 'mut_matrix()' example for how we obtained the mutation matrix:
mut_mat <- readRDS(system.file("states/mut_mat_data.rds",
package = "MutationalPatterns"
))
## Calculate the cosine similarity between each COSMIC signature and each 96 mutational profile
cos_sim_matrix(mut_mat, signatures)
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