enrichment_depletion_test {MutationalPatterns} | R Documentation

## Test for enrichment or depletion of mutations in genomic regions

### Description

This function aggregates mutations per group (optional) and performs an enrichment depletion test.

### Usage

    enrichment_depletion_test(x, by = c())

### Arguments

`x` | data.frame result from genomic_distribution()
`by` | Optional grouping variable, e.g. tissue type

### Value

data.frame with the observed and expected number of mutations per genomic region per group (by) or sample

### See Also

`genomic_distribution`, `plot_enrichment_depletion`

### Examples

    ## See the 'genomic_distribution()' example for how we obtained the
    ## following data:
    distr <- readRDS(system.file("states/distr_data.rds",
                        package="MutationalPatterns"))

    tissue <- c(rep("colon", 3), rep("intestine", 3), rep("liver", 3))

    ## Perform the enrichment/depletion test by tissue type.
    distr_test <- enrichment_depletion_test(distr, by = tissue)

    ## Or without specifying the 'by' parameter.
    distr_test2 <- enrichment_depletion_test(distr)

[Package MutationalPatterns version 1.12.0 Index]