filter_by_mutation_frequency: Filter a bipartite graph's genes by number of mutations
In jhrcook/wext: Weighted Exclusivity Test (WExT)

Description Usage Arguments Value Examples

View source: R/filter_by_mutation_frequency.R

Returns a vector of genes that passes the minimum number of mutations.

1	filter_by_mutation_frequency(bgr, min_times_mut, sample_is = TRUE)

`bgr`	a bipartite edge graph that has the node attributes `type` and `name`; these attributes are not checked for explicitly, but will throw an error if not present
`min_times_mut`	minimum number of mutations per gene
`sample_is`	either `TRUE` or `FALSE` dictating which boolean value corresponds to the samples in the "type" attribute of `bgr`

a vector of (unique) gene names

library(wext)
suppressPackageStartupMessages(library(tidygraph))
bgr <- make_sample_gene_bipartite(
    simple_dataset$sample_name,
    simple_dataset$mutated_gene
)
filter_by_mutation_frequency(bgr, 2)
filter_by_mutation_frequency(bgr, 3)
filter_by_mutation_frequency(bgr, 4, sample_is = FALSE)