Filter a bipartite graph's genes by number of mutations

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

filter_by_mutation_frequency(bgr, min_times_mut, sample_is = TRUE)

Arguments

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

Value

a vector of (unique) gene names

Examples

library(wext)
suppressPackageStartupMessages(library(tidygraph))
bgr <- make_sample_gene_bipartite(
    simple_dataset$sample_name,
    simple_dataset$mutated_gene
)
filter_by_mutation_frequency(bgr, 2)
#> [1] "a" "c" "d" "e" "b" "g"
filter_by_mutation_frequency(bgr, 3)
#> [1] "a" "c" "d" "b"
filter_by_mutation_frequency(bgr, 4, sample_is = FALSE)
#> [1] "1" "2"