Intersect network target features with input matrix. — intersect

Keep only edges which its target features belong to the input matrix.

Usage

intersect_regulons(mat, network, .source, .target, minsize)

Arguments

mat: Matrix to evaluate (e.g. expression matrix). Target nodes in rows and conditions in columns. rownames(mat) must have at least one intersection with the elements in network .target column.
network: Tibble or dataframe with edges and it's associated metadata.
.source: Column with source nodes.
.target: Column with target nodes.
minsize: Minimum number of targets per source allowed.

Value

Filtered tibble.

Examples

inputs_dir <- system.file("testdata", "inputs", package = "decoupleR")
mat <- readRDS(file.path(inputs_dir, "mat.rds"))
net <- readRDS(file.path(inputs_dir, "net.rds"))
intersect_regulons(mat, net, source, target, minsize=4)
#> # A tibble: 4 × 3
#> # Groups:   source [1]
#>   source target   mor
#>   <chr>  <chr>  <dbl>
#> 1 T3     G06     -0.5
#> 2 T3     G07     -3  
#> 3 T3     G08     -1  
#> 4 T3     G11      1