CellGraph Methods

Methods for CellGraph objects for generics defined in other packages

Usage

# S4 method for class 'CellGraph'
show(object)

# S3 method for class 'CellGraph'
subset(x, nodes, ...)

Arguments

object

A CellGraph object

x

A CellGraph object

nodes

A character vector of node names

...

Currently not used

Value

A CellGraph object containing only the specified nodes.

Functions

• show(CellGraph): Show a CellGraph object

• subset(CellGraph): Subset a CellGraph object

Examples

library(pixelatorR)
se <- ReadPNA_Seurat(minimal_pna_pxl_file(), verbose = FALSE)
se <- LoadCellGraphs(se, cells = colnames(se)[1], verbose = FALSE)
cg <- CellGraphs(se)[[1]]

# Show method
cg
#> A CellGraph object containing a bipartite graph with 43543 nodes and 97014 edges
#> Number of markers:  149 

# Subset
cg_small <- subset(cg, nodes = rownames(cg@counts)[1:100])
cg_small
#> A CellGraph object containing a bipartite graph with 100 nodes and 53 edges
#> Number of markers:  149