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Get the HVG

get_hvg.Rd

Returns the HVG indices. Pending class type this are 1-based (for R) or 0-based for Rust.

Usage

get_hvg(x)

## S7 method for class <bixverse::MetaCells>
get_hvg(x)

# S3 method for class 'ScMap'
get_hvg(x)

## S7 method for class <bixverse::SingleCells>
get_hvg(x)

## S7 method for class <bixverse::SingleCellsSubset>
get_hvg(x)

Arguments

x

An object to get HVG from.

Value

Indices of the stored HVG genes.

Examples

# stored 0-based, so map them back through the gene names
sc <- demo_single_cells()
get_gene_names_from_idx(sc, head(get_hvg(sc), 3))
#>        43        18         4 
#> "gene_44" "gene_19" "gene_05" 

unlink(sc@dir_data, recursive = TRUE, force = TRUE)