Get the index position for a gene

Returns the index for a given gene based on the internal gene mapping. This is used for the single cell-related classes and methods.

Usage

get_cell_indices(x, cell_ids, rust_index)

## S7 method for class <bixverse::MetaCells>
get_cell_indices(x, cell_ids, rust_index)

# S3 method for class 'ScMap'
get_cell_indices(x, cell_ids, rust_index)

## S7 method for class <bixverse::SingleCells>
get_cell_indices(x, cell_ids, rust_index)

## S7 method for class <bixverse::SingleCellsSubset>
get_cell_indices(x, cell_ids, rust_index)

Arguments

x

An object to get the gene index from.

cell_ids

String vector. The cell ids to search for.

rust_index

Bool. Shall rust-based indexing be returned.

Value

The indices of the cells

Examples

# R-based positions of two cells
sc <- demo_single_cells(prepped = FALSE)
get_cell_indices(sc, c("cell_001", "cell_002"), rust_index = FALSE)
#> [1] 1 2

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