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Access per-cell map data for a single sample

Source: R/cache.R
get.cellmap.Rd

Retrieves per-cell data (cluster IDs, cell type IDs, nearest landmarks, or fuzzy graph) for a single sample, transparently reading from on-disk cache when caching is active or from in-memory slots otherwise.

Usage

get.cellmap(x, .slot, .sample)

Arguments

x

A TDRObj processed through get.map().

.slot

Character. One of "clustering", "celltyping", "nearest.lm", "fuzzy.graphs". Legacy names ("clustering.ids", "celltyping.ids", "nearest.landmarks", "fuzzy.graph") are accepted for backward compatibility.

.sample

Character. Sample identifier (must match a name in names(x@cells)).

Value

The per-cell object for that sample and slot: a named character vector (for *ids), an integer matrix (for nearest.lm), or a sparse matrix (for fuzzy.graphs).

See also

get.map, tdr_cache_validate

Examples

if (FALSE) { # \dontrun{
# Get cell type labels for the first sample
ct <- get.cellmap(x = lm.obj,
                  .slot = "celltyping",
                  .sample = names(lm.obj$cells)[1])
} # }