setThreads: Set the number of threads to use for parallel processing in...

In Seurat: Tools for Single Cell Genomics

Set the number of threads to use for parallel processing in Seurat

Description

Set the number of threads to use for parallel processing in Seurat

Usage

setThreads(n = NULL, verbose = TRUE)

Arguments

n	Number of threads (>= 1) to use for processing. If NULL, will be set to (available cores / 2).
verbose	Whether to print the number of threads set and available cores to the console

Details

The default is one thread. Calling setThreads() without specifying n selects half the available cores. This setting applies to supported C++ kernels in NormalizeData, FindVariableFeatures, ScaleData, SCTransform, RunPCA, FindNeighbors, FindClusters, and CCA/RPCA integration. RunUMAP also passes this setting to the uwot backend. Support depends on the input type, backend, and arguments; not every stage of these functions can be run in parallel.

Note that this thread setting is separate from plan.

See Also

getThreads

Seurat documentation built on Oct. 3, 2026, 5:06 p.m.