Description Details Package options
Tools for single-cell genomics
Tools for single-cell genomics
Seurat uses the following [options()] to configure behaviour:
Seurat.memsafe
global option to call gc() after many operations. This can be helpful in cleaning up the memory status of the R session and prevent use of swap space. However, it does add to the computational overhead and setting to FALSE can speed things up if you're working in an environment where RAM availability is not a concern.
Seurat.warn.umap.uwot
Show warning about the default backend
for RunUMAP
changing from Python UMAP via reticulate to UWOT
Seurat.checkdots
For functions that have ... as a parameter, this controls the behavior when an item isn't used. Can be one of warn, stop, or silent.
Seurat.limma.wilcox.msg
Show message about more efficient Wilcoxon Rank Sum test available via the limma package
Seurat.Rfast2.msg
Show message about more efficient Moran's I function available via the Rfast2 package
Seurat.warn.vlnplot.split
Show message about changes to default behavior of split/multi violin plots
Seurat.quietstart
Show package startup messages in interactive sessions
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