R/seuratFunctions.R
seuratRunTSNE.Rd
seuratRunTSNE Computes tSNE from the given sce object and stores the tSNE computations back into the sce object
seuratRunTSNE(
inSCE,
useReduction = c("pca", "ica"),
reducedDimName = "seuratTSNE",
dims = 10,
perplexity = 30,
externalReduction = NULL,
seed = 1
)
(sce) object on which to compute the tSNE
selected reduction algorithm to use for computing tSNE.
One of "pca" or "ica". Default "pca"
.
Name of new reducedDims object containing Seurat tSNE
Default seuratTSNE
.
Number of reduction components to use for tSNE computation.
Default 10
.
Adjust the perplexity tuneable parameter for the underlying
tSNE call. Default 30
.
Pass DimReduc object if PCA/ICA computed through
other libraries. Default NULL
.
Random seed for reproducibility of results.
Default 1
.
Updated sce object with tSNE computations stored