Description Usage Arguments Details Value Author(s)
Retrieve diffusion map object
1 2 3 4 |
object |
Single Cell Data Set object |
ndims |
Number of dimensions for new embedding |
perplexity |
Perplecity parameter |
theta |
Theta parameter |
pca |
Logical, Perform initial PCA reduction |
seed |
Set random seed |
verbose |
To show output |
use_dist |
Default FALSE. Calculate a distance metric on the data and use this in the Rtsne function. |
dist_fun |
Default NULL. If NULL will use (1 - spearman_correlation(data)) / 2. Otherwise provide a function to use on the data matrix. |
distmat |
Deafult NULL. Optionally give the distance matrix to use to speed up analysis. |
... |
Additional parameters to pass to Rtsne() |
Retrieve diffusion map object
Returns an upadate Single Cell Dataset object
Wajid Jawaid
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