as.data.frame.phate |
Convert a PHATE object to a data.frame |
as.matrix.phate |
Convert a PHATE object to a matrix |
ggplot.phate |
Convert a PHATE object to a data.frame for ggplot |
install.phate |
Install PHATE Python Package |
library.size.normalize |
Performs L1 normalization on input data such that the sum of expression values for each cell sums to 1, then returns normalized matrix to the metric space using median UMI count per cell effectively scaling all cells as if they were sampled evenly. |
phate |
Run PHATE on an input data matrix |
plot.phate |
Plot a PHATE object in base R |
print.phate |
Print a PHATE object |
summary.phate |
Summarize a PHATE object |
tree.data |
Fake branching data for examples |
tree.data.small |
Fake branching data for running examples fast |