PHATE - Potential of Heat-Diffusion for Affinity-Based Transition Embedding
Convert a PHATE object to a data.frame
Convert a PHATE object to a matrix
Check that the current PHATE version in Python is up to date.
KMeans on the PHATE potential Clustering on the PHATE operator as intr...
Convert a PHATE object to a data.frame for ggplot
Install PHATE Python Package
Performs L1 normalization on input data such that the sum of expressio...
Run PHATE on an input data matrix
Plot a PHATE object in base R
Print a PHATE object
Summarize a PHATE object
PHATE is a tool for visualizing high dimensional single-cell data with natural progressions or trajectories. PHATE uses a novel conceptual framework for learning and visualizing the manifold inherent to biological systems in which smooth transitions mark the progressions of cells from one state to another. To see how PHATE can be applied to single-cell RNA-seq datasets from hematopoietic stem cells, human embryonic stem cells, and bone marrow samples, check out our publication in Nature Biotechnology at <doi:10.1038/s41587-019-0336-3>.