phateR: PHATE - Potential of Heat-Diffusion for Affinity-Based Transition Embedding

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 preprint on bioRxiv at <http://biorxiv.org/content/early/2017/03/24/120378>.

Version: 0.2.7
Depends: R (≥ 3.3), Matrix (≥ 1.2-0)
Imports: methods, stats, graphics, reticulate (≥ 1.4), ggplot2
Suggests: gridGraphics, cowplot
Published: 2018-06-01
Author: Krishnan Srinivasan [aut], Scott Gigante ORCID iD [cre]
Maintainer: Scott Gigante <scott.gigante at yale.edu>
License: GPL-2 | file LICENSE
NeedsCompilation: no
Citation: phateR citation info
Materials: README
CRAN checks: phateR results

Downloads:

Reference manual: phateR.pdf
Package source: phateR_0.2.7.tar.gz
Windows binaries: r-devel: phateR_0.2.7.zip, r-release: phateR_0.2.7.zip, r-oldrel: phateR_0.2.7.zip
OS X binaries: r-release: phateR_0.2.7.tgz, r-oldrel: phateR_0.2.7.tgz
Old sources: phateR archive

Reverse dependencies:

Reverse suggests: Seurat

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