phemd

DOI: 10.18129/B9.bioc.phemd  

Phenotypic EMD for comparison of single-cell samples

Bioconductor version: Release (3.16)

Package for comparing and generating a low-dimensional embedding of multiple single-cell samples.

Author: William S Chen

Maintainer: William S Chen <wil.yum.chen at gmail.com>

Installation

To install this package, start R (version "4.2") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("phemd")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

PDF		Reference Manual

Details

biocViews	Clustering, ComparativeGenomics, DataRepresentation, DimensionReduction, MultipleComparison, Proteomics, Sequencing, SingleCell, Software, Transcriptomics, Visualization
Version	1.14.1
In Bioconductor since	BioC 3.9 (R-3.6) (4 years)
License	GPL-2
Depends	R (>= 3.5), monocle, Seurat
Imports	SingleCellExperiment, RColorBrewer, igraph, transport, pracma, cluster, Rtsne, destiny, RANN, ggplot2, maptree, pheatmap, scatterplot3d, VGAM, methods, grDevices, graphics, stats, utils, cowplot, S4Vectors, BiocGenerics, SummarizedExperiment, Biobase, phateR, reticulate
LinkingTo
Suggests	knitr
SystemRequirements
Enhances
URL
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Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/phemd
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/phemd
Package Short Url	https://bioconductor.org/packages/phemd/
Package Downloads Report	Download Stats