This site is a development preview. As such the content and styling may not be final and is subject to change before going into production. To see more information about the redesign click here.

Menu

Documentation:

R / CRAN packages and documentation

Support

Please read the posting guide. Post questions about Bioconductor to one of the following locations:

phemd

This is the development version of phemd; for the stable release version, see phemd.

Phenotypic EMD for comparison of single-cell samples

Bioconductor version: Development (3.18)

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

Author: William S Chen [aut, cre]

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

Citation (from within R, enter citation("phemd")):

Installation

To install this package, start R (version "4.3") and enter: 

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("phemd")

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

Documentation

Reference Manual PDF

Details

biocViews Clustering, ComparativeGenomics, DataRepresentation, DimensionReduction, MultipleComparison, Proteomics, Sequencing, SingleCell, Software, Transcriptomics, Visualization
Version 1.17.0
In Bioconductor since BioC 3.9 (R-3.6) (4.5 years)
License GPL-2
Depends R (>= 4.0), 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
Linking To
Suggests knitr
System Requirements
Enhances
URL
See More
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package
Windows Binary phemd_1.17.0.zip
macOS Binary (x86_64) phemd_1.17.0.tgz
macOS Binary (arm64) phemd_1.17.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/phemd
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/phemd
Bioc Package Browser https://code.bioconductor.org/browse/phemd/
Package Short Url https://bioconductor.org/packages/phemd/
Package Downloads Report Download Stats