phenopath

DOI: 10.18129/B9.bioc.phenopath  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see phenopath.

Genomic trajectories with heterogeneous genetic and environmental backgrounds

Bioconductor version: 3.16

PhenoPath infers genomic trajectories (pseudotimes) in the presence of heterogeneous genetic and environmental backgrounds and tests for interactions between them.

Author: Kieran Campbell

Maintainer: Kieran Campbell <kieranrcampbell 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("phenopath")

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

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("phenopath")

 

HTML	R Script	Vignette Title
PDF		Reference Manual

Details

biocViews	Bayesian, GeneExpression, ImmunoOncology, PrincipalComponent, RNASeq, SingleCell, Software
Version	1.22.0
In Bioconductor since	BioC 3.6 (R-3.4) (5.5 years)
License	Apache License (== 2.0)
Depends
Imports	Rcpp (>= 0.12.8), SummarizedExperiment, methods, stats, dplyr, tibble, ggplot2, tidyr
LinkingTo	Rcpp
Suggests	knitr, rmarkdown, forcats, testthat, BiocStyle, SingleCellExperiment
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me	splatter
Links To Me
Build Report

Package Archives

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

Source Package	phenopath_1.22.0.tar.gz
Windows Binary	phenopath_1.22.0.zip
macOS Binary (x86_64)	phenopath_1.22.0.tgz
macOS Binary (arm64)	phenopath_1.22.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/phenopath
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/phenopath
Bioc Package Browser	https://code.bioconductor.org/browse/phenopath/
Package Short Url	https://bioconductor.org/packages/phenopath/
Package Downloads Report	Download Stats