phenopath
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see phenopath.
Genomic trajectories with heterogeneous genetic and environmental backgrounds
Bioconductor version: 3.9
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>
Citation (from within R, enter
citation("phenopath")):
Installation
To install this package, start R (version "3.6") 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")| Vignette Title | HTML | R Script |
| Reference Manual |
Details
| biocViews | Bayesian, GeneExpression, ImmunoOncology, PrincipalComponent, RNASeq, SingleCell, Software |
| Version | 1.8.0 |
| In Bioconductor since | BioC 3.6 (R-3.4) (6.5 years) |
| License | Apache License (== 2.0) |
| Depends | |
| Imports | Rcpp (>= 0.12.8), SummarizedExperiment, methods, stats, dplyr, tibble, ggplot2, tidyr |
| System Requirements | |
| URL |
See More
| Suggests | knitr, rmarkdown, forcats, testthat, BiocStyle, SingleCellExperiment |
| Linking To | Rcpp |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | splatter |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | phenopath_1.8.0.tar.gz |
| Windows Binary | phenopath_1.8.0.zip |
| Mac OS X 10.11 (El Capitan) | phenopath_1.8.0.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 |
| Old Source Packages for BioC 3.9 | Source Archive |