HVP

This is the development version of HVP; to use it, please install the devel version of Bioconductor.

Hierarchical Variance Partitioning

Bioconductor version: Development (3.22)

HVP is a quantitative batch effect metric that estimates the proportion of variance associated with batch effects in a data set.

Author: Wei Xin Chan [aut, cre] ORCID: 0000-0003-3193-9195

Maintainer: Wei Xin Chan <cweixin at gmail.com>

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

Installation

To install this package, start R (version "4.5") and enter:


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

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

BiocManager::install("HVP")

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("HVP")

Quantifying batch effects with HVP	HTML	R Script
Reference Manual	PDF
LICENSE	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	BatchEffect, GeneExpression, SingleCell, Software, Transcriptomics
Version	0.99.5
In Bioconductor since	BioC 3.22 (R-4.5)
License	MIT + file LICENSE
Depends
Imports	Matrix, methods, stats
System Requirements
URL

Suggests	SingleCellExperiment, SummarizedExperiment, Seurat, SeuratObject, ggplot2, progress, testthat, splatter, scater, devtools, knitr, rmarkdown, BiocStyle, ExperimentHub
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report

Package Archives

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

Source Package	HVP_0.99.5.tar.gz
Windows Binary (x86_64)	HVP_0.99.5.zip
macOS Binary (x86_64)	HVP_0.99.5.tgz
macOS Binary (arm64)	HVP_0.99.5.tgz
Source Repository	git clone https://git.bioconductor.org/packages/HVP
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/HVP
Bioc Package Browser	https://code.bioconductor.org/browse/HVP/
Package Short Url	https://bioconductor.org/packages/HVP/
Package Downloads Report	Download Stats