CellMixS

DOI: 10.18129/B9.bioc.CellMixS    

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see CellMixS.

Evaluate Cellspecific Mixing

Bioconductor version: 3.10

Evaluate Cellspecific Mixing Scores (CMS) for different batches/groups in scRNA-seq data.

Author: Almut Lütge

Maintainer: Almut Lütge <almut.luetge at uzh.ch>

Installation

To install this package, start R (version "3.6") and enter:

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

BiocManager::install("CellMixS")

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("CellMixS")

 

HTML	R Script	Explore data integration and batch effects
PDF		Reference Manual
Text		NEWS

Details

biocViews	BatchEffect, GeneExpression, SingleCell, Software, Transcriptomics
Version	1.2.6
In Bioconductor since	BioC 3.9 (R-3.6) (1 year)
License	GPL (>=2)
Depends	kSamples, R (>= 3.6)
Imports	BiocNeighbors, ggplot2, scater, viridis, cowplot, SummarizedExperiment, SingleCellExperiment, tidyr, magrittr, dplyr, ggridges, stats, purrr, listarrays, methods, BiocParallel, BiocGenerics
LinkingTo
Suggests	BiocStyle, knitr, rmarkdown, testthat, limma
SystemRequirements
Enhances
URL	https://github.com/almutlue/CellMixS
BugReports	https://github.com/almutlue/CellMixS/issues
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	CellMixS_1.2.6.tar.gz
Windows Binary	CellMixS_1.2.6.zip
Mac OS X 10.11 (El Capitan)	CellMixS_1.2.6.tgz
Source Repository	git clone https://git.bioconductor.org/packages/CellMixS
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/CellMixS
Package Short Url	https://bioconductor.org/packages/CellMixS/
Package Downloads Report	Download Stats