CellMixS

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see CellMixS.

Evaluate Cellspecific Mixing


Bioconductor version: 3.9

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

Author: Almut Lütge

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

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

Installation

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


if (!require("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")
Explore data integration and batch effects HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews BatchEffect, GeneExpression, SingleCell, Software, Transcriptomics
Version 1.0.2
In Bioconductor since BioC 3.9 (R-3.6) (5 years)
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
System Requirements
URL https://github.com/almutlue/CellMixS
Bug Reports https://github.com/almutlue/CellMixS/issues
See More
Suggests BiocStyle, knitr, rmarkdown, testthat, limma
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Build Report Build Report

Package Archives

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

Source Package CellMixS_1.0.2.tar.gz
Windows Binary CellMixS_1.0.2.zip
Mac OS X 10.11 (El Capitan) CellMixS_1.0.2.tgz
Source Repository git clone https://git.bioconductor.org/packages/CellMixS
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/CellMixS
Bioc Package Browser https://code.bioconductor.org/browse/CellMixS/
Package Short Url https://bioconductor.org/packages/CellMixS/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.9 Source Archive