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 | ||
| 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 |
| 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 | 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 |