diffcyt

DOI: 10.18129/B9.bioc.diffcyt    

Differential discovery in high-dimensional cytometry via high-resolution clustering

Bioconductor version: Release (3.7)

Statistical methods for differential discovery analyses in high-dimensional cytometry data (including flow cytometry, mass cytometry or CyTOF, and oligonucleotide-tagged cytometry), based on (i) high-resolution clustering and (ii) empirical Bayes moderated tests adapted from transcriptomics.

Author: Lukas M. Weber [aut, cre]

Maintainer: Lukas M. Weber <lukmweber at gmail.com>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("diffcyt")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("diffcyt")

 

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Details

biocViews CellBasedAssays, CellBiology, Clustering, FeatureExtraction, FlowCytometry, Proteomics, SingleCell, Software
Version 1.0.6
License MIT + file LICENSE
Depends R (>= 3.5.0)
Imports flowCore, FlowSOM, SummarizedExperiment, S4Vectors, limma, edgeR, lme4, multcomp, dplyr, tidyr, reshape2, magrittr, stats, methods, utils, grDevices, graphics, ComplexHeatmap, circlize, grid
LinkingTo
Suggests BiocStyle, knitr, rmarkdown, HDCytoData, CATALYST
SystemRequirements
Enhances
URL https://github.com/lmweber/diffcyt
BugReports https://github.com/lmweber/diffcyt/issues
Depends On Me
Imports Me
Suggests Me CATALYST
Build Report  

Package Archives

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

Source Package diffcyt_1.0.6.tar.gz
Windows Binary diffcyt_1.0.6.zip
Mac OS X 10.11 (El Capitan) diffcyt_1.0.6.tgz
Source Repository git clone https://git.bioconductor.org/packages/diffcyt
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/diffcyt
Package Short Url http://bioconductor.org/packages/diffcyt/
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Old Source Packages for BioC 3.7 Source Archive

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