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This is the development version of diffcyt; for the stable release version, see diffcyt.
Bioconductor version: Development (3.17)
Statistical methods for differential discovery analyses in high-dimensional cytometry data (including flow cytometry, mass cytometry or CyTOF, and oligonucleotide-tagged cytometry), based on a combination of high-resolution clustering and empirical Bayes moderated tests adapted from transcriptomics.
Author: Lukas M. Weber [aut, cre]
Maintainer: Lukas M. Weber <lukas.weber.edu at gmail.com>
Citation (from within R,
enter citation("diffcyt")
):
To install this package, start R (version "4.3") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") # The following initializes usage of Bioc devel BiocManager::install(version='devel') BiocManager::install("diffcyt")
For older versions of R, please refer to the appropriate Bioconductor release.
Reference Manual |
biocViews | CellBasedAssays, CellBiology, Clustering, FeatureExtraction, FlowCytometry, ImmunoOncology, Proteomics, SingleCell, Software |
Version | 1.19.0 |
In Bioconductor since | BioC 3.7 (R-3.5) (4.5 years) |
License | MIT + file LICENSE |
Depends | R (>= 3.4.0) |
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, testthat, HDCytoData, CATALYST |
SystemRequirements | |
Enhances | |
URL | https://github.com/lmweber/diffcyt |
BugReports | https://github.com/lmweber/diffcyt/issues |
Depends On Me | censcyt, cytofWorkflow |
Imports Me | CyTOFpower, treekoR |
Suggests Me | CATALYST |
Links To Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | |
Windows Binary | |
macOS Binary (x86_64) | |
macOS Binary (arm64) | |
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 | https://bioconductor.org/packages/diffcyt/ |
Package Downloads Report | Download Stats |
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