cydar

This package is for version 3.6 of Bioconductor; for the stable, up-to-date release version, see cydar.

Using Mass Cytometry for Differential Abundance Analyses

Bioconductor version: 3.6

Identifies differentially abundant populations between samples and groups in mass cytometry data. Provides methods for counting cells into hyperspheres, controlling the spatial false discovery rate, and visualizing changes in abundance in the high-dimensional marker space.

Author: Aaron Lun <alun at wehi.edu.au>

Maintainer: Aaron Lun <alun at wehi.edu.au>

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

Installation

To install this package, start R (version "3.4") and enter:


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

BiocManager::install("cydar")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation


Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	FlowCytometry, MultipleComparison, Proteomics, SingleCell, Software
Version	1.2.1
In Bioconductor since	BioC 3.5 (R-3.4) (7 years)
License	GPL-3
Depends	BiocParallel, SummarizedExperiment
Imports	viridis, methods, shiny, graphics, stats, grDevices, S4Vectors, flowCore, Biobase, Rcpp
System Requirements	C++11
URL

Suggests	ncdfFlow, testthat, BiocGenerics, knitr, edgeR, limma, glmnet, BiocStyle, flowStats
Linking To	Rcpp
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	cydar_1.2.1.tar.gz
Windows Binary	cydar_1.2.1.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan)	cydar_1.2.1.tgz
Source Repository	git clone https://git.bioconductor.org/packages/cydar
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/cydar
Package Short Url	https://bioconductor.org/packages/cydar/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.6	Source Archive