cydar
Using Mass Cytometry for Differential Abundance Analyses
Bioconductor version: 3.24 · Package version: 1.37.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("cydar")Details
| Maintainer | Aaron Lun <infinite.monkeys.with.keyboards@gmail.com> |
| Author | Aaron Lun [aut, cre] |
| License | GPL-3 |
| System Requirements | C++11 |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | FlowCytometry, ImmunoOncology, MultipleComparison, Proteomics, SingleCell, Software |
| Package Short Url | https://bioconductor.org/packages/cydar/ |
Citation
From within R, enter citation("cydar"):
Aaron Lun. cydar: Using Mass Cytometry for Differential Abundance Analyses. doi:10.18129/B9.bioc.cydar, R package version 1.37.0, https://bioconductor.org/packages/cydar.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | cydar_1.37.0.tar.gz |
| Windows binary (x86_64) | cydar_1.37.0.zip |
| macOS binary (arm64) | cydar_1.37.0.tgz |
| macOS binary (x86_64) | cydar_1.37.0.tgz |
Dependencies
Depends: SingleCellExperiment
Imports: viridis, methods, shiny, graphics, stats, grDevices, utils, BiocGenerics, S4Vectors, BiocParallel, SummarizedExperiment, flowCore, Biobase, Rcpp, BiocNeighbors
LinkingTo: Rcpp
Suggests: ncdfFlow, testthat, rmarkdown, knitr, edgeR, limma, glmnet, BiocStyle, flowStats