ClassifyR
This is the development version of ClassifyR; for the stable release version, see ClassifyR.
All Bioconductor versions of ClassifyR
3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0
A framework for cross-validated classification problems, with applications to differential variability and differential distribution testing
Bioconductor version: 3.24 · Package version: 3.17.1
The software formalises a framework for classification and survival model evaluation in R. There are four stages; Data transformation, feature selection, model training, and prediction. The requirements of variable types and variable order are fixed, but specialised variables for functions can also be provided. The framework is wrapped in a driver loop that reproducibly carries out a number of cross-validation schemes. Functions for differential mean, differential variability, and differential distribution are included. Additional functions may be developed by the user, by creating an interface to the framework.
Author: Dario Strbenac [aut, cre], Ellis Patrick [aut], Sourish Iyengar [aut], Harry Robertson [aut], Andy Tran [aut], John Ormerod [aut], Graham Mann [aut], Jean Yang [aut]
Maintainer: Dario Strbenac <dario.strbenac at sydney.edu.au>
Citation
From within R, enter citation("ClassifyR"):
Dario Strbenac, Ellis Patrick, Sourish Iyengar, Harry Robertson, Andy Tran, John Ormerod, Graham Mann, Jean Yang. ClassifyR: A framework for cross-validated classification problems, with applications to differential variability and differential distribution testing. doi:10.18129/B9.bioc.ClassifyR, R package version 3.17.1, https://bioconductor.org/packages/ClassifyR.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("ClassifyR")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 3.17.1 |
| License | GPL-3 |
| URL | https://sydneybiox.github.io/ClassifyR/ |
| Last updated | 2026-08-14 |
| In Bioconductor since | BioC 3.0 (R-3.1) (11 years) |
| Downloads rank | 404 of 2,456 |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | Classification, Software, Survival |
| Package Short Url | https://bioconductor.org/packages/ClassifyR/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ClassifyR")| Getting Started with ClassifyR | HTML | R Script |
| ClassifyR Developer's Guide | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Download
Follow the installation instructions to use this package in your R session.
| Source package | ClassifyR_3.17.1.tar.gz |
| Windows binary (x86_64) | ClassifyR_3.17.1.zip |
| macOS binary (arm64) | ClassifyR_3.17.1.tgz |
| macOS binary (x86_64) | ClassifyR_3.17.1.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/ClassifyR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/ClassifyR |
| Package Downloads Report | Download Stats |
Dependencies
Depends: R (>= 4.1.0), generics, methods, S4Vectors, MultiAssayExperiment, BiocParallel, survival
Imports: grid, genefilter, utils, dplyr, tidyr, rlang, ranger, ggplot2 (>= 3.5.0), ggpubr, reshape2, ggupset, broom, dcanr
Suggests: limma, edgeR, car, Rmixmod, gridExtra (>= 2.0.0), cowplot, BiocStyle, pamr, PoiClaClu, knitr, htmltools, gtable, scales, e1071, rmarkdown, IRanges, robustbase, glmnet, class, randomForestSRC, MatrixModels, xgboost, data.tree, ggnewscale, TOP, BiocNeighbors