RolDE

This is the development version of RolDE; for the stable release version, see RolDE.

RolDE: Robust longitudinal Differential Expression

Bioconductor version: Development (3.19)

RolDE detects longitudinal differential expression between two conditions in noisy high-troughput data. Suitable even for data with a moderate amount of missing values.RolDE is a composite method, consisting of three independent modules with different approaches to detecting longitudinal differential expression. The combination of these diverse modules allows RolDE to robustly detect varying differences in longitudinal trends and expression levels in diverse data types and experimental settings.

Author: Tommi Valikangas [aut], Medical Bioinformatics Centre [cre]

Maintainer: Medical Bioinformatics Centre <mbc at utu.fi>

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

Installation

To install this package, start R (version "4.4") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("RolDE")

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

Documentation


Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DifferentialExpression, Proteomics, Regression, Software, StatisticalMethod, TimeCourse
Version	1.7.0
In Bioconductor since	BioC 3.15 (R-4.2) (2 years)
License	GPL-3
Depends	R (>= 4.2.0)
Imports	stats, methods, ROTS, matrixStats, foreach, parallel, doParallel, doRNG, rngtools, SummarizedExperiment, nlme, qvalue, grDevices, graphics, utils
System Requirements
URL	https://github.com/elolab/RolDE
Bug Reports	https://github.com/elolab/RolDE/issues

Suggests	knitr, printr, rmarkdown, testthat
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Package Archives

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/RolDE
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/RolDE
Package Short Url	https://bioconductor.org/packages/RolDE/
Package Downloads Report	Download Stats