RolDE
This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see RolDE.
RolDE: Robust longitudinal Differential Expression
Bioconductor version: 3.16
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 [cre, aut]
Maintainer: Tommi Valikangas <tsvali at utu.fi>
citation("RolDE")):
Installation
To install this package, start R (version "4.2") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("RolDE")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("RolDE")| Introduction | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DifferentialExpression, Proteomics, Regression, Software, StatisticalMethod, TimeCourse |
| Version | 1.2.0 |
| 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 |
See More
| Suggests | knitr, printr, rmarkdown, testthat |
| Linking To | |
| 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 | RolDE_1.2.0.tar.gz |
| Windows Binary | RolDE_1.2.0.zip |
| macOS Binary (x86_64) | RolDE_1.2.0.tgz |
| macOS Binary (arm64) | RolDE_1.2.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/RolDE |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/RolDE |
| Bioc Package Browser | https://code.bioconductor.org/browse/RolDE/ |
| Package Short Url | https://bioconductor.org/packages/RolDE/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.16 | Source Archive |