Welcome to the new bioconductor.org!

splineTimeR

Time-course differential gene expression data analysis using spline regression models followed by gene association network reconstruction


Bioconductor version: Release (3.18)

This package provides functions for differential gene expression analysis of gene expression time-course data. Natural cubic spline regression models are used. Identified genes may further be used for pathway enrichment analysis and/or the reconstruction of time dependent gene regulatory association networks.

Author: Agata Michna

Maintainer: Herbert Braselmann <hbraselmann at online.de>, Martin Selmansberger <martin.selmansberger at helmholtz-muenchen.de>

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

Installation

To install this package, start R (version "4.3") and enter:


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

BiocManager::install("splineTimeR")

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("splineTimeR")
splineTimeR PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews DifferentialExpression, GeneExpression, GeneSetEnrichment, GraphAndNetwork, NetworkEnrichment, NetworkInference, Regression, Software, TimeCourse
Version 1.30.0
In Bioconductor since BioC 3.3 (R-3.3) (8 years)
License GPL-3
Depends R (>= 3.3), Biobase, igraph, limma, GSEABase, gtools, splines, GeneNet (>= 1.2.13), longitudinal (>= 1.1.12), FIs
Imports
System Requirements
URL
See More
Suggests knitr
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 splineTimeR_1.30.0.tar.gz
Windows Binary splineTimeR_1.30.0.zip
macOS Binary (x86_64) splineTimeR_1.30.0.tgz
macOS Binary (arm64) splineTimeR_1.30.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/splineTimeR
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/splineTimeR
Bioc Package Browser https://code.bioconductor.org/browse/splineTimeR/
Package Short Url https://bioconductor.org/packages/splineTimeR/
Package Downloads Report Download Stats