splineTimeR
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see splineTimeR.
Time-course differential gene expression data analysis using spline regression models followed by gene association network reconstruction
Bioconductor version: 3.9
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 <braselm at helmholtz-muenchen.de>
citation("splineTimeR")):
Installation
To install this package, start R (version "3.6") 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 | R Script | |
| Reference Manual |
Details
| biocViews | DifferentialExpression, GeneExpression, GeneSetEnrichment, GraphAndNetwork, NetworkEnrichment, NetworkInference, Regression, Software, TimeCourse |
| Version | 1.12.0 |
| 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_1.12.0.tar.gz |
| Windows Binary | splineTimeR_1.12.0.zip |
| Mac OS X 10.11 (El Capitan) | splineTimeR_1.12.0.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 |
| Old Source Packages for BioC 3.9 | Source Archive |