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

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.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("splineTimeR")
AuthorAgata Michna
Bioconductor views DifferentialExpression GeneExpression GeneSetEnrichment GraphAndNetwork NetworkEnrichment NetworkInference Regression TimeCourse
Date of publicationNone
MaintainerHerbert Braselmann <braselm@helmholtz-muenchen.de>
LicenseGPL-3
Version1.4.0

View on Bioconductor

Files

DESCRIPTION
NAMESPACE
R
R/networkProperties.R R/pathEnrich.R R/splineDiffExprs.R R/splineNetRecon.R R/splinePlot.R
build
build/vignette.rds
data
data/TCsimData.rda
data/datalist
inst
inst/doc
inst/doc/splineTimeR.R
inst/doc/splineTimeR.Rnw
inst/doc/splineTimeR.pdf
inst/extdata
inst/extdata/c2.cp.kegg.v5.0.symbols.gmt
man
man/TCsimData.Rd man/networkProperties.Rd man/pathEnrich.Rd man/splineDiffExprs.Rd man/splineNetRecon.Rd man/splinePlot.Rd
vignettes
vignettes/splineTimeR.Rnw
vignettes/splineTimeR.bib

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.