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

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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
Date of publication
None
Maintainer
Herbert Braselmann <braselm@helmholtz-muenchen.de>
License
GPL-3
Version
1.2.0

View on Bioconductor

Man pages

networkProperties
Scale-free properties of a network
pathEnrich
Pathway enrichment analysis
splineDiffExprs
Differential expression analysis based on natural cubic...
splineNetRecon
Network reconstruction based on partial correlation method...
splinePlot
Plot spline regression curves of time-course data
TCsimData
Simulated time-course gene expression data set

Files in this package

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