plrs: Piecewise Linear Regression Splines (PLRS) for the association between DNA copy number and gene expression
Version 1.16.0

The present package implements a flexible framework for modeling the relationship between DNA copy number and gene expression data using Piecewise Linear Regression Splines (PLRS).

Browse man pages Browse package API and functions Browse package files

AuthorGwenael G.R. Leday
Bioconductor views Regression
Date of publicationNone
MaintainerGwenael G.R. Leday to <gleday@few.vu.nl>
LicenseGPL (>=2.0)
Version1.16.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("plrs")

Man pages

criteria: Compute AIC, AICC, BIC and OSAIC for a given 'plrs' model.
modify.conf: Modify the configuration (of calls) of the plrs model
neveCN17: Copy number for chromosome 17.
neveGE17: mRNA expression for chromosome 17.
plot-methods: Plot functions in package 'plrs'
plrs: Fit a (constrained) piecewise linear regression spline
plrs.cb: Uniform confidence bands (CB) for plrs models
plrs-class: Class 'plrs'
plrs-package: Piecewise Linear Regression Splines (PLRS) for the...
plrs.select: Model selection
plrs.select-class: Class 'plrs.select'
plrs.series: Fit plrs models for a series of arrays.
plrs.series-class: Class 'plrs.series'
plrs.sim: Simulation of a plrs model
plrs.test: Likelihood ratio test for a 'plrs' model
predict.plrs: Predict method for 'plrs' models

Functions

Bmat Source code
coef,plrs-method Man page
convertToTime Source code
criteria Man page Source code
criteria,plrs-method Man page
effects,plrs-method Man page
estimateKnots Source code
fitted,plrs-method Man page
knots,plrs-method Man page
make.mat.constr Source code
model.matrix,plrs-method Man page
modify.conf Man page Source code
neveCN17 Man page
neveGE17 Man page
plot,ANY Man page
plot,plrs,ANY-method Man page
plot,plrs.select,ANY-method Man page
plot-methods Man page
plot.plrs Man page Source code
plrs Man page Source code
plrs,ANY Man page
plrs-class Man page
plrs-package Man page
plrs.cb Man page Source code
plrs.fit Source code
plrs.select Man page Source code
plrs.select,ANY Man page
plrs.select-class Man page
plrs.series Man page Source code
plrs.series-class Man page
plrs.sim Man page Source code
plrs.submodels Source code
plrs.test Man page Source code
predict,plrs-method Man page
predict.plrs Man page Source code
print,plrs-method Man page
print,plrs.select-method Man page
print,plrs.series-method Man page
quantileBetabar Source code
residuals,plrs-method Man page
respCI Source code
show,plrs-method Man page
show,plrs.select-method Man page
show,plrs.series-method Man page
summary,plrs-method Man page
summary,plrs.select-method Man page
summary,plrs.series-method Man page

Files

DESCRIPTION
NAMESPACE
R
R/AllClasses.r
R/AllGenerics.r
R/Bmat.r
R/convertToTime.r
R/criteria.r
R/estimateKnots.r
R/make.mat.constr.r
R/modify.conf.r
R/plot.plrs.r
R/plrs-methods.r
R/plrs.cb.r
R/plrs.fit.r
R/plrs.r
R/plrs.select-methods.r
R/plrs.select.r
R/plrs.series-methods.r
R/plrs.series.r
R/plrs.sim.r
R/plrs.submodels.r
R/plrs.test.r
R/predict.plrs.r
R/quantileBetabar.r
R/respCI.r
build
build/vignette.rds
data
data/neveCN17.RData
data/neveGE17.RData
inst
inst/doc
inst/doc/plrs_vignette.R
inst/doc/plrs_vignette.Rnw
inst/doc/plrs_vignette.pdf
man
man/criteria.Rd
man/modify.conf.Rd
man/neveCN17.Rd
man/neveGE17.Rd
man/plot-methods.Rd
man/plrs-class.Rd
man/plrs-package.Rd
man/plrs.Rd
man/plrs.cb.Rd
man/plrs.select-class.Rd
man/plrs.select.Rd
man/plrs.series-class.Rd
man/plrs.series.Rd
man/plrs.sim.Rd
man/plrs.test.Rd
man/predict.plrs.Rd
vignettes
vignettes/mybib.bib
vignettes/plrs_vignette.Rnw
plrs documentation built on May 20, 2017, 9:43 p.m.