A set of tools for identifying genes whose differential expression is associated with measurements of other covariates on a continuous scale. These methods rely on generalized additive partially linear models which can be fitted efficiently using a B-spline basis approximation. Still under development: methods for interfacing with objects extending the eSet class and a function to pass linear models in edgeR and DEseq format.
|Date of publication||2012-05-09 04:06:58|
|License||GPL (>= 2)|
fitBspline: Compute B-Spline Basis for Data
fitGAPLM: Fit a Generalized Additive Partially Linear Model on Gene...
head.DEresults: Preview of Data in 'DEresults' object
head.plmDE: Preview of 'plmDE' object
histDEresults: Create a Histogram of P-values
info: Information about an Object
info.plmDE: Obtain Information about 'plmDE' object
limmaPLM: Adapt Additive Partially Linear Models for Testing via...
mostDE: Find Genes with the Most Evidence for Differential Expression
plmDEmodel: Constructor for objects of type 'plmDE'
plmDEmodel.default: Creates a class to hold Expression Data and Other...
plmDE-package: Generalized Additive Partially Linear Models for Gene...
plot.DEresults: Plot Fit of 'DEresults' Model