person("Bjoern", "Bornkamp", email = "bbnkmp@mail.de", comment = c(ORCID = "0000-0002-6294-8185"), role = c("aut", "cre")),
person("Jose", "Pinheiro", role = "aut"),
person("Ludger", "Sandig", role = "aut"))
Suggests: numDeriv, Rsolnp, quadprog, parallel, multcomp, ggplot2,

Title: Test against parametric regression function
Description: Performs hypothesis tests concerning a regression function in a least-squares model, where the null is a parametric function, and the alternative is the union of large-dimensional convex polyhedral cones.
Depends: graphics, grDevices, stats, utils, coneproj, Matrix, MASS
Packaged: 2013-11-22 20:07:10 UTC; marycmeyer

Title: Test Against Parametric Regression Function
Description: Performs hypothesis tests concerning a regression function in a least-squares model, where the null is a parametric function, and the alternative is the union of large-dimensional convex polyhedral cones. See Bodhisattva Sen and Mary C Meyer (2016) <doi:10.1111/rssb.12178> for more details.
Depends: graphics, grDevices, stats, utils, coneproj (>= 1.12), Matrix,
Packaged: 2017-10-02 14:44:29 UTC; xiyueliao

Title: Differential Exon Usage Test for RNA-Seq data via Empirical
Bayes Shrinkage of the Dispersion Parameter
Description: Differential Exon Usage Test for RNA-Seq data via Empirical Bayes Shrinkage of the Dispersion Parameter

Title: Differential Exon Usage Test for RNA-Seq Data via Empirical
Description: Differential exon usage test for RNA-Seq data via an empirical Bayes shrinkage method for the dispersion parameter the utilizes inclusion-exclusion data to analyze the propensity to skip an exon across groups. The input data consists of two matrices where each row represents an exon and the columns represent the biological samples. The first matrix is the count of the number of reads expressing the exon for each sample. The second matrix is the count of the number of reads that either express the exon or explicitly skip the exon across the samples, a.k.a. the total count matrix. Dividing the two matrices yields proportions representing the propensity to express the exon versus skipping the exon for each sample.
Imports: numDeriv, datasets, grDevices, graphics, stats, utils