Title: Provides a GUI to several statistical methods useful for causal assessment.
Packaged: Tue Jul  8 16:54:04 2008; Lester

Packaged: Tue Jul 22 07:23:20 2008; Lester

Packaged: Tue Jul 29 13:19:46 2008; Lester

Packaged: Thu Sep  4 09:45:40 2008; Lester

Packaged: Tue Sep 16 11:52:26 2008; Lester

Packaged: Thu Jan  1 14:19:16 2009; Lester

Depends: JGR, XML, lattice, bio.infer, gdata, gmodels, car, MASS, quantreg, rpart, rJava

Packaged: Mon Jan 12 19:06:04 2009; Lester

Title: Provides a GUI to several statistical methods useful for causal
Author: Lester Yuan, Tom Stockton, Doug Bronson, Pasha Minallah, and
Depends: JGR, XML, lattice, bio.infer, gdata, gmodels, car, MASS,
scatterplot, boxplot, linear regression, generalized linear
regression, quantile, regression, conditional probability

Title: Provides a GUI to Several Statistical Methods
Imports: rJava, XML, lattice, bio.infer, gdata, gmodels, quantreg,

rpart, JavaGD, car, MASS, iplots, SparseM, MatrixModels,
gtools, png, pbkrtest, lme4, minqa, Rcpp, nloptr
Description: Using Java GUI for R (JGR), CADStat provides a user
interface for several statistical methods -
regression, quantile regression, conditional probability

Title: Analyzes Differential Promoter Composition in CAGE data
Description: CAGExploreR implements an algorithm to calculate and evaluate the statistical significance of the uncertainty coefficient (a.k.a. Theil's U or the proportional entropy reduction). This statistic measures the strength of association between two nominal random variables. One specific application of this package is the detection of differential composition (differences in vectors of proportions) of genes subunits (e.g. promoters) across various biological conditions. The two nominal variables here are the biological conditions and the promoters within genes. The differential composition and the genomic location of these promoters can also be visualized using this package.
Depends: R (>= 3.0.2), edgeR, data.table
Imports: rbamtools, R2HTML, GenomicFeatures, biomaRt, AnnotationDbi