Title: R interface to EPP-lab, a Java program for exploratory
projection pursuit.
Diff between REPPlab versions 0.2 dated 2013-10-22 and 0.9 dated 2014-09-05
Description: An R Interface to EPP-lab v1.0. EPP-lab is a Java program for projection pursuit using genetic algorithms written by Alain Berro and S. Larabi Marie-Sainte.
Author: Daniel Fischer, Alain Berro, Klaus Nordhausen, Anne Ruiz-Gazen
Maintainer: Daniel Fischer
REPPlab-0.2/REPPlab/inst/java/REPPlab.jar |only
REPPlab-0.9/REPPlab/DESCRIPTION | 10 +-
REPPlab-0.9/REPPlab/MD5 | 40 +++++----
REPPlab-0.9/REPPlab/R/REPPlab.R | 100 ++++++++++++++++++-----
REPPlab-0.9/REPPlab/R/plot.epplabOutlier.R | 7 -
REPPlab-0.9/REPPlab/R/print.epplab.R | 1
REPPlab-0.9/REPPlab/R/summary.epplab.R | 1
REPPlab-0.9/REPPlab/R/summary.epplabOutlier.R | 56 ++++++++----
REPPlab-0.9/REPPlab/data |only
REPPlab-0.9/REPPlab/inst/ChangeLog | 89 +++++++++++++++-----
REPPlab-0.9/REPPlab/inst/java/EPPlab.jar |only
REPPlab-0.9/REPPlab/inst/java/ssj.jar |only
REPPlab-0.9/REPPlab/java |only
REPPlab-0.9/REPPlab/man/EPPlab.Rd | 52 ++++++++---
REPPlab-0.9/REPPlab/man/EPPlabOutlier.Rd | 14 +--
REPPlab-0.9/REPPlab/man/REPPlab-package.Rd | 14 ++-
REPPlab-0.9/REPPlab/man/ReliabilityData.Rd |only
REPPlab-0.9/REPPlab/man/WhitenSVD.Rd | 2
REPPlab-0.9/REPPlab/man/fitted.epplab.Rd | 2
REPPlab-0.9/REPPlab/man/plot.epplab.Rd | 2
REPPlab-0.9/REPPlab/man/plot.epplabOutlier.Rd | 2
REPPlab-0.9/REPPlab/man/predict.epplab.Rd | 2
REPPlab-0.9/REPPlab/man/summary.epplab.Rd | 2
REPPlab-0.9/REPPlab/man/summary.epplabOutlier.Rd | 2
24 files changed, 275 insertions(+), 123 deletions(-)
Title: Power Calculations for GxE and GxG Interactions for GWAS
Diff between powerGWASinteraction versions 1.0.0 dated 2008-11-16 and 1.1.0 dated 2014-09-05
More information about powerGWASinteraction at CRAN
Description: Analytical power calculations for GxE and GxG interactions for case-control studies of candidate genes and genome-wide association studies (GWAS). This includes power calculation for four two-step screening and testing procedures. It can also calculate power for GxE and GxG without any screening.
Author: Charles Kooperberg
Maintainer: Charles Kooperberg
DESCRIPTION | 22 -
INDEX | 4
MD5 |only
NAMESPACE |only
R/powerGWASinteraction.R | 959 +++++++++++++++++++++++++++++++-------------
man/powerGE.Rd |only
man/powerGG.Rd |only
man/powerGWASinteraction.Rd | 71 ---
8 files changed, 715 insertions(+), 341 deletions(-)
Permanent link
Title: Crossover Designs
Diff between Crossover versions 0.1-10 dated 2014-08-27 and 0.1-11 dated 2014-09-05
Description: Package Crossover provides different crossover designs from combinatorial or search algorithms as well as from literature and a GUI to access them.
Author: Kornelius Rohmeyer
Maintainer: Kornelius Rohmeyer
DESCRIPTION | 6 +++---
MD5 | 4 ++--
src/searchCOD.h | 3 +++
3 files changed, 8 insertions(+), 5 deletions(-)
Title: Simple Unified Interface to Read Bitmap Images (BMP,JPEG,PNG)
Diff between readbitmap versions 0.1-2 dated 2013-09-28 and 0.1-4 dated 2014-09-05
Description: Identifies and reads Windows BMP, JPEG and PNG format bitmap
images. Identification defaults to the use of the magic number embedded in
the file rather than the file extension. Reading of JPEG and PNG image
depends on libjpg and libpng libraries. See file INSTALL for details if
necessary.
Author: Gregory Jefferis
Maintainer: Gregory Jefferis
readbitmap-0.1-2/readbitmap/inst |only
readbitmap-0.1-4/readbitmap/DESCRIPTION | 23 ++++++-----
readbitmap-0.1-4/readbitmap/INSTALL |only
readbitmap-0.1-4/readbitmap/MD5 | 35 +++++++++--------
readbitmap-0.1-4/readbitmap/NAMESPACE | 5 ++
readbitmap-0.1-4/readbitmap/NEWS | 18 ++++++++
readbitmap-0.1-4/readbitmap/R/read-any-bitmap.R | 16 +++++++
readbitmap-0.1-4/readbitmap/R/readbitmap-package.R |only
readbitmap-0.1-4/readbitmap/README.md | 37 +++++++++++++-----
readbitmap-0.1-4/readbitmap/man/image_type.Rd | 29 ++++++++------
readbitmap-0.1-4/readbitmap/man/read.bitmap.Rd | 31 ++++++++-------
readbitmap-0.1-4/readbitmap/man/readbitmap-package.Rd |only
readbitmap-0.1-4/readbitmap/tests/test-all.R | 2
readbitmap-0.1-4/readbitmap/tests/testthat |only
14 files changed, 135 insertions(+), 61 deletions(-)
Title: Identify similar cases for qualitative case studies.
Diff between caseMatch versions 1.0 dated 2014-06-24 and 1.0.1 dated 2014-09-05
Description: This package allows users to identify similar cases for qualitative case studies using statistical matching methods.
Author: Rich Nielsen
Maintainer: Rich Nielsen
DESCRIPTION | 6 +++---
MD5 | 4 ++--
R/case.match.R | 2 +-
3 files changed, 6 insertions(+), 6 deletions(-)
Title: R MPFR - Multiple Precision Floating-Point Reliable
Diff between Rmpfr versions 0.5-5 dated 2014-06-19 and 0.5-6 dated 2014-09-05
Description: Rmpfr provides (S4 classes and methods for)
arithmetic including transcendental ("special") functions for
arbitrary precision floating point numbers. To this end, it interfaces to
the LGPL'ed MPFR (Multiple Precision Floating-Point Reliable) Library
which itself is based on the GMP (GNU Multiple Precision) Library.
Author: Martin Maechler
Maintainer: Martin Maechler
ChangeLog | 51 +++++++++
DESCRIPTION | 9 -
MD5 | 61 +++++------
NAMESPACE | 12 +-
R/AllClasses.R | 25 +++-
R/array.R | 20 ++-
R/as.R | 51 +++++++--
R/gmp-convert.R | 22 ++--
R/integrate-Romberg.R | 44 +++++---
R/mpfr.R | 8 +
R/zzz.R | 5
TODO | 19 ++-
build/vignette.rds |binary
inst/doc/Maechler_useR_2011-abstr.pdf |binary
inst/doc/Rmpfr-pkg.pdf |binary
inst/doc/log1mexp-note.pdf |binary
man/Rmpfr-package.Rd | 7 -
man/gmp-conversions.Rd | 7 -
man/integrateR.Rd | 25 +++-
man/mpfr-utils.Rd | 59 +++++++++--
man/mpfr.Rd | 8 -
man/mpfrArray.Rd | 2
man/sumBinomMpfr.Rd | 9 -
src/Rmpfr_utils.h | 17 +--
src/convert.c | 13 +-
src/init.c | 8 +
src/utils.c | 9 +
tests/arith-ex.R | 9 +
tests/bit-repr.R | 66 ++++++++----
tests/bit-repr.Rout.save | 179 ++++++++++++++++++----------------
tests/functionals.R | 4
tests/lowlevel.R |only
32 files changed, 501 insertions(+), 248 deletions(-)
Title: Empirical Bayes Estimation and Inference in R
Diff between REBayes versions 0.48 dated 2014-08-13 and 0.50 dated 2014-09-05
Description: Kiefer-Wolfowitz maximum likelihood estimation for mixtures models
and some other density estimation and regression methods based on convex optimization.
Author: Roger Koenker
Maintainer: Roger Koenker
DESCRIPTION | 10 ++++++----
MD5 | 10 ++++++----
R/Gompertzmix.R | 4 ++--
R/WGLVmix.R |only
inst/ChangeLog | 10 ++++++++++
man/WGLVmix.Rd |only
man/medde.Rd | 15 +++++++++------
7 files changed, 33 insertions(+), 16 deletions(-)
Title: Prediction Error Curves for Survival Models
Diff between pec versions 2.2.9 dated 2013-03-25 and 2.3.7 dated 2014-09-05
Description: Validation of predicted survival probabilities using inverse
weighting and resampling.
Author: Thomas A. Gerds
Maintainer: Thomas A. Gerds
pec-2.2.9/pec/R/cindexMethods.R |only
pec-2.2.9/pec/R/pecMethods.R |only
pec-2.2.9/pec/R/predictEventProb.rsf.R |only
pec-2.2.9/pec/R/predictSurvProb.randomSurvivalForest.R |only
pec-2.2.9/pec/exa |only
pec-2.2.9/pec/man/resolvemethod.Rd |only
pec-2.2.9/pec/reproducible |only
pec-2.2.9/pec/test |only
pec-2.3.7/pec/DESCRIPTION | 18
pec-2.3.7/pec/MD5 | 159 +--
pec-2.3.7/pec/NAMESPACE | 146 +-
pec-2.3.7/pec/R/CindexBootstrapCrossValidation.R | 6
pec-2.3.7/pec/R/CindexKFoldCrossValidation.R |only
pec-2.3.7/pec/R/ConfInt.Cindex.R | 2
pec-2.3.7/pec/R/R2.R | 52 +
pec-2.3.7/pec/R/Special.R | 29
pec-2.3.7/pec/R/baselineHazard.coxph.R | 2
pec-2.3.7/pec/R/bootstrapCrossValidation.R | 272 ++---
pec-2.3.7/pec/R/calPlot.R | 672 +++++++++----
pec-2.3.7/pec/R/cindex.R |only
pec-2.3.7/pec/R/crps.R | 50 -
pec-2.3.7/pec/R/ibs.R | 1
pec-2.3.7/pec/R/ipcw.R | 679 +++++++------
pec-2.3.7/pec/R/kFoldCrossValidation.R | 181 +--
pec-2.3.7/pec/R/marginal.prodlim.R | 2
pec-2.3.7/pec/R/pec-package.R |only
pec-2.3.7/pec/R/pec.R |only
pec-2.3.7/pec/R/plot.Cindex.R | 11
pec-2.3.7/pec/R/plot.confScoreSurv.R | 3
pec-2.3.7/pec/R/plot.pec.R | 121 ++
pec-2.3.7/pec/R/plotPredictEventProb.R | 57 +
pec-2.3.7/pec/R/plotPredictSurvProb.R | 72 +
pec-2.3.7/pec/R/predictEventProb.R | 166 ++-
pec-2.3.7/pec/R/predictEventProb.coxboost.R | 79 +
pec-2.3.7/pec/R/predictEventProb.pseudoForest.R |only
pec-2.3.7/pec/R/predictEventProb.selectFGR.R | 189 ++-
pec-2.3.7/pec/R/predictLandmark.R |only
pec-2.3.7/pec/R/predictLifeYearsLost.R | 108 +-
pec-2.3.7/pec/R/predictSurvProb.FastBw.R | 5
pec-2.3.7/pec/R/predictSurvProb.R | 543 ++++++----
pec-2.3.7/pec/R/predictSurvProb.cforest.R | 43
pec-2.3.7/pec/R/predictSurvProb.ctree.R | 25
pec-2.3.7/pec/R/predictSurvProb.penfitS3.R | 30
pec-2.3.7/pec/R/predictSurvProb.pseudoForest.R |only
pec-2.3.7/pec/R/print.Cindex.R | 1
pec-2.3.7/pec/R/print.ConfScoreSurv.R | 1
pec-2.3.7/pec/R/print.IPCW.R | 3
pec-2.3.7/pec/R/print.R2.R | 1
pec-2.3.7/pec/R/print.crps.R | 1
pec-2.3.7/pec/R/print.method.R | 3
pec-2.3.7/pec/R/print.multiSplitTest.R | 3
pec-2.3.7/pec/R/print.pec.R | 183 ++-
pec-2.3.7/pec/R/print.splitMethod.R | 3
pec-2.3.7/pec/R/print.vandeWielTest.R | 3
pec-2.3.7/pec/R/pseudoPecMethods.R | 125 --
pec-2.3.7/pec/R/resolveSplitMethod.R | 37
pec-2.3.7/pec/R/selectCox.R |only
pec-2.3.7/pec/R/simCost.R |only
pec-2.3.7/pec/R/summary.Cindex.R | 149 +--
pec-2.3.7/pec/R/summary.confScoreSurv.R | 5
pec-2.3.7/pec/R/summary.pec.R | 5
pec-2.3.7/pec/R/survest.aalen.R | 2
pec-2.3.7/pec/R/survest.cox.aalen.R | 2
pec-2.3.7/pec/R/testResiduals.R | 2
pec-2.3.7/pec/data/Pbc3.csv.gz |only
pec-2.3.7/pec/man/GBSG2.Rd | 56 -
pec-2.3.7/pec/man/Pbc3.Rd |only
pec-2.3.7/pec/man/R2.Rd | 103 +-
pec-2.3.7/pec/man/Special.Rd | 106 +-
pec-2.3.7/pec/man/calPlot.Rd |only
pec-2.3.7/pec/man/cindex.Rd | 533 +++++-----
pec-2.3.7/pec/man/cost.Rd | 63 -
pec-2.3.7/pec/man/coxboost.Rd | 82 -
pec-2.3.7/pec/man/crps.Rd | 93 -
pec-2.3.7/pec/man/ipcw.Rd | 180 ++-
pec-2.3.7/pec/man/pec.Rd | 841 ++++++++---------
pec-2.3.7/pec/man/pecCforest.Rd | 37
pec-2.3.7/pec/man/plot.pec.Rd | 231 ++--
pec-2.3.7/pec/man/plotPredictEventProb.Rd | 161 +--
pec-2.3.7/pec/man/plotPredictSurvProb.Rd | 159 +--
pec-2.3.7/pec/man/predictEventProb.Rd | 95 -
pec-2.3.7/pec/man/predictLifeYearsLost.Rd | 92 -
pec-2.3.7/pec/man/predictSurvProb.Rd | 176 +--
pec-2.3.7/pec/man/print.pec.Rd | 51 -
pec-2.3.7/pec/man/resolvesplitMethod.Rd |only
pec-2.3.7/pec/man/selectCox.Rd | 50 -
pec-2.3.7/pec/man/selectFGR.Rd | 92 +
pec-2.3.7/pec/man/simCost.Rd |only
88 files changed, 4332 insertions(+), 3121 deletions(-)
Title: Multivariate Dependence with Copulas
Diff between copula versions 0.999-10 dated 2014-06-19 and 0.999-11 dated 2014-09-05
Description: Classes (S4) of commonly used elliptical, Archimedean, extreme
value and some more copula families. Methods for density, distribution,
random number generation, bivariate dependence measures, perspective and
contour plots. Fitting copula models including variance estimates.
Independence and serial (univariate and multivariate) independence tests,
and other copula related tests. Empirical copula and multivariate CDF.
Goodness-of-fit tests for copulas based on multipliers, the parametric
bootstrap with several transformation options.
Merged former package 'nacopula' for nested Archimedean copulas: Efficient
sampling algorithms, various estimators, goodness-of-fit tests and related
tools and special functions.
Author: Marius Hofert
Maintainer: Martin Maechler
ChangeLog | 4
DESCRIPTION | 26 +-
MD5 | 116 ++++-----
NAMESPACE | 8
R/Copula.R | 4
R/acR.R | 6
R/asymExplicitCopula.R | 2
R/aux-acopula.R | 50 ++--
R/claytonCopula.R | 2
R/cop_objects.R | 7
R/derCdfPdf.R | 4
R/estimation.R | 33 +-
R/fitCopula.R | 62 ++---
R/fitMvdc.R | 7
R/gofTests.R | 13 -
R/gofTrafos.R | 526 +++++++++++++++++++++-----------------------
R/graphics.R | 3
R/mvdc.R | 4
R/nacopula.R | 15 -
R/pairsRosenblatt.R | 39 +--
R/special-func.R | 3
R/wrapper.R | 8
TODO | 8
build/vignette.rds |binary
demo/00Index | 3
demo/G_ak.R | 2
demo/QARClayton.R | 80 +++---
demo/dDiag-plots.R | 10
demo/dnac-demo.R | 35 +-
demo/estimation.gof.R | 9
demo/gof_graph.R | 6
demo/gof_radial.R | 6
demo/qrng.R |only
inst/NEWS.Rd |only
inst/Rsource/dnac.R | 42 ++-
inst/Rsource/estim-gof-fn.R | 66 ++---
inst/doc/Frank-Rmpfr.pdf |binary
inst/doc/nacopula-pkg.pdf |binary
inst/doc/rhoAMH-dilog.pdf |binary
inst/docs/netsrc/sgen.for | 152 ++++++------
inst/docs/obsolete/sgen.f | 222 +++++++++---------
man/K.Rd | 3
man/SMI.12.Rd | 2
man/Sibuya.Rd | 15 -
man/acR.Rd | 2
man/cCopula.Rd | 14 -
man/ellipCopula.Rd | 2
man/emde.Rd | 8
man/empcop.Rd | 8
man/fitCopula.Rd | 6
man/fitMvdc.Rd | 15 -
man/getAcop.Rd | 37 ++-
man/gnacopula.Rd | 73 ------
man/gofCopula.Rd | 6
man/gofTrafos.Rd | 175 +++++++-------
man/gofTstat.Rd | 6
man/onacopula.Rd | 6
man/pairsRosenblatt.Rd | 9
man/pobs.Rd | 6
tests/estim-ex.R | 8
60 files changed, 1000 insertions(+), 984 deletions(-)
Title: The Rebmix Package
Diff between rebmix versions 2.6.1 dated 2014-07-24 and 2.6.2 dated 2014-09-05
Description: R functions for random univariate and multivariate finite mixture generation, number of components, component weights and component parameters estimation, printing and plotting of finite mixtures, bootstrapping and class membership prediction. Variables can be either continuous or discrete, may follow normal, lognormal, Weibull, gamma, binomial, Poisson or Dirac parametric families and should be independent within components.
Author: Marko Nagode [aut, cre]
Maintainer: Marko Nagode
DESCRIPTION | 8
MD5 | 67 +--
NAMESPACE | 3
R/IC.R | 3
R/REBMIX.R | 68 ++-
R/RNGMIX.R | 9
R/boot.R | 47 --
R/demix.R | 13
R/densHistogram.x.R | 3
R/densHistogram.xy.R | 4
R/kseq.R |only
R/plot.REBMIX.R | 12
R/predict.list.R | 2
data/truck.rda |only
data/weibullnormal.rda |only
demo |only
inst/NEWS.Rd | 12
inst/doc/rebmix.R | 2
inst/doc/rebmix.Rnw | 4
inst/doc/rebmix.pdf |binary
man/REBMIX.Rd | 29 -
man/RNGMIX.Rd | 3
man/boot.Rd | 2
man/demix.Rd | 6
man/dfmix.Rd | 2
man/kseq.Rd |only
man/truck.Rd |only
man/weibullnormal.Rd |only
src/Rrebmix.c | 711 +++++++++++++++++++--------------
src/rebmixf.c | 1005 ++++++++++++++++++++++++++----------------------
src/rebmixf.h | 29 -
src/rngmixf.c | 14
vignettes/algorithm.pdf |binary
vignettes/rebmix.Rnw | 4
vignettes/rebmix.bib | 2
35 files changed, 1171 insertions(+), 893 deletions(-)
Title: Classic, reloaded and adaptive FastICA algorithms
Diff between fICA versions 1.0-0 dated 2013-11-24 and 1.0-1 dated 2014-09-05
Description: The package includes classic symmetric and deflation-based FastICA algorithms, reloaded deflation-based FastICA and an algorithm for adaptive deflation-based FastICA using multiple contrast functions.
Author: Jari Miettinen, Klaus Nordhausen, Hannu Oja, Sara Taskinen
Maintainer: Jari Miettinen
fICA-1.0-0/fICA/man/contrasts.Rd |only
fICA-1.0-1/fICA/DESCRIPTION | 8 ++++----
fICA-1.0-1/fICA/MD5 | 12 ++++++------
fICA-1.0-1/fICA/inst/ChangeLog | 8 +++++++-
fICA-1.0-1/fICA/man/adapt_fICA.Rd | 14 +++++++-------
fICA-1.0-1/fICA/man/fICA-package.Rd | 6 +++---
fICA-1.0-1/fICA/man/fICA.Rd | 6 +++---
fICA-1.0-1/fICA/man/nonlinearities.Rd |only
8 files changed, 30 insertions(+), 24 deletions(-)
Title: Maximum Likelihood Estimation for Gene-by-Measured Environment
Interaction Models
Diff between GxM versions 1.0 dated 2013-10-09 and 1.1 dated 2014-09-05
Description: Quantifying and testing gene-by-measured-environment interaction in behavior genetic designs.
Author: Hao Zheng and Paul Rathouz
Maintainer: Hao Zheng
DESCRIPTION | 10 +++++-----
MD5 | 22 +++++++++++-----------
NAMESPACE | 5 +++++
R/initialization_chol.R | 31 ++++++++++++++++++++++++++-----
R/initialization_corr.R | 31 ++++++++++++++++++++++++++-----
R/initialization_nlmain.R | 4 ++--
R/print.GxMclass.R | 4 +---
R/print.summaryGxMclass.R | 3 ++-
R/summaryGxM.R | 3 ++-
man/GxM.Rd | 11 +++++++----
man/checkGxM.Rd | 26 ++++++++++++++++++++------
man/summaryGxM.Rd | 12 +++++++-----
12 files changed, 114 insertions(+), 48 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-04-20 1.1
2014-03-04 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-05-30 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-05-20 1.0.6
2014-05-17 1.0.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2013-03-08 1.0.9
2013-02-22 1.0.8
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-04-11 1.6.4
2013-03-14 1.6.3
2013-03-07 1.6.2
2012-10-04 1.5.8
2012-07-24 1.5.7
2012-07-16 1.5.6
2012-04-16 1.5.2
2012-04-13 1.5.1
2012-01-15 1.4-3
2011-07-07 1.4-1
2011-06-06 1.4
2011-02-23 1.3-1
2011-02-21 1.2
2010-04-22 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2013-12-11 1.2.3
2013-06-15 1.2.2
2013-04-25 1.2.1
2013-04-08 1.1
2012-11-20 1.0
Title: Multiple Testing for Hypotheses with Hierarchical or Group
Structure
Diff between structSSI versions 1.0.5 dated 2013-12-03 and 1.1 dated 2014-09-05
Description: Performs multiple testing corrections that take specific structure of hypotheses into account.
Author: Kris Sankaran
Maintainer: Kris Sankaran
structSSI-1.0.5/structSSI/R/Adaptive.GBH.adjp.R |only
structSSI-1.0.5/structSSI/R/Oracle.GBH.adjp.R |only
structSSI-1.0.5/structSSI/R/plotAdjustedHypothesesTree.R |only
structSSI-1.0.5/structSSI/R/plotUnadjustedHypothesesTree.R |only
structSSI-1.0.5/structSSI/man/hypothesesTree.rd |only
structSSI-1.0.5/structSSI/man/plot-methods.Rd |only
structSSI-1.1/structSSI/DESCRIPTION | 12 -
structSSI-1.1/structSSI/MD5 | 58 +++---
structSSI-1.1/structSSI/NAMESPACE | 29 +--
structSSI-1.1/structSSI/R/Adaptive.GBH.R | 100 ++++++----
structSSI-1.1/structSSI/R/BuildEdgelist.R |only
structSSI-1.1/structSSI/R/EstimatedHFDRControl.R |only
structSSI-1.1/structSSI/R/FindRoot.R |only
structSSI-1.1/structSSI/R/HypTreeJSON.R |only
structSSI-1.1/structSSI/R/ListTreePval.R |only
structSSI-1.1/structSSI/R/Oracle.GBH.R | 122 ++++++++-----
structSSI-1.1/structSSI/R/PlotHypTree.R |only
structSSI-1.1/structSSI/R/SignificanceStars.R |only
structSSI-1.1/structSSI/R/gbh_definition.R |only
structSSI-1.1/structSSI/R/hFDR.adjust.R | 87 ++-------
structSSI-1.1/structSSI/R/hFDR.internal.R |only
structSSI-1.1/structSSI/R/stepUp.R |only
structSSI-1.1/structSSI/R/treePValues.R | 5
structSSI-1.1/structSSI/R/tree_definition.R | 78 ++++----
structSSI-1.1/structSSI/R/validHypothesesTree.R | 15 -
structSSI-1.1/structSSI/data |only
structSSI-1.1/structSSI/inst |only
structSSI-1.1/structSSI/man/Adaptive.GBH.Rd | 65 ++----
structSSI-1.1/structSSI/man/EstimatedHFDRControl.Rd |only
structSSI-1.1/structSSI/man/GBH-class.Rd |only
structSSI-1.1/structSSI/man/Oracle.GBH.Rd | 43 ++--
structSSI-1.1/structSSI/man/chlamydiae.Rd |only
structSSI-1.1/structSSI/man/estimate.pi0.Rd | 4
structSSI-1.1/structSSI/man/gtemp.Rd |only
structSSI-1.1/structSSI/man/hFDR.adjust.Rd | 63 +++---
structSSI-1.1/structSSI/man/hypothesesTree.Rd |only
structSSI-1.1/structSSI/man/structSSI-internal.Rd | 15 +
structSSI-1.1/structSSI/man/structSSI-package.Rd | 41 ++--
structSSI-1.1/structSSI/man/treePValues.Rd | 19 --
structSSI-1.1/structSSI/tests/testGBHProcedures.R | 37 +--
structSSI-1.1/structSSI/tests/testHierarchicalMethods.R | 29 +--
41 files changed, 410 insertions(+), 412 deletions(-)