Title: Quasi-Periodic Time Series Characteristics
Description: Calculate Characteristics of Quasi-Periodic Time Series, e.g. Estuarine Water Levels.
Author: Tom Cox <tom.cox@uantwerp.be>
Maintainer: Tom Cox <tom.cox@uantwerp.be>
Diff between Tides versions 1.1 dated 2015-02-04 and 1.2 dated 2016-09-15
ChangeLog | 2 ++ DESCRIPTION | 10 +++++----- MD5 | 19 +++++++++++-------- NAMESPACE | 3 ++- R/Tides.R | 8 ++++---- R/gapstsExt.R | 50 +++++++++++++++++++++++++++++++------------------- build |only data/data.rda |binary data/example.RData |binary inst/doc/Tides.R |only inst/doc/Tides.Rnw |only man/gapsts.Rd | 3 ++- 12 files changed, 57 insertions(+), 38 deletions(-)
Title: Modern Measures of Population Differentiation
Description: Provides functions for measuring
population divergence from genotypic data.
Author: David Winter [aut, cre],
Peter Green [ctb],
Zhian Kamvar [ctb],
Thierry Gosselin [ctb]
Maintainer: David Winter <david.winter@gmail.com>
Diff between mmod versions 1.3.1 dated 2015-08-27 and 1.3.2 dated 2016-09-15
mmod-1.3.1/mmod/tests/test-all.r |only mmod-1.3.1/mmod/tests/testthat/test_stats.r |only mmod-1.3.1/mmod/vignettes/new.md |only mmod-1.3.2/mmod/DESCRIPTION | 11 +- mmod-1.3.2/mmod/MD5 | 63 +++++++------- mmod-1.3.2/mmod/NAMESPACE | 5 - mmod-1.3.2/mmod/NEWS | 8 + mmod-1.3.2/mmod/R/as.genind.DNAbin.R | 2 mmod-1.3.2/mmod/R/chao_bootstrap.R | 48 +++++++---- mmod-1.3.2/mmod/R/jacknife_pop.R | 4 mmod-1.3.2/mmod/R/rgenotypes.R | 24 ++--- mmod-1.3.2/mmod/R/summarise_bootstrap.R | 120 ++++++++++++++++------------ mmod-1.3.2/mmod/build/vignette.rds |binary mmod-1.3.2/mmod/inst/doc/mmod-demo.Rnw | 5 - mmod-1.3.2/mmod/inst/doc/mmod-demo.pdf |binary mmod-1.3.2/mmod/man/D_Jost.Rd | 9 +- mmod-1.3.2/mmod/man/Gst_Hedrick.Rd | 12 +- mmod-1.3.2/mmod/man/Gst_Nei.Rd | 7 - mmod-1.3.2/mmod/man/Phi_st_Meirmans.Rd | 10 +- mmod-1.3.2/mmod/man/as.genind.DNAbin.Rd | 2 mmod-1.3.2/mmod/man/chao_bootstrap.Rd | 22 ++--- mmod-1.3.2/mmod/man/diff_stats.Rd | 10 +- mmod-1.3.2/mmod/man/diff_test.Rd | 20 ++-- mmod-1.3.2/mmod/man/dist.codom.Rd | 12 +- mmod-1.3.2/mmod/man/harmonic_mean.Rd | 3 mmod-1.3.2/mmod/man/jacknife_populations.Rd | 8 - mmod-1.3.2/mmod/man/mmod.Rd | 8 - mmod-1.3.2/mmod/man/pairwise_D.Rd | 7 - mmod-1.3.2/mmod/man/pairwise_Gst_Hedrick.Rd | 5 - mmod-1.3.2/mmod/man/pairwise_Gst_Nei.Rd | 5 - mmod-1.3.2/mmod/man/rgenotypes.Rd | 5 - mmod-1.3.2/mmod/man/summarise_bootstrap.Rd | 55 +++++++----- mmod-1.3.2/mmod/tests/test-all.R |only mmod-1.3.2/mmod/tests/testthat/test_stats.R |only mmod-1.3.2/mmod/vignettes/mmod-demo.Rnw | 5 - 35 files changed, 287 insertions(+), 208 deletions(-)
Title: Tools for Working with Categorical Variables (Factors)
Description: Helpers for reordering factor levels (including moving
specified levels to front, ordering by first appearance, reversing, and
randomly shuffling), and tools for modifying factor levels (including
collapsing rare levels into other, 'anonymising', and manually 'recoding').
Author: Hadley Wickham [aut, cre],
RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between forcats versions 0.1.0 dated 2016-08-29 and 0.1.1 dated 2016-09-15
DESCRIPTION | 11 +++-- MD5 | 7 ++- NEWS.md |only README.md | 80 ++++++++++++++++++++++++++++++----------- tests/testthat/test-fct_lump.R | 7 ++- 5 files changed, 74 insertions(+), 31 deletions(-)
Title: Analysis of Music and Speech
Description: Analyze music and speech, extract features like MFCCs, handle wave files and their representation in various ways, read mp3, read midi, perform steps of a transcription, ...
Also contains functions ported from the 'rastamat' 'Matlab' package.
Author: Uwe Ligges <ligges@statistik.tu-dortmund.de> with contributions
from Sebastian Krey, Olaf Mersmann, Sarah Schnackenberg, Guillaume Guenard,
Andrea Preusser, Anita Thieler, Johanna Mielke and Claus Weihs, as well as code fragments
and ideas from the former package 'sound' by Matthias Heymann
and functions from 'rastamat' by Daniel P. W. Ellis.
The included parts of the libmad MPEG audio decoder library are
authored by Underbit Technologies.
Maintainer: Uwe Ligges <ligges@statistik.tu-dortmund.de>
Diff between tuneR versions 1.2.1 dated 2014-04-07 and 1.3.0 dated 2016-09-15
tuneR-1.2.1/tuneR/R/zzz.R |only tuneR-1.3.0/tuneR/DESCRIPTION | 20 +++---- tuneR-1.3.0/tuneR/MD5 | 38 +++++++++------ tuneR-1.3.0/tuneR/NAMESPACE | 6 +- tuneR-1.3.0/tuneR/R/getMidiNotes.R |only tuneR-1.3.0/tuneR/R/notenames.R | 18 ++++--- tuneR-1.3.0/tuneR/R/readMidi.R |only tuneR-1.3.0/tuneR/R/readWave.R | 31 +++++++----- tuneR-1.3.0/tuneR/R/smooth.R | 3 - tuneR-1.3.0/tuneR/inst/CITATION | 4 - tuneR-1.3.0/tuneR/inst/example_files |only tuneR-1.3.0/tuneR/man/getMidiNotes.Rd |only tuneR-1.3.0/tuneR/man/lilyinput.Rd | 2 tuneR-1.3.0/tuneR/man/readMidi.Rd |only tuneR-1.3.0/tuneR/man/writeWave.Rd | 17 +++++- tuneR-1.3.0/tuneR/src/global.h | 2 tuneR-1.3.0/tuneR/src/readmp3.c | 1 tuneR-1.3.0/tuneR/tests/Testfiles/midi_mono.mid |only tuneR-1.3.0/tuneR/tests/Testfiles/midi_stereo.mid |only tuneR-1.3.0/tuneR/tests/Testfiles/mp3_mono_170kBit.mp3 |only tuneR-1.3.0/tuneR/tests/Testfiles/mp3_stereo_298kBit.mp3 |only tuneR-1.3.0/tuneR/tests/readMP3Test.R |only tuneR-1.3.0/tuneR/tests/readMP3Test.Rout.save |only tuneR-1.3.0/tuneR/tests/readMidiTest.R |only tuneR-1.3.0/tuneR/tests/readMidiTest.Rout.save |only tuneR-1.3.0/tuneR/tests/readWaveTest.Rout.save | 2 tuneR-1.3.0/tuneR/tests/tuneRTest.Rout.save | 2 27 files changed, 88 insertions(+), 58 deletions(-)
Title: Subgroup Identification Based on Differential Effect Search
Description: Provides function to apply "Subgroup Identification based on Differential Effect Search" (SIDES) method proposed by Lipkovich et al. (2011) <doi:10.1002/sim.4289>.
Author: Marie-Karelle Riviere
Maintainer: Marie-Karelle Riviere <eldamjh@gmail.com>
Diff between SIDES versions 1.4 dated 2016-08-16 and 1.5 dated 2016-09-15
DESCRIPTION | 13 ++-- MD5 | 10 +-- NAMESPACE | 3 R/SIDES_MAIN.R | 27 +++----- man/SIDES-package.Rd | 4 - man/simulation_SIDES.Rd | 153 ++++++++++++++++++++++++------------------------ 6 files changed, 105 insertions(+), 105 deletions(-)
Title: Parallel Analysis for Ordinal and Numeric Data using Polychoric
and Pearson Correlations with S3 Classes
Description: A set of functions to perform parallel analysis for
principal components analysis intended mainly for large data
sets. It performs a parallel analysis of continuous, ordered
(including dichotomous/binary as a special case) or mixed type
of data associated with a principal components analysis.
Polychoric correlations among ordered variables, Pearson
correlations among continuous variables and polyserial
correlation between mixed type variables (one ordered and one
continuous) are used. Whenever the use of polyserial or
polychoric correlations yields a non positive definite
correlation matrix, the resulting matrix is transformed into
the nearest positive definite matrix. This is a continued work
based on a previous version developed at the Colombian Institute
for the evaluation of education - ICFES.
Author: Carlos A. Arias <caariasr22@gmail.com> and Victor H. Cervantes
<Herulor@gmail.com>.
Maintainer: Carlos A. Arias <caariasr22@gmail.com>
Diff between pcaPA versions 2.0 dated 2016-09-14 and 2.0.1 dated 2016-09-15
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- src/Cpolychoric.cpp | 5 +++++ 3 files changed, 11 insertions(+), 6 deletions(-)
Title: CRAN Task Views
Description: Infrastructure for task views to CRAN-style repositories: Querying task views and installing the associated
packages (client-side tools), generating HTML pages and storing task view information in the repository
(server-side tools).
Author: Achim Zeileis [aut, cre],
Kurt Hornik [aut]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between ctv versions 0.8-1 dated 2015-01-10 and 0.8-2 dated 2016-09-15
DESCRIPTION | 15 MD5 | 93 - NEWS | 7 R/ctv-client.R | 1 R/ctv-server.R | 30 build/vignette.rds |binary inst/CITATION | 4 inst/ctv/Bayesian.ctv | 70 - inst/ctv/ChemPhys.ctv | 122 ++ inst/ctv/ClinicalTrials.ctv | 15 inst/ctv/Cluster.ctv | 125 +- inst/ctv/DifferentialEquations.ctv | 17 inst/ctv/Distributions.ctv | 1342 +++++++++++++++++++++------ inst/ctv/Econometrics.ctv | 384 +++++-- inst/ctv/Econometrics.html |only inst/ctv/Environmetrics.ctv | 12 inst/ctv/ExperimentalDesign.ctv | 435 +++++++- inst/ctv/Finance.ctv | 103 +- inst/ctv/Genetics.ctv | 12 inst/ctv/Graphics.ctv | 2 inst/ctv/HighPerformanceComputing.ctv | 129 +- inst/ctv/MachineLearning.ctv | 42 inst/ctv/MedicalImaging.ctv | 77 + inst/ctv/MetaAnalysis.ctv | 838 ++++++++++------- inst/ctv/Multivariate.ctv | 21 inst/ctv/NaturalLanguageProcessing.ctv | 8 inst/ctv/NumericalMathematics.ctv | 68 + inst/ctv/OfficialStatistics.ctv | 48 inst/ctv/Optimization.ctv | 732 ++++++++------ inst/ctv/Pharmacokinetics.ctv | 14 inst/ctv/Phylogenetics.ctv | 45 inst/ctv/Psychometrics.ctv | 1619 ++++++++++++++++----------------- inst/ctv/ReproducibleResearch.ctv | 271 +++-- inst/ctv/Robust.ctv | 13 inst/ctv/SocialSciences.ctv | 658 ++++++------- inst/ctv/Spatial.ctv | 283 ++++- inst/ctv/SpatioTemporal.ctv | 56 + inst/ctv/Survival.ctv | 957 ++++++++++++------- inst/ctv/TimeSeries.ctv | 885 +++++++++++------- inst/ctv/WebTechnologies.ctv | 1523 +++++++------------------------ inst/ctv/ctv_npkg.R |only inst/ctv/gR.ctv | 232 ++-- inst/ctv/psycho-npkg.pdf |only inst/doc/ctv-howto.R | 2 inst/doc/ctv-howto.Rnw | 12 inst/doc/ctv-howto.pdf |binary man/ctv-client.Rd | 8 man/ctv-server.Rd | 7 vignettes/ctv-howto.Rnw | 12 49 files changed, 6699 insertions(+), 4650 deletions(-)
More information about PEGroupTesting at CRAN
Permanent link
Title: Hierarchical Inference Testing
Description: Hierarchical inference testing (HIT) for (generalized) linear models with
correlated covariates applicable to high-dimensional settings.
Author: Jonas Klasen [aut, cre]
Maintainer: Jonas Klasen <qtcat@gmx.de>
Diff between hit versions 0.3.0 dated 2016-08-29 and 0.3.1 dated 2016-09-15
DESCRIPTION | 9 ++++----- MD5 | 22 +++++++++++----------- NEWS.md | 12 ++++++++++-- R/anova.R | 4 ++-- R/hierarchy.R | 22 +++++++++++----------- R/hit.R | 6 +++--- README.md | 2 +- man/as.hierarchy.Rd | 5 +++-- man/fast.anova.Rd | 2 +- man/fast.glmanova.Rd | 2 +- man/hit.Rd | 4 ++-- man/reorder.hierarchy.Rd | 2 +- 12 files changed, 50 insertions(+), 42 deletions(-)
Title: Kriging-Based Optimization for Computer Experiments
Description: Efficient Global Optimization (EGO) algorithm and adaptations for
parallel infill (multipoint EI), problems with noise, and problems with
constraints.
Author: V. Picheny, D. Ginsbourger, O. Roustant, with contributions by
M. Binois, C. Chevalier, S. Marmin, and T. Wagner
Maintainer: V. Picheny <victor.picheny@toulouse.inra.fr>
Diff between DiceOptim versions 1.5 dated 2015-03-10 and 2.0 dated 2016-09-15
DiceOptim-1.5/DiceOptim/R/CL.nsteps.R |only DiceOptim-1.5/DiceOptim/data |only DiceOptim-1.5/DiceOptim/man/mydata.Rd |only DiceOptim-2.0/DiceOptim/DESCRIPTION | 25 DiceOptim-2.0/DiceOptim/MD5 | 150 +- DiceOptim-2.0/DiceOptim/NAMESPACE | 63 - DiceOptim-2.0/DiceOptim/R/AEI.R | 104 + DiceOptim-2.0/DiceOptim/R/AEI.grad.R | 66 + DiceOptim-2.0/DiceOptim/R/AKG.R | 93 + DiceOptim-2.0/DiceOptim/R/AKG.grad.R | 66 + DiceOptim-2.0/DiceOptim/R/DiceOptim-package.R |only DiceOptim-2.0/DiceOptim/R/EGO.cst.R |only DiceOptim-2.0/DiceOptim/R/EGO.nsteps.R | 206 +++ DiceOptim-2.0/DiceOptim/R/EI.R | 177 ++ DiceOptim-2.0/DiceOptim/R/EI.grad.R | 263 ++-- DiceOptim-2.0/DiceOptim/R/EQI.R | 100 + DiceOptim-2.0/DiceOptim/R/EQI.grad.R | 68 + DiceOptim-2.0/DiceOptim/R/ParrConstraint.R |only DiceOptim-2.0/DiceOptim/R/branin2.R | 68 - DiceOptim-2.0/DiceOptim/R/checkPredict.R |only DiceOptim-2.0/DiceOptim/R/computeQuickKrigcov2.R |only DiceOptim-2.0/DiceOptim/R/crit_AL.R |only DiceOptim-2.0/DiceOptim/R/crit_EFI.R |only DiceOptim-2.0/DiceOptim/R/crit_SUR_cst.R |only DiceOptim-2.0/DiceOptim/R/critcst_optimizer.R |only DiceOptim-2.0/DiceOptim/R/davies.R |only DiceOptim-2.0/DiceOptim/R/easyEGO.cst.R |only DiceOptim-2.0/DiceOptim/R/fastfun.R |only DiceOptim-2.0/DiceOptim/R/goldsteinprice.R | 78 - DiceOptim-2.0/DiceOptim/R/hartman4.R | 97 - DiceOptim-2.0/DiceOptim/R/integration_design_cst.R |only DiceOptim-2.0/DiceOptim/R/kriging.quantile.R | 93 + DiceOptim-2.0/DiceOptim/R/kriging.quantile.grad.R | 87 + DiceOptim-2.0/DiceOptim/R/max_AEI.R | 79 + DiceOptim-2.0/DiceOptim/R/max_AKG.R | 82 + DiceOptim-2.0/DiceOptim/R/max_EI.R | 186 +++ DiceOptim-2.0/DiceOptim/R/max_EQI.R | 80 + DiceOptim-2.0/DiceOptim/R/max_qEI.R | 438 +++++-- DiceOptim-2.0/DiceOptim/R/min_quantile.R | 77 + DiceOptim-2.0/DiceOptim/R/noisy.optimizer.R | 907 +++++++++------ DiceOptim-2.0/DiceOptim/R/precomputeUpdateData.R |only DiceOptim-2.0/DiceOptim/R/prob.of.feasible.improvement.R |only DiceOptim-2.0/DiceOptim/R/qEGO.nsteps.R | 189 +++ DiceOptim-2.0/DiceOptim/R/qEI.R | 117 + DiceOptim-2.0/DiceOptim/R/qEI.grad.R | 120 + DiceOptim-2.0/DiceOptim/R/rosenbrock4.R | 68 - DiceOptim-2.0/DiceOptim/R/sampleFromEI.R | 220 ++- DiceOptim-2.0/DiceOptim/R/sphere6.R | 92 - DiceOptim-2.0/DiceOptim/R/test_feas_vec.R |only DiceOptim-2.0/DiceOptim/R/update_km_noisyEGO.R | 37 DiceOptim-2.0/DiceOptim/man/AEI.Rd | 83 - DiceOptim-2.0/DiceOptim/man/AEI.grad.Rd | 61 - DiceOptim-2.0/DiceOptim/man/AKG.Rd | 90 - DiceOptim-2.0/DiceOptim/man/AKG.grad.Rd | 56 DiceOptim-2.0/DiceOptim/man/DiceOptim-package.Rd | 297 +++- DiceOptim-2.0/DiceOptim/man/EGO.cst.Rd |only DiceOptim-2.0/DiceOptim/man/EGO.nsteps.Rd | 449 +++---- DiceOptim-2.0/DiceOptim/man/EI.Rd | 106 - DiceOptim-2.0/DiceOptim/man/EI.grad.Rd | 113 - DiceOptim-2.0/DiceOptim/man/EQI.Rd | 77 - DiceOptim-2.0/DiceOptim/man/EQI.grad.Rd | 73 - DiceOptim-2.0/DiceOptim/man/ParrConstraint.Rd |only DiceOptim-2.0/DiceOptim/man/branin2.Rd | 50 DiceOptim-2.0/DiceOptim/man/checkPredict.Rd |only DiceOptim-2.0/DiceOptim/man/crit_AL.Rd |only DiceOptim-2.0/DiceOptim/man/crit_EFI.Rd |only DiceOptim-2.0/DiceOptim/man/crit_SUR_cst.Rd |only DiceOptim-2.0/DiceOptim/man/critcst_optimizer.Rd |only DiceOptim-2.0/DiceOptim/man/easyEGO.cst.Rd |only DiceOptim-2.0/DiceOptim/man/fastfun-class.Rd |only DiceOptim-2.0/DiceOptim/man/fastfun.Rd |only DiceOptim-2.0/DiceOptim/man/goldsteinprice.Rd | 56 DiceOptim-2.0/DiceOptim/man/hartman4.Rd | 46 DiceOptim-2.0/DiceOptim/man/integration_design_cst.Rd |only DiceOptim-2.0/DiceOptim/man/kriging.quantile.Rd | 61 - DiceOptim-2.0/DiceOptim/man/kriging.quantile.grad.Rd | 90 - DiceOptim-2.0/DiceOptim/man/max_AEI.Rd | 87 - DiceOptim-2.0/DiceOptim/man/max_AKG.Rd | 78 - DiceOptim-2.0/DiceOptim/man/max_EI.Rd | 167 +- DiceOptim-2.0/DiceOptim/man/max_EQI.Rd | 88 - DiceOptim-2.0/DiceOptim/man/max_qEI.Rd | 245 ++-- DiceOptim-2.0/DiceOptim/man/min_quantile.Rd | 75 - DiceOptim-2.0/DiceOptim/man/noisy.optimizer.Rd | 175 +- DiceOptim-2.0/DiceOptim/man/qEGO.nsteps.Rd | 388 +++--- DiceOptim-2.0/DiceOptim/man/qEI.Rd | 136 +- DiceOptim-2.0/DiceOptim/man/qEI.grad.Rd | 141 +- DiceOptim-2.0/DiceOptim/man/rosenbrock4.Rd | 50 DiceOptim-2.0/DiceOptim/man/sampleFromEI.Rd | 111 - DiceOptim-2.0/DiceOptim/man/sphere6.Rd | 49 DiceOptim-2.0/DiceOptim/man/test_feas_vec.Rd |only DiceOptim-2.0/DiceOptim/man/update_km_noisyEGO.Rd | 78 - DiceOptim-2.0/DiceOptim/src |only 92 files changed, 5453 insertions(+), 2619 deletions(-)
Title: Hierarchical Multinomial Processing Tree Modeling
Description: User-friendly analysis of hierarchical multinomial processing tree (MPT) models that are often used in cognitive psychology. Implements the latent-trait MPT approach (Klauer, 2010) <DOI:10.1007/s11336-009-9141-0> and the beta-MPT approach (Smith & Batchelder, 2010) <DOI:10.1016/j.jmp.2009.06.007> to model heterogeneity of participants. MPT models are conveniently specified by an .eqn-file as used by other MPT software and data are provided by a .csv-file or directly in R. Models are either fitted by calling JAGS or by an MPT-tailored Gibbs sampler in C++ (only for nonhierarchical and beta MPT models). Provides tests of heterogeneity and MPT-tailored summaries and plotting functions.
Author: Daniel Heck [aut, cre],
Nina Arnold [aut, dtc],
Denis Arnold [aut]
Maintainer: Daniel Heck <heck@uni-mannheim.de>
Diff between TreeBUGS versions 0.6.1 dated 2016-09-02 and 0.6.3 dated 2016-09-15
DESCRIPTION | 10 MD5 | 67 +++--- NAMESPACE | 197 ++++++++--------- NEWS | 10 R/RcppExports.R | 30 +- R/arnold2013.R |only R/betweenSubjects.R | 2 R/fitBetaMPT.R | 11 R/fitBetaMPTcpp.R | 11 R/fitModel.R | 2 R/fitSimpleMPT.R | 11 R/fitTraitMPT.R | 48 ++-- R/genDataBeta.R | 5 R/genDataMPT.R | 9 R/genDataTrait.R | 13 - R/plotConvergence.R | 6 R/readEQN.R | 2 build/vignette.rds |binary data |only inst/CITATION | 6 inst/MPTmodels/2htsm.eqn | 34 +-- inst/doc/TreeBUGS_1_intro.R | 122 +++++------ inst/doc/TreeBUGS_1_intro.html | 420 +++++++++++++++++++------------------- inst/doc/TreeBUGS_2_extended.R | 88 +++---- inst/doc/TreeBUGS_2_extended.html | 362 ++++++++++++++++---------------- man/arnold2013.Rd |only man/betaMPT.Rd | 158 +++++++------- man/betaMPTcpp.Rd | 100 +++++---- man/genBetaMPT.Rd | 97 ++++---- man/genMPT.Rd | 54 ++-- man/genTraitMPT.Rd | 101 ++++----- man/plot.Rd | 65 +++-- man/readEQN.Rd | 94 ++++---- man/simpleMPT.Rd | 96 ++++---- man/traitMPT.Rd | 194 +++++++++-------- src/RcppExports.cpp | 26 +- 36 files changed, 1294 insertions(+), 1157 deletions(-)
Title: Common Methods of Spectral Data Analysis
Description: Fourier and Hilbert transforms are utilized to perform several types
of spectral analysis on the supplied data. Also fragmented and
irregularly spaced data can be processed. A user friendly interface
helps to interpret the results.
Author: Martin Seilmayer
Maintainer: Martin Seilmayer <m.seilmayer@hzdr.de>
Diff between spectral versions 1.0 dated 2016-09-13 and 1.0.1 dated 2016-09-15
DESCRIPTION | 6 ++--- MD5 | 6 ++--- R/examples/lombExample.R | 52 +++++++++++++++++++++++------------------------ src/lmb.cpp | 34 +++++++++++++++--------------- 4 files changed, 49 insertions(+), 49 deletions(-)
Title: A Bit of Glue Between R and Stata
Description: A simple R -> Stata interface allowing the user to
execute Stata commands (both inline and from a .do file)
from R.
Author: Luca Braglia [aut, cre]
Maintainer: Luca Braglia <lbraglia@gmail.com>
Diff between RStata versions 1.0.0 dated 2015-12-07 and 1.1.0 dated 2016-09-15
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS | 8 ++++++++ R/chooseStataBin.R | 2 +- R/stata.R | 36 ++---------------------------------- README.md | 25 +++++++++++++++++++++---- man/stata.Rd | 6 +----- 7 files changed, 42 insertions(+), 53 deletions(-)
Title: Adaptive Weights Smoothing
Description: Collection of R-functions implementing the
Propagation-Separation Approach to adaptive smoothing as
described in "J. Polzehl and V. Spokoiny (2006)
<DOI:10.1007/s00440-005-0464-1>"
and "J. Polzehl and V. Spokoiny (2004) <DOI:10.20347/WIAS.PREPRINT.998>".
Author: Joerg Polzehl [aut, cre],
Felix Anker [ctb]
Maintainer: Joerg Polzehl <joerg.polzehl@wias-berlin.de>
Diff between aws versions 1.9-4 dated 2014-03-05 and 1.9-6 dated 2016-09-15
aws-1.9-4/aws/R/awssegmkrv.r |only aws-1.9-4/aws/src/Makevars.inold |only aws-1.9-4/aws/src/segmgkrv.f |only aws-1.9-6/aws/DESCRIPTION | 32 ++-- aws-1.9-6/aws/MD5 | 48 +++--- aws-1.9-6/aws/NAMESPACE | 9 - aws-1.9-6/aws/R/Classes.r | 8 - aws-1.9-6/aws/R/ICIsmooth.r | 44 +++--- aws-1.9-6/aws/R/aws.r | 6 aws-1.9-6/aws/R/awsgaussian.r | 4 aws-1.9-6/aws/R/awsirregular.r | 10 - aws-1.9-6/aws/R/awspropagation.r | 21 +- aws-1.9-6/aws/R/awssegment.r | 8 - aws-1.9-6/aws/R/lpaws.r | 2 aws-1.9-6/aws/R/utilities.r | 2 aws-1.9-6/aws/R/vaws.r |only aws-1.9-6/aws/demo/00Index | 10 - aws-1.9-6/aws/man/ICIcombined.Rd | 8 - aws-1.9-6/aws/man/aws.Rd | 2 aws-1.9-6/aws/man/aws.gaussian.Rd | 2 aws-1.9-6/aws/man/aws.segment.Rd | 2 aws-1.9-6/aws/src/ICIsmooth.f | 20 +- aws-1.9-6/aws/src/awslp.f | 66 ++++----- aws-1.9-6/aws/src/caws.f | 267 ++++++++++++++++++++++++++++++-------- aws-1.9-6/aws/src/cawsmask.f | 14 - aws-1.9-6/aws/src/misc.f | 18 +- aws-1.9-6/aws/src/segment.f | 228 +------------------------------- 27 files changed, 394 insertions(+), 437 deletions(-)
Title: Anything to 'POSIXct' or 'Date' Converter
Description: Convert input in any one of character, integer, numeric, factor,
or type into 'POSIXct' (or 'Date') objects, using one of a number of
predefined formats, and relying on Boost facilities for date and time parsing.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between anytime versions 0.0.1 dated 2016-09-13 and 0.0.2 dated 2016-09-15
ChangeLog | 40 +++++++++++++ DESCRIPTION | 18 +++--- MD5 | 25 ++++---- NAMESPACE | 4 + R/RcppExports.R | 24 ++++++++ R/anytime.R | 2 README.md | 17 ++++- build/partial.rdb |binary inst |only man/anytime-package.Rd | 4 + man/getFormats.Rd |only src/RcppExports.cpp | 20 ++++++ src/anytime.cpp | 141 ++++++++++++++++++++++++++++++++++--------------- tests/gh_issue_5.R |only tests/validate.R | 9 ++- 15 files changed, 232 insertions(+), 72 deletions(-)
Title: Analysis of fMRI Experiments
Description: Contains R-functions to perform an fMRI analysis as described in
Tabelow et al. (2006) <DOI:10.1016/j.neuroimage.2006.06.029>,
Polzehl et al. (2010) <DOI:10.1016/j.neuroimage.2010.04.241>,
Tabelow and Polzehl (2011) <DOI:10.18637/jss.v044.i11>.
Author: Karsten Tabelow [aut, cre],
Joerg Polzehl [aut],
Brandon Whitcher [ctb],
Dames Sibylle [ctb]
Maintainer: Karsten Tabelow <tabelow@wias-berlin.de>
Diff between fmri versions 1.5-1 dated 2014-06-18 and 1.7-2 dated 2016-09-15
ChangeLog | 16 DESCRIPTION | 37 -- MD5 | 58 +-- NAMESPACE | 20 + R/aws.r | 159 +++----- R/fmri.R | 112 ------ R/fmriGUI.r | 941 +++++++++++++++++++++++++-------------------------- R/lm.R | 544 +++++++++++++++++++++++++---- R/lmGroup.R |only R/misc.r | 19 - R/ngca.r | 15 R/oro2fmri.R | 8 R/plot.r | 7 R/randomfield.R | 8 R/segm.r | 4 R/segmkrv.r | 8 R/tcltk.r | 12 R/view23D.r | 764 ++++++++++++++++++++--------------------- man/fmri.design.Rd | 18 man/fmri.designG.Rd |only man/fmri.lm.Rd | 91 ++-- man/fmri.lmePar.Rd |only man/fmri.metaPar.Rd |only man/fmri.pvalue.Rd | 3 man/fmri.stimulus.Rd | 45 +- man/oro2fmri.Rd | 2 src/Makevars | 5 src/misc.f | 180 +++++++-- src/ngca.f | 35 - src/segm3D.f | 17 src/segm3Dkrv.f | 11 src/vaws3D.f | 551 +++++++++++++++++------------ 32 files changed, 2112 insertions(+), 1578 deletions(-)
Title: Adaptive Sum of Powered Score Test
Description: R codes for the (adaptive) Sum of Powered Score ('SPU' and 'aSPU')
tests, inverse variance weighted Sum of Powered score ('SPUw' and 'aSPUw') tests
and gene-based and some pathway based association tests (Pathway based Sum of
Powered Score tests ('SPUpath'), adaptive 'SPUpath' ('aSPUpath') test, 'GEEaSPU'
test for multiple traits - single 'SNP' (single-nucleotide-polymorphism)
association in generalized estimation equations, 'MTaSPUs' test for multiple
traits - single 'SNP' association with Genome Wide Association Studies ('GWAS')
summary statistics, Gene-based Association Test that uses an extended Simes
procedure ('GATES'), Hybrid Set-based Test ('HYST') and extended version
of 'GATES' test for pathway-based association testing ('GATES-Simes'). ).
The tests can be used with genetic and other data sets with covariates. The
response variable is binary or quantitative. Summary; (1) Single trait-'SNP' set
association with individual-level data ('aSPU', 'aSPUw', 'aSPUr'), (2) Single trait-'SNP'
set association with summary statistics ('aSPUs'), (3) Single trait-pathway
association with individual-level data ('aSPUpath'), (4) Single trait-pathway
association with summary statistics ('aSPUsPath'), (5) Multiple traits-single
'SNP' association with individual-level data ('GEEaSPU'), (6) Multiple traits-
single SNP association with summary statistics ('MTaSPUs'), (7) Multiple traits-`SNP' set association with summary statistics(`MTaSPUsSet'), (8) Multiple traits-pathway association with summary statistics(`MTaSPUsSetPath').
Author: Il-Youp Kwak and others (See Author(s) in each function manual)
Maintainer: Il-Youp Kwak <ikwak@umn.edu>
Diff between aSPU versions 1.42 dated 2016-05-03 and 1.43 dated 2016-09-15
DESCRIPTION | 10 +-- MD5 | 66 ++++++++++++++----------- NAMESPACE | 5 + R/RcppExports.R | 2 R/aSPUboot.R | 8 +++ R/aSPUboot2.R | 7 ++ R/aSPUd.R |only R/aSPUpath.r | 7 ++ R/aSPUperm.R | 7 ++ R/aSPUperm2.R | 7 ++ R/aSPUpermC.R | 7 ++ R/aSPUpermC2.R | 7 ++ R/aSPUs.R | 8 +-- R/aSPUsD.R |only R/aSPUsPath.r | 8 +-- R/aSPUsim1.R | 12 +++- R/aSPUsim2.R | 14 +++-- R/aSPUsimC2.R | 14 +++-- R/aSPUw.R | 2 R/aSPUwboot.R | 126 +++++++++++++++++++++++++++++++++++++++++++++++++ R/aSPUwperm.R | 7 ++ R/aSPUwpermC.R | 7 ++ R/aSPUwsim.R | 7 ++ R/plotPmat.r |only R/util.R | 72 ++++++++++++++++++++++++++++ README.md | 49 ++++++++++++------- build/vignette.rds |binary inst/doc/aSPUstat.R | 6 +- inst/doc/aSPUstat.Rmd | 6 +- man/MTaSPUsSet.Rd | 4 - man/aSPUd.Rd |only man/aSPUs.Rd | 6 +- man/aSPUsD.Rd |only man/aSPUsPath.Rd | 6 +- man/plotPmat.Rd |only src/RcppExports.cpp | 26 +++++----- vignettes/aSPUstat.Rmd | 6 +- 37 files changed, 414 insertions(+), 105 deletions(-)
Title: Adaptive Smoothing of Digital Images
Description: Implements tools for manipulation of digital
images and the Propagation Separation approach
by Polzehl and Spokoiny (2006) <DOI:10.1007/s00440-005-0464-1>
for smoothing digital images, see Polzehl and Tabelow (2007)
<DOI:10.18637/jss.v019.i01>.
Author: Karsten Tabelow <tabelow@wias-berlin.de>,
Joerg Polzehl <polzehl@wias-berlin.de>
Maintainer: Karsten Tabelow <tabelow@wias-berlin.de>
Diff between adimpro versions 0.7.8 dated 2012-11-13 and 0.8.2 dated 2016-09-15
adimpro-0.7.8/adimpro/BUGS |only adimpro-0.7.8/adimpro/COPYRIGHT |only adimpro-0.7.8/adimpro/README |only adimpro-0.8.2/adimpro/ChangeLog |only adimpro-0.8.2/adimpro/DESCRIPTION | 25 - adimpro-0.8.2/adimpro/MD5 | 56 +- adimpro-0.8.2/adimpro/NAMESPACE | 8 adimpro-0.8.2/adimpro/R/aniso.r | 16 adimpro-0.8.2/adimpro/R/awsimage.r | 128 ++--- adimpro-0.8.2/adimpro/R/color.R | 9 adimpro-0.8.2/adimpro/R/demosaic.r | 10 adimpro-0.8.2/adimpro/R/edges.R | 54 +- adimpro-0.8.2/adimpro/R/io.R | 15 adimpro-0.8.2/adimpro/R/misc.r | 32 + adimpro-0.8.2/adimpro/R/segment.r | 16 adimpro-0.8.2/adimpro/demo/combine.r | 2 adimpro-0.8.2/adimpro/inst/CITATION | 40 - adimpro-0.8.2/adimpro/man/adimpro.Rd | 3 adimpro-0.8.2/adimpro/man/awsraw.Rd | 5 adimpro-0.8.2/adimpro/man/combine.Rd | 3 adimpro-0.8.2/adimpro/man/segment.Rd | 7 adimpro-0.8.2/adimpro/src/Makevars | 4 adimpro-0.8.2/adimpro/src/aniso.f | 39 - adimpro-0.8.2/adimpro/src/awsimage.f | 740 +++++++++++++++++++++++++++------- adimpro-0.8.2/adimpro/src/awspimage.f | 107 +++- adimpro-0.8.2/adimpro/src/demosaic.f | 72 +-- adimpro-0.8.2/adimpro/src/edges.f | 86 ++- adimpro-0.8.2/adimpro/src/misc.f | 26 - adimpro-0.8.2/adimpro/src/segment.f | 59 +- adimpro-0.8.2/adimpro/src/shrink.f | 172 ++++--- adimpro-0.8.2/adimpro/src/smsensor.f | 37 - 31 files changed, 1148 insertions(+), 623 deletions(-)
Title: A Simple Web Framework for R
Description: A set of functions to ease the building of web APIs.
Author: Bart Smeets [aut, cre]
Maintainer: Bart Smeets <bartsmeets86@gmail.com>
Diff between jug versions 0.1.3 dated 2016-07-28 and 0.1.4 dated 2016-09-15
jug-0.1.3/jug/R/cors.R |only jug-0.1.4/jug/DESCRIPTION | 6 +-- jug-0.1.4/jug/MD5 | 18 ++++----- jug-0.1.4/jug/R/helpers.R | 3 + jug-0.1.4/jug/R/middleware_cors.R |only jug-0.1.4/jug/inst/doc/jug.R | 8 ++++ jug-0.1.4/jug/inst/doc/jug.Rmd | 38 +++++++++++++++++++- jug-0.1.4/jug/inst/doc/jug.html | 35 ++++++++++++++++-- jug-0.1.4/jug/man/cors.Rd | 2 - jug-0.1.4/jug/tests/testthat/test_func_decoration.R | 15 +++++++ jug-0.1.4/jug/vignettes/jug.Rmd | 38 +++++++++++++++++++- 11 files changed, 143 insertions(+), 20 deletions(-)
Title: Ensemble Partial Least Squares Regression
Description: An algorithmic framework for measuring feature importance, outlier detection, and ensemble modeling based on (sparse) partial least squares regressions.
Author: Nan Xiao <me@nanx.me>, Dong-Sheng Cao <oriental-cds@163.com>,
Miao-Zhu Li <miaozhu.li@duke.edu>, Qing-Song Xu <qsxu@csu.edu.cn>
Maintainer: Nan Xiao <me@nanx.me>
Diff between enpls versions 4.0 dated 2016-08-29 and 4.5 dated 2016-09-15
DESCRIPTION | 6 ++--- MD5 | 37 +++++++++++++++++------------- NAMESPACE | 3 ++ NEWS.md | 12 +++++++++- R/enpls-datalist.R | 60 +++++++++++++++++++++++++------------------------- R/enpls.fit.R | 12 ++++++++++ R/enspls.fit.R | 9 +++++++ R/evaluate.R |only TODO | 3 ++ build/vignette.rds |binary data/alkanes.rda |binary inst/CITATION |only inst/doc/enpls.Rmd | 4 +-- inst/doc/enpls.html | 14 +++++------ man/enpls.mae.Rd |only man/enpls.rmse.Rd |only man/enpls.rmsle.Rd |only man/logd1k.Rd | 2 - vignettes/enpls.Rmd | 4 +-- vignettes/enpls.bib | 4 +-- vignettes/enpls.css | 2 - vignettes/header.html | 2 - 22 files changed, 108 insertions(+), 66 deletions(-)
Title: Biodiversity Assessment Tools
Description: Includes algorithms to assess alpha and beta
diversity in all their dimensions (taxon, phylogenetic and functional
diversity), whether communities are completely sampled or not. It allows
performing a number of analyses based on either species identities or
phylogenetic/functional trees depicting species relationships.
Author: Pedro Cardoso, Francois Rigal, Jose Carlos Carvalho
Maintainer: Pedro Cardoso <pedro.cardoso@helsinki.fi>
Diff between BAT versions 1.5.3 dated 2016-08-13 and 1.5.4 dated 2016-09-15
DESCRIPTION | 8 +-- MD5 | 4 - R/BAT.R | 139 +++++++++++++++++++++++++++++++++++++++--------------------- 3 files changed, 98 insertions(+), 53 deletions(-)
Title: Low Memory Use Trimmed K-Means
Description: Performs the trimmed k-means clustering algorithm with lower memory use. It also provides a number of utility functions such as BIC calculations.
Author: Andrew Thomas Jones, Hien Duy Nguyen
Maintainer: Andrew Thomas Jones <andrewthomasjones@gmail.com>
Diff between lowmemtkmeans versions 0.1.0 dated 2016-09-07 and 0.1.1 dated 2016-09-15
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- src/tkmeans.cpp | 18 +++++++++--------- 3 files changed, 15 insertions(+), 15 deletions(-)
Title: Elastic Functional Data Analysis
Description: Functions to support functional data analysis using the square root velocity framework.
Author: J. Derek Tucker <jdtuck@sandia.gov>
Maintainer: J. Derek Tucker <jdtuck@sandia.gov>
Diff between fdasrvf versions 1.6.2 dated 2016-08-22 and 1.7.0 dated 2016-09-15
DESCRIPTION | 12 ++--- MD5 | 36 ++++++++++------ NAMESPACE | 6 ++ NEWS | 6 ++ R/bayesian_functions.R |only R/fdasrvf-package.r | 5 +- R/function_group_warp_bayes.R |only R/function_mean_bayes.R |only R/optimum.reparam.R | 2 R/pair_align_functions.R |only R/pair_align_functions_bayes.R |only R/time_warping.R | 6 +- R/utility_functions.R | 84 ++++++++++++++++++++++++++++++++++++-- README.md | 5 +- man/fdasrvf.Rd | 4 + man/function_group_warp_bayes.Rd |only man/function_mean_bayes.Rd |only man/optimum.reparam.Rd | 3 - man/pair_align_functions.Rd |only man/pair_align_functions_bayes.Rd |only man/time_warping.Rd | 3 - src/Makevars | 3 - src/Makevars.win | 3 - src/fdasrsf/bayesian.cpp |only 24 files changed, 143 insertions(+), 35 deletions(-)