Title: A Graphical User Interface for the 'yuima' Package
Description: Provides a graphical user interface for the 'yuima' package.
Author: YUIMA Project Team
Maintainer: Emanuele Guidotti <emanuele.guidotti@studenti.unimi.it>
Diff between yuimaGUI versions 1.0.0 dated 2017-02-19 and 1.0.1 dated 2017-02-24
DESCRIPTION | 6 MD5 | 12 - NAMESPACE | 12 + inst/yuimaGUI/server.R | 374 ++++++++++++++++++++------------------------ inst/yuimaGUI/ui.R | 8 inst/yuimaGUI/www/black.css | 5 inst/yuimaGUI/www/white.css | 5 7 files changed, 202 insertions(+), 220 deletions(-)
Title: Forecasting Using Smoothing Functions
Description: The set of smoothing functions used for time series analysis and
in forecasting. Currently the package includes exponential smoothing models and
SARIMA in state-space form + several simulation functions.
Author: Ivan Svetunkov [aut, cre] (Research Associate at Lancaster Centre for
Forecasting, UK)
Maintainer: Ivan Svetunkov <ivan@svetunkov.ru>
Diff between smooth versions 1.6.3 dated 2017-02-11 and 1.7.0 dated 2017-02-24
smooth-1.6.3/smooth/man/autoces.Rd |only smooth-1.6.3/smooth/man/autossarima.Rd |only smooth-1.6.3/smooth/man/forecastSmooth.Rd |only smooth-1.6.3/smooth/man/orders-lags-modelType.Rd |only smooth-1.6.3/smooth/man/simces.Rd |only smooth-1.6.3/smooth/man/simes.Rd |only smooth-1.6.3/smooth/man/simssarima.Rd |only smooth-1.6.3/smooth/man/smooth-package.Rd |only smooth-1.7.0/smooth/DESCRIPTION | 20 smooth-1.7.0/smooth/MD5 | 113 ++--- smooth-1.7.0/smooth/NAMESPACE | 126 ++++- smooth-1.7.0/smooth/NEWS | 34 + smooth-1.7.0/smooth/R/autoces.R | 151 ++++++ smooth-1.7.0/smooth/R/autossarima.R | 166 +++++++ smooth-1.7.0/smooth/R/ces.R | 242 +++++++++++ smooth-1.7.0/smooth/R/error-measures.R | 146 +++++- smooth-1.7.0/smooth/R/es.R | 310 ++++++++++++++ smooth-1.7.0/smooth/R/ges.R | 235 ++++++++++ smooth-1.7.0/smooth/R/graphmaker.R | 40 + smooth-1.7.0/smooth/R/iss.R | 59 ++ smooth-1.7.0/smooth/R/methods.R | 226 +++++++++- smooth-1.7.0/smooth/R/simces.R | 82 +++ smooth-1.7.0/smooth/R/simes.R | 108 ++++ smooth-1.7.0/smooth/R/simssarima.R | 89 ++++ smooth-1.7.0/smooth/R/sma.R | 116 +++++ smooth-1.7.0/smooth/R/smooth-package.R |only smooth-1.7.0/smooth/R/sowhat.R | 28 + smooth-1.7.0/smooth/R/ssarima.R | 265 ++++++++++++ smooth-1.7.0/smooth/R/ssfunctions.R | 49 +- smooth-1.7.0/smooth/R/stepwise.R | 28 + smooth-1.7.0/smooth/inst/doc/ces.html | 91 ++-- smooth-1.7.0/smooth/inst/doc/es.R | 8 smooth-1.7.0/smooth/inst/doc/es.Rmd | 8 smooth-1.7.0/smooth/inst/doc/es.html | 42 - smooth-1.7.0/smooth/inst/doc/ges.html | 12 smooth-1.7.0/smooth/inst/doc/simulate.html | 70 +-- smooth-1.7.0/smooth/inst/doc/sma.html | 24 - smooth-1.7.0/smooth/inst/doc/smooth.html | 4 smooth-1.7.0/smooth/inst/doc/ssarima.html | 119 ++--- smooth-1.7.0/smooth/man/AICc.Rd | 56 +- smooth-1.7.0/smooth/man/auto.ces.Rd |only smooth-1.7.0/smooth/man/auto.ssarima.Rd |only smooth-1.7.0/smooth/man/ces.Rd | 394 ++++++++++-------- smooth-1.7.0/smooth/man/error-measures.Rd | 132 +++--- smooth-1.7.0/smooth/man/es.Rd | 478 +++++++++++++--------- smooth-1.7.0/smooth/man/forecast.smooth.Rd |only smooth-1.7.0/smooth/man/ges.Rd | 397 ++++++++++-------- smooth-1.7.0/smooth/man/graphmaker.Rd | 76 +-- smooth-1.7.0/smooth/man/hm.Rd | 63 +- smooth-1.7.0/smooth/man/iss.Rd | 129 +++-- smooth-1.7.0/smooth/man/orders.Rd |only smooth-1.7.0/smooth/man/reexports.Rd |only smooth-1.7.0/smooth/man/sim.ces.Rd |only smooth-1.7.0/smooth/man/sim.es.Rd |only smooth-1.7.0/smooth/man/sim.ssarima.Rd |only smooth-1.7.0/smooth/man/sma.Rd | 213 +++++---- smooth-1.7.0/smooth/man/smooth.Rd |only smooth-1.7.0/smooth/man/sowhat.Rd | 52 +- smooth-1.7.0/smooth/man/ssarima.Rd | 420 +++++++++++-------- smooth-1.7.0/smooth/man/stepwise.Rd | 66 +-- smooth-1.7.0/smooth/src/registerDynamicSymbol.c |only smooth-1.7.0/smooth/src/ssgeneralfun.cpp | 20 smooth-1.7.0/smooth/tests/testthat/test_ces.R | 6 smooth-1.7.0/smooth/tests/testthat/test_es.R | 6 smooth-1.7.0/smooth/tests/testthat/test_ges.R | 6 smooth-1.7.0/smooth/tests/testthat/test_ssarima.R | 6 smooth-1.7.0/smooth/vignettes/es.Rmd | 8 67 files changed, 4098 insertions(+), 1441 deletions(-)
Title: R Interface for H2O Sparkling Water
Description: An extension package for 'sparklyr' that provides an R interface to
H2O Sparkling Water machine learning library (see <https://github.com/h2oai/sparkling-water> for more information).
Author: JJ Allaire [aut],
Erin LeDell [aut],
Michal Malohlava [aut],
Navdeep Gill [aut, cre],
Jakub Hava [aut],
RStudio [cph],
H2O.ai [cph]
Maintainer: Navdeep Gill <navdeep@h2o.ai>
Diff between rsparkling versions 0.1.0 dated 2017-01-23 and 0.1.1 dated 2017-02-24
DESCRIPTION | 6 +++--- MD5 | 11 +++++++++-- NEWS |only R/h2o_context.R | 2 +- tests/testthat/h2ologs |only tests/testthat/log4j.spark.log |only 6 files changed, 13 insertions(+), 6 deletions(-)
Title: Rasch Model Parameters by Pairwise Algorithm
Description: Performs the explicit calculation
-- not estimation! -- of the Rasch item parameters for dichotomous and
polytomous item responses, using a pairwise comparison approach. Person
parameters (WLE) are calculated according to Warm's weighted likelihood
approach.
Author: Joerg-Henrik Heine <jhheine@googlemail.com>
Maintainer: Joerg-Henrik Heine <jhheine@googlemail.com>
Diff between pairwise versions 0.3.1 dated 2015-12-03 and 0.4.1 dated 2017-02-24
DESCRIPTION | 10 +-- MD5 | 104 ++++++++++++++++----------------- NAMESPACE | 2 NEWS | 20 ++++++ R/andersentest.pers.R | 2 R/deltapar.R |only R/gif.R | 5 + R/logLik.pers.R | 7 +- R/pair.R | 20 ++++++ R/pers.R | 2 R/plot.pair.R | 11 +++ R/plot.pairSE.R | 15 ++++ R/ptbis.R | 2 R/simra.R | 5 + build/vignette.rds |binary inst/doc/DEU_PISA2012_description.Rnw | 6 - inst/doc/DEU_PISA2012_description.pdf |binary man/DEU_PISA2012.Rd | 2 man/andersentest.pers.Rd | 1 man/catprob.Rd | 1 man/cog.Rd | 6 - man/cogBOOKLET.Rd | 6 - man/deltapar.Rd |only man/esc.Rd | 1 man/ftab.Rd | 1 man/gif.Rd | 1 man/grm.Rd | 2 man/iff.Rd | 1 man/logLik.pers.Rd | 5 - man/lrtest.pers.Rd | 1 man/make.incidenz.Rd | 1 man/pair.Rd | 1 man/pairSE.Rd | 2 man/pairwise-package.Rd | 9 +- man/pairwise.item.fit.Rd | 1 man/pairwise.person.fit.Rd | 1 man/pers.Rd | 1 man/plot.grm.Rd | 1 man/plot.pair.Rd | 1 man/plot.pairSE.Rd | 1 man/plot.pers.Rd | 1 man/plot.rfa.Rd | 1 man/ptbis.Rd | 1 man/rfa.Rd | 1 man/simra.Rd | 1 man/summary.grm.Rd | 1 man/summary.pair.Rd | 1 man/summary.pairSE.Rd | 1 man/summary.pairwise.item.fit.Rd | 1 man/summary.pairwise.person.fit.Rd | 1 man/summary.pers.Rd | 1 man/summary.rfa.Rd | 1 man/tff.Rd | 1 vignettes/DEU_PISA2012_description.Rnw | 6 - 54 files changed, 163 insertions(+), 114 deletions(-)
Title: Multiple Sequence Alignment for R Shiny
Description: Visualises multiple sequence alignments dynamically within the
Shiny web application framework.
Author: Benedikt Rauscher [aut, cph],
Zachary Charlop-Powers [cre, aut]
Maintainer: Zachary Charlop-Powers <zach.charlop.powers@gmail.com>
Diff between msaR versions 0.1.0 dated 2016-12-06 and 0.2.0 dated 2017-02-24
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 2 ++ R/msaR.R | 8 +++++++- README.md | 27 +++++++-------------------- inst/doc/msaR.html | 16 ++++++++-------- inst/htmlwidgets/lib/msa.js | 23 ++++++++++------------- man/msaR.Rd | 7 ++++++- 8 files changed, 50 insertions(+), 53 deletions(-)
Title: Latent Variable Analysis
Description: Fit a variety of latent variable models, including confirmatory
factor analysis, structural equation modeling and latent growth curve models.
Author: Yves Rosseel [aut, cre],
Daniel Oberski [ctb],
Jarrett Byrnes [ctb],
Leonard Vanbrabant [ctb],
Victoria Savalei [ctb],
Ed Merkle [ctb],
Michael Hallquist [ctb],
Mijke Rhemtulla [ctb],
Myrsini Katsikatsou [ctb],
Mariska Barendse [ctb],
Michael Chow [ctb],
Terrence Jorgensen [ctb]
Maintainer: Yves Rosseel <Yves.Rosseel@UGent.be>
Diff between lavaan versions 0.5-22 dated 2016-09-24 and 0.5-23.1097 dated 2017-02-24
lavaan-0.5-22/lavaan/R/01RefClass_00lavModel.R |only lavaan-0.5-22/lavaan/R/lav_missing.R |only lavaan-0.5-23.1097/lavaan/DESCRIPTION | 20 lavaan-0.5-23.1097/lavaan/MD5 | 193 +- lavaan-0.5-23.1097/lavaan/NAMESPACE | 16 lavaan-0.5-23.1097/lavaan/R/00class.R | 25 lavaan-0.5-23.1097/lavaan/R/00generic.R | 24 lavaan-0.5-23.1097/lavaan/R/01RefClass_00lavRefModel.R |only lavaan-0.5-23.1097/lavaan/R/01RefClass_01lavOptim.R | 2 lavaan-0.5-23.1097/lavaan/R/ctr_mplus2lavaan.R | 80 lavaan-0.5-23.1097/lavaan/R/ctr_pml_doubly_robust_utils.R |only lavaan-0.5-23.1097/lavaan/R/ctr_pml_plrt.R | 19 lavaan-0.5-23.1097/lavaan/R/ctr_pml_plrt2.R | 23 lavaan-0.5-23.1097/lavaan/R/lav_bootstrap.R | 21 lavaan-0.5-23.1097/lavaan/R/lav_cor.R | 5 lavaan-0.5-23.1097/lavaan/R/lav_data.R | 324 ++- lavaan-0.5-23.1097/lavaan/R/lav_export_bugs.R | 32 lavaan-0.5-23.1097/lavaan/R/lav_export_mplus.R | 4 lavaan-0.5-23.1097/lavaan/R/lav_fit.R | 2 lavaan-0.5-23.1097/lavaan/R/lav_fit_measures.R | 183 +- lavaan-0.5-23.1097/lavaan/R/lav_fsr_croon.R |only lavaan-0.5-23.1097/lavaan/R/lav_integrate.R | 213 ++ lavaan-0.5-23.1097/lavaan/R/lav_lavaanList_inspect.R |only lavaan-0.5-23.1097/lavaan/R/lav_matrix.R | 4 lavaan-0.5-23.1097/lavaan/R/lav_model.R | 92 - lavaan-0.5-23.1097/lavaan/R/lav_model_compute.R | 132 - lavaan-0.5-23.1097/lavaan/R/lav_model_estimate.R | 76 lavaan-0.5-23.1097/lavaan/R/lav_model_gradient.R | 46 lavaan-0.5-23.1097/lavaan/R/lav_model_gradient_mml.R | 18 lavaan-0.5-23.1097/lavaan/R/lav_model_hessian.R | 10 lavaan-0.5-23.1097/lavaan/R/lav_model_implied.R | 8 lavaan-0.5-23.1097/lavaan/R/lav_model_information.R | 174 + lavaan-0.5-23.1097/lavaan/R/lav_model_lik.R | 16 lavaan-0.5-23.1097/lavaan/R/lav_model_objective.R | 18 lavaan-0.5-23.1097/lavaan/R/lav_model_utils.R | 11 lavaan-0.5-23.1097/lavaan/R/lav_model_vcov.R | 198 +- lavaan-0.5-23.1097/lavaan/R/lav_model_wls.R | 123 - lavaan-0.5-23.1097/lavaan/R/lav_modification.R | 12 lavaan-0.5-23.1097/lavaan/R/lav_muthen1984.R | 77 lavaan-0.5-23.1097/lavaan/R/lav_mvnorm.R | 136 + lavaan-0.5-23.1097/lavaan/R/lav_mvnorm_h1.R | 103 + lavaan-0.5-23.1097/lavaan/R/lav_mvnorm_missing.R | 309 +++ lavaan-0.5-23.1097/lavaan/R/lav_mvnorm_missing_h1.R | 177 +- lavaan-0.5-23.1097/lavaan/R/lav_mvreg.R | 18 lavaan-0.5-23.1097/lavaan/R/lav_object_generate.R | 36 lavaan-0.5-23.1097/lavaan/R/lav_object_inspect.R | 913 +++++----- lavaan-0.5-23.1097/lavaan/R/lav_object_methods.R | 453 ----- lavaan-0.5-23.1097/lavaan/R/lav_objective.R | 269 +-- lavaan-0.5-23.1097/lavaan/R/lav_options.R | 261 ++ lavaan-0.5-23.1097/lavaan/R/lav_partable.R | 1219 -------------- lavaan-0.5-23.1097/lavaan/R/lav_partable_attributes.R |only lavaan-0.5-23.1097/lavaan/R/lav_partable_complete.R | 22 lavaan-0.5-23.1097/lavaan/R/lav_partable_constraints.R | 20 lavaan-0.5-23.1097/lavaan/R/lav_partable_flat.R |only lavaan-0.5-23.1097/lavaan/R/lav_partable_full.R |only lavaan-0.5-23.1097/lavaan/R/lav_partable_independence.R | 1 lavaan-0.5-23.1097/lavaan/R/lav_partable_labels.R |only lavaan-0.5-23.1097/lavaan/R/lav_partable_merge.R | 38 lavaan-0.5-23.1097/lavaan/R/lav_partable_subset.R |only lavaan-0.5-23.1097/lavaan/R/lav_partable_unrestricted.R | 1 lavaan-0.5-23.1097/lavaan/R/lav_partable_utils.R |only lavaan-0.5-23.1097/lavaan/R/lav_partable_vnames.R | 295 +-- lavaan-0.5-23.1097/lavaan/R/lav_polychor.R | 49 lavaan-0.5-23.1097/lavaan/R/lav_predict.R | 85 lavaan-0.5-23.1097/lavaan/R/lav_print.R | 357 ++-- lavaan-0.5-23.1097/lavaan/R/lav_representation.R |only lavaan-0.5-23.1097/lavaan/R/lav_representation_lisrel.R | 93 - lavaan-0.5-23.1097/lavaan/R/lav_residuals.R | 16 lavaan-0.5-23.1097/lavaan/R/lav_samplestats.R | 282 ++- lavaan-0.5-23.1097/lavaan/R/lav_samplestats_gamma.R | 12 lavaan-0.5-23.1097/lavaan/R/lav_samplestats_step2.R | 32 lavaan-0.5-23.1097/lavaan/R/lav_simulate.R | 60 lavaan-0.5-23.1097/lavaan/R/lav_standardize.R | 180 +- lavaan-0.5-23.1097/lavaan/R/lav_start.R | 93 - lavaan-0.5-23.1097/lavaan/R/lav_tables.R | 18 lavaan-0.5-23.1097/lavaan/R/lav_test.R | 24 lavaan-0.5-23.1097/lavaan/R/lav_test_diff.R | 8 lavaan-0.5-23.1097/lavaan/R/lav_test_satorra_bentler.R | 2 lavaan-0.5-23.1097/lavaan/R/lav_test_score.R | 2 lavaan-0.5-23.1097/lavaan/R/lav_utils.R | 7 lavaan-0.5-23.1097/lavaan/R/xxx_fsr.R | 527 ++---- lavaan-0.5-23.1097/lavaan/R/xxx_lavaan.R | 652 ++++--- lavaan-0.5-23.1097/lavaan/R/xxx_lavaanList.R | 63 lavaan-0.5-23.1097/lavaan/R/xxx_prelav.R | 4 lavaan-0.5-23.1097/lavaan/man/cfa.Rd | 220 -- lavaan-0.5-23.1097/lavaan/man/fsr.Rd | 11 lavaan-0.5-23.1097/lavaan/man/growth.Rd | 215 -- lavaan-0.5-23.1097/lavaan/man/inspectSampleCov.Rd | 4 lavaan-0.5-23.1097/lavaan/man/lavInspect.Rd | 18 lavaan-0.5-23.1097/lavaan/man/lavListInspect.Rd |only lavaan-0.5-23.1097/lavaan/man/lavNames.Rd | 10 lavaan-0.5-23.1097/lavaan/man/lavOptions.Rd |only lavaan-0.5-23.1097/lavaan/man/lav_constraints.Rd | 34 lavaan-0.5-23.1097/lavaan/man/lav_model.Rd | 4 lavaan-0.5-23.1097/lavaan/man/lav_partable.Rd | 5 lavaan-0.5-23.1097/lavaan/man/lavaan-class.Rd | 14 lavaan-0.5-23.1097/lavaan/man/lavaan.Rd | 265 --- lavaan-0.5-23.1097/lavaan/man/lavaanList.Rd | 3 lavaan-0.5-23.1097/lavaan/man/mplus2lavaan.Rd | 13 lavaan-0.5-23.1097/lavaan/man/mplus2lavaan.modelSyntax.Rd |only lavaan-0.5-23.1097/lavaan/man/sem.Rd | 221 -- lavaan-0.5-23.1097/lavaan/man/simulateData.Rd | 2 lavaan-0.5-23.1097/lavaan/man/standardizedSolution.Rd | 8 lavaan-0.5-23.1097/lavaan/tests |only 104 files changed, 4925 insertions(+), 5160 deletions(-)
Title: Finding Allele-Specific Copy Number in Whole-Exome Sequencing
Data
Description: This is a method for Allele-specific DNA Copy Number profiling for whole-Exome sequencing data. Given the allele-specific coverage and site biases at the variant loci, this program segments the genome into regions of homogeneous allele-specific copy number. It requires, as input, the read counts for each variant allele in a pair of case and control samples, as well as the site biases. For detection of somatic mutations, the case and control samples can be the tumor and normal sample from the same individual. The implemented method is based on the paper: Chen, H., Jiang, Y., Maxwell, K., Nathanson, K. and Zhang, N. (under review). Allele-specific copy number estimation by whole Exome sequencing.
Author: Hao Chen and Nancy R. Zhang
Maintainer: Hao Chen <hxchen@ucdavis.edu>
Diff between falconx versions 0.1 dated 2016-04-21 and 0.2 dated 2017-02-24
DESCRIPTION | 10 +++++----- MD5 | 19 ++++++++++--------- NAMESPACE | 2 +- R/falconx.r | 44 +++++++++++++++++++++++++++++++++++++++----- R/script_basic.r | 11 +++++++++++ man/falconx.Rd | 3 --- man/getASCN.x.Rd | 6 +++++- man/getChangepoints.x.Rd | 8 ++++---- man/pos.Rd | 2 +- man/view.Rd | 3 ++- src/registerDynamicSymbol.c |only 11 files changed, 78 insertions(+), 30 deletions(-)
Title: Historical Populations of European Cities, 1500-1800
Description: This dataset contains population estimates of all European cities
with at least 10,000 inhabitants during the period 1500-1800. These data are
adapted from Jan De Vries, "European Urbanization, 1500-1800" (1984).
Author: Matthew Lincoln [aut, cre],
Jan De Vries [aut]
Maintainer: Matthew Lincoln <matthew.d.lincoln@gmail.com>
Diff between europop versions 0.3 dated 2017-01-17 and 0.3.1 dated 2017-02-24
DESCRIPTION | 14 +++++++------- MD5 | 14 +++++++------- NEWS.md | 4 ++++ README.md | 3 ++- data/city_coords.rda |binary data/europop.rda |binary man/city_coords.Rd | 1 - man/europop.Rd | 1 - 8 files changed, 20 insertions(+), 17 deletions(-)
Title: Build Error Correction Models
Description: Functions for easy building of error correction models (ECM) for time series regression.
Author: Gaurav Bansal
Maintainer: Gaurav Bansal <gaurbans@gmail.com>
Diff between ecm versions 0.6.0 dated 2017-02-11 and 0.7.0 dated 2017-02-24
DESCRIPTION | 6 ++-- MD5 | 12 ++++----- R/ecm.R | 48 ++++++++++++++++++------------------ R/ecmback.r | 56 ++++++++++++++++++++++++------------------ R/ecmpredict.r | 76 +++++++++++++++++++++++++++++++++------------------------ man/ecm.Rd | 3 +- man/ecmback.Rd | 2 - 7 files changed, 113 insertions(+), 90 deletions(-)
Title: Bayesian Latent Variable Analysis
Description: Fit a variety of Bayesian latent variable models, including confirmatory
factor analysis, structural equation models, and latent growth curve models.
Author: Edgar Merkle [aut, cre],
Yves Rosseel [aut],
Mauricio Garnier-Villarreal [ctb]
Maintainer: Edgar Merkle <merklee@missouri.edu>
Diff between blavaan versions 0.2-2 dated 2016-09-27 and 0.2-3 dated 2017-02-24
blavaan-0.2-2/blavaan/man/BF.Rd |only blavaan-0.2-3/blavaan/DESCRIPTION | 17 ++- blavaan-0.2-3/blavaan/MD5 | 36 ++++--- blavaan-0.2-3/blavaan/NAMESPACE | 7 - blavaan-0.2-3/blavaan/NEWS | 12 ++ blavaan-0.2-3/blavaan/R/blav_compare.R |only blavaan-0.2-3/blavaan/R/blav_fit.R | 7 + blavaan-0.2-3/blavaan/R/blav_object_inspect.R | 11 ++ blavaan-0.2-3/blavaan/R/blav_object_methods.R | 25 +---- blavaan-0.2-3/blavaan/R/blav_utils.R | 67 +++++++++++--- blavaan-0.2-3/blavaan/R/blavaan.R | 121 +++++++++++++------------- blavaan-0.2-3/blavaan/R/dpriors.R | 6 - blavaan-0.2-3/blavaan/R/lav_export_jags.R | 53 ++++++++--- blavaan-0.2-3/blavaan/R/margloglik.R | 9 + blavaan-0.2-3/blavaan/R/postpred.R | 8 + blavaan-0.2-3/blavaan/R/set_inits.R | 6 - blavaan-0.2-3/blavaan/R/set_partable.R | 13 ++ blavaan-0.2-3/blavaan/R/set_priors.R | 13 +- blavaan-0.2-3/blavaan/inst |only blavaan-0.2-3/blavaan/man/blavCompare.Rd |only blavaan-0.2-3/blavaan/man/dpriors.Rd | 5 - 21 files changed, 269 insertions(+), 147 deletions(-)
Title: Bayesian Variable Selection Using Simplified Shotgun Stochastic
Search with Screening (S5)
Description: In p >> n settings, full posterior sampling using existing Markov chain Monte
Carlo (MCMC) algorithms is highly inefficient and often not feasible from a practical
perspective. To overcome this problem, we propose a scalable stochastic search algorithm that is called the Simplified Shotgun Stochastic Search (S5) and aimed at rapidly explore interesting regions of model space and finding the maximum a posteriori(MAP) model. Also, the S5 provides an approximation of posterior probability of each model (including the marginal inclusion probabilities). This algorithm is a part of an article titled Scalable Bayesian Variable Selection Using Nonlocal Prior Densities in Ultrahigh-dimensional Settings (2017+), by Minsuk Shin, Anirban Bhattachary, and Valen E. Johnson, accepted in Statistica Sinica.
Author: Minsuk Shin and Ruoxuan Tian
Maintainer: Minsuk Shin <minsuk000@gmail.com>
Diff between BayesS5 versions 1.22 dated 2017-01-17 and 1.30 dated 2017-02-24
DESCRIPTION | 10 +++++----- MD5 | 30 ++++++++++++++++++++---------- NAMESPACE | 5 +++++ R/S5.R | 4 ++-- R/S5_parallel.R | 2 +- R/SSS.R | 2 +- R/obj_fun_g.R |only R/obj_fun_pemom.R |only R/obj_fun_pimom.R |only R/result.R | 7 +++++-- R/result_est_LS.R |only R/result_est_MAP.R |only man/S5.Rd | 13 ++++++++++--- man/S5_parallel.Rd | 8 ++++---- man/SSS.Rd | 3 ++- man/obj_fun_g.Rd |only man/obj_fun_pemom.Rd |only man/obj_fun_pimom.Rd |only man/result.Rd | 6 ++++-- man/result_est_LS.Rd |only man/result_est_MAP.Rd |only 21 files changed, 59 insertions(+), 31 deletions(-)
Title: Topological k-NN Classifier Based on Self-Organising Maps
Description: A topological version of k-NN: An abstract model is build
as 2-dimensional self-organising map. Samples of unknown
class are predicted by mapping them on the SOM and analysing
class membership of neurons in the neighbourhood.
Author: Andreas Dominik
Maintainer: Andreas Dominik <andreas.dominik@mni.thm.de>
Diff between som.nn versions 1.0.3 dated 2017-02-09 and 1.1.0 dated 2017-02-24
DESCRIPTION | 6 +-- MD5 | 76 +++++++++++++++++++++-------------------- NAMESPACE | 1 R/plot.SOMnn.R | 4 +- R/predict.SOMnn.R | 8 +++- R/som.nn.R | 21 +++++++---- R/som.nn.distance.functions.R | 6 +-- R/som.nn.distance.matrix.R | 7 ++- R/som.nn.do.train.R | 21 ++++++----- R/som.nn.export.kohonen.R | 2 - R/som.nn.export.som.R | 2 - R/som.nn.run.kernel.R | 27 ++++++++++---- R/som.nn.set.R | 8 ++-- R/som.nn.som.experimental.R | 13 ++++--- R/som.nn.som.gaussian.R |only R/som.nn.som.internal.R | 10 ++--- R/som.nn.train.R | 37 +++++++++++-------- R/som.nn.util.R | 6 +-- R/som.nn.validate.R |only R/som.nn.visual.R | 9 ++++ man/dist.fun.bubble.Rd | 2 - man/dist.fun.inverse.Rd | 2 - man/dist.fun.linear.Rd | 2 - man/dist.torus.Rd | 7 ++- man/norm.linear.Rd | 2 - man/plot-methods.Rd | 8 ++-- man/predict-methods.Rd | 8 +++- man/som.nn-package.Rd | 21 +++++++---- man/som.nn.continue.Rd | 4 +- man/som.nn.do.train.Rd | 12 +++--- man/som.nn.export.kohonen.Rd | 2 - man/som.nn.export.som.Rd | 2 - man/som.nn.round.votes.Rd | 4 +- man/som.nn.run.kernel.Rd | 6 +-- man/som.nn.set.Rd | 8 ++-- man/som.nn.som.experimental.Rd | 6 +-- man/som.nn.som.gaussian.Rd |only man/som.nn.som.internal.Rd | 4 +- man/som.nn.train.Rd | 42 ++++++++++++---------- man/som.nn.validate.Rd |only man/som.nn.visual.Rd | 3 + 41 files changed, 240 insertions(+), 169 deletions(-)
Title: Diverse Basic Statistical and Graphical Functions
Description: Contains diverse more or less complicated functions, written to simplify user's life: simplifications of existing functions, basic but not implemented tests, easy-to-use tools, bridges between functions of different packages... All functions are presented in the French book 'Aide-memoire de statistique appliquee a la biologie', written by the same author and available on CRAN.
Author: Maxime Hervé
Maintainer: Maxime Hervé <mx.herve@gmail.com>
Diff between RVAideMemoire versions 0.9-62 dated 2016-12-13 and 0.9-63 dated 2017-02-24
DESCRIPTION | 11 +--- MD5 | 20 +++---- NAMESPACE | 1 NEWS | 5 + R/MVA.cor.R | 13 +++- R/back.lsmeans.R | 6 +- R/plotresid.R | 116 ++++++++++++++++++++----------------------- R/zzz.R | 2 man/RVAideMemoire-package.Rd | 4 - man/back.lsmeans.Rd | 4 - man/plotresid.Rd | 12 ++-- 11 files changed, 102 insertions(+), 92 deletions(-)
Title: Profile Analysis of Multivariate Data in R
Description: A suite of multivariate methods and data visualization tools to implement profile analysis and cross-validation techniques described in Davison & Davenport (2002) <DOI:10.1037/1082-989X.7.4.468>, Bulut (2013) <http://conservancy.umn.edu/handle/11299/155592>, and other published and unpublished resources. The package includes routines to perform criterion-related profile analysis, profile analysis via multidimensional scaling, moderated profile analysis, profile analysis by group, and a within-person factor model to derive score profiles.
Author: Okan Bulut <okanbulut84@gmail.com>, Christopher David Desjardins <cddesjardins@gmail.com>
Maintainer: Christopher David Desjardins <cddesjardins@gmail.com>
Diff between profileR versions 0.3-3 dated 2016-04-01 and 0.3-4 dated 2017-02-24
profileR-0.3-3/profileR/build |only profileR-0.3-3/profileR/inst |only profileR-0.3-3/profileR/vignettes |only profileR-0.3-4/profileR/DESCRIPTION | 18 ++++++------------ profileR-0.3-4/profileR/MD5 | 19 +++++-------------- profileR-0.3-4/profileR/NEWS | 6 ++++++ profileR-0.3-4/profileR/README.md | 10 +++++----- profileR-0.3-4/profileR/data/interest.rda |only profileR-0.3-4/profileR/man/interest.Rd |only 9 files changed, 22 insertions(+), 31 deletions(-)
Title: Tools to Analyse Repertory Grid Data
Description: A set of functions to analyze repertory grid data.
Author: Mark Heckmann [aut, cre]
Maintainer: Mark Heckmann <heckmann@uni-bremen.de>
Diff between OpenRepGrid versions 0.1.9 dated 2014-09-07 and 0.1.10 dated 2017-02-24
OpenRepGrid-0.1.10/OpenRepGrid/DESCRIPTION | 24 OpenRepGrid-0.1.10/OpenRepGrid/MD5 | 353 +++--- OpenRepGrid-0.1.10/OpenRepGrid/NAMESPACE | 11 OpenRepGrid-0.1.10/OpenRepGrid/NEWS.md |only OpenRepGrid-0.1.10/OpenRepGrid/R/calc.r | 10 OpenRepGrid-0.1.10/OpenRepGrid/R/import.r | 6 OpenRepGrid-0.1.10/OpenRepGrid/R/measures.r | 529 ++++++---- OpenRepGrid-0.1.10/OpenRepGrid/R/openrepgrid.r | 9 OpenRepGrid-0.1.10/OpenRepGrid/R/repgrid-basicops.r | 9 OpenRepGrid-0.1.10/OpenRepGrid/R/rgl-3d.r | 8 OpenRepGrid-0.1.10/OpenRepGrid/inst/CITATION | 15 OpenRepGrid-0.1.10/OpenRepGrid/man/OpenRepGrid-overview.Rd | 97 - OpenRepGrid-0.1.10/OpenRepGrid/man/OpenRepGrid.Rd | 39 OpenRepGrid-0.1.10/OpenRepGrid/man/addConstruct.Rd | 13 OpenRepGrid-0.1.10/OpenRepGrid/man/addElement.Rd | 13 OpenRepGrid-0.1.10/OpenRepGrid/man/addIndexColumnToMatrix.Rd | 5 OpenRepGrid-0.1.10/OpenRepGrid/man/addVarianceExplainedToBiplot2d.Rd | 22 OpenRepGrid-0.1.10/OpenRepGrid/man/alignByIdeal.Rd | 51 OpenRepGrid-0.1.10/OpenRepGrid/man/alignByLoadings.Rd | 74 - OpenRepGrid-0.1.10/OpenRepGrid/man/angleOrderIndexes2d.Rd | 11 OpenRepGrid-0.1.10/OpenRepGrid/man/apply_pb.Rd | 13 OpenRepGrid-0.1.10/OpenRepGrid/man/bertin.Rd | 57 - OpenRepGrid-0.1.10/OpenRepGrid/man/bertinBase.Rd | 16 OpenRepGrid-0.1.10/OpenRepGrid/man/bertinCluster.Rd | 93 - OpenRepGrid-0.1.10/OpenRepGrid/man/bind.Rd | 19 OpenRepGrid-0.1.10/OpenRepGrid/man/bindConstructs.Rd | 26 OpenRepGrid-0.1.10/OpenRepGrid/man/biplot2d.Rd | 149 +- OpenRepGrid-0.1.10/OpenRepGrid/man/biplot3d.Rd | 55 - OpenRepGrid-0.1.10/OpenRepGrid/man/biplot3dBase2.Rd | 9 OpenRepGrid-0.1.10/OpenRepGrid/man/biplotDraw.Rd | 34 OpenRepGrid-0.1.10/OpenRepGrid/man/biplotEsa2d.Rd | 37 OpenRepGrid-0.1.10/OpenRepGrid/man/biplotEsa3d.Rd | 41 OpenRepGrid-0.1.10/OpenRepGrid/man/biplotEsaPseudo3d.Rd | 35 OpenRepGrid-0.1.10/OpenRepGrid/man/biplotPseudo3d.Rd | 59 - OpenRepGrid-0.1.10/OpenRepGrid/man/biplotSimple.Rd | 31 OpenRepGrid-0.1.10/OpenRepGrid/man/biplotSlater2d.Rd | 27 OpenRepGrid-0.1.10/OpenRepGrid/man/biplotSlater3d.Rd | 31 OpenRepGrid-0.1.10/OpenRepGrid/man/biplotSlaterPseudo3d.Rd | 27 OpenRepGrid-0.1.10/OpenRepGrid/man/calcAngles.Rd | 7 OpenRepGrid-0.1.10/OpenRepGrid/man/calcBiplotCoords.Rd | 12 OpenRepGrid-0.1.10/OpenRepGrid/man/calcCoordsBorders.Rd | 9 OpenRepGrid-0.1.10/OpenRepGrid/man/cascade.Rd | 10 OpenRepGrid-0.1.10/OpenRepGrid/man/center.Rd | 15 OpenRepGrid-0.1.10/OpenRepGrid/man/clearRatings.Rd | 4 OpenRepGrid-0.1.10/OpenRepGrid/man/cluster.Rd | 34 OpenRepGrid-0.1.10/OpenRepGrid/man/clusterBoot.Rd | 46 OpenRepGrid-0.1.10/OpenRepGrid/man/constructCor.Rd | 26 OpenRepGrid-0.1.10/OpenRepGrid/man/constructD.Rd | 31 OpenRepGrid-0.1.10/OpenRepGrid/man/constructPca.Rd | 35 OpenRepGrid-0.1.10/OpenRepGrid/man/constructPcaLoadings.Rd | 10 OpenRepGrid-0.1.10/OpenRepGrid/man/constructRmsCor.Rd | 38 OpenRepGrid-0.1.10/OpenRepGrid/man/convertImportObjectToRepGridObject.Rd | 6 OpenRepGrid-0.1.10/OpenRepGrid/man/convertScivescoImportObjectToRepGridObject.Rd | 8 OpenRepGrid-0.1.10/OpenRepGrid/man/data-bell2010.Rd | 16 OpenRepGrid-0.1.10/OpenRepGrid/man/data-bellmcgorry1992.Rd | 18 OpenRepGrid-0.1.10/OpenRepGrid/man/data-boeker.Rd | 18 OpenRepGrid-0.1.10/OpenRepGrid/man/data-fbb2003.Rd | 8 OpenRepGrid-0.1.10/OpenRepGrid/man/data-feixas2004.Rd | 22 OpenRepGrid-0.1.10/OpenRepGrid/man/data-leach2001.Rd | 22 OpenRepGrid-0.1.10/OpenRepGrid/man/data-mackay1992.Rd | 10 OpenRepGrid-0.1.10/OpenRepGrid/man/data-raeithel.Rd | 12 OpenRepGrid-0.1.10/OpenRepGrid/man/data-slater1977a.Rd | 6 OpenRepGrid-0.1.10/OpenRepGrid/man/data-slater1977b.Rd | 12 OpenRepGrid-0.1.10/OpenRepGrid/man/decouple.Rd | 4 OpenRepGrid-0.1.10/OpenRepGrid/man/dim.repgrid.Rd | 13 OpenRepGrid-0.1.10/OpenRepGrid/man/distance.Rd | 21 OpenRepGrid-0.1.10/OpenRepGrid/man/distanceHartmann.Rd | 68 - OpenRepGrid-0.1.10/OpenRepGrid/man/distanceNormalized.Rd | 58 - OpenRepGrid-0.1.10/OpenRepGrid/man/distanceSlater.Rd | 41 OpenRepGrid-0.1.10/OpenRepGrid/man/doRectanglesOverlap.Rd | 5 OpenRepGrid-0.1.10/OpenRepGrid/man/doubleEntry.Rd | 5 OpenRepGrid-0.1.10/OpenRepGrid/man/elementCor.Rd | 40 OpenRepGrid-0.1.10/OpenRepGrid/man/elementRmsCor.Rd | 46 OpenRepGrid-0.1.10/OpenRepGrid/man/extract-methods.Rd | 21 OpenRepGrid-0.1.10/OpenRepGrid/man/formatMatrix.Rd | 8 OpenRepGrid-0.1.10/OpenRepGrid/man/getConstructNames.Rd | 4 OpenRepGrid-0.1.10/OpenRepGrid/man/getConstructNames2.Rd | 11 OpenRepGrid-0.1.10/OpenRepGrid/man/getElementNames.Rd | 8 OpenRepGrid-0.1.10/OpenRepGrid/man/getElementNames2.Rd | 9 OpenRepGrid-0.1.10/OpenRepGrid/man/getNoOfConstructs.Rd | 5 OpenRepGrid-0.1.10/OpenRepGrid/man/getNoOfElements.Rd | 5 OpenRepGrid-0.1.10/OpenRepGrid/man/getRatingLayer.Rd | 7 OpenRepGrid-0.1.10/OpenRepGrid/man/getScale.Rd | 6 OpenRepGrid-0.1.10/OpenRepGrid/man/getScaleMidpoint.Rd | 5 OpenRepGrid-0.1.10/OpenRepGrid/man/home.Rd | 17 OpenRepGrid-0.1.10/OpenRepGrid/man/importExcel.Rd | 25 OpenRepGrid-0.1.10/OpenRepGrid/man/importExcelInternal.Rd | 17 OpenRepGrid-0.1.10/OpenRepGrid/man/importGridcor.Rd | 24 OpenRepGrid-0.1.10/OpenRepGrid/man/importGridcorInternal.Rd | 16 OpenRepGrid-0.1.10/OpenRepGrid/man/importGridstat.Rd | 33 OpenRepGrid-0.1.10/OpenRepGrid/man/importGridstatInternal.Rd | 47 OpenRepGrid-0.1.10/OpenRepGrid/man/importGridsuite.Rd | 30 OpenRepGrid-0.1.10/OpenRepGrid/man/importGridsuiteInternal.Rd | 30 OpenRepGrid-0.1.10/OpenRepGrid/man/importScivesco.Rd | 32 OpenRepGrid-0.1.10/OpenRepGrid/man/importScivescoInternal.Rd | 23 OpenRepGrid-0.1.10/OpenRepGrid/man/importTxt.Rd | 29 OpenRepGrid-0.1.10/OpenRepGrid/man/importTxtInternal.Rd | 21 OpenRepGrid-0.1.10/OpenRepGrid/man/indexBias.Rd | 16 OpenRepGrid-0.1.10/OpenRepGrid/man/indexConflict1.Rd | 51 OpenRepGrid-0.1.10/OpenRepGrid/man/indexConflict2.Rd | 56 - OpenRepGrid-0.1.10/OpenRepGrid/man/indexConflict3.Rd | 63 - OpenRepGrid-0.1.10/OpenRepGrid/man/indexDilemma.Rd | 124 +- OpenRepGrid-0.1.10/OpenRepGrid/man/indexIntensity.Rd | 69 - OpenRepGrid-0.1.10/OpenRepGrid/man/indexPvaff.Rd | 42 OpenRepGrid-0.1.10/OpenRepGrid/man/indexVariability.Rd | 16 OpenRepGrid-0.1.10/OpenRepGrid/man/lapply_pb.Rd | 13 OpenRepGrid-0.1.10/OpenRepGrid/man/loadgrid.Rd | 6 OpenRepGrid-0.1.10/OpenRepGrid/man/makeEmptyRepgrid.Rd | 4 OpenRepGrid-0.1.10/OpenRepGrid/man/makeRepgrid.Rd | 21 OpenRepGrid-0.1.10/OpenRepGrid/man/map.Rd | 5 OpenRepGrid-0.1.10/OpenRepGrid/man/mapCoordinatesToColor.Rd | 10 OpenRepGrid-0.1.10/OpenRepGrid/man/mapCoordinatesToValue.Rd | 10 OpenRepGrid-0.1.10/OpenRepGrid/man/modifyConstruct.Rd | 5 OpenRepGrid-0.1.10/OpenRepGrid/man/modifyElement.Rd | 4 OpenRepGrid-0.1.10/OpenRepGrid/man/move.Rd | 11 OpenRepGrid-0.1.10/OpenRepGrid/man/multigridFileToSinglegridFiles.Rd | 4 OpenRepGrid-0.1.10/OpenRepGrid/man/normalize.Rd | 5 OpenRepGrid-0.1.10/OpenRepGrid/man/openrepgridSettings.Rd | 4 OpenRepGrid-0.1.10/OpenRepGrid/man/ops-methods.Rd | 12 OpenRepGrid-0.1.10/OpenRepGrid/man/orderBy.Rd | 4 OpenRepGrid-0.1.10/OpenRepGrid/man/orderByString.Rd | 5 OpenRepGrid-0.1.10/OpenRepGrid/man/permuteConstructs.Rd | 5 OpenRepGrid-0.1.10/OpenRepGrid/man/permuteGrid.Rd | 9 OpenRepGrid-0.1.10/OpenRepGrid/man/prepareBiplotData.Rd | 28 OpenRepGrid-0.1.10/OpenRepGrid/man/print.alignByLoadings.Rd | 14 OpenRepGrid-0.1.10/OpenRepGrid/man/print.constructCor.Rd | 14 OpenRepGrid-0.1.10/OpenRepGrid/man/print.constructD.Rd | 12 OpenRepGrid-0.1.10/OpenRepGrid/man/print.constructPca.Rd | 6 OpenRepGrid-0.1.10/OpenRepGrid/man/print.distance.Rd | 18 OpenRepGrid-0.1.10/OpenRepGrid/man/print.elementCor.Rd | 14 OpenRepGrid-0.1.10/OpenRepGrid/man/print.hdistance.Rd | 24 OpenRepGrid-0.1.10/OpenRepGrid/man/print.indexConflict1.Rd | 6 OpenRepGrid-0.1.10/OpenRepGrid/man/print.indexConflict2.Rd | 8 OpenRepGrid-0.1.10/OpenRepGrid/man/print.indexConflict3.Rd | 8 OpenRepGrid-0.1.10/OpenRepGrid/man/print.indexIntensity.Rd | 6 OpenRepGrid-0.1.10/OpenRepGrid/man/print.indexPvaff.Rd | 6 OpenRepGrid-0.1.10/OpenRepGrid/man/print.rmsCor.Rd | 6 OpenRepGrid-0.1.10/OpenRepGrid/man/print.ssq.Rd | 10 OpenRepGrid-0.1.10/OpenRepGrid/man/print.statsConstructs.Rd | 6 OpenRepGrid-0.1.10/OpenRepGrid/man/print.statsElements.Rd | 6 OpenRepGrid-0.1.10/OpenRepGrid/man/quasiDistributionDistanceSlater.Rd | 21 OpenRepGrid-0.1.10/OpenRepGrid/man/randomGrid.Rd | 11 OpenRepGrid-0.1.10/OpenRepGrid/man/randomGrids.Rd | 11 OpenRepGrid-0.1.10/OpenRepGrid/man/randomSentence.Rd | 9 OpenRepGrid-0.1.10/OpenRepGrid/man/randomSentences.Rd | 8 OpenRepGrid-0.1.10/OpenRepGrid/man/randomWords.Rd | 6 OpenRepGrid-0.1.10/OpenRepGrid/man/recycle.Rd | 14 OpenRepGrid-0.1.10/OpenRepGrid/man/recycle2.Rd | 10 OpenRepGrid-0.1.10/OpenRepGrid/man/reorder2d.Rd | 31 OpenRepGrid-0.1.10/OpenRepGrid/man/rglDrawConstructLabels.Rd | 4 OpenRepGrid-0.1.10/OpenRepGrid/man/rglDrawConstructPoints.Rd | 4 OpenRepGrid-0.1.10/OpenRepGrid/man/rglDrawStandardAxes.Rd | 4 OpenRepGrid-0.1.10/OpenRepGrid/man/rglDrawStandardEllipses.Rd | 4 OpenRepGrid-0.1.10/OpenRepGrid/man/ring.Rd | 5 OpenRepGrid-0.1.10/OpenRepGrid/man/sapply_pb.Rd | 12 OpenRepGrid-0.1.10/OpenRepGrid/man/saveAsTxt.Rd | 19 OpenRepGrid-0.1.10/OpenRepGrid/man/setConstructAttr.Rd | 13 OpenRepGrid-0.1.10/OpenRepGrid/man/setElementAttr.Rd | 17 OpenRepGrid-0.1.10/OpenRepGrid/man/setMeta.Rd | 5 OpenRepGrid-0.1.10/OpenRepGrid/man/setScale.Rd | 7 OpenRepGrid-0.1.10/OpenRepGrid/man/settings.Rd | 25 OpenRepGrid-0.1.10/OpenRepGrid/man/settingsLoad.Rd | 4 OpenRepGrid-0.1.10/OpenRepGrid/man/settingsSave.Rd | 4 OpenRepGrid-0.1.10/OpenRepGrid/man/shift.Rd | 7 OpenRepGrid-0.1.10/OpenRepGrid/man/show-repgrid-method.Rd | 4 OpenRepGrid-0.1.10/OpenRepGrid/man/showMeta.Rd | 5 OpenRepGrid-0.1.10/OpenRepGrid/man/showScale.Rd | 5 OpenRepGrid-0.1.10/OpenRepGrid/man/slaterStandardization.Rd | 4 OpenRepGrid-0.1.10/OpenRepGrid/man/ssq.Rd | 52 OpenRepGrid-0.1.10/OpenRepGrid/man/stats.Rd | 20 OpenRepGrid-0.1.10/OpenRepGrid/man/stepChart.Rd | 11 OpenRepGrid-0.1.10/OpenRepGrid/man/strReverse.Rd | 4 OpenRepGrid-0.1.10/OpenRepGrid/man/subassign.Rd | 7 OpenRepGrid-0.1.10/OpenRepGrid/man/swapConstructs.Rd | 5 OpenRepGrid-0.1.10/OpenRepGrid/man/swapElements.Rd | 5 OpenRepGrid-0.1.10/OpenRepGrid/man/swapPoles.Rd | 7 OpenRepGrid-0.1.10/OpenRepGrid/man/trim_val.Rd | 9 OpenRepGrid-0.1.9/OpenRepGrid/CHANGELOG |only OpenRepGrid-0.1.9/OpenRepGrid/NEWS |only 179 files changed, 2352 insertions(+), 2034 deletions(-)
Title: Functions for Nonlinear Least Squares Solutions
Description: Provides tools for working with nonlinear least squares problems.
It is intended to eventually supersede the nls() function in the R distribution.
For example, nls() specifically does NOT deal with small or zero
residual problems. Its Gauss-Newton method frequently stops with 'singular
gradient' messages.
Author: John C Nash [aut, cre],
Duncan Murdoch [aut]
Maintainer: John C Nash <nashjc@uottawa.ca>
Diff between nlsr versions 2017.2.12 dated 2017-02-13 and 2017.2.19 dated 2017-02-24
DESCRIPTION | 6 +++--- MD5 | 13 ++++++++----- R/derivs.R | 7 ++++--- inst/dev-files/testmultipointinput.R |only inst/dev-files/tryfn.R |only inst/doc/nlsr-derivs.html | 14 +++++++------- inst/doc/nlsr-devdoc.html | 26 +++++++++++++------------- man/nlsDeriv.Rd | 18 ++++++++++++++++++ tests/quadmin2.R |only 9 files changed, 53 insertions(+), 31 deletions(-)
Title: Multivariate, Locally Stationary Wavelet Process Estimation
Description: Tools for analysing multivariate time series with wavelets. This includes: simulation of a multivariate locally stationary wavelet (mvLSW) process from a multivariate evolutionary wavelet spectrum (mvEWS); estimation of the mvEWS, local coherence and local partial coherence; and, estimation of the asymptotic variance for mvEWS elements. See Park, Eckley and Ombao (2014) <doi:10.1109/TSP.2014.2343937> for details.
Author: Simon Taylor [aut, cre],
Tim Park [aut],
Idris Eckley [ths],
Rebecca Killick [ctb]
Maintainer: Simon Taylor <s.taylor2@lancaster.ac.uk>
Diff between mvLSW versions 1.0 dated 2016-12-23 and 1.1 dated 2017-02-24
mvLSW-1.0/mvLSW/man/AdjPositiveDef.Rd |only mvLSW-1.0/mvLSW/man/CorrectBias.Rd |only mvLSW-1.0/mvLSW/man/RawPeriodogram.Rd |only mvLSW-1.0/mvLSW/man/SmoothEvWaveSpec.Rd |only mvLSW-1.0/mvLSW/man/modchol.Rd |only mvLSW-1.1/mvLSW/DESCRIPTION | 14 +- mvLSW-1.1/mvLSW/MD5 | 34 +++--- mvLSW-1.1/mvLSW/NAMESPACE | 37 +++---- mvLSW-1.1/mvLSW/R/mvLSW.R | 152 +++++++++++++++++++++++++------ mvLSW-1.1/mvLSW/man/Asymp_Quantile.Rd | 4 mvLSW-1.1/mvLSW/man/Autocorrelation.Rd | 24 ---- mvLSW-1.1/mvLSW/man/Spectrum2Transfer.Rd | 4 mvLSW-1.1/mvLSW/man/as.mvLSW.Rd |only mvLSW-1.1/mvLSW/man/coherence.Rd | 2 mvLSW-1.1/mvLSW/man/mvEWS.rd | 12 +- mvLSW-1.1/mvLSW/man/mvLSW.Rd | 139 +++++++++------------------- mvLSW-1.1/mvLSW/man/plot.mvLSW.Rd | 83 ++++++---------- mvLSW-1.1/mvLSW/man/rmvLSW.Rd | 25 +++-- mvLSW-1.1/mvLSW/man/summary.mvLSW.Rd | 11 +- mvLSW-1.1/mvLSW/man/varEWS.Rd | 6 - mvLSW-1.1/mvLSW/src/mvLSW_Cfunctions.c | 83 +++++++--------- 21 files changed, 315 insertions(+), 315 deletions(-)
Title: Miscellaneous Tools Set
Description: A collection of miscellaneous methods to simplify various tasks,
including plotting, data.frame and matrix transformations, environment
functions, regular expression methods, and string and logical operations, as
well as numerical and statistical tools. Most of the methods are simple but
useful wrappers of common base R functions, which extend S3 generics or
provide default values for important parameters.
Author: Sven E. Templer
Maintainer: Sven E. Templer <sven.templer@gmail.com>
Diff between miscset versions 1.0.0 dated 2016-01-25 and 1.1.0 dated 2017-02-24
miscset-1.0.0/miscset/man/strpart.Rd |only miscset-1.0.0/miscset/man/strrev.Rd |only miscset-1.1.0/miscset/DESCRIPTION | 15 miscset-1.1.0/miscset/MD5 | 101 +++--- miscset-1.1.0/miscset/NAMESPACE | 8 miscset-1.1.0/miscset/NEWS | 28 + miscset-1.1.0/miscset/R/RcppExports.R | 2 miscset-1.1.0/miscset/R/aaa.R | 2 miscset-1.1.0/miscset/R/ciplot.R | 2 miscset-1.1.0/miscset/R/collapse.R |only miscset-1.1.0/miscset/R/confint.R | 2 miscset-1.1.0/miscset/R/do.rbind.r | 2 miscset-1.1.0/miscset/R/help.index.R | 2 miscset-1.1.0/miscset/R/info.R |only miscset-1.1.0/miscset/R/mgrepl.R | 89 +++-- miscset-1.1.0/miscset/R/scale0.R | 2 miscset-1.1.0/miscset/R/strextr.R | 28 + miscset-1.1.0/miscset/R/strpart.R | 22 + miscset-1.1.0/miscset/R/strrev.R | 24 + miscset-1.1.0/miscset/README.md | 54 ++- miscset-1.1.0/miscset/build/vignette.rds |binary miscset-1.1.0/miscset/inst/doc/miscset.R | 108 ++++-- miscset-1.1.0/miscset/inst/doc/miscset.Rmd | 298 +++++++++++++----- miscset-1.1.0/miscset/inst/doc/miscset.html | 434 +++++++++++++++++---------- miscset-1.1.0/miscset/man/ciplot.Rd | 3 miscset-1.1.0/miscset/man/collapse.Rd |only miscset-1.1.0/miscset/man/confint.Rd | 3 miscset-1.1.0/miscset/man/do.rbind.Rd | 1 miscset-1.1.0/miscset/man/duplicates.Rd | 4 miscset-1.1.0/miscset/man/enpaire.Rd | 7 miscset-1.1.0/miscset/man/factorNA.Rd | 1 miscset-1.1.0/miscset/man/gghcl.Rd | 7 miscset-1.1.0/miscset/man/ggplotGrid.Rd | 1 miscset-1.1.0/miscset/man/gregexprind.Rd | 7 miscset-1.1.0/miscset/man/help.index.Rd | 3 miscset-1.1.0/miscset/man/info.Rd |only miscset-1.1.0/miscset/man/leading0.Rd | 1 miscset-1.1.0/miscset/man/lload.Rd | 7 miscset-1.1.0/miscset/man/lsall.Rd | 7 miscset-1.1.0/miscset/man/mgrepl.Rd | 75 ++-- miscset-1.1.0/miscset/man/miscset-package.Rd | 3 miscset-1.1.0/miscset/man/ntri.Rd | 1 miscset-1.1.0/miscset/man/nunique.Rd | 1 miscset-1.1.0/miscset/man/p2star.Rd | 1 miscset-1.1.0/miscset/man/plotn.Rd | 1 miscset-1.1.0/miscset/man/rmall.Rd | 7 miscset-1.1.0/miscset/man/scale0.Rd | 4 miscset-1.1.0/miscset/man/sort.Rd | 1 miscset-1.1.0/miscset/man/squarematrix.Rd | 1 miscset-1.1.0/miscset/man/str_part.Rd |only miscset-1.1.0/miscset/man/str_rev.Rd |only miscset-1.1.0/miscset/man/strextr.Rd | 24 + miscset-1.1.0/miscset/man/textable.Rd | 7 miscset-1.1.0/miscset/src/RcppExports.cpp | 10 miscset-1.1.0/miscset/src/init.c |only miscset-1.1.0/miscset/vignettes/miscset.Rmd | 298 +++++++++++++----- 56 files changed, 1135 insertions(+), 574 deletions(-)
Title: General Smoothing Splines
Description: A comprehensive package for structural multivariate
function estimation using smoothing splines.
Author: Chong Gu <chong@purdue.edu>
Maintainer: Chong Gu <chong@purdue.edu>
Diff between gss versions 2.1-6 dated 2016-08-28 and 2.1-7 dated 2017-02-24
ChangeLog | 12 +++++ DESCRIPTION | 8 +-- INDEX | 2 MD5 | 20 +++++---- NAMESPACE | 18 ++++---- R/mkran.R | 102 +++++++++++++++++++++++++++++++------------------ R/predict1.ssanova.R |only R/project.ssanova.R | 2 R/summary.ssanova.R | 4 - man/mkran.Rd | 17 +++++++- man/predict.ssanova.Rd | 10 ++++ src/init.c |only 12 files changed, 132 insertions(+), 63 deletions(-)
Title: Variable Selection for Gaussian Model-Based Clustering
Description: An R package implementing variable selection methodology for Gaussian model-based clustering which allows to find the (locally) optimal subset of variables in a data set that have group/cluster information. A greedy or headlong search can be used, either in a forward-backward or backward-forward direction, with or without sub-sampling at the hierarchical clustering stage for starting MCLUST models. By default the algorithm uses a sequential search, but parallelisation is also available.
Author: Nema Dean [aut],
Adrian E. Raftery [aut],
Luca Scrucca [aut, cre]
Maintainer: Luca Scrucca <luca.scrucca@unipg.it>
Diff between clustvarsel versions 2.2 dated 2015-11-19 and 2.3 dated 2017-02-24
DESCRIPTION | 29 +++++--- MD5 | 29 ++++---- NAMESPACE | 2 R/clustvarsel.R | 28 ++++--- R/clvarselgrbkw.R | 113 +++++++++++++++++++------------ R/clvarselgrfwd.R | 139 ++++++++++++++++++++++++-------------- R/clvarselhlbkw.R | 2 R/clvarselhlfwd.R | 157 +++++++++++++++++++++++++++++++------------- R/startParallel.R | 11 ++- build |only inst/CITATION | 9 +- inst/NEWS | 11 ++- inst/doc |only man/clustvarsel-internal.Rd | 4 - man/clustvarsel.Rd | 22 ++++-- vignettes |only 16 files changed, 366 insertions(+), 190 deletions(-)
Title: Geographic Information System Application
Description: A geographic information system (GIS) graphical user interface (GUI) that
provides data viewing, management, and analysis tools.
Author: Jason C. Fisher [aut, cre]
Maintainer: Jason C. Fisher <jfisher@usgs.gov>
Diff between RSurvey versions 0.9.0 dated 2017-02-09 and 0.9.1 dated 2017-02-24
DESCRIPTION | 17 ++++++------ MD5 | 30 ++++++++++----------- NEWS.md | 10 +++++++ R/EditData.R | 31 +++++++++++++--------- R/EditFunction.R | 10 +++---- R/EditText.R | 12 ++++---- R/Format.R | 8 ++++- R/FormatDateTime.R | 8 ++++- R/ImportText.R | 9 ++++-- R/LaunchGui.R | 72 +++++++++++++++++++++++++++++----------------------- R/ManagePolygons.R | 22 +++++++-------- R/ManageVariables.R | 10 +++---- R/SetAxesLimits.R | 5 +-- R/SetCrs.R | 10 +++---- R/zzz.R | 2 + README.md | 32 +++++++++++++++-------- 16 files changed, 168 insertions(+), 120 deletions(-)
Title: Multivariate Multinomial Distribution Approximation and
Imputation for Incomplete Data
Description: Fit incomplete categorical data with infinite mixture of multinomial distribution
(Dunson and Xing (2009) <DOI:10.1198/jasa.2009.tm08439>). Perform efficient missing data imputation and
other statistical inference based on joint distribution estimation.
Author: Chaojie Wang
Maintainer: Chaojie Wang <wang910930@163.com>
Diff between MMDai versions 1.0.0 dated 2017-01-23 and 1.0.1 dated 2017-02-24
DESCRIPTION | 6 +-- MD5 | 24 +++++++------ NAMESPACE | 1 R/ChiSquareTest.R | 38 +++++++++++---------- R/Classification.R |only R/Correlation.R | 90 ++++++++++++++++++++++++++------------------------ R/Imputation.R | 58 +++++++++++++++++++++++--------- R/MutualInfo.R | 48 +++++++++++++------------- data/Example.rda |binary man/ChiSquareTest.Rd | 6 ++- man/Classification.Rd |only man/Correlation.Rd | 14 +++++-- man/Imputation.Rd | 6 ++- man/MutualInfo.Rd | 6 ++- 14 files changed, 174 insertions(+), 123 deletions(-)
Title: Dynamic Modeling in R
Description: Dynamic modeling of all kinds in R. These include models of
processes in discrete time or continuous time. They also include processes
that are linear or nonlinear. Latent variables can be continuous (e.g. state
space models) or discrete (e.g. regime-switching models). The general approach
involves maximum likelihood estimation of single- and multi-subject models of
latent time series with the extended Kalman filter and Kim filter. The user
provides recipes and data which are combined into a model that is then cooked to
obtain free parameter estimates.
Author: Lu Ou [aut, cre],
Michael D. Hunter [aut],
Sy-Miin Chow [aut]
Maintainer: Lu Ou <lzo114@psu.edu>
Diff between dynr versions 0.1.8-17 dated 2017-01-09 and 0.1.9-20 dated 2017-02-24
dynr-0.1.8-17/dynr/man/plot-dynrCook-method.Rd |only dynr-0.1.8-17/dynr/man/summary-dynrCook-method.Rd |only dynr-0.1.8-17/dynr/src/Makevars.win.in |only dynr-0.1.8-17/dynr/src/MakevarsGSL.win |only dynr-0.1.8-17/dynr/src/MakevarsIgnore |only dynr-0.1.9-20/dynr/DESCRIPTION | 8 dynr-0.1.9-20/dynr/MD5 | 137 +++++++------- dynr-0.1.9-20/dynr/NAMESPACE | 30 ++- dynr-0.1.9-20/dynr/NEWS | 6 dynr-0.1.9-20/dynr/R/dynrCook.R | 185 +++++++++++++++++--- dynr-0.1.9-20/dynr/R/dynrData.R | 38 +++- dynr-0.1.9-20/dynr/R/dynrModel.R | 202 +++++++++++++++++++--- dynr-0.1.9-20/dynr/R/dynrPlot.R | 42 +++- dynr-0.1.9-20/dynr/R/dynrRecipe.R | 135 ++++++++++++-- dynr-0.1.9-20/dynr/R/dynrVersion.R | 2 dynr-0.1.9-20/dynr/build/partial.rdb |binary dynr-0.1.9-20/dynr/cleanup |only dynr-0.1.9-20/dynr/configure.win | 7 dynr-0.1.9-20/dynr/data/EMG.txt.gz |binary dynr-0.1.9-20/dynr/data/EMGsim.txt.gz |binary dynr-0.1.9-20/dynr/data/NonlinearDFAsim.txt.gz |binary dynr-0.1.9-20/dynr/data/PPsim.txt.gz |binary dynr-0.1.9-20/dynr/data/RSPPsim.txt.gz |binary dynr-0.1.9-20/dynr/data/datalist | 10 - dynr-0.1.9-20/dynr/demo/LinearSDE.R | 14 + dynr-0.1.9-20/dynr/demo/NonlinearODE.R | 6 dynr-0.1.9-20/dynr/demo/RSLinearDiscrete.R | 61 +++++- dynr-0.1.9-20/dynr/demo/RSNonlinearODE.R | 4 dynr-0.1.9-20/dynr/man/EMG.Rd | 58 +++--- dynr-0.1.9-20/dynr/man/EMGsim.Rd | 66 +++---- dynr-0.1.9-20/dynr/man/NonlinearDFAsim.Rd | 70 +++---- dynr-0.1.9-20/dynr/man/PPsim.Rd | 52 ++--- dynr-0.1.9-20/dynr/man/RSPPsim.Rd | 58 +++--- dynr-0.1.9-20/dynr/man/coef.dynrCook.Rd | 65 ++++--- dynr-0.1.9-20/dynr/man/confint.dynrCook.Rd |only dynr-0.1.9-20/dynr/man/diag-character-method.Rd | 60 +++--- dynr-0.1.9-20/dynr/man/dynr.cook.Rd | 77 ++++---- dynr-0.1.9-20/dynr/man/dynr.data.Rd | 80 ++++---- dynr-0.1.9-20/dynr/man/dynr.ggplot.Rd | 111 ++++++------ dynr-0.1.9-20/dynr/man/dynr.ldl.Rd | 38 ++-- dynr-0.1.9-20/dynr/man/dynr.model.Rd | 86 +++++---- dynr-0.1.9-20/dynr/man/dynr.plotFreq.Rd | 64 +++--- dynr-0.1.9-20/dynr/man/dynrCook-class.Rd | 35 ++- dynr-0.1.9-20/dynr/man/dynrDynamics-class.Rd | 36 +-- dynr-0.1.9-20/dynr/man/dynrInitial-class.Rd | 28 +-- dynr-0.1.9-20/dynr/man/dynrMeasurement-class.Rd | 28 +-- dynr-0.1.9-20/dynr/man/dynrModel-class.Rd | 34 +-- dynr-0.1.9-20/dynr/man/dynrNoise-class.Rd | 28 +-- dynr-0.1.9-20/dynr/man/dynrRecipe-class.Rd | 48 ++--- dynr-0.1.9-20/dynr/man/dynrRegimes-class.Rd | 28 +-- dynr-0.1.9-20/dynr/man/dynrTrans-class.Rd | 28 +-- dynr-0.1.9-20/dynr/man/internalModelPrep.Rd | 82 ++++---- dynr-0.1.9-20/dynr/man/logLik.dynrCook.Rd | 65 +++---- dynr-0.1.9-20/dynr/man/names-dynrCook-method.Rd |only dynr-0.1.9-20/dynr/man/names-dynrModel-method.Rd |only dynr-0.1.9-20/dynr/man/nobs.dynrCook.Rd |only dynr-0.1.9-20/dynr/man/nobs.dynrModel.Rd |only dynr-0.1.9-20/dynr/man/plot.dynrCook.Rd |only dynr-0.1.9-20/dynr/man/plotFormula.Rd | 58 +++--- dynr-0.1.9-20/dynr/man/prep.formulaDynamics.Rd | 110 ++++++----- dynr-0.1.9-20/dynr/man/prep.initial.Rd | 68 +++---- dynr-0.1.9-20/dynr/man/prep.loadings.Rd | 112 ++++++------ dynr-0.1.9-20/dynr/man/prep.matrixDynamics.Rd | 74 ++++---- dynr-0.1.9-20/dynr/man/prep.measurement.Rd | 104 +++++------ dynr-0.1.9-20/dynr/man/prep.noise.Rd | 50 ++--- dynr-0.1.9-20/dynr/man/prep.regimes.Rd | 87 +++++---- dynr-0.1.9-20/dynr/man/prep.tfun.Rd | 68 +++---- dynr-0.1.9-20/dynr/man/printex.Rd | 110 +++++------ dynr-0.1.9-20/dynr/man/summary.dynrCook.Rd |only dynr-0.1.9-20/dynr/man/vcov.dynrCook.Rd | 40 ++-- dynr-0.1.9-20/dynr/src/brekfis.c | 65 +++++-- dynr-0.1.9-20/dynr/src/glue.c | 1 dynr-0.1.9-20/dynr/src/mainR.c | 20 +- dynr-0.1.9-20/dynr/src/math_function.c | 61 ++++++ dynr-0.1.9-20/dynr/src/math_function.h | 10 + dynr-0.1.9-20/dynr/tools/prep | 2 76 files changed, 1979 insertions(+), 1273 deletions(-)
Title: Diversity-Dependent Diversification
Description:
Implements maximum likelihood and bootstrap methods based on the diversity-dependent birth-death process to test whether speciation or extinction are diversity-dependent, under various models including various types of key innovations.
See Etienne et al. 2012, Proc. Roy. Soc. B 279: 1300-1309, <DOI:10.1098/rspb.2011.1439>, Etienne & Haegeman 2012, Am. Nat. 180: E75-E89, <DOI:10.1086/667574> and Etienne et al. 2016. Meth. Ecol. Evol. 7: 1092-1099, <DOI:10.1111/2041-210X.12565>.
Also contains functions to simulate the diversity-dependent process.
Author: Rampal S. Etienne & Bart Haegeman
Maintainer: Rampal S. Etienne <r.s.etienne@rug.nl>
Diff between DDD versions 3.3 dated 2016-11-07 and 3.4 dated 2017-02-24
DESCRIPTION | 8 ++++---- MD5 | 25 +++++++++++++------------ R/dd_KI_loglik.R | 8 +++----- R/dd_SR_ML.R | 2 +- R/dd_SR_sim.R | 4 ++-- R/dd_logliknorm_rhs3.R | 2 +- R/dd_sim.R | 3 ++- R/dd_utils.R | 49 +++++++++++++++++++++++++++++++++++++++++++++++++ man/DDD-package.Rd | 10 +++++++--- man/L2brts.Rd |only man/dd_LR.Rd | 3 --- man/dd_ML.Rd | 3 --- man/dd_SR_sim.Rd | 6 +++--- man/dd_sim.Rd | 6 +++--- 14 files changed, 88 insertions(+), 41 deletions(-)
More information about autothresholdr at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-02-04 0.3.1
2014-08-06 0.3
2013-10-14 0.2.1
2013-03-17 0.2
2012-12-27 0.1