Title: Machine Learning Models and Tools
Description: Meta-package for statistical and machine learning with a unified
interface for model fitting, prediction, performance assessment, and
presentation of results. Approaches for model fitting and prediction of
numerical, categorical, or censored time-to-event outcomes include
traditional regression models, regularization methods, tree-based methods,
support vector machines, neural networks, ensembles, data preprocessing,
filtering, and model tuning and selection. Performance metrics are provided
for model assessment and can be estimated with independent test sets, split
sampling, cross-validation, or bootstrap resampling. Resample estimation
can be executed in parallel for faster processing and nested in cases of
model tuning and selection. Modeling results can be summarized with
descriptive statistics; calibration curves; variable importance; partial
dependence plots; confusion matrices; and ROC, lift, and other performance
curves.
Author: Brian J Smith [aut, cre]
Maintainer: Brian J Smith <brian-j-smith@uiowa.edu>
Diff between MachineShop versions 2.0.0 dated 2019-12-10 and 2.1.0 dated 2020-02-08
MachineShop-2.0.0/MachineShop/R/TrainedModelFrames.R |only MachineShop-2.0.0/MachineShop/R/TrainedRecipes.R |only MachineShop-2.0.0/MachineShop/R/train.R |only MachineShop-2.0.0/MachineShop/inst/doc/Introduction.R |only MachineShop-2.0.0/MachineShop/inst/doc/Introduction.Rmd |only MachineShop-2.0.0/MachineShop/inst/doc/Introduction.html |only MachineShop-2.0.0/MachineShop/man/SelectedModelFrame.Rd |only MachineShop-2.0.0/MachineShop/man/SelectedRecipe.Rd |only MachineShop-2.0.0/MachineShop/man/TunedRecipe.Rd |only MachineShop-2.0.0/MachineShop/man/offset.Rd |only MachineShop-2.0.0/MachineShop/tests/testthat/test-TrainedModelFrames.R |only MachineShop-2.0.0/MachineShop/tests/testthat/test-TrainedRecipes.R |only MachineShop-2.0.0/MachineShop/vignettes/Introduction.Rmd |only MachineShop-2.1.0/MachineShop/DESCRIPTION | 22 MachineShop-2.1.0/MachineShop/MD5 | 184 ++- MachineShop-2.1.0/MachineShop/NAMESPACE | 150 ++- MachineShop-2.1.0/MachineShop/NEWS.md | 31 MachineShop-2.1.0/MachineShop/R/AllClasses.R | 337 ++++--- MachineShop-2.1.0/MachineShop/R/MLControl.R | 6 MachineShop-2.1.0/MachineShop/R/MLModel.R | 8 MachineShop-2.1.0/MachineShop/R/ML_GBMModel.R | 2 MachineShop-2.1.0/MachineShop/R/ML_GLMNetModel.R | 2 MachineShop-2.1.0/MachineShop/R/ML_NNetModel.R | 4 MachineShop-2.1.0/MachineShop/R/ML_NullModel.R |only MachineShop-2.1.0/MachineShop/R/ML_PLSModel.R | 6 MachineShop-2.1.0/MachineShop/R/ML_StackedModel.R | 28 MachineShop-2.1.0/MachineShop/R/ML_SuperModel.R | 34 MachineShop-2.1.0/MachineShop/R/MachineShop-package.R | 48 - MachineShop-2.1.0/MachineShop/R/ModelFrame.R | 85 + MachineShop-2.1.0/MachineShop/R/ModelRecipe.R | 18 MachineShop-2.1.0/MachineShop/R/ModeledInput.R |only MachineShop-2.1.0/MachineShop/R/TrainedInputs.R |only MachineShop-2.1.0/MachineShop/R/TrainedModels.R | 32 MachineShop-2.1.0/MachineShop/R/calibration.R | 31 MachineShop-2.1.0/MachineShop/R/coerce.R | 62 + MachineShop-2.1.0/MachineShop/R/combine.R | 129 -- MachineShop-2.1.0/MachineShop/R/confusion.R | 6 MachineShop-2.1.0/MachineShop/R/convert.R | 2 MachineShop-2.1.0/MachineShop/R/dependence.R | 8 MachineShop-2.1.0/MachineShop/R/deprecated.R | 69 + MachineShop-2.1.0/MachineShop/R/diff.R | 8 MachineShop-2.1.0/MachineShop/R/expand.R | 8 MachineShop-2.1.0/MachineShop/R/extract.R | 68 + MachineShop-2.1.0/MachineShop/R/fit.R | 69 - MachineShop-2.1.0/MachineShop/R/grid.R | 31 MachineShop-2.1.0/MachineShop/R/metricinfo.R | 15 MachineShop-2.1.0/MachineShop/R/metrics.R | 8 MachineShop-2.1.0/MachineShop/R/metrics_factor.R | 34 MachineShop-2.1.0/MachineShop/R/modelinfo.R | 14 MachineShop-2.1.0/MachineShop/R/models.R | 57 + MachineShop-2.1.0/MachineShop/R/performance.R | 12 MachineShop-2.1.0/MachineShop/R/performance_curve.R | 81 - MachineShop-2.1.0/MachineShop/R/plot.R | 181 ++- MachineShop-2.1.0/MachineShop/R/predictors.R | 13 MachineShop-2.1.0/MachineShop/R/print.R | 391 +++++--- MachineShop-2.1.0/MachineShop/R/recipe_roles.R | 12 MachineShop-2.1.0/MachineShop/R/resample.R | 463 ++++------ MachineShop-2.1.0/MachineShop/R/response.R | 10 MachineShop-2.1.0/MachineShop/R/settings.R | 31 MachineShop-2.1.0/MachineShop/R/step_kmeans.R |only MachineShop-2.1.0/MachineShop/R/step_kmedoids.R |only MachineShop-2.1.0/MachineShop/R/step_spca.R |only MachineShop-2.1.0/MachineShop/R/summary.R | 101 +- MachineShop-2.1.0/MachineShop/R/survival.R | 12 MachineShop-2.1.0/MachineShop/R/utils.R | 148 ++- MachineShop-2.1.0/MachineShop/build/vignette.rds |binary MachineShop-2.1.0/MachineShop/inst/doc/MLModels.html | 12 MachineShop-2.1.0/MachineShop/inst/doc/UsersGuide.R |only MachineShop-2.1.0/MachineShop/inst/doc/UsersGuide.Rmd |only MachineShop-2.1.0/MachineShop/inst/doc/UsersGuide.html |only MachineShop-2.1.0/MachineShop/man/MLControl.Rd | 6 MachineShop-2.1.0/MachineShop/man/MachineShop-package.Rd | 48 - MachineShop-2.1.0/MachineShop/man/ModelFrame-methods.Rd | 2 MachineShop-2.1.0/MachineShop/man/ModeledInput-methods.Rd |only MachineShop-2.1.0/MachineShop/man/ParameterGrid.Rd | 17 MachineShop-2.1.0/MachineShop/man/SelectedInput.Rd |only MachineShop-2.1.0/MachineShop/man/SelectedModel.Rd | 2 MachineShop-2.1.0/MachineShop/man/TunedInput.Rd |only MachineShop-2.1.0/MachineShop/man/TunedModel.Rd | 2 MachineShop-2.1.0/MachineShop/man/combine-methods.Rd | 12 MachineShop-2.1.0/MachineShop/man/deprecated.Rd | 36 MachineShop-2.1.0/MachineShop/man/expand_steps.Rd | 2 MachineShop-2.1.0/MachineShop/man/extract-methods.Rd | 12 MachineShop-2.1.0/MachineShop/man/fit-methods.Rd | 13 MachineShop-2.1.0/MachineShop/man/inputs.Rd |only MachineShop-2.1.0/MachineShop/man/lift.Rd | 7 MachineShop-2.1.0/MachineShop/man/metrics.Rd | 2 MachineShop-2.1.0/MachineShop/man/models.Rd | 14 MachineShop-2.1.0/MachineShop/man/performance_curve.Rd | 7 MachineShop-2.1.0/MachineShop/man/plot-methods.Rd | 44 MachineShop-2.1.0/MachineShop/man/print-methods.Rd | 30 MachineShop-2.1.0/MachineShop/man/resample-methods.Rd | 14 MachineShop-2.1.0/MachineShop/man/settings.Rd | 9 MachineShop-2.1.0/MachineShop/man/step_kmeans.Rd |only MachineShop-2.1.0/MachineShop/man/step_kmedoids.Rd |only MachineShop-2.1.0/MachineShop/man/step_spca.Rd |only MachineShop-2.1.0/MachineShop/man/summary-methods.Rd | 20 MachineShop-2.1.0/MachineShop/tests/testthat/Rplots.pdf |binary MachineShop-2.1.0/MachineShop/tests/testthat/test-ModeledInputs.R |only MachineShop-2.1.0/MachineShop/tests/testthat/test-TrainedInputs.R |only MachineShop-2.1.0/MachineShop/tests/testthat/test-combine.R | 16 MachineShop-2.1.0/MachineShop/tests/testthat/test-grids.R | 3 MachineShop-2.1.0/MachineShop/tests/testthat/test-model-comparisons.R | 2 MachineShop-2.1.0/MachineShop/tests/testthat/test-settings.R | 12 MachineShop-2.1.0/MachineShop/tests/testthat/test-survival.R | 4 MachineShop-2.1.0/MachineShop/tests/testthat/test-survival.txt | 26 MachineShop-2.1.0/MachineShop/vignettes/UsersGuide.Rmd |only MachineShop-2.1.0/MachineShop/vignettes/bibliography.bib | 30 MachineShop-2.1.0/MachineShop/vignettes/img |only 109 files changed, 1987 insertions(+), 1488 deletions(-)
Title: Initialization Algorithms for Partitioning Cluster Analysis
Description: Partitioning clustering algorithms divide data sets into k subsets or partitions so-called clusters. They require some initialization procedures for starting the algorithms. Initialization of cluster prototypes is one of such kind of procedures for most of the partitioning algorithms. Cluster prototypes are the centers of clusters, i.e. centroids or medoids, representing the clusters in a data set. In order to initialize cluster prototypes, the package 'inaparc' contains a set of the functions that are the implementations of several linear time-complexity and loglinear time-complexity methods in addition to some novel techniques. Initialization of fuzzy membership degrees matrices is another important task for starting the probabilistic and possibilistic partitioning algorithms. In order to initialize membership degrees matrices required by these algorithms, a number of functions based on some traditional and novel initialization techniques are also available in the package 'inaparc'.
Author: Zeynel Cebeci [aut, cre],
Cagatay Cebeci [aut]
Maintainer: Zeynel Cebeci <zcebeci@cukurova.edu.tr>
Diff between inaparc versions 0.2.0 dated 2017-11-04 and 1.1.0 dated 2020-02-08
inaparc-0.2.0/inaparc/man/imembucr.Rd |only inaparc-1.1.0/inaparc/DESCRIPTION | 17 ++++++++-------- inaparc-1.1.0/inaparc/MD5 | 28 +++++++++++++-------------- inaparc-1.1.0/inaparc/NAMESPACE | 1 inaparc-1.1.0/inaparc/R/inaparc.R | 27 ++++++++++++++++---------- inaparc-1.1.0/inaparc/inst/CITATION | 26 +++++++++++++++---------- inaparc-1.1.0/inaparc/inst/NEWS.Rd | 16 +++++++++++++++ inaparc-1.1.0/inaparc/man/figen.Rd |only inaparc-1.1.0/inaparc/man/hartiganwong.Rd | 2 - inaparc-1.1.0/inaparc/man/imembones.Rd | 2 - inaparc-1.1.0/inaparc/man/imembrand.Rd | 2 - inaparc-1.1.0/inaparc/man/inaparc-package.Rd | 8 +++++-- inaparc-1.1.0/inaparc/man/inofrep.Rd | 2 - inaparc-1.1.0/inaparc/man/inscsf.Rd | 2 + inaparc-1.1.0/inaparc/man/lhsmaximin.Rd | 2 - inaparc-1.1.0/inaparc/man/lhsrandom.Rd | 2 - 16 files changed, 87 insertions(+), 50 deletions(-)
Title: A Statistically Sound 'data.frame' Processor/Conditioner
Description: A 'data.frame' processor/conditioner that prepares real-world data for predictive modeling in a statistically sound manner.
'vtreat' prepares variables so that data has fewer exceptional cases, making
it easier to safely use models in production. Common problems 'vtreat' defends
against: 'Inf', 'NA', too many categorical levels, rare categorical levels, and new
categorical levels (levels seen during application, but not during training). Reference:
"'vtreat': a data.frame Processor for Predictive Modeling", Zumel, Mount, 2016, <DOI:10.5281/zenodo.1173313>.
Author: John Mount [aut, cre],
Nina Zumel [aut],
Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>
Diff between vtreat versions 1.5.1 dated 2020-01-16 and 1.5.2 dated 2020-02-08
vtreat-1.5.1/vtreat/man/reexports.Rd |only vtreat-1.5.2/vtreat/DESCRIPTION | 14 vtreat-1.5.2/vtreat/MD5 | 63 +-- vtreat-1.5.2/vtreat/NAMESPACE | 23 - vtreat-1.5.2/vtreat/NEWS.md | 9 vtreat-1.5.2/vtreat/R/cleanTreatment.R | 2 vtreat-1.5.2/vtreat/R/design_missing_Z.R | 19 - vtreat-1.5.2/vtreat/R/ft.R | 31 + vtreat-1.5.2/vtreat/R/mult_class.R | 62 +++ vtreat-1.5.2/vtreat/R/vtreat.R | 210 ++++++++---- vtreat-1.5.2/vtreat/R/wrapr_exports.R | 49 -- vtreat-1.5.2/vtreat/README.md | 280 +++++++++------- vtreat-1.5.2/vtreat/build/vignette.rds |binary vtreat-1.5.2/vtreat/inst/doc/MultiClassVtreat.html | 133 +++---- vtreat-1.5.2/vtreat/inst/doc/SavingTreamentPlans.html | 12 vtreat-1.5.2/vtreat/inst/doc/VariableImportance.html | 22 - vtreat-1.5.2/vtreat/inst/doc/vtreat.html | 14 vtreat-1.5.2/vtreat/inst/doc/vtreatCrossFrames.html | 46 +- vtreat-1.5.2/vtreat/inst/doc/vtreatGrouping.html | 12 vtreat-1.5.2/vtreat/inst/doc/vtreatOverfit.html | 46 +- vtreat-1.5.2/vtreat/inst/doc/vtreatRareLevels.html | 12 vtreat-1.5.2/vtreat/inst/doc/vtreatScaleMode.html | 24 - vtreat-1.5.2/vtreat/inst/doc/vtreatSignificance.html | 26 - vtreat-1.5.2/vtreat/inst/doc/vtreatSplitting.html | 12 vtreat-1.5.2/vtreat/inst/doc/vtreatVariableTypes.html | 50 +- vtreat-1.5.2/vtreat/man/BinomialOutcomeTreatment.Rd | 4 vtreat-1.5.2/vtreat/man/designTreatmentsC.Rd | 5 vtreat-1.5.2/vtreat/man/designTreatmentsN.Rd | 3 vtreat-1.5.2/vtreat/man/design_missingness_treatment.Rd | 8 vtreat-1.5.2/vtreat/man/mkCrossFrameCExperiment.Rd | 63 ++- vtreat-1.5.2/vtreat/man/mkCrossFrameMExperiment.Rd | 56 +++ vtreat-1.5.2/vtreat/man/mkCrossFrameNExperiment.Rd | 62 ++- vtreat-1.5.2/vtreat/man/prepare.treatmentplan.Rd | 72 ++-- 33 files changed, 872 insertions(+), 572 deletions(-)
Title: Forecasting Using State Space Models
Description: Functions implementing Single Source of Error state space models for purposes of time series analysis and forecasting.
The package includes Exponential Smoothing (Hyndman et al., 2008, <doi: 10.1007/978-3-540-71918-2>),
SARIMA (Svetunkov & Boylan, 2019 <doi: 10.1080/00207543.2019.1600764>),
Complex Exponential Smoothing (Svetunkov & Kourentzes, 2018, <doi: 10.13140/RG.2.2.24986.29123>),
Simple Moving Average (Svetunkov & Petropoulos, 2018 <doi: 10.1080/00207543.2017.1380326>),
Vector Exponential Smoothing (de Silva et al., 2010, <doi: 10.1177/1471082X0901000401>) in state space forms,
several simulation functions and intermittent demand state space models. It also allows dealing with
intermittent demand based on the iETS framework (Svetunkov & Boylan, 2017, <doi: 10.13140/RG.2.2.35897.06242>).
Author: Ivan Svetunkov [aut, cre] (Lecturer at Centre for Marketing Analytics
and Forecasting, Lancaster University, UK)
Maintainer: Ivan Svetunkov <ivan@svetunkov.ru>
Diff between smooth versions 2.5.4 dated 2019-10-22 and 2.5.5 dated 2020-02-08
DESCRIPTION | 10 MD5 | 129 +++++----- NAMESPACE | 36 ++ NEWS | 18 + R/cma.R | 2 R/es.R | 17 - R/methods.R | 618 +++++++++++++++++++++++++++++++++++++++---------- R/msdecompose.R |only R/oes.R | 25 + R/oesg.R | 10 R/simes.R | 4 R/ssfunctions.R | 19 - R/ves.R | 3 R/vmethods.R | 9 README.md | 25 + build/partial.rdb |binary inst/doc/ces.R | 16 - inst/doc/ces.html | 79 +++--- inst/doc/es.R | 44 +-- inst/doc/es.html | 141 +++++------ inst/doc/gum.R | 12 inst/doc/gum.html | 33 +- inst/doc/oes.R | 48 +-- inst/doc/oes.Rmd | 91 +++---- inst/doc/oes.html | 300 +++++++++++------------ inst/doc/simulate.R | 70 ++--- inst/doc/simulate.html | 233 +++++++++--------- inst/doc/sma.R | 8 inst/doc/sma.html | 21 - inst/doc/smooth.R | 2 inst/doc/smooth.Rmd | 51 ++-- inst/doc/smooth.html | 26 +- inst/doc/ssarima.R | 31 +- inst/doc/ssarima.Rmd | 15 - inst/doc/ssarima.html | 105 +++++--- inst/doc/ves.R | 16 - inst/doc/ves.html | 27 +- man/auto.ces.Rd | 21 - man/auto.gum.Rd | 13 - man/auto.msarima.Rd | 19 - man/auto.ssarima.Rd | 19 - man/ces.Rd | 9 man/covar.Rd | 3 man/es.Rd | 19 - man/forecast.smooth.Rd | 15 - man/gum.Rd | 25 - man/isFunctions.Rd | 8 man/iss.Rd | 8 man/msarima.Rd | 21 - man/msdecompose.Rd |only man/oes.Rd | 12 man/oesg.Rd | 13 - man/plot.smooth.Rd |only man/sim.es.Rd | 7 man/sim.gum.Rd | 8 man/sim.ssarima.Rd | 4 man/sim.ves.Rd | 11 man/sma.Rd | 7 man/smooth.Rd | 1 man/smoothCombine.Rd | 13 - man/ssarima.Rd | 21 - man/ves.Rd | 18 - man/viss.Rd | 9 src/ssGeneral.cpp | 12 vignettes/oes.Rmd | 91 +++---- vignettes/smooth.Rmd | 51 ++-- vignettes/ssarima.Rmd | 15 - 67 files changed, 1665 insertions(+), 1102 deletions(-)
Title: Analysis of Field and Laboratory Foraging
Description: Provides indices such as Manly's alpha, foraging ratio, and Ivlev's selectivity to allow for analysis of dietary selectivity and preference. Can accommodate multiple experimental designs such as constant prey number of prey depletion. Please contact the package maintainer with any publications making use of this package in an effort to maintain a repository of dietary selections studies.
Author: Jason Richardson [aut, cre]
Maintainer: Jason Richardson <jcrichardson617@gmail.com>
Diff between selectapref versions 0.1.1 dated 2018-11-29 and 0.1.2 dated 2020-02-08
DESCRIPTION | 8 ++-- MD5 | 6 +-- R/manlysa.R | 102 ++++++++++++++++++++++++++--------------------------- man/manlysalpha.Rd | 6 +-- 4 files changed, 61 insertions(+), 61 deletions(-)
Title: Build and Raytrace 3D Scenes
Description: Render scenes using pathtracing. Build 3D scenes out of spheres, cubes, planes, disks, triangles, line segments, cylinders, ellipsoids, and 3D models in the 'Wavefront' OBJ file format. Supports several material types, textures, multicore rendering, and tone-mapping. Based on the "Ray Tracing in One Weekend" book series. Peter Shirley (2018) <https://raytracing.github.io>.
Author: Tyler Morgan-Wall [aut, cph, cre]
(<https://orcid.org/0000-0002-3131-3814>),
Syoyo Fujita [ctb, cph],
Melissa O'Neill [ctb, cph]
Maintainer: Tyler Morgan-Wall <tylermw@gmail.com>
Diff between rayrender versions 0.4.2 dated 2019-11-09 and 0.6.0 dated 2020-02-08
DESCRIPTION | 8 - MD5 | 94 +++++++++--------- NAMESPACE | 1 R/RcppExports.R | 4 R/generate_cornell.R | 3 R/group_objects.R | 2 R/materials.R | 118 +++++++++++++++++++---- R/objects.R | 15 ++- R/pig.R | 6 + R/r_obj.R | 2 R/render_scene.R | 47 ++++++--- man/cube.Rd | 19 +++ man/cylinder.Rd | 19 +++ man/dielectric.Rd | 11 +- man/diffuse.Rd | 45 +++++++-- man/disk.Rd | 16 ++- man/ellipsoid.Rd | 17 ++- man/generate_cornell.Rd | 14 ++ man/generate_ground.Rd | 7 + man/group_objects.Rd | 13 +- man/light.Rd |only man/metal.Rd | 8 + man/obj_model.Rd | 20 +++- man/pig.Rd | 14 ++ man/r_obj.Rd | 2 man/render_scene.Rd | 50 +++++++--- man/segment.Rd | 14 ++ man/sphere.Rd | 15 ++- man/triangle.Rd | 21 +++- man/xy_rect.Rd | 15 ++- man/xz_rect.Rd | 15 ++- man/yz_rect.Rd | 15 ++- src/RcppExports.cpp | 12 +- src/aabb.h | 2 src/buildscene.h | 69 ++++++++----- src/bvh_node.h | 22 ++++ src/distributions.h |only src/hitable.h | 27 +++++ src/infinite_area_light.h |only src/material.h | 21 +++- src/mathinline.h | 24 ++++ src/pdf.h | 7 - src/render_scene_rcpp.cpp | 228 ++++++++++++++++++++++++++++++++++------------ src/sphere.h | 4 src/texture.h | 53 ++++++++-- src/triangle.h | 16 ++- src/trimesh.h | 219 +++++++++++++++++++++++++++++++++++++++----- src/vec2.h |only src/vec3.h | 15 +++ src/xyrect.h | 8 + 50 files changed, 1063 insertions(+), 314 deletions(-)
Title: Extending 'dendrogram' Functionality in R
Description: Offers a set of functions for extending
'dendrogram' objects in R, letting you visualize and compare trees of
'hierarchical clusterings'. You can (1) Adjust a tree's graphical parameters
- the color, size, type, etc of its branches, nodes and labels. (2)
Visually and statistically compare different 'dendrograms' to one another.
Author: Tal Galili [aut, cre, cph] (https://www.r-statistics.com),
Yoav Benjamini [ths],
Gavin Simpson [ctb],
Gregory Jefferis [aut, ctb] (imported code from his dendroextras
package),
Marco Gallotta [ctb] (a.k.a: marcog),
Johan Renaudie [ctb] (https://github.com/plannapus),
The R Core Team [ctb] (Thanks for the Infastructure, and code in the
examples),
Kurt Hornik [ctb],
Uwe Ligges [ctb],
Andrej-Nikolai Spiess [ctb],
Steve Horvath [ctb],
Peter Langfelder [ctb],
skullkey [ctb],
Mark Van Der Loo [ctb] (https://github.com/markvanderloo d3dendrogram),
Andrie de Vries [ctb] (ggdendro author),
Zuguang Gu [ctb] (circlize author),
Cath [ctb] (https://github.com/CathG),
John Ma [ctb] (https://github.com/JohnMCMa),
Krzysiek G [ctb] (https://github.com/storaged),
Manuela Hummel [ctb] (https://github.com/hummelma),
Chase Clark [ctb] (https://github.com/chasemc),
Lucas Graybuck [ctb] (https://github.com/hypercompetent),
jdetribol [ctb] (https://github.com/jdetribol),
Ben Ho [ctb] (https://github.com/SplitInf),
Samuel Perreault [ctb] (https://github.com/samperochkin),
Christian Hennig [ctb] (http://www.homepages.ucl.ac.uk/~ucakche/),
David Bradley [ctb] (https://github.com/DBradley27)
Maintainer: Tal Galili <tal.galili@gmail.com>
Diff between dendextend versions 1.13.2 dated 2019-12-02 and 1.13.3 dated 2020-02-08
DESCRIPTION | 10 MD5 | 26 NEWS | 7 R/cor_bakers_gamma.R | 2 build/vignette.rds |binary inst/doc/Cluster_Analysis.R | 86 - inst/doc/Cluster_Analysis.html | 989 +++++++++++++-------- inst/doc/FAQ.R | 32 inst/doc/FAQ.html | 831 +++++++++++------- inst/doc/Quick_Introduction.R | 24 inst/doc/Quick_Introduction.html | 351 ++++++- inst/doc/dendextend.R | 158 +-- inst/doc/dendextend.html | 1673 ++++++++++++++++++++----------------- man/bakers_gamma_for_2_k_matrix.Rd | 7 14 files changed, 2521 insertions(+), 1675 deletions(-)
Title: Determination of K Using Peak Counts of Features for Clustering
Description: The number of clusters (k) is needed to start all the partitioning clustering algorithms. An optimal value of this input argument is widely determined by using some internal validity indices. Since most of the existing internal indices suggest a k value which is computed from the clustering results after several runs of a clustering algorithm they are computationally expensive. On the contrary, the package 'kpeaks' enables to estimate k before running any clustering algorithm. It is based on a simple novel technique using the descriptive statistics of peak counts of the features in a data set.
Author: Zeynel Cebeci [aut, cre],
Cagatay Cebeci [aut]
Maintainer: Zeynel Cebeci <zcebeci@cukurova.edu.tr>
Diff between kpeaks versions 0.1.0 dated 2017-09-19 and 1.1.0 dated 2020-02-08
DESCRIPTION | 17 +++++++++-------- MD5 | 23 ++++++++++++----------- NAMESPACE | 3 ++- R/kpeaks.R | 4 ++-- inst/CITATION | 26 ++++++++++++++++---------- inst/NEWS.Rd |only man/findk.Rd | 14 +++++++++++--- man/findpolypeaks.Rd | 14 ++++++++++++-- man/genpolygon.Rd | 11 ++++++++--- man/kpeaks-package.Rd | 14 +++++++++++--- man/plotpolygon.Rd | 10 +++++++++- man/rmshoulders.Rd | 11 ++++++++++- man/x5p4c.Rd | 6 +++--- 13 files changed, 105 insertions(+), 48 deletions(-)
Title: Joint Modelling of Repeated Measurements and Time-to-Event Data
Description: Analysis of repeated measurements and time-to-event data via random
effects joint models. Fits the joint models proposed by Henderson and colleagues
<doi:10.1093/biostatistics/1.4.465> (single event time) and by Williamson and
colleagues (2008) <doi:10.1002/sim.3451> (competing risks events time) to a
single continuous repeated measure. The time-to-event data is modelled using a
(cause-specific) Cox proportional hazards regression model with time-varying
covariates. The longitudinal outcome is modelled using a linear mixed effects
model. The association is captured by a latent Gaussian process. The model is
estimated using am Expectation Maximization algorithm. Some plotting functions
and the variogram are also included. This project is funded by the Medical
Research Council (Grant numbers G0400615 and MR/M013227/1).
Author: Pete Philipson [aut, cre] (<https://orcid.org/0000-0001-7846-0208>),
Ines Sousa [aut] (<https://orcid.org/0000-0002-2712-1713>),
Peter J. Diggle [aut] (<https://orcid.org/0000-0003-3521-5020>),
Paula Williamson [aut] (<https://orcid.org/0000-0001-9802-6636>),
Ruwanthi Kolamunnage-Dona [aut]
(<https://orcid.org/0000-0003-3886-6208>),
Robin Henderson [aut],
Graeme L. Hickey [aut] (<https://orcid.org/0000-0002-4989-0054>),
Maria Sudell [ctb],
Medical Research Council [fnd] (Grant numbers: G0400615 and
MR/M013227/1)
Maintainer: Pete Philipson <peter.philipson1@newcastle.ac.uk>
Diff between joineR versions 1.2.4 dated 2018-05-17 and 1.2.5 dated 2020-02-08
joineR-1.2.4/joineR/vignettes/competing-risks_cache/html/jointmodel_3b687d33bb5a66f8fbf911ef4054f617.RData |only joineR-1.2.4/joineR/vignettes/competing-risks_cache/html/jointmodel_3b687d33bb5a66f8fbf911ef4054f617.rdb |only joineR-1.2.4/joineR/vignettes/competing-risks_cache/html/jointmodel_3b687d33bb5a66f8fbf911ef4054f617.rdx |only joineR-1.2.4/joineR/vignettes/competing-risks_cache/html/jointmodel_ses_d85991199f973f64d3a6957e88aa85b5.RData |only joineR-1.2.4/joineR/vignettes/competing-risks_cache/html/jointmodel_ses_d85991199f973f64d3a6957e88aa85b5.rdb |only joineR-1.2.4/joineR/vignettes/competing-risks_cache/html/jointmodel_ses_d85991199f973f64d3a6957e88aa85b5.rdx |only joineR-1.2.5/joineR/DESCRIPTION | 30 joineR-1.2.5/joineR/MD5 | 56 joineR-1.2.5/joineR/R/aids.R | 13 joineR-1.2.5/joineR/R/liver.R | 2 joineR-1.2.5/joineR/build/vignette.rds |binary joineR-1.2.5/joineR/inst/doc/competing-risks.R | 17 joineR-1.2.5/joineR/inst/doc/competing-risks.html | 66 - joineR-1.2.5/joineR/inst/doc/joineR.R | 126 +- joineR-1.2.5/joineR/inst/doc/joineR.Rmd | 22 joineR-1.2.5/joineR/inst/doc/joineR.html | 564 ++++++---- joineR-1.2.5/joineR/man/aids.Rd | 13 joineR-1.2.5/joineR/man/joineR.Rd | 1 joineR-1.2.5/joineR/man/joint.Rd | 17 joineR-1.2.5/joineR/man/jointdata.Rd | 9 joineR-1.2.5/joineR/man/jointplot.Rd | 19 joineR-1.2.5/joineR/man/liver.Rd | 2 joineR-1.2.5/joineR/man/plot.jointdata.Rd | 3 joineR-1.2.5/joineR/man/plot.vargm.Rd | 3 joineR-1.2.5/joineR/man/simjoint.Rd | 23 joineR-1.2.5/joineR/tests/testthat/Rplots.pdf |binary joineR-1.2.5/joineR/vignettes/competing-risks_cache/html/__packages | 1 joineR-1.2.5/joineR/vignettes/competing-risks_cache/html/jointmodel_0406956b36067e18cf210e32be0e5c09.RData |only joineR-1.2.5/joineR/vignettes/competing-risks_cache/html/jointmodel_0406956b36067e18cf210e32be0e5c09.rdb |only joineR-1.2.5/joineR/vignettes/competing-risks_cache/html/jointmodel_0406956b36067e18cf210e32be0e5c09.rdx |only joineR-1.2.5/joineR/vignettes/competing-risks_cache/html/jointmodel_ses_b931a21cb7026666272e347c1dba163f.RData |only joineR-1.2.5/joineR/vignettes/competing-risks_cache/html/jointmodel_ses_b931a21cb7026666272e347c1dba163f.rdb |only joineR-1.2.5/joineR/vignettes/competing-risks_cache/html/jointmodel_ses_b931a21cb7026666272e347c1dba163f.rdx |only joineR-1.2.5/joineR/vignettes/joineR.Rmd | 22 joineR-1.2.5/joineR/vignettes/joineR_cache/html/__packages | 2 35 files changed, 652 insertions(+), 359 deletions(-)
Title: Risk Regression Models and Prediction Scores for Survival
Analysis with Competing Risks
Description: Implementation of the following methods for event history analysis.
Risk regression models for survival endpoints also in the presence of competing
risks are fitted using binomial regression based on a time sequence of binary
event status variables. A formula interface for the Fine-Gray regression model
and an interface for the combination of cause-specific Cox regression models.
A toolbox for assessing and comparing performance of risk predictions (risk
markers and risk prediction models). Prediction performance is measured by the
Brier score and the area under the ROC curve for binary possibly time-dependent
outcome. Inverse probability of censoring weighting and pseudo values are used
to deal with right censored data. Lists of risk markers and lists of risk models
are assessed simultaneously. Cross-validation repeatedly splits the data, trains
the risk prediction models on one part of each split and then summarizes and
compares the performance across splits.
Author: Thomas Alexander Gerds [aut, cre],
Paul Blanche [ctb],
Rikke Mortensen [ctb],
Nikolaj Tollenaar [ctb],
Ulla Brasch Mogensen [ctb],
Brice Ozenne [aut] (<https://orcid.org/0000-0001-9694-2956>)
Maintainer: Thomas Alexander Gerds <tag@biostat.ku.dk>
Diff between riskRegression versions 2019.11.03 dated 2019-11-04 and 2020.02.05 dated 2020-02-08
DESCRIPTION | 18 - MD5 | 142 +++++++------- NAMESPACE | 2 R/Score.R | 52 ++++- R/ate-iid.R | 362 +++++++++++++++++++++---------------- R/ate-pointEstimate.R | 5 R/ate.R | 9 R/autoplot.Score.R | 7 R/autoplot.ate.R | 11 - R/autoplot.predictCSC.R | 5 R/autoplot.predictCox.R | 5 R/boxplot.Score.R | 50 ++--- R/calcSeCox.R | 8 R/confint.ate.R | 11 - R/confint.predictCSC.R | 5 R/confint.predictCox.R | 5 R/influenceTest.R | 5 R/plotBrier.R | 151 +++++++++------ R/plotCalibration.R | 34 +-- R/plotRisk.R | 100 +++++++--- R/predict.CauseSpecificCox.R | 1 R/predictCox.R | 2 R/predictCoxPL.R | 7 R/predictRisk.R | 8 R/print.Score.R | 11 - R/print.influenceTest.R | 5 R/summary.Score.R |only R/summary.ate.R | 7 inst/doc/IPA.html | 188 +++++++++---------- man/Score.list.Rd | 48 +++- man/SmcFcs.Rd | 4 man/SuperPredictor.Rd | 9 man/as.data.table.ate.Rd | 9 man/as.data.table.influenceTest.Rd | 3 man/as.data.table.predictCSC.Rd | 3 man/as.data.table.predictCox.Rd | 3 man/ate.Rd | 31 ++- man/autoplot.Score.Rd | 16 + man/autoplot.ate.Rd | 15 + man/autoplot.predictCSC.Rd | 14 + man/autoplot.predictCox.Rd | 16 + man/boot2pvalue.Rd | 10 - man/boxplot.Score.Rd | 65 +++--- man/calcSeCSC.Rd | 25 ++ man/calcSeCox.Rd | 24 ++ man/confint.ate.Rd | 16 + man/confint.influenceTest.Rd | 11 - man/confint.predictCSC.Rd | 11 - man/confint.predictCox.Rd | 13 + man/dicreteRoot.Rd | 9 man/iidCox.Rd | 64 +++++- man/influenceTest.Rd | 12 + man/ipcw.Rd | 13 + man/penalizedS3.Rd | 3 man/plotAUC.Rd | 23 ++ man/plotBrier.Rd | 23 ++ man/plotCalibration.Rd | 48 +++- man/plotEffects.Rd | 21 +- man/plotPredictRisk.Rd | 22 +- man/plotROC.Rd | 20 +- man/plotRisk.Rd | 30 ++- man/predict.CauseSpecificCox.Rd | 26 ++ man/predictCox.Rd | 25 +- man/predictCoxPL.Rd | 11 - man/predictRisk.Rd | 37 ++- man/print.riskRegression.Rd | 3 man/riskLevelPlot.Rd | 10 - man/riskRegression.Rd | 17 + man/subjectWeights.Rd | 9 man/summary.Score.Rd |only man/summary.ate.Rd | 9 man/summary.riskRegression.Rd | 11 - man/transformCIBP.Rd | 17 + 73 files changed, 1314 insertions(+), 711 deletions(-)
More information about riskRegression at CRAN
Permanent link
Title: A Data-Centered Data Flow Manager
Description: A data manager meant to avoid manual storage/retrieval of
data to/from the file system. It builds one (or more) centralized
repository where R objects are stored with rich annotations,
including corresponding code chunks, and easily searched and
retrieved. See Napolitano (2017) <doi:10.1037/a0028240> for further
information.
Author: Francesco Napolitano <franapoli@gmail.com>
Maintainer: Francesco Napolitano <franapoli@gmail.com>
Diff between repo versions 2.1.4 dated 2019-12-19 and 2.1.5 dated 2020-02-08
DESCRIPTION | 14 ++-- MD5 | 26 +++---- NEWS.md | 11 ++- R/repo_public.R | 7 -- README.md | 156 +++++++++++++++++++++------------------------ inst/README-depgraph-1.png |binary inst/doc/index.R | 96 +++++++++++++-------------- inst/doc/index.html | 88 ++++++++++++------------- man/repo_attach.Rd | 14 +++- man/repo_build.Rd | 10 ++ man/repo_dependencies.Rd | 11 ++- man/repo_print.Rd | 5 - man/repo_put.Rd | 19 ++++- man/repo_set.Rd | 17 ++++ 14 files changed, 258 insertions(+), 216 deletions(-)
Title: The R Code Optimizer
Description: Automatically apply different strategies to optimize R code.
'rco' functions take R code as input, and returns R code as output.
Author: Juan Cruz Rodriguez [aut, cre],
Yihui Xie [ctb] (<https://orcid.org/0000-0003-0645-5666>),
Nicolás Wolovick [ctb]
Maintainer: Juan Cruz Rodriguez <jcrodriguez@unc.edu.ar>
Diff between rco versions 1.0.0 dated 2020-02-06 and 1.0.1 dated 2020-02-08
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ NEWS.md | 18 +++++++++--------- R/parse.R | 7 +++---- README.md | 25 +++++++++++++++++-------- build/vignette.rds |binary inst/doc/opt-common-subexpr.html | 6 +++--- inst/doc/opt-constant-folding.html | 6 +++--- inst/doc/opt-constant-propagation.html | 4 ++-- inst/doc/opt-dead-code.html | 4 ++-- inst/doc/opt-dead-expr.html | 6 +++--- inst/doc/opt-dead-store.html | 4 ++-- inst/doc/opt-loop-invariant.html | 6 +++--- 13 files changed, 63 insertions(+), 55 deletions(-)
Title: Perceptual Analysis, Visualization and Organization of Spectral
Colour Data
Description: A cohesive framework for parsing, analyzing and
organizing colour from spectral data.
Author: Rafael Maia [aut, cre] (<https://orcid.org/0000-0002-7563-9795>),
Thomas White [aut] (<https://orcid.org/0000-0002-3976-1734>),
Hugo Gruson [aut] (<https://orcid.org/0000-0002-4094-1476>),
John Endler [aut],
Chad Eliason [aut],
Pierre-Paul Bitton [aut] (<https://orcid.org/0000-0001-5984-2331>)
Maintainer: Rafael Maia <rm72@zips.uakron.edu>
Diff between pavo versions 2.3.0 dated 2019-12-11 and 2.4.0 dated 2020-02-08
pavo-2.3.0/pavo/R/parse_avantes.R |only pavo-2.3.0/pavo/R/parse_procspec.R |only pavo-2.3.0/pavo/man/parse_avantes.Rd |only pavo-2.3.0/pavo/man/parse_procspec.Rd |only pavo-2.4.0/pavo/DESCRIPTION | 14 pavo-2.4.0/pavo/MD5 | 181 +-- pavo-2.4.0/pavo/NAMESPACE | 7 pavo-2.4.0/pavo/NEWS.md | 28 pavo-2.4.0/pavo/R/adjacent.R | 66 - pavo-2.4.0/pavo/R/aggplot.R | 48 pavo-2.4.0/pavo/R/aggspec.R | 38 pavo-2.4.0/pavo/R/as.rimg.R | 8 pavo-2.4.0/pavo/R/as.rspec.R | 2 pavo-2.4.0/pavo/R/bootcoldist.R | 57 - pavo-2.4.0/pavo/R/cieplot.R | 39 pavo-2.4.0/pavo/R/classify.R | 55 - pavo-2.4.0/pavo/R/coldist.R | 35 pavo-2.4.0/pavo/R/coldist2mat.R | 4 pavo-2.4.0/pavo/R/colspace.R | 48 pavo-2.4.0/pavo/R/data-flowers.R | 14 pavo-2.4.0/pavo/R/data-sicalis.R | 14 pavo-2.4.0/pavo/R/data-teal.R | 13 pavo-2.4.0/pavo/R/dispace.R | 14 pavo-2.4.0/pavo/R/explorespec.R | 4 pavo-2.4.0/pavo/R/getspec.R | 221 ---- pavo-2.4.0/pavo/R/hexagon.R | 2 pavo-2.4.0/pavo/R/hexplot.R | 2 pavo-2.4.0/pavo/R/jndplot.R | 43 pavo-2.4.0/pavo/R/jndrot.R | 2 pavo-2.4.0/pavo/R/pavo-package.R | 2 pavo-2.4.0/pavo/R/plot.colspace.R | 4 pavo-2.4.0/pavo/R/plot.rimg.R | 2 pavo-2.4.0/pavo/R/plot.rspec.R | 168 +-- pavo-2.4.0/pavo/R/points.colspace.R | 24 pavo-2.4.0/pavo/R/procimg.R | 2 pavo-2.4.0/pavo/R/projplot.R | 48 pavo-2.4.0/pavo/R/projpoints.R | 6 pavo-2.4.0/pavo/R/summary.colspace.R | 25 pavo-2.4.0/pavo/R/summary.rspec.R | 4 pavo-2.4.0/pavo/R/tcspace.R | 43 pavo-2.4.0/pavo/R/tcsplot.R | 41 pavo-2.4.0/pavo/R/tcspoints.R | 4 pavo-2.4.0/pavo/R/tcsvol.R | 23 pavo-2.4.0/pavo/R/tetraplot.R | 13 pavo-2.4.0/pavo/R/triplot.R | 21 pavo-2.4.0/pavo/R/trispace.R | 23 pavo-2.4.0/pavo/R/vismodel.R | 9 pavo-2.4.0/pavo/R/vol.R | 6 pavo-2.4.0/pavo/R/voloverlap.R | 4 pavo-2.4.0/pavo/README.md | 11 pavo-2.4.0/pavo/build/partial.rdb |binary pavo-2.4.0/pavo/inst/WORDLIST | 10 pavo-2.4.0/pavo/inst/doc/pavo-1-overview.html | 6 pavo-2.4.0/pavo/inst/doc/pavo-2-importing_processing.Rmd | 8 pavo-2.4.0/pavo/inst/doc/pavo-2-importing_processing.html | 417 +++---- pavo-2.4.0/pavo/inst/doc/pavo-3-analysing.R | 3 pavo-2.4.0/pavo/inst/doc/pavo-3-analysing.Rmd | 5 pavo-2.4.0/pavo/inst/doc/pavo-3-analysing.html | 759 ++++++-------- pavo-2.4.0/pavo/inst/doc/pavo-4-spectraldesc.html | 4 pavo-2.4.0/pavo/man/adjacent.Rd | 14 pavo-2.4.0/pavo/man/aggspec.Rd | 15 pavo-2.4.0/pavo/man/bootcoldist.Rd | 22 pavo-2.4.0/pavo/man/cieplot.Rd | 30 pavo-2.4.0/pavo/man/classify.Rd | 14 pavo-2.4.0/pavo/man/coldist.Rd | 2 pavo-2.4.0/pavo/man/coldist2mat.Rd | 4 pavo-2.4.0/pavo/man/colspace.Rd | 2 pavo-2.4.0/pavo/man/flowers.Rd | 10 pavo-2.4.0/pavo/man/getspec.Rd | 52 pavo-2.4.0/pavo/man/hexagon.Rd | 2 pavo-2.4.0/pavo/man/hexplot.Rd | 2 pavo-2.4.0/pavo/man/pavo-package.Rd | 4 pavo-2.4.0/pavo/man/plot.colspace.Rd | 4 pavo-2.4.0/pavo/man/points.colspace.Rd | 7 pavo-2.4.0/pavo/man/sicalis.Rd | 11 pavo-2.4.0/pavo/man/tcsplot.Rd | 7 pavo-2.4.0/pavo/man/teal.Rd | 10 pavo-2.4.0/pavo/man/tetraplot.Rd | 5 pavo-2.4.0/pavo/man/triplot.Rd | 5 pavo-2.4.0/pavo/man/trispace.Rd | 2 pavo-2.4.0/pavo/man/vol.Rd | 1 pavo-2.4.0/pavo/tests/testthat/test-S3colspace.R | 27 pavo-2.4.0/pavo/tests/testthat/test-S3rspec.R | 73 + pavo-2.4.0/pavo/tests/testthat/test-S3vismodel.R |only pavo-2.4.0/pavo/tests/testthat/test-coldist.R | 4 pavo-2.4.0/pavo/tests/testthat/test-colspace.R | 15 pavo-2.4.0/pavo/tests/testthat/test-hashes.R | 93 + pavo-2.4.0/pavo/tests/testthat/test-import.R | 11 pavo-2.4.0/pavo/tests/testthat/test-processing.R | 26 pavo-2.4.0/pavo/tests/testthat/test-vismodel.R | 12 pavo-2.4.0/pavo/vignettes/main.bib | 23 pavo-2.4.0/pavo/vignettes/pavo-2-importing_processing.Rmd | 8 pavo-2.4.0/pavo/vignettes/pavo-3-analysing.Rmd | 5 pavo-2.4.0/pavo/vignettes/refs.bib | 11 94 files changed, 1624 insertions(+), 1563 deletions(-)
Title: Interactive Interpretation of Linear Regression Models
Description: Interactive visualization of effects, response functions
and marginal effects for different kinds of regression models. In this version
linear regression models, generalized linear models, generalized additive
models and linear mixed-effects models are supported.
Major features are the interactive approach and the handling of the effects of categorical covariates:
if two or more factors are used as covariates every combination of the levels of each
factor is treated separately. The automatic calculation of
marginal effects and a number of possibilities to customize the graphical output
are useful features as well.
Author: Martin Meermeyer
Maintainer: Martin Meermeyer <m.meermeyer@gmail.com>
Diff between LinRegInteractive versions 0.3-2 dated 2020-01-13 and 0.3-3 dated 2020-02-08
DESCRIPTION | 8 ++++---- MD5 | 13 ++++++++----- build |only inst/doc/LinRegInteractive.R |only inst/doc/LinRegInteractive.Rnw |only inst/doc/LinRegInteractive.pdf |binary man/LinRegInteractive-package.Rd | 4 ++-- vignettes/LinRegInteractive.Rnw | 4 +++- vignettes/LinRegInteractive.bib | 2 +- 9 files changed, 18 insertions(+), 13 deletions(-)
More information about LinRegInteractive at CRAN
Permanent link
Title: Toolbox for Model Building and Forecasting
Description: Implements functions and instruments for regression model building and its
application to forecasting. The main scope of the package is in variables selection
and models specification for cases of time series data. This includes promotional
modelling, selection between different dynamic regressions with non-standard
distributions of errors, selection based on cross validation, solutions to the fat
regression model problem and more. Models developed in the package are tailored
specifically for forecasting purposes. So as a results there are several methods
that allow producing forecasts from these models and visualising them.
Author: Ivan Svetunkov [aut, cre] (Lecturer at Centre for Marketing Analytics
and Forecasting, Lancaster University, UK),
Yves R. Sagaert [ctb] (Visiting Research at Centre for Marketing
Analytics and Forecasting, Lancaster University, UK)
Maintainer: Ivan Svetunkov <ivan@svetunkov.ru>
Diff between greybox versions 0.5.7 dated 2019-12-10 and 0.5.8 dated 2020-02-08
DESCRIPTION | 20 +- MD5 | 89 ++++++------- NAMESPACE | 3 NEWS | 25 +++ R/alaplace.R | 2 R/alm.R | 78 ++++++----- R/association.R | 220 ++++++++++++++++++++++---------- R/bcnorm.R | 2 R/determination.R | 3 R/error-measures.R | 3 R/fnorm.R | 2 R/intermittentDemandIdentificator.R |only R/laplace.R | 2 R/mcor.R | 34 +++-- R/methods.R | 147 +++++++++++++-------- R/pcor.R |only R/stepwise.R | 2 R/svet.R | 2 R/tplnorm.R | 2 README.md | 1 build/partial.rdb |binary inst/doc/alm.R | 32 ++-- inst/doc/alm.Rmd | 42 ++---- inst/doc/alm.html | 243 +++++++++++++++++------------------- inst/doc/greybox.R | 38 ++--- inst/doc/greybox.html | 43 ++---- inst/doc/maUsingGreybox.R | 30 ++-- inst/doc/maUsingGreybox.Rmd | 10 + inst/doc/maUsingGreybox.html | 107 ++++++++++----- inst/doc/ro.R | 58 ++++---- inst/doc/ro.html | 25 +-- man/alm.Rd | 12 - man/association.Rd | 20 ++ man/error-measures.Rd | 3 man/graphmaker.Rd | 6 man/greybox.Rd | 1 man/lmCombine.Rd | 7 - man/lmDynamic.Rd | 7 - man/mcor.Rd | 3 man/measures.Rd | 4 man/pcor.Rd |only man/plot.greybox.Rd | 15 +- man/stepwise.Rd | 6 man/xregExpander.Rd | 4 man/xregTransformer.Rd | 4 vignettes/alm.Rmd | 42 ++---- vignettes/maUsingGreybox.Rmd | 10 + 47 files changed, 811 insertions(+), 598 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-11-21 0.2.0
2019-11-01 0.1.0
Title: R Interface to the 'Protocol Buffers' 'API' (Version 2 or 3)
Description: Protocol Buffers are a way of encoding structured data in an
efficient yet extensible format. Google uses Protocol Buffers for almost all
of its internal 'RPC' protocols and file formats. Additional documentation
is available in two included vignettes one of which corresponds to our 'JSS'
paper (2016, <doi:10.18637/jss.v071.i02>. Either version 2 or 3 of the
'Protocol Buffers' 'API' is supported.
Author: Romain Francois, Dirk Eddelbuettel, Murray Stokely and Jeroen Ooms
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RProtoBuf versions 0.4.14 dated 2019-06-30 and 0.4.15 dated 2020-02-08
RProtoBuf-0.4.14/RProtoBuf/inst/doc/RProtoBuf-intro.R |only RProtoBuf-0.4.14/RProtoBuf/inst/doc/RProtoBuf-intro.Rmd |only RProtoBuf-0.4.14/RProtoBuf/inst/doc/RProtoBuf-paper.R |only RProtoBuf-0.4.14/RProtoBuf/inst/doc/RProtoBuf-quickref.R |only RProtoBuf-0.4.14/RProtoBuf/inst/doc/RProtoBuf-quickref.Rmd |only RProtoBuf-0.4.14/RProtoBuf/inst/doc/RProtoBuf-unitTests.R |only RProtoBuf-0.4.14/RProtoBuf/inst/doc/RProtoBuf-unitTests.Rnw |only RProtoBuf-0.4.14/RProtoBuf/inst/doc/RProtoBuf-unitTests.pdf |only RProtoBuf-0.4.14/RProtoBuf/inst/unitTests |only RProtoBuf-0.4.14/RProtoBuf/tests/runUnitTests.R |only RProtoBuf-0.4.14/RProtoBuf/vignettes/RProtoBuf-intro.Rmd |only RProtoBuf-0.4.14/RProtoBuf/vignettes/RProtoBuf-paper.bib |only RProtoBuf-0.4.14/RProtoBuf/vignettes/RProtoBuf-quickref.Rmd |only RProtoBuf-0.4.14/RProtoBuf/vignettes/RProtoBuf-unitTests.Rnw |only RProtoBuf-0.4.14/RProtoBuf/vignettes/figures |only RProtoBuf-0.4.14/RProtoBuf/vignettes/proto |only RProtoBuf-0.4.15/RProtoBuf/ChangeLog | 35 RProtoBuf-0.4.15/RProtoBuf/DESCRIPTION | 11 RProtoBuf-0.4.15/RProtoBuf/MD5 | 120 RProtoBuf-0.4.15/RProtoBuf/R/read.R | 2 RProtoBuf-0.4.15/RProtoBuf/build/vignette.rds |binary RProtoBuf-0.4.15/RProtoBuf/configure | 18 RProtoBuf-0.4.15/RProtoBuf/configure.ac | 10 RProtoBuf-0.4.15/RProtoBuf/inst/NEWS.Rd | 9 RProtoBuf-0.4.15/RProtoBuf/inst/doc/RProtoBuf-intro.Rnw |only RProtoBuf-0.4.15/RProtoBuf/inst/doc/RProtoBuf-intro.pdf |binary RProtoBuf-0.4.15/RProtoBuf/inst/doc/RProtoBuf-paper.Rnw | 1455 ---------- RProtoBuf-0.4.15/RProtoBuf/inst/doc/RProtoBuf-paper.pdf |binary RProtoBuf-0.4.15/RProtoBuf/inst/doc/RProtoBuf-quickref.Rnw |only RProtoBuf-0.4.15/RProtoBuf/inst/doc/RProtoBuf-quickref.pdf |binary RProtoBuf-0.4.15/RProtoBuf/inst/tinytest |only RProtoBuf-0.4.15/RProtoBuf/man/add.Rd | 2 RProtoBuf-0.4.15/RProtoBuf/man/has.Rd | 2 RProtoBuf-0.4.15/RProtoBuf/man/size.Rd | 2 RProtoBuf-0.4.15/RProtoBuf/src/wrapper_Message.cpp | 2 RProtoBuf-0.4.15/RProtoBuf/tests/tinytest.R |only RProtoBuf-0.4.15/RProtoBuf/vignettes/RProtoBuf-intro.Rnw |only RProtoBuf-0.4.15/RProtoBuf/vignettes/RProtoBuf-paper.Rnw | 1455 ---------- RProtoBuf-0.4.15/RProtoBuf/vignettes/RProtoBuf-quickref.Rnw |only RProtoBuf-0.4.15/RProtoBuf/vignettes/inactive/RProtoBuf-unitTests.Rnw |only RProtoBuf-0.4.15/RProtoBuf/vignettes/pdf |only 41 files changed, 130 insertions(+), 2993 deletions(-)
Title: Convert Country Names and Country Codes
Description: Standardize country names, convert them into one of
eleven coding schemes, convert between coding schemes, and
assign region descriptors.
Author: Vincent Arel-Bundock [aut, cre]
(<https://orcid.org/0000-0003-2042-7063>),
CJ Yetman [ctb] (<https://orcid.org/0000-0001-5099-9500>),
Nils Enevoldsen [ctb] (<https://orcid.org/0000-0001-7195-4117>)
Maintainer: Vincent Arel-Bundock <vincent.arel-bundock@umontreal.ca>
Diff between countrycode versions 1.1.0 dated 2018-10-27 and 1.1.1 dated 2020-02-08
DESCRIPTION | 10 +++++----- MD5 | 28 +++++++++++++++++++--------- NEWS | 13 +++++++++++-- R/codelist.R | 4 ++-- R/countrycode.R | 10 +++++----- data/cldr_examples.rda |binary data/codelist.rda |binary data/codelist_panel.rda |binary man/codelist.Rd | 4 ++-- man/countrycode.Rd | 23 ++++++++++++++--------- tests |only 11 files changed, 58 insertions(+), 34 deletions(-)
Title: Music Chords Extraction
Description: Extracts music chords from the 'CifraClub' website <https://www.cifraclub.com.br/>.
The package also has functions for cleaning the extracted data and
feature extraction.
Author: Bruna Wundervald [aut, cre] (<https://orcid.org/0000-0001-8163-220X>),
Matthew Leonawicz [ctb] (<https://orcid.org/0000-0001-9452-2771>)
Maintainer: Bruna Wundervald <brunadaviesw@gmail.com>
Diff between chorrrds versions 0.1.9.2 dated 2019-11-07 and 0.1.9.3 dated 2020-02-08
chorrrds-0.1.9.2/chorrrds/R/chords_bigram.R |only chorrrds-0.1.9.3/chorrrds/DESCRIPTION | 24 +++-- chorrrds-0.1.9.3/chorrrds/MD5 | 26 +++--- chorrrds-0.1.9.3/chorrrds/R/chords_ngram.R |only chorrrds-0.1.9.3/chorrrds/R/clean.R | 2 chorrrds-0.1.9.3/chorrrds/R/data.R | 2 chorrrds-0.1.9.3/chorrrds/R/feature_extraction.R | 44 ++-------- chorrrds-0.1.9.3/chorrrds/R/get_chords.R | 63 ++++----------- chorrrds-0.1.9.3/chorrrds/R/get_songs.R | 28 +----- chorrrds-0.1.9.3/chorrrds/R/search_data.R | 2 chorrrds-0.1.9.3/chorrrds/R/utils.R | 3 chorrrds-0.1.9.3/chorrrds/man/eqv.Rd | 2 chorrrds-0.1.9.3/chorrrds/man/feature_extraction.Rd | 4 chorrrds-0.1.9.3/chorrrds/man/get_chords.Rd | 4 chorrrds-0.1.9.3/chorrrds/tests/testthat/test-chorrrds.R | 25 +++++ 15 files changed, 95 insertions(+), 134 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-02-01 0.3.0
2019-11-23 0.2.1
2019-11-19 0.2.0
2019-10-04 0.1.2
2019-09-20 0.1.1
2019-09-03 0.1.0
Title: Sparse Covariance Matrix Estimation
Description: Direct sparse covariance matrix estimation via the covariance graphical lasso by Bien, Tibshirani (2011) <doi:10.1093/biomet/asr054> using the fast coordinate descent algorithm of Wang (2014) <doi:10.1007/s11222-013-9385-5>.
Author: Michael Fop [aut, cre] (<https://orcid.org/0000-0003-3936-2757>),
Hao Wang [ctb]
Maintainer: Michael Fop <michael.fop@ucd.ie>
Diff between covglasso versions 1.0 dated 2020-01-15 and 1.0.1 dated 2020-02-08
DESCRIPTION | 8 ++++---- MD5 | 5 +++-- NEWS.md |only R/covglasso.R | 2 +- 4 files changed, 8 insertions(+), 7 deletions(-)
Title: Tools to Support the Sheffield Elicitation Framework
Description: Implements various methods for eliciting a probability distribution
for a single parameter from an expert or a group of experts. The expert
provides a small number of probability judgements, corresponding
to points on his or her cumulative distribution function. A range of parametric
distributions can then be fitted and displayed, with feedback provided in the
form of fitted probabilities and percentiles. For multiple experts, a weighted
linear pool can be calculated. Also includes functions for eliciting beliefs
about population distributions, eliciting multivariate distributions using a
Gaussian copula, eliciting a Dirichlet distribution, and eliciting distributions
for variance parameters in a random effects meta-analysis model. R Shiny apps
for most of the methods are included.
Author: Jeremy Oakley
Maintainer: Jeremy Oakley <j.oakley@sheffield.ac.uk>
Diff between SHELF versions 1.6.0 dated 2019-06-14 and 1.7.0 dated 2020-02-08
DESCRIPTION | 10 - MD5 | 97 ++++++++-------- NAMESPACE | 1 R/SHELF-package.R | 2 R/elicit.R | 105 +++++++++++++++--- R/elicitCopula.R | 2 R/elicitExtension.R | 1 R/elicitHeterogeneity.R | 4 R/elicitMixture.R |only R/extensionScripts.R | 1 R/feedback.R | 2 R/fitDirichlet.R | 4 R/fitdist.R | 12 +- R/generateReport.R | 9 + R/makeLinearPoolPlot.R | 87 +++++++++++--- R/makeQuartilePlot.R | 4 R/makeSingleExpertPlot.R | 6 - R/makeTertilePlot.R | 4 R/plinearpool.R | 14 +- R/plotfit.R | 2 R/qlinearpool.R | 7 + build/vignette.rds |binary inst/NEWS.md | 22 +++ inst/doc/Dirichlet-elicitation.R | 16 +- inst/doc/Dirichlet-elicitation.pdf |binary inst/doc/Multivariate-normal-copula.R | 22 +-- inst/doc/Multivariate-normal-copula.pdf |binary inst/doc/SHELF-overview.R | 18 +-- inst/doc/SHELF-overview.pdf |binary inst/shinyAppFiles/elicitationShinySummaryMixture.Rmd |only man/SHELF-package.Rd | 2 man/cdffeedback.Rd | 13 +- man/cdfplot.Rd | 16 ++ man/compareIntervals.Rd | 10 + man/elicitHeterogen.Rd | 10 + man/elicitMixture.Rd |only man/elicitQuartiles.Rd | 1 man/elicitTertiles.Rd | 1 man/feedback.Rd | 5 man/fitDirichlet.Rd | 13 +- man/fitdist.Rd | 13 +- man/fitprecision.Rd | 13 +- man/generateReport.Rd | 14 +- man/linearPoolDensity.Rd | 3 man/makeCDFPlot.Rd | 23 +++ man/pdfplots.Rd | 13 +- man/plinearpool.Rd | 7 - man/plotConditionalDensities.Rd | 14 ++ man/plotConditionalMedianFunction.Rd | 14 +- man/plotfit.Rd | 25 +++- man/sampleMarginalFit.Rd | 11 + 51 files changed, 478 insertions(+), 195 deletions(-)
Title: Classification, Regression and Feature Evaluation
Description: A suite of machine learning algorithms written in C++ with the R
interface contains several learning techniques for classification and regression.
Predictive models include e.g., classification and regression trees with
optional constructive induction and models in the leaves, random forests, kNN,
naive Bayes, and locally weighted regression. All predictions obtained with these
models can be explained and visualized with the 'ExplainPrediction' package.
This package is especially strong in feature evaluation where it contains several variants of
Relief algorithm and many impurity based attribute evaluation functions, e.g., Gini,
information gain, MDL, and DKM. These methods can be used for feature selection
or discretization of numeric attributes.
The OrdEval algorithm and its visualization is used for evaluation
of data sets with ordinal features and class, enabling analysis according to the
Kano model of customer satisfaction.
Several algorithms support parallel multithreaded execution via OpenMP.
The top-level documentation is reachable through ?CORElearn.
Author: Marko Robnik-Sikonja and Petr Savicky
Maintainer: "Marko Robnik-Sikonja" <marko.robnik@fri.uni-lj.si>
Diff between CORElearn versions 1.53.1 dated 2018-09-29 and 1.54.2 dated 2020-02-08
ChangeLog | 237 +++--- DESCRIPTION | 12 MD5 | 38 - NAMESPACE | 57 - R/Rinterface.R | 5 R/ordEval.R | 966 +++++++++++++------------- R/rfVisualize.R | 2 man/attrEval.Rd | 16 man/ordEval.Rd | 1 man/paramCoreIO.Rd | 3 man/plot.CoreModel.Rd | 32 man/plot.ordEval.Rd | 230 +++--- man/preparePlot.Rd | 7 man/saveRF.Rd | 6 src/dataStore.cpp | 1546 +++++++++++++++++++++--------------------- src/frontend.cpp | 2 src/rndforest.cpp | 1821 +++++++++++++++++++++++++------------------------- src/treenode.cpp | 1178 ++++++++++++++++---------------- src/treenodeReg.cpp | 1206 ++++++++++++++++----------------- src/utils.cpp | 1071 ++++++++++++++--------------- 20 files changed, 4288 insertions(+), 4148 deletions(-)
Title: Convert Biological ID from RAP or MSU to SYMBOL for Oryza Sativa
Description: Convert one biological ID to another of rice (Oryza sativa).
Rice(Oryza sativa) has more than one form gene ID for the genome.
The two main gene ID for rice genome are the RAP (The Rice Annotation Project, <https://rapdb.dna.affrc.go.jp/>,
and the MSU(The Rice Genome Annotation Project, <http://rice.plantbiology.msu.edu/>.
All RAP rice gene IDs are of the form Os##g####### as explained on the website <https://rapdb.dna.affrc.go.jp/>.
All MSU rice gene IDs are of the form LOC_Os##g##### as explained on the website <http://rice.plantbiology.msu.edu/analyses_nomenclature.shtml>.
All SYMBOL rice gene IDs are the unique name on the NCBI(National Center for Biotechnology Information, <https://www.ncbi.nlm.nih.gov/>.
The TRANSCRIPTID, is the transcript id of rice, are of the form Os##t#######.
The researchers usually need to converter between various IDs. Such as converter RAP to SYMBOLS for function searching on NCBI.
There are a lot of websites with the function for converting RAP to MSU or MSU to RA, such as 'ID Converter' <https://rapdb.dna.affrc.go.jp/tools/converter>.
But it is difficult to convert super multiple IDs on these websites.
The package can convert all IDs between the three IDs (RAP, MSU and SYMBOL) regardless of the number.
Author: Xiang LI
Maintainer: Xiang LI <ynaulx@gmail.com>
Diff between riceidconverter versions 1.0.6 dated 2020-01-24 and 1.1.0 dated 2020-02-08
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/RiceIDConvert.R | 40 +++++++++------------------------------- man/RiceIDConvert.Rd | 9 +++------ 4 files changed, 18 insertions(+), 43 deletions(-)
More information about riceidconverter at CRAN
Permanent link
Title: Statistical Significance of the Sharpe Ratio
Description: A collection of tools for analyzing significance of assets,
funds, and trading strategies, based on the Sharpe ratio and overfit
of the same. Provides density, distribution, quantile and random generation
of the Sharpe ratio distribution based on normal returns, as well
as the optimal Sharpe ratio over multiple assets. Computes confidence intervals
on the Sharpe and provides a test of equality of Sharpe ratios based on
the Delta method. The statistical foundations of the Sharpe can be found in
the author's Short Sharpe Course <doi:10.2139/ssrn.3036276>.
Author: Steven E. Pav [aut, cre] (<https://orcid.org/0000-0002-4197-6195>)
Maintainer: Steven E. Pav <shabbychef@gmail.com>
Diff between SharpeR versions 1.2.0 dated 2018-10-07 and 1.2.1 dated 2020-02-08
ChangeLog | 5 + DESCRIPTION | 19 +++---- MD5 | 101 ++++++++++++++++++++------------------- NAMESPACE | 1 R/SharpeR.r | 7 ++ R/data.r |only R/distributions.r | 7 +- R/estimation.r | 10 +-- R/sr.r | 57 ++++++---------------- R/tests.r | 27 ++++------ R/unified.r | 8 +-- R/utils.r | 4 + build/vignette.rds |binary data |only inst/doc/AsymptoticMarkowitz.pdf |binary inst/doc/SharpeR.R | 10 +-- inst/doc/SharpeR.Rnw | 12 ++-- inst/doc/SharpeR.pdf |binary inst/doc/SharpeRatio.pdf |binary man/NEWS.Rd | 9 +++ man/SharpeR.Rd | 1 man/as.del_sropt.Rd | 26 +++------- man/as.sr.Rd | 58 +++++++++++----------- man/as.sropt.Rd | 35 +++++-------- man/confint.Rd | 78 +++++++++++++++++++++--------- man/del_sropt.Rd | 6 +- man/dsr.Rd | 27 ++++++---- man/dsropt.Rd | 15 +++-- man/inference.Rd | 4 + man/is.del_sropt.Rd | 6 +- man/is.sr.Rd | 25 ++++++--- man/is.sropt.Rd | 15 +++-- man/ism_vcov.Rd | 4 - man/pco_sropt.Rd | 19 ++++--- man/plambdap.Rd | 25 ++++++--- man/power.sr_test.Rd | 25 ++++++--- man/power.sropt_test.Rd | 15 +++-- man/predint.Rd | 29 ++++++----- man/print.Rd | 25 ++++++--- man/reannualize.Rd | 40 ++++++++++----- man/se.Rd | 27 ++++++---- man/sm_vcov.Rd | 4 - man/sr.Rd | 36 ++++++++++--- man/sr_equality_test.Rd | 51 +++++++++++-------- man/sr_test.Rd | 39 ++++++++++----- man/sr_unpaired_test.Rd | 38 +++++++++----- man/sr_vcov.Rd | 29 +++++++---- man/sric.Rd | 4 + man/sropt.Rd | 15 +++-- man/sropt_test.Rd | 15 +++-- man/stock_returns.Rd |only man/summary.Rd | 28 ++++++---- vignettes/SharpeR.Rnw | 12 ++-- 53 files changed, 624 insertions(+), 429 deletions(-)
Title: Univariate GARCH Models
Description: ARFIMA, in-mean, external regressors and various GARCH flavors, with methods for fit, forecast, simulation, inference and plotting.
Author: Alexios Ghalanos [aut, cre],
Tobias Kley [ctb]
Maintainer: Alexios Ghalanos <alexios@4dscape.com>
Diff between rugarch versions 1.4-1 dated 2019-01-16 and 1.4-2 dated 2020-02-08
.Rinstignore | 4 ChangeLog | 857 +- DESCRIPTION | 10 MD5 | 288 NAMESPACE | 98 R/arfima-classes.R | 248 R/arfima-main.R | 3210 ++++---- R/arfima-methods.R | 2198 +++--- R/arfima-multi.R | 438 - R/rugarch-aparch.R | 2734 +++---- R/rugarch-armafor.R | 246 R/rugarch-benchmarks.R | 496 - R/rugarch-bootstrap.R | 1604 ++-- R/rugarch-classes.R | 308 R/rugarch-csgarch.R | 2872 ++++---- R/rugarch-cv.R | 562 - R/rugarch-cwrappers.R | 372 - R/rugarch-distributions.R | 4310 ++++++------ R/rugarch-egarch.R | 2740 +++---- R/rugarch-fgarch.R | 2852 +++---- R/rugarch-figarch.R | 2178 +++--- R/rugarch-gjrgarch.R | 2846 +++---- R/rugarch-graphs.R | 1940 ++--- R/rugarch-helperfn.R | 1538 ++-- R/rugarch-igarch.R | 2714 +++---- R/rugarch-imports.R | 1268 +-- R/rugarch-kappa.R | 574 - R/rugarch-lossfn.R | 142 R/rugarch-mcsgarch.R | 3146 ++++---- R/rugarch-methods.R | 7880 +++++++++++----------- R/rugarch-multi.R | 1084 +-- R/rugarch-numderiv.R | 310 R/rugarch-plots.R | 4410 ++++++------ R/rugarch-realgarch.R | 3362 ++++----- R/rugarch-rolling.R | 1086 +-- R/rugarch-series.R | 538 - R/rugarch-sgarch.R | 2760 +++---- R/rugarch-solvers.R | 932 +- R/rugarch-startpars.R | 3684 +++++----- R/rugarch-tests.R | 2486 +++--- R/rugarch-uncertainty.R | 380 - R/zzz.R | 40 README.md | 12 build/vignette.rds |binary data/dji30ret.rda |binary inst/CITATION | 42 inst/COPYRIGHTS | 20 inst/doc/Introduction_to_the_rugarch_package.Rnw | 74 inst/doc/Introduction_to_the_rugarch_package.pdf |binary inst/rugarch.tests/rugarch.test1.R | 1842 ++--- inst/rugarch.tests/rugarch.test10.R | 1198 +-- inst/rugarch.tests/rugarch.test11.R | 104 inst/rugarch.tests/rugarch.test12.R | 484 - inst/rugarch.tests/rugarch.test13.R | 488 - inst/rugarch.tests/rugarch.test14.R | 198 inst/rugarch.tests/rugarch.test2.R | 894 +- inst/rugarch.tests/rugarch.test3.R | 1022 +- inst/rugarch.tests/rugarch.test4.R | 874 +- inst/rugarch.tests/rugarch.test5.R | 862 +- inst/rugarch.tests/rugarch.test6.R | 1312 +-- inst/rugarch.tests/rugarch.test7.R | 248 inst/rugarch.tests/rugarch.test8.R | 534 - inst/rugarch.tests/rugarch.test9.R | 538 - inst/rugarch.tests/runtests.R | 190 man/ARFIMA-class.Rd | 34 man/ARFIMAdistribution-class.Rd | 90 man/ARFIMAfilter-class.Rd | 106 man/ARFIMAfit-class.Rd | 146 man/ARFIMAforecast-class.Rd | 110 man/ARFIMAmultifilter-class.Rd | 74 man/ARFIMAmultifit-class.Rd | 76 man/ARFIMAmultiforecast-class.Rd | 58 man/ARFIMAmultispec-class.Rd | 50 man/ARFIMApath-class.Rd | 60 man/ARFIMAroll-class.Rd | 148 man/ARFIMAsim-class.Rd | 60 man/ARFIMAspec-class.Rd | 88 man/BerkowitzTest.Rd | 210 man/DACTest.Rd | 116 man/DateTimeUtilities.Rd | 208 man/ESTest.Rd | 152 man/GARCHboot-class.Rd | 34 man/GARCHdistribution-class.Rd | 34 man/GARCHfilter-class.Rd | 34 man/GARCHfit-class.Rd | 34 man/GARCHforecast-class.Rd | 36 man/GARCHpath-class.Rd | 36 man/GARCHroll-class.Rd | 34 man/GARCHsim-class.Rd | 36 man/GARCHspec-class.Rd | 36 man/GARCHtests-class.Rd | 34 man/GMMTest.Rd | 126 man/HLTest.Rd | 136 man/VaRDurTest.Rd | 150 man/VaRTest.Rd | 140 man/VaRloss.Rd | 56 man/VaRplot.Rd | 52 man/arfimacv.Rd | 198 man/arfimadistribution-methods.Rd | 138 man/arfimafilter-methods.Rd | 82 man/arfimafit-methods.Rd | 126 man/arfimaforecast-methods.Rd | 108 man/arfimapath-methods.Rd | 88 man/arfimaroll-methods.Rd | 222 man/arfimasim-methods.Rd | 94 man/arfimaspec-methods.Rd | 142 man/autoarfima.Rd | 124 man/dji30ret.Rd | 28 man/dmbp.Rd | 40 man/ghyptransform.Rd | 82 man/mcs.Rd | 82 man/multifilter-methods.Rd | 98 man/multifit-methods.Rd | 112 man/multiforecast-methods.Rd | 110 man/multispec-methods.Rd | 76 man/rGARCH-class.Rd | 30 man/rugarch-package.Rd | 272 man/sp500ret.Rd | 24 man/spyreal.Rd | 36 man/uGARCHboot-class.Rd | 96 man/uGARCHdistribution-class.Rd | 116 man/uGARCHfilter-class.Rd | 200 man/uGARCHfit-class.Rd | 464 - man/uGARCHforecast-class.Rd | 152 man/uGARCHmultifilter-class.Rd | 74 man/uGARCHmultifit-class.Rd | 84 man/uGARCHmultiforecast-class.Rd | 58 man/uGARCHmultispec-class.Rd | 40 man/uGARCHpath-class.Rd | 82 man/uGARCHroll-class.Rd | 206 man/uGARCHsim-class.Rd | 126 man/uGARCHspec-class.Rd | 148 man/ugarchbench.Rd | 70 man/ugarchboot-methods.Rd | 280 man/ugarchdist.Rd | 294 man/ugarchdistribution-methods.Rd | 192 man/ugarchfilter-methods.Rd | 140 man/ugarchfit-methods.Rd | 284 man/ugarchforecast-methods.Rd | 188 man/ugarchpath-methods.Rd | 188 man/ugarchroll-methods.Rd | 246 man/ugarchsim-methods.Rd | 194 man/ugarchspec-methods.Rd | 344 vignettes/Introduction_to_the_rugarch_package.Rnw | 74 vignettes/rugarch.tex | 3978 +++++------ vignettes/rugarchbib.bib | 1656 ++-- 146 files changed, 48880 insertions(+), 48881 deletions(-)
Title: Automatic Differentiation of Multivariate Operations
Description: An object that supports automatic differentiation
of matrix- and multidimensional-valued functions with
respect to multidimensional independent variables.
Automatic differentiation is via 'forward accumulation'.
Author: Steven E. Pav [aut, cre] (<https://orcid.org/0000-0002-4197-6195>)
Maintainer: Steven E. Pav <shabbychef@gmail.com>
Diff between madness versions 0.2.6 dated 2019-04-19 and 0.2.7 dated 2020-02-08
DESCRIPTION | 20 ++++---- MD5 | 89 +++++++++++++++++++------------------- R/Ops.r | 4 - R/coerce.r | 3 - R/det.r | 2 R/diag.r | 1 R/eigen.r | 1 R/madness_pkg.r | 5 ++ R/matwise.r | 1 R/norm.r | 2 R/reshape.r | 3 - R/sums.r | 5 -- R/trace.r | 4 - build/vignette.rds |binary data/stock_returns.rda |binary data/wff3.rda |binary inst/doc/introducing_madness.R |only inst/doc/introducing_madness.pdf |binary man/NEWS.Rd | 7 ++ man/accessor-methods.Rd | 1 man/arithops.Rd | 1 man/as.Rd | 1 man/bind.Rd | 1 man/colsums.Rd | 3 - man/det.Rd | 1 man/eigen.Rd | 8 +-- man/elwise.Rd | 1 man/extract-methods.Rd | 8 +-- man/madness-class.Rd | 10 +++- man/madness-pkg.Rd | 1 man/marithops.Rd | 3 - man/matrix.trace.Rd | 2 man/matwise.Rd | 1 man/max.Rd | 3 - man/norm.Rd | 5 -- man/numderiv.Rd | 7 -- man/outer.Rd | 3 - man/reshapes.Rd | 1 man/setter-methods.Rd | 1 man/show-methods.Rd | 1 man/solve.Rd | 1 man/sumprod.Rd | 3 - man/todiag.Rd | 1 man/vec.Rd | 1 tests/testthat/test-basic.r | 13 +++-- tests/testthat/test-correctness.r | 2 46 files changed, 102 insertions(+), 129 deletions(-)
Title: Read and Write Ecological Metadata Language Files
Description: Work with Ecological Metadata Language ('EML') files.
'EML' is a widely used metadata standard in the ecological and
environmental sciences, described in Jones et al. (2006),
<doi:10.1146/annurev.ecolsys.37.091305.110031>.
Author: Carl Boettiger [aut, cre, cph]
(<https://orcid.org/0000-0002-1642-628X>),
Matthew B. Jones [aut] (<https://orcid.org/0000-0003-0077-4738>),
Mitchell Maier [ctb] (<https://orcid.org/0000-0001-6955-0535>),
Bryce Mecum [ctb] (<https://orcid.org/0000-0002-0381-3766>),
Maëlle Salmon [ctb] (<https://orcid.org/0000-0002-2815-0399>),
Jeanette Clark [ctb] (<https://orcid.org/0000-0003-4703-1974>)
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between EML versions 2.0.1 dated 2019-12-09 and 2.0.2 dated 2020-02-08
DESCRIPTION | 17 ++++---- MD5 | 38 +++++++++---------- NEWS.md | 7 +++ R/eml_validate.R | 1 R/set_coverage.R | 54 +++++----------------------- build/vignette.rds |binary inst/WORDLIST | 1 inst/doc/creating-EML.R | 46 +++++++++++------------ inst/doc/creating-EML.html | 15 +++---- inst/doc/working-with-units.R | 12 +++--- inst/doc/working-with-units.html | 15 +++---- man/eml_validate.Rd | 2 - man/set_TextType.Rd | 6 ++- man/set_attributes.Rd | 8 +++- man/set_coverage.Rd | 14 +++++-- man/set_methods.Rd | 12 ++++-- man/set_physical.Rd | 29 ++++++++++----- man/set_responsibleParty.Rd | 17 ++++++-- man/set_taxonomicCoverage.Rd | 6 +-- tests/testthat/test-set_taxonomicCoverage.R | 8 +++- 20 files changed, 160 insertions(+), 148 deletions(-)
Title: Fitting a CoxSEI Model
Description: Fit a CoxSEI (Cox type Self-Exciting Intensity) model to right-censored counting process data.
Author: Feng Chen <feng.chen@unsw.edu.au>
Maintainer: Feng Chen <feng.chen@unsw.edu.au>
Diff between coxsei versions 0.1 dated 2015-02-24 and 0.3 dated 2020-02-08
DESCRIPTION | 10 +++++----- MD5 | 15 ++++++++------- NAMESPACE | 8 +++++++- data/dat.rda |binary man/RND.Rd | 10 +++++----- man/coxsei-package.Rd | 8 -------- man/coxsei.Rd | 2 +- man/coxseiest.Rd | 9 ++++++++- src/registerDanamicSymbol.c |only 9 files changed, 34 insertions(+), 28 deletions(-)