Title: Optimal Test Design Approach to Fixed and Adaptive Test
Construction
Description: Use the optimal test design approach by Birnbaum (1968, ISBN:9781593119348) and
van der Linden (2018) <doi:10.1201/9781315117430> in constructing fixed and adaptive tests. Supports the following
mixed-integer programming (MIP) solver packages: 'lpsymphony', 'Rsymphony', 'gurobi', 'lpSolve', and 'Rglpk'. The 'gurobi' package
is not available from CRAN; see <https://www.gurobi.com/downloads>. See vignette for installing 'Rsymphony' package
on Mac systems.
Author: Seung W. Choi [aut, cre] (<https://orcid.org/0000-0003-4777-5420>),
Sangdon Lim [aut] (<https://orcid.org/0000-0002-2988-014X>)
Maintainer: Seung W. Choi <schoi@austin.utexas.edu>
Diff between TestDesign versions 1.0.1 dated 2020-01-24 and 1.0.2 dated 2020-02-05
DESCRIPTION | 14 ++-- MD5 | 22 +++--- NAMESPACE | 2 NEWS.md | 35 ++++++---- R/import.R | 6 - R/shadow_class.R | 142 ++++++++++++++++++++--------------------- R/shadow_functions.R | 97 +++++++++++++++++----------- R/static_class.R | 2 build/partial.rdb |binary inst/shiny/app.R | 2 tests/testthat/test-exposure.R | 6 - tests/testthat/test-static.R | 4 - 12 files changed, 183 insertions(+), 149 deletions(-)
Title: Identifying Stocks in Genetic Data
Description: Provides a mixture model for clustering individuals (or sampling groups) into stocks based on their genetic profile. Here, sampling groups are individuals that are sure to come from the same stock (e.g. breeding adults or larvae). The mixture (log-)likelihood is maximised using the EM-algorithm after find good starting values via a K-means clustering of the genetic data. Details can be found in Foster, Feutry, Grewe, Berry, Hui, Davies (2019) Reliably Discriminating Stock Structure with Genetic Markers: Mixture Models with Robust and Fast Computation. Molecular Ecology Resources.
Author: Scott D. Foster [aut, cre]
Maintainer: Scott D. Foster <scott.foster@data61.csiro.au>
Diff between stockR versions 1.0.68 dated 2018-06-14 and 1.0.73 dated 2020-02-05
DESCRIPTION | 14 +++---- MD5 | 21 +++++----- NAMESPACE | 9 ++++ R/stockR.R | 96 ++++++++++++++++++++++++++++++++++++++++++++++---- R/sysdata.rda |binary build/vignette.rds |binary inst/doc/stockR.R | 24 +++++++----- inst/doc/stockR.Rnw | 24 +++++++----- inst/doc/stockR.pdf |binary man/plot.stockBOOT.Rd |only man/stockSTRUCTURE.Rd | 6 +-- vignettes/stockR.Rnw | 24 +++++++----- 12 files changed, 163 insertions(+), 55 deletions(-)
Title: Systematic Conservation Prioritization in R
Description: Conservation prioritization using integer
programming techniques. To solve large-scale problems, users
should install the 'gurobi' optimizer
(available from <http://www.gurobi.com/>).
Author: Jeffrey O Hanson [aut],
Richard Schuster [aut, cre],
Nina Morrell [aut],
Matthew Strimas-Mackey [aut],
Matthew E Watts [aut],
Peter Arcese [aut],
Joseph Bennett [aut],
Hugh P Possingham [aut]
Maintainer: Richard Schuster <richard.schuster@glel.carleton.ca>
Diff between prioritizr versions 4.1.4 dated 2019-10-03 and 4.1.5 dated 2020-02-05
DESCRIPTION | 6 - MD5 | 36 +++++------ R/add_connectivity_penalties.R | 2 R/presolve_check.R | 28 ++++----- R/show.R | 2 README.md | 13 ++-- build/vignette.rds |binary inst/doc/gurobi_installation.Rmd | 4 - inst/doc/gurobi_installation.html | 45 +++++++------- inst/doc/prioritizr.html | 47 +++++++-------- inst/doc/publication_record.Rmd | 11 ++- inst/doc/publication_record.html | 22 +++---- inst/doc/saltspring.html | 11 +-- inst/doc/tasmania.html | 39 ++++++------ inst/doc/zones.html | 117 +++++++++++++++++++++----------------- man/add_connectivity_penalties.Rd | 2 man/show.Rd | 2 vignettes/gurobi_installation.Rmd | 4 - vignettes/publication_record.Rmd | 11 ++- 19 files changed, 207 insertions(+), 195 deletions(-)
Title: Genetic Algorithm (GA) for Variable Selection from
High-Dimensional Data
Description: Provides a genetic algorithm for finding variable
subsets in high dimensional data with high prediction performance. The
genetic algorithm can use ordinary least squares (OLS) regression models or
partial least squares (PLS) regression models to evaluate the prediction
power of variable subsets. By supporting different cross-validation
schemes, the user can fine-tune the tradeoff between speed and quality of
the solution.
Author: David Kepplinger
Maintainer: David Kepplinger <david.kepplinger@gmail.com>
Diff between gaselect versions 1.0.7 dated 2019-03-13 and 1.0.9 dated 2020-02-05
DESCRIPTION | 10 +- MD5 | 48 ++++++------ cleanup | 2 configure | 20 ++--- configure.ac | 4 - man/GenAlgControl-constructor.Rd | 17 +++- man/GenAlgFitEvaluator-constructor.Rd | 17 ++-- man/GenAlgLMEvaluator-constructor.Rd | 13 ++- man/GenAlgPLSEvaluator-constructor.Rd | 20 +++-- man/GenAlgUserEvaluator-constructor.Rd | 6 + man/evaluate-methods.Rd | 21 +---- man/fitnessEvolution.Rd | 7 + man/formatSegmentation-methods.Rd | 1 src/BICEvaluator.cpp | 16 ++-- src/BICEvaluator.h | 16 +--- src/GenAlg.cpp | 124 ++++++++++----------------------- src/Makevars.in | 1 src/Makevars.win | 2 src/PLS.cpp | 15 +-- src/PLS.h | 11 +- src/PLSEvaluator.cpp | 26 +++--- src/PLSEvaluator.h | 19 ++--- src/PLSSimpls.cpp | 13 --- src/PLSSimpls.h | 2 src/autoconfig.win.h | 4 - 25 files changed, 196 insertions(+), 239 deletions(-)
Title: Daily Based Morgan-Morgan-Finney (DMMF) Soil Erosion Model
Description: Implements the daily based Morgan-Morgan-Finney (DMMF) soil erosion model (Choi et al., 2017 <doi:10.3390/w9040278>) for estimating surface runoff and sediment budgets from a field or a catchment on a daily basis.
Author: Kwanghun Choi [aut, cre],
Sebastian Arnhold [dtc, ctb],
Bjoern Reineking [ths, ctb]
Maintainer: Kwanghun Choi <kwanghun.choi@yahoo.com>
Diff between DMMF versions 0.5.0.2 dated 2018-08-17 and 0.5.1.1 dated 2020-02-05
DESCRIPTION | 8 ++++---- MD5 | 30 +++++++++++++++--------------- NEWS.md | 9 +++++++++ R/Function_SinkFill.r | 1 - data/Potato.Concave.rda |binary data/Potato.Convex.rda |binary man/DMMF-package.Rd | 3 ++- man/Potato.Concave.Rd | 4 ++-- man/Potato.Convex.Rd | 4 ++-- src/1_1_MMFAlg_d.f95 | 22 ++++++++++++++++------ src/1_5_MMFcAlg_d.f95 | 26 ++++++++++++++++++-------- src/2_1_SinkFillAlg.f95 | 24 +++++++++++++++++++----- src/2_2_BoundaryChecker.f95 | 19 +++++++++++++++---- src/2_3_MapChecker.f95 | 16 ++++++++++++---- src/DMMF.h | 12 ++++++------ src/R_init_DMMF.c | 6 +++--- 16 files changed, 123 insertions(+), 61 deletions(-)
Title: Fast and Versatile Argument Checks
Description: Tests and assertions to perform frequent argument checks. A
substantial part of the package was written in C to minimize any worries
about execution time overhead.
Author: Michel Lang [cre, aut] (<https://orcid.org/0000-0001-9754-0393>),
Bernd Bischl [ctb]
Maintainer: Michel Lang <michellang@gmail.com>
Diff between checkmate versions 1.9.4 dated 2019-07-04 and 2.0.0 dated 2020-02-05
checkmate-1.9.4/checkmate/R/checkBit.R |only checkmate-1.9.4/checkmate/man/checkBit.Rd |only checkmate-1.9.4/checkmate/tests/testthat/test_bit.R |only checkmate-2.0.0/checkmate/DESCRIPTION | 16 checkmate-2.0.0/checkmate/MD5 | 163 ++++--- checkmate-2.0.0/checkmate/NAMESPACE | 8 checkmate-2.0.0/checkmate/NEWS.md | 10 checkmate-2.0.0/checkmate/R/checkFileExists.R | 4 checkmate-2.0.0/checkmate/R/checkList.R | 4 checkmate-2.0.0/checkmate/R/checkLogical.R | 1 checkmate-2.0.0/checkmate/R/makeAssertion.R | 2 checkmate-2.0.0/checkmate/R/makeExpectation.R | 69 +++ checkmate-2.0.0/checkmate/R/zzz.R | 13 checkmate-2.0.0/checkmate/README.md | 7 checkmate-2.0.0/checkmate/build/vignette.rds |binary checkmate-2.0.0/checkmate/inst/doc/checkmate.R | 32 - checkmate-2.0.0/checkmate/inst/doc/checkmate.Rmd | 10 checkmate-2.0.0/checkmate/inst/doc/checkmate.html | 131 ++---- checkmate-2.0.0/checkmate/inst/doc/tinytest.R |only checkmate-2.0.0/checkmate/inst/doc/tinytest.Rmd |only checkmate-2.0.0/checkmate/inst/doc/tinytest.html |only checkmate-2.0.0/checkmate/man/asInteger.Rd | 38 + checkmate-2.0.0/checkmate/man/checkAccess.Rd | 7 checkmate-2.0.0/checkmate/man/checkArray.Rd | 143 ++++-- checkmate-2.0.0/checkmate/man/checkAtomic.Rd | 148 +++++-- checkmate-2.0.0/checkmate/man/checkAtomicVector.Rd | 151 +++++-- checkmate-2.0.0/checkmate/man/checkCharacter.Rd | 197 +++++++-- checkmate-2.0.0/checkmate/man/checkChoice.Rd | 38 + checkmate-2.0.0/checkmate/man/checkClass.Rd | 43 +- checkmate-2.0.0/checkmate/man/checkComplex.Rd | 152 +++++-- checkmate-2.0.0/checkmate/man/checkCount.Rd | 97 +++- checkmate-2.0.0/checkmate/man/checkDataFrame.Rd | 200 +++++++-- checkmate-2.0.0/checkmate/man/checkDataTable.Rd | 180 ++++++-- checkmate-2.0.0/checkmate/man/checkDate.Rd | 161 +++++-- checkmate-2.0.0/checkmate/man/checkDirectoryExists.Rd | 16 checkmate-2.0.0/checkmate/man/checkDisjunct.Rd | 12 checkmate-2.0.0/checkmate/man/checkDouble.Rd | 186 ++++++-- checkmate-2.0.0/checkmate/man/checkEnvironment.Rd | 64 ++- checkmate-2.0.0/checkmate/man/checkFactor.Rd | 207 +++++++--- checkmate-2.0.0/checkmate/man/checkFileExists.Rd | 45 +- checkmate-2.0.0/checkmate/man/checkFlag.Rd | 26 - checkmate-2.0.0/checkmate/man/checkFormula.Rd | 35 + checkmate-2.0.0/checkmate/man/checkFunction.Rd | 88 ++-- checkmate-2.0.0/checkmate/man/checkInt.Rd | 104 +++-- checkmate-2.0.0/checkmate/man/checkInteger.Rd | 175 ++++++-- checkmate-2.0.0/checkmate/man/checkIntegerish.Rd | 189 ++++++--- checkmate-2.0.0/checkmate/man/checkList.Rd | 164 +++++-- checkmate-2.0.0/checkmate/man/checkLogical.Rd | 153 +++++-- checkmate-2.0.0/checkmate/man/checkMatrix.Rd | 198 +++++++-- checkmate-2.0.0/checkmate/man/checkMultiClass.Rd | 28 - checkmate-2.0.0/checkmate/man/checkNamed.Rd | 6 checkmate-2.0.0/checkmate/man/checkNames.Rd | 117 ++++- checkmate-2.0.0/checkmate/man/checkNull.Rd | 35 + checkmate-2.0.0/checkmate/man/checkNumber.Rd | 101 +++- checkmate-2.0.0/checkmate/man/checkNumeric.Rd | 186 ++++++-- checkmate-2.0.0/checkmate/man/checkPOSIXct.Rd | 168 ++++++-- checkmate-2.0.0/checkmate/man/checkPathForOutput.Rd | 36 + checkmate-2.0.0/checkmate/man/checkR6.Rd | 91 +++- checkmate-2.0.0/checkmate/man/checkRaw.Rd | 123 ++++- checkmate-2.0.0/checkmate/man/checkScalar.Rd | 34 + checkmate-2.0.0/checkmate/man/checkScalarNA.Rd | 14 checkmate-2.0.0/checkmate/man/checkSetEqual.Rd | 38 + checkmate-2.0.0/checkmate/man/checkString.Rd | 109 +++-- checkmate-2.0.0/checkmate/man/checkSubset.Rd | 38 + checkmate-2.0.0/checkmate/man/checkTibble.Rd | 162 +++++-- checkmate-2.0.0/checkmate/man/checkVector.Rd | 148 +++++-- checkmate-2.0.0/checkmate/man/checkmate-package.Rd | 3 checkmate-2.0.0/checkmate/man/makeAssertion.Rd | 14 checkmate-2.0.0/checkmate/man/makeExpectation.Rd | 13 checkmate-2.0.0/checkmate/man/makeTest.Rd | 5 checkmate-2.0.0/checkmate/man/matchArg.Rd | 3 checkmate-2.0.0/checkmate/man/register_test_backend.Rd |only checkmate-2.0.0/checkmate/src/Makevars |only checkmate-2.0.0/checkmate/src/all_missing.c | 4 checkmate-2.0.0/checkmate/src/any_missing.c | 4 checkmate-2.0.0/checkmate/src/checks.c | 2 checkmate-2.0.0/checkmate/src/qassert.c | 2 checkmate-2.0.0/checkmate/tests/testthat/setup.R |only checkmate-2.0.0/checkmate/tests/testthat/teardown.R |only checkmate-2.0.0/checkmate/tests/testthat/test_checkDataFrame.R | 2 checkmate-2.0.0/checkmate/tests/testthat/test_checkDataTable.R | 2 checkmate-2.0.0/checkmate/tests/testthat/test_checkList.R | 2 checkmate-2.0.0/checkmate/tests/testthat/test_interoperability.R | 4 checkmate-2.0.0/checkmate/tests/testthat/test_makeFunction.R | 19 checkmate-2.0.0/checkmate/tests/testthat/test_qassert.R | 2 checkmate-2.0.0/checkmate/tests/testthat/test_qassertr.R | 2 checkmate-2.0.0/checkmate/vignettes/checkmate.Rmd | 10 checkmate-2.0.0/checkmate/vignettes/tinytest.Rmd |only 88 files changed, 3718 insertions(+), 1496 deletions(-)
Title: Approximate Bayesian Inference via Sparse Grid Quadrature
Evaluation (BISQuE) for Hierarchical Models
Description: Implementation of the 'bisque' strategy for approximate Bayesian posterior inference. See Hewitt and Hoeting (2019) <arXiv:1904.07270> for complete details. 'bisque' combines conditioning with sparse grid quadrature rules to approximate marginal posterior quantities of hierarchical Bayesian models. The resulting approximations are computationally efficient for many hierarchical Bayesian models. The 'bisque' package allows approximate posterior inference for custom models; users only need to specify the conditional densities required for the approximation.
Author: Joshua Hewitt
Maintainer: Joshua Hewitt <joshua.hewitt@duke.edu>
Diff between bisque versions 1.0.1 dated 2019-04-26 and 1.0.2 dated 2020-02-05
DESCRIPTION | 14 ++-- MD5 | 39 ++++++------- NAMESPACE | 4 + NEWS.md | 7 ++ R/data.R | 2 R/itx.R | 2 R/jacobians.R | 2 R/logjac.R | 2 R/sKrig.R | 3 - R/tx.R | 2 inst |only man/createLocScaleGrid.Rd | 9 ++- man/furseals.Rd | 2 man/kCompute.Rd | 15 ++++- man/sFit.Rd | 15 ++++- man/sKrig.Rd | 3 - man/wBuild.Rd | 14 +++- man/wMix.Rd | 21 +++++-- src/RcppExports.cpp | 4 - src/sKrig.cpp | 4 + src/sMod.cpp | 136 +++++++++++++++++++++++----------------------- 21 files changed, 182 insertions(+), 118 deletions(-)
Title: Interface to the 'Azure Machine Learning' 'SDK'
Description: Interface to the 'Azure Machine Learning' Software Development Kit
('SDK'). Data scientists can use the 'SDK' to train, deploy, automate, and
manage machine learning models on the 'Azure Machine Learning' service. To
learn more about 'Azure Machine Learning' visit the website:
<https://docs.microsoft.com/en-us/azure/machine-learning/service/overview-what-is-azure-ml>.
Author: Heemanshu Suri [cre, aut],
Billy Hu [aut],
Diondra Peck [aut],
Minna Xiao [aut],
Himanshu Chandola [ctb],
Abe Omorogbe [ctb],
Microsoft [cph, fnd],
Google Inc. [cph] (Examples and Tutorials),
The TensorFlow Authors [cph] (Examples and Tutorials),
RStudio Inc. [cph] (Examples and Tutorials)
Maintainer: Heemanshu Suri <Heemanshu.Suri@microsoft.com>
Diff between azuremlsdk versions 0.5.7 dated 2019-11-15 and 0.6.85 dated 2020-02-05
DESCRIPTION | 8 MD5 | 102 +++- NAMESPACE | 37 + R/datasets.R |only R/datastore.R | 89 ++++ R/environment.R | 6 R/estimator.R | 8 R/install.R | 16 R/model.R | 6 R/package.R | 10 R/run.R | 208 +++++++++- README.md | 27 - inst/doc/configuration.html | 4 inst/doc/installation.R | 13 inst/doc/installation.Rmd | 28 - inst/doc/installation.html | 81 ++- inst/widget |only man/convert_to_dataset_with_csv_files.Rd |only man/convert_to_dataset_with_parquet_files.Rd |only man/create_child_run.Rd |only man/create_child_runs.Rd |only man/create_file_dataset_from_files.Rd |only man/create_tabular_dataset_from_delimited_files.Rd |only man/create_tabular_dataset_from_json_lines_files.Rd |only man/create_tabular_dataset_from_parquet_files.Rd |only man/create_tabular_dataset_from_sql_query.Rd |only man/data_type_bool.Rd |only man/data_type_datetime.Rd |only man/data_type_double.Rd |only man/data_type_long.Rd |only man/data_type_string.Rd |only man/define_timestamp_columns_for_dataset.Rd |only man/dot-create_run_details_plot.Rd |only man/download_from_file_dataset.Rd |only man/drop_columns_from_dataset.Rd |only man/estimator.Rd | 5 man/filter_dataset_after_time.Rd |only man/filter_dataset_before_time.Rd |only man/filter_dataset_between_time.Rd |only man/filter_dataset_from_recent_time.Rd |only man/get_child_runs.Rd |only man/get_dataset_by_id.Rd |only man/get_dataset_by_name.Rd |only man/get_file_dataset_paths.Rd |only man/get_input_dataset_from_run.Rd |only man/get_run_metrics.Rd | 11 man/install_azureml.Rd | 5 man/keep_columns_from_dataset.Rd |only man/load_dataset_into_data_frame.Rd |only man/mount_file_dataset.Rd |only man/promote_headers_behavior.Rd |only man/random_split_dataset.Rd |only man/register_azure_postgre_sql_datastore.Rd |only man/register_azure_sql_database_datastore.Rd |only man/register_dataset.Rd |only man/register_model.Rd | 8 man/skip_from_dataset.Rd |only man/submit_child_run.Rd |only man/take_from_dataset.Rd |only man/take_sample_from_dataset.Rd |only man/unregister_all_dataset_versions.Rd |only man/view_run_details.Rd | 22 - tests/testthat/test_datasets.R |only tests/testthat/test_datastore.R | 1 tests/testthat/test_environment.R | 10 tests/testthat/test_experiment.R | 27 + vignettes/README.md | 2 vignettes/experiments-with-R |only vignettes/installation.Rmd | 28 - vignettes/train-and-deploy-to-aci/accidents.R | 7 vignettes/train-and-deploy-to-aci/nassCDS.csv |only vignettes/train-and-deploy-to-aci/train-and-deploy-to-aci.Rmd | 40 + 72 files changed, 634 insertions(+), 175 deletions(-)
Title: Assertive Programming for R Analysis Pipelines
Description: Provides functionality to assert conditions
that have to be met so that errors in data used in
analysis pipelines can fail quickly. Similar to
'stopifnot()' but more powerful, friendly, and easier
for use in pipelines.
Author: Tony Fischetti [aut, cre]
Maintainer: Tony Fischetti <tony.fischetti@gmail.com>
Diff between assertr versions 2.6 dated 2019-01-22 and 2.7 dated 2020-02-05
DESCRIPTION | 11 MD5 | 40 +- NEWS | 6 R/assertions.R | 28 + R/assertr.R | 1 R/predicates.R | 12 build/vignette.rds |binary inst/doc/assertr.R | 12 inst/doc/assertr.html | 736 +++++++++++++++++++++++++-------------- man/assert.Rd | 19 - man/assert_rows.Rd | 21 - man/assertr.Rd | 6 man/chaining_functions.Rd | 3 man/in_set.Rd | 11 man/insist.Rd | 19 - man/insist_rows.Rd | 21 - man/maha_dist.Rd | 3 man/verify.Rd | 3 man/within_bounds.Rd | 9 tests/testthat/test-assertions.R | 50 +- tests/testthat/test-predicates.R | 1 21 files changed, 658 insertions(+), 354 deletions(-)
Title: Convenient Base R String Handling
Description: Base R already ships with string handling capabilities 'out-
of-the-box' but lacks streamlined function names and workflow. The
'stringi' ('stringr') package on the other hand has well named functions,
extensive Unicode support and allows for a streamlined workflow. On the other
hand it adds dependencies and regular expression interpretation between base R
functions and 'stringi' functions might differ. This packages aims at providing
a solution to the use case of unwanted dependencies on the one hand but the need
for streamlined text processing on the other. The packages' functions are solely
based on wrapping base R functions into 'stringr'/'stringi' like function names.
Along the way it adds one or two extra functions and last but not least provides
all functions as generics, therefore allowing for adding methods for other text
structures besides plain character vectors.
Author: Peter Meissner [aut, cre]
Maintainer: Peter Meissner <retep.meissner@gmail.com>
Diff between stringb versions 0.1.13 dated 2016-11-01 and 0.1.14 dated 2020-02-05
DESCRIPTION | 13 MD5 | 150 +++++------ NAMESPACE | 176 ++++++------ NEWS.md | 494 ++++++++++++++++++------------------ R/text_c.R | 74 ++--- R/text_collapse.R | 107 +++---- R/text_count.R | 104 +++---- R/text_detect.R | 64 ++-- R/text_extract_group.R | 242 ++++++++--------- R/text_locate.R | 248 +++++++++--------- R/text_read.R | 86 +++--- R/text_replace_group.R | 198 +++++++------- R/text_split.R | 160 +++++------ R/text_tokenize.R | 558 ++++++++++++++++++++--------------------- R/text_which.R | 168 ++++++------ R/text_write.R | 78 ++--- README.md | 355 +++++++++++++++----------- man/as.data.frame.Rd | 35 +- man/cuts_to_spans.Rd | 35 +- man/data.frame.Rd | 35 +- man/de_sequenize.Rd | 31 +- man/drop_non_group_matches.Rd | 31 +- man/dummy_func.Rd | 25 - man/figures |only man/get_groups.Rd | 51 +-- man/grapes-.-grapes.Rd | 39 +- man/grapes-..-grapes.Rd | 39 +- man/invert_spans.Rd | 41 +-- man/plot.character.Rd | 55 +--- man/regmatches2.Rd | 31 +- man/sequenize.Rd | 39 +- man/stringb_arrange.Rd | 33 +- man/test_file.Rd | 31 +- man/text_c.Rd | 55 +--- man/text_collapse.Rd | 75 ++--- man/text_count.Rd | 63 ++-- man/text_delete.Rd | 47 +-- man/text_detect.Rd | 57 ++-- man/text_eval.Rd | 37 +- man/text_extract.Rd | 55 +--- man/text_extract_all.Rd | 55 +--- man/text_extract_group.Rd | 57 ++-- man/text_extract_group_all.Rd | 58 ++-- man/text_filter.Rd | 37 +- man/text_length.Rd | 47 +-- man/text_locate.Rd | 57 ++-- man/text_locate_all.Rd | 68 ++-- man/text_locate_all_worker.Rd | 37 +- man/text_locate_group.Rd | 51 +-- man/text_locate_worker.Rd | 37 +- man/text_nchar.Rd | 41 +-- man/text_pad.Rd | 55 +--- man/text_read.Rd | 61 ++-- man/text_rep.Rd | 63 ++-- man/text_replace.Rd | 57 ++-- man/text_replace_all.Rd | 57 ++-- man/text_replace_group.Rd | 73 ++--- man/text_replace_locates.Rd | 69 ++--- man/text_show.Rd | 67 ++-- man/text_snippet.Rd | 60 ++-- man/text_split.Rd | 57 ++-- man/text_split_n.Rd | 53 +-- man/text_sub.Rd | 53 +-- man/text_subset.Rd | 37 +- man/text_to_lower.Rd | 39 +- man/text_to_title_case.Rd | 39 +- man/text_to_upper.Rd | 39 +- man/text_tokenize.Rd | 78 ++--- man/text_tokenize_lines.Rd | 43 +-- man/text_tokenize_sentences.Rd | 43 +-- man/text_tokenize_words.Rd | 47 +-- man/text_trim.Rd | 80 ++--- man/text_which.Rd | 57 ++-- man/text_which_value.Rd | 57 ++-- man/text_wrap.Rd | 49 +-- man/text_write.Rd | 75 ++--- 76 files changed, 3089 insertions(+), 3079 deletions(-)
Title: Report of Statistical Findings in 'bookdown'
Description: A report of statistical findings (RSF) project
template is generated using a 'bookdown' format. 'YAML' fields can be
further customized. Additional helper functions provide extra features
to the RSF.
Author: Derek Chiu [aut, cre]
Maintainer: Derek Chiu <dchiu@bccrc.ca>
Diff between rsf versions 0.2.0 dated 2019-10-05 and 0.2.1 dated 2020-02-05
DESCRIPTION | 8 - LICENSE | 4 MD5 | 50 ++++---- NAMESPACE | 12 +- NEWS.md | 37 +++--- R/git_ignore_outputs.R | 72 ++++++------ R/rsf-package.R | 14 +- R/use_references.R | 164 ++++++++++++++-------------- R/use_rsf.R | 48 ++++---- R/write_bookdown_yml.R | 32 ++--- R/write_gitignore.R | 16 +- R/write_index.R | 46 ++++--- R/write_output_yml.R | 39 +++--- R/write_preamble.R | 58 ++++----- R/write_src.R | 54 ++++----- README.md | 81 +++++++------ inst/extdata/_bookdown.yml | 8 - inst/extdata/_output.yml | 16 +- inst/extdata/gitignore | 8 - inst/extdata/index.Rmd | 30 ++--- inst/extdata/preamble.tex | 36 +++--- inst/rstudio/templates/project/skeleton.dcf | 20 +-- man/git_ignore_outputs.Rd | 56 ++++----- man/rsf-package.Rd | 54 ++++----- man/use_references.Rd | 54 ++++----- man/use_rsf.Rd | 48 ++++---- 26 files changed, 538 insertions(+), 527 deletions(-)
Title: Generalized Mortality Estimator
Description: Command-line and 'shiny' GUI implementation of the GenEst models for estimating bird and bat mortality at wind and solar power facilities, following Dalthorp, et al. (2018) <doi:10.3133/tm7A2>.
Author: Daniel Dalthorp [aut, cre],
Juniper Simonis [aut],
Lisa Madsen [aut],
Manuela Huso [aut],
Paul Rabie [aut],
Jeffrey Mintz [aut],
Robert Wolpert [aut],
Jared Studyvin [aut],
Franzi Korner-Nievergelt [aut]
Maintainer: Daniel Dalthorp <ddalthorp@usgs.gov>
Diff between GenEst versions 1.4.0.1 dated 2019-11-22 and 1.4.0.2 dated 2020-02-05
DESCRIPTION | 8 +-- MD5 | 16 +++--- R/detection_probability_functions.R | 2 R/searcher_efficiency_functions.R | 4 - inst/doc/GenEstGUI.html | 4 - inst/doc/command-line-example.html | 84 ++++++++++++++++++------------------ inst/doc/solar-examples.html | 4 - inst/doc/wind-examples.html | 6 +- man/pkm.Rd | 2 9 files changed, 65 insertions(+), 65 deletions(-)
Title: Parameterized Queries Extension for RODBC
Description: An extension for RODBC package adding support for parameterized
queries.
Author: Mateusz Zoltak [aut, cre],
Brian Ripley [aut],
Michael Lapsley [aut],
Will Beasley [ctb],
Juergen Altfeld [ctb]
Maintainer: Mateusz Zoltak <zozlak@zozlak.org>
Diff between RODBCext versions 0.3.1 dated 2017-07-31 and 0.3.2 dated 2020-02-05
DESCRIPTION | 8 MD5 | 16 NEWS | 7 R/sqlExecute.R | 16 build/vignette.rds |binary configure | 6 configure.ac | 8 inst/doc/Parameterized_SQL_queries.html | 769 ++++++++++++++++++++++---------- man/sqlExecute.Rd | 16 9 files changed, 579 insertions(+), 267 deletions(-)
Title: Split Regularized Regression
Description: Functions for computing split regularized estimators defined in Christidis, Lakshmanan,
Smucler and Zamar (2019) <arXiv:1712.03561>. The approach fits linear regression models that
split the set of covariates into groups. The optimal split of the variables into groups and the
regularized estimation of the regression coefficients are performed by minimizing an objective
function that encourages sparsity within each group and diversity among them.
The estimated coefficients are then pooled together to form the final fit.
Author: Anthony Christidis <anthony.christidis@stat.ubc.ca>,
Ezequiel Smucler <ezequiels.90@gmail.com>,
Ruben Zamar <ruben@stat.ubc.ca>
Maintainer: Anthony Christidis <anthony.christidis@stat.ubc.ca>
Diff between SplitReg versions 1.0.1 dated 2020-01-16 and 1.0.2 dated 2020-02-05
DESCRIPTION | 8 - MD5 | 14 +- NEWS | 4 R/methods.R | 232 +++++++++++++++++++++---------------------- man/coef.cv.SplitReg.Rd | 2 man/predict.cv.SplitReg.Rd | 2 tests/testthat/test_CV.R | 94 ++++++++--------- tests/testthat/test_glmnet.R | 78 +++++++------- 8 files changed, 218 insertions(+), 216 deletions(-)
Title: Data Transformation or Simulation with Empirical Covariance
Matrix
Description: Transforms or simulates data with a target empirical covariance matrix supplied
by the user. The method to obtain the data with the target empirical covariance
matrix is described in Section 5.1 of Christidis, Van Aelst and Zamar (2019)
<arXiv:1812.05678>.
Author: Anthony Christidis <anthony.christidis@stat.ubc.ca>,
Stefan Van Aelst <stefan.vanaelst@kuleuven.be>,
Ruben Zamar <ruben@stat.ubc.ca>
Maintainer: Anthony Christidis <anthony.christidis@stat.ubc.ca>
Diff between simTargetCov versions 1.0 dated 2019-10-10 and 1.0.1 dated 2020-02-05
DESCRIPTION | 10 ++--- MD5 | 11 +++--- NAMESPACE | 2 - NEWS |only R/simTargetCov.R | 15 +++++--- README.md | 2 - man/simTargetCov.Rd | 92 ++++++++++++++++++++++++++-------------------------- 7 files changed, 69 insertions(+), 63 deletions(-)
Title: Download DBnomics Data
Description: R access to hundreds of millions data series from DBnomics API
(<https://db.nomics.world/>).
Author: Sebastien Galais [cre, ctb],
Thomas Brand [aut]
Maintainer: Sebastien Galais <s915.stem@gmail.com>
Diff between rdbnomics versions 0.5.1 dated 2020-01-07 and 0.5.2 dated 2020-02-05
DESCRIPTION | 6 ++-- MD5 | 8 +++--- NEWS.md | 10 ++++++-- R/utils.R | 7 ++++- inst/doc/rdbnomics.html | 60 ++++++++++++++++++++++++------------------------ 5 files changed, 50 insertions(+), 41 deletions(-)
Title: The YUIMA Project Package for SDEs
Description: Simulation and Inference for SDEs and Other Stochastic Processes.
Author: YUIMA Project Team
Maintainer: Stefano M. Iacus <stefano.iacus@unimi.it>
Diff between yuima versions 1.8.1 dated 2018-05-21 and 1.9.6 dated 2020-02-05
DESCRIPTION | 8 MD5 | 87 - NAMESPACE | 513 +++++----- NEWS | 108 +- R/AuxMethodforPPR.R | 548 +++++++++-- R/DataPPR.R | 2 R/FunctionAndOperators.R | 7 R/IC.R | 95 + R/JBtest.R |only R/NewClasses.R | 386 +++---- R/RcppExports.R | 8 R/adaBayes.R | 1055 +++++++++++---------- R/asymptotic_term_third_function.R | 13 R/cce.R | 61 - R/cce.factor.R |only R/hyavar.R | 3 R/lambdaPPR.R | 523 +++++++++- R/lasso.R | 10 R/llag.R | 15 R/qmle.R | 2 R/qmleLevy.R | 536 +++++----- R/rng.R | 16 R/sim.euler.R | 3 R/simulateForPpr.R | 1838 ++++++++++++++++++++++++++++++++----- R/simulateMultiProcess.R | 125 +- R/snr.R |only R/yuima.model.R | 3 man/Diagnostic.Carma.Rd | 4 man/IC.Rd | 4 man/JBtest.Rd |only man/bns.test.Rd | 2 man/cce.Rd | 4 man/cce.factor.Rd |only man/hyavar.Rd | 2 man/llag.Rd | 2 man/llag.test.Rd | 7 man/mllag.Rd | 2 man/mpv.Rd | 2 man/qmleLevy.Rd | 257 ++--- man/setCogarch.Rd | 4 man/setPpr.Rd | 66 - man/snr.Rd |only man/spectralcov.Rd | 2 man/yuima.snr-class.Rd |only src/IntensityEval.cpp |only src/RcppExports.cpp | 43 src/euler.c | 5 src/residual.cpp |only src/yuima_init.c | 82 - 49 files changed, 4436 insertions(+), 2017 deletions(-)
Title: Global Sensitivity Analysis in Physiologically Based Kinetic
Modeling
Description: Applying the global sensitivity analysis workflow to investigate the parameter uncertainty and sensitivity in physiologically based kinetic (PK) models, especially the physiologically based pharmacokinetic/toxicokinetic model with multivariate outputs. The package also provides some functions to check the convergence and sensitivity of model parameters.
Author: Nan-Hung Hsieh [aut, cre] (<https://orcid.org/0000-0003-0163-2766>),
Brad Reisfeld [aut],
Weihsueh A. Chiu [aut] (<https://orcid.org/0000-0002-7575-2368>)
Maintainer: Nan-Hung Hsieh <nhsieh@cvm.tamu.edu>
Diff between pksensi versions 1.1.4 dated 2019-09-19 and 1.1.5 dated 2020-02-05
DESCRIPTION | 6 MD5 | 32 ++--- NEWS.md | 5 R/compile.R | 6 R/solve_mcsim.R | 15 ++ build/vignette.rds |binary inst/doc/pbpk_apap.R | 40 +++--- inst/doc/pbpk_apap.Rmd | 59 +++++---- inst/doc/pbpk_apap.html | 177 +++++++++++++++-------------- inst/doc/pbtk1cpt.R | 182 ++++++++++++++++++------------ inst/doc/pbtk1cpt.Rmd | 284 ++++++++++++++++++++++++++++++---------------- inst/doc/pbtk1cpt.html | 291 +++++++++++++++++++++++++++++------------------- inst/models |only man/compile_model.Rd | 6 tests/pbtk1cpt.model | 10 - vignettes/pbpk_apap.Rmd | 59 +++++---- vignettes/pbtk1cpt.Rmd | 284 ++++++++++++++++++++++++++++++---------------- 17 files changed, 896 insertions(+), 560 deletions(-)
Title: Data Base Backend for 'mlr3'
Description: Extends the 'mlr3' package with a backend to
transparently work with data bases. Internally relies on the
abstraction of package 'dbplyr' to interact with one of the many
supported data base management systems (DBMS).
Author: Michel Lang [cre, aut] (<https://orcid.org/0000-0001-9754-0393>)
Maintainer: Michel Lang <michellang@gmail.com>
Diff between mlr3db versions 0.1.3 dated 2019-10-29 and 0.1.4 dated 2020-02-05
DESCRIPTION | 14 ++-- MD5 | 21 +++---- NEWS.md | 7 ++ R/DataBackendDplyr.R | 94 +++++++++++++++++++++++++++++--- R/zzz.R | 5 + README.md | 13 ++-- man/DataBackendDplyr.Rd | 39 +++++++++---- man/as_sqlite_backend.Rd | 4 - man/mlr3db-package.Rd | 2 tests/testthat/test_as_sqlite_backend.R | 5 - tests/testthat/test_basic_ops.R | 7 +- tests/testthat/test_reconnect.R |only 12 files changed, 161 insertions(+), 50 deletions(-)
Title: Build and Tune Several Models
Description: Frequently one needs a convenient way to build and tune
several models in one go.The goal is to provide a number of convenience functions useful in machine learning
applications. It provides the ability to build, tune and obtain predictions of
several models in one function. The models are built using 'caret' functions with
easier to read syntax.
Kuhn(2014) <arXiv:1405.6974v14>.
Kuhn(2008) <doi10.18637/jss.v028.i05>.
Chambers,J.M.(1992) <doi:10.1007/978-3-642-50096-1_48>.
Wilkinson,G.N. and Rogers, C. E. (1973) <doi:10.2307/2346786>.
Author: Nelson Gonzabato [aut, cre]
Maintainer: Nelson Gonzabato <gonzabato@hotmail.com>
Diff between manymodelr versions 0.2.2 dated 2019-07-08 and 0.2.3 dated 2020-02-05
manymodelr-0.2.2/manymodelr/R/expo.R |only manymodelr-0.2.2/manymodelr/R/modeleR.R |only manymodelr-0.2.2/manymodelr/man/expo.Rd |only manymodelr-0.2.2/manymodelr/man/expo1.Rd |only manymodelr-0.2.3/manymodelr/DESCRIPTION | 14 manymodelr-0.2.3/manymodelr/MD5 | 93 manymodelr-0.2.3/manymodelr/NAMESPACE | 94 manymodelr-0.2.3/manymodelr/NEWS.md | 111 manymodelr-0.2.3/manymodelr/R/add_model_predictions.R |only manymodelr-0.2.3/manymodelr/R/agg_by_group.R | 21 manymodelr-0.2.3/manymodelr/R/extract_model_info.R |only manymodelr-0.2.3/manymodelr/R/fit_model.R |only manymodelr-0.2.3/manymodelr/R/get_exponent.R | 22 manymodelr-0.2.3/manymodelr/R/get_mode.R | 87 manymodelr-0.2.3/manymodelr/R/get_stats.R | 83 manymodelr-0.2.3/manymodelr/R/get_this.R | 33 manymodelr-0.2.3/manymodelr/R/get_var_corr.R | 45 manymodelr-0.2.3/manymodelr/R/get_var_corr_.R | 131 - manymodelr-0.2.3/manymodelr/R/helpers.R |only manymodelr-0.2.3/manymodelr/R/multi_model_1.R | 207 - manymodelr-0.2.3/manymodelr/R/multi_model_2.R |only manymodelr-0.2.3/manymodelr/R/na_replace_grouped.R |only manymodelr-0.2.3/manymodelr/R/plot_corr.R |only manymodelr-0.2.3/manymodelr/R/row_mean_na.R | 147 + manymodelr-0.2.3/manymodelr/R/rowdiff.R | 98 manymodelr-0.2.3/manymodelr/R/select_col.R | 4 manymodelr-0.2.3/manymodelr/R/select_percentile.R | 102 manymodelr-0.2.3/manymodelr/R/zzz.R |only manymodelr-0.2.3/manymodelr/build/vignette.rds |binary manymodelr-0.2.3/manymodelr/inst/doc/a-gentle-introduction-to-manymodelr.R | 216 + manymodelr-0.2.3/manymodelr/inst/doc/a-gentle-introduction-to-manymodelr.Rmd | 453 ++-- manymodelr-0.2.3/manymodelr/inst/doc/a-gentle-introduction-to-manymodelr.html | 1117 +++++----- manymodelr-0.2.3/manymodelr/man/add_model_predictions.Rd |only manymodelr-0.2.3/manymodelr/man/add_model_residuals.Rd |only manymodelr-0.2.3/manymodelr/man/extract_model_info.Rd |only manymodelr-0.2.3/manymodelr/man/fit_model.Rd |only manymodelr-0.2.3/manymodelr/man/get_data_Stats.Rd | 7 manymodelr-0.2.3/manymodelr/man/get_exponent.Rd | 1 manymodelr-0.2.3/manymodelr/man/get_mode.Rd | 13 manymodelr-0.2.3/manymodelr/man/get_var_corr.Rd | 23 manymodelr-0.2.3/manymodelr/man/get_var_corr_.Rd | 18 manymodelr-0.2.3/manymodelr/man/modeleR.Rd | 10 manymodelr-0.2.3/manymodelr/man/multi_model_1.Rd | 13 manymodelr-0.2.3/manymodelr/man/multi_model_2.Rd |only manymodelr-0.2.3/manymodelr/man/na_replace.Rd | 18 manymodelr-0.2.3/manymodelr/man/na_replace_grouped.Rd |only manymodelr-0.2.3/manymodelr/man/plot_corr.Rd |only manymodelr-0.2.3/manymodelr/man/row_mean_na.Rd | 2 manymodelr-0.2.3/manymodelr/man/rowdiff.Rd | 32 manymodelr-0.2.3/manymodelr/tests |only manymodelr-0.2.3/manymodelr/vignettes/a-gentle-introduction-to-manymodelr.Rmd | 453 ++-- 51 files changed, 2363 insertions(+), 1305 deletions(-)
Title: Multivariate Exploratory Data Analysis and Data Mining
Description: Exploratory data analysis methods to summarize, visualize and describe datasets. The main principal component methods are available, those with the largest potential in terms of applications: principal component analysis (PCA) when variables are quantitative, correspondence analysis (CA) and multiple correspondence analysis (MCA) when variables are categorical, Multiple Factor Analysis when variables are structured in groups, etc. and hierarchical cluster analysis. F. Husson, S. Le and J. Pages (2017).
Author: Francois Husson, Julie Josse, Sebastien Le, Jeremy Mazet
Maintainer: Francois Husson <francois.husson@agrocampus-ouest.fr>
Diff between FactoMineR versions 2.1 dated 2020-01-17 and 2.2 dated 2020-02-05
DESCRIPTION | 8 MD5 | 16 R/MFA.R | 49 R/plot.CA.R | 5 R/plot.FAMD.R | 4 R/plot.MCA.R | 18 R/plot.MFA.R | 2827 +++++++++++++++++++++++++++----------------------------- R/plot.PCA.R | 12 man/plot.MCA.Rd | 4 9 files changed, 1481 insertions(+), 1462 deletions(-)
Title: Functions for Handling Dates
Description: Functions for handling dates.
Author: Terry Therneau [aut],
Thomas Lumley [trl] (R port),
Kjetil Halvorsen [trl] (R port),
Kurt Hornik [trl, ctb, cre] (<https://orcid.org/0000-0003-4198-9911>, R
port),
R Core Team [ctb]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between date versions 1.2-38 dated 2018-01-06 and 1.2-39 dated 2020-02-05
ChangeLog | 6 ++++++ DESCRIPTION | 9 +++++---- MD5 | 6 +++--- src/init.c | 2 +- 4 files changed, 15 insertions(+), 8 deletions(-)
Title: Check User-Supplied Function Arguments
Description: For developers to check user-supplied function
arguments. It is designed to be simple, fast and customizable. Error
messages follow the tidyverse style guide.
Author: Joe Thorley [aut, cre] (<https://orcid.org/0000-0002-7683-4592>),
Kirill Müller [aut] (<https://orcid.org/0000-0002-1416-3412>),
Ayla Pearson [ctb] (<https://orcid.org/0000-0001-7388-1222>),
Poisson Consulting [cph, fnd]
Maintainer: Joe Thorley <joe@poissonconsulting.ca>
Diff between chk versions 0.3.0 dated 2020-01-15 and 0.3.1 dated 2020-02-05
chk-0.3.0/chk/tests/testthat/helper-chk.R |only chk-0.3.1/chk/DESCRIPTION | 8 chk-0.3.1/chk/MD5 | 155 +++++----- chk-0.3.1/chk/NAMESPACE | 7 chk-0.3.1/chk/NEWS.md | 14 chk-0.3.1/chk/R/chk-all-equal.R | 2 chk-0.3.1/chk/R/chk-all-equivalent.R | 2 chk-0.3.1/chk/R/chk-all-identical.R | 2 chk-0.3.1/chk/R/chk-array.R |only chk-0.3.1/chk/R/chk-atomic.R | 2 chk-0.3.1/chk/R/chk-date.R | 2 chk-0.3.1/chk/R/chk-datetime.R | 2 chk-0.3.1/chk/R/chk-dir.R | 4 chk-0.3.1/chk/R/chk-environment.R | 2 chk-0.3.1/chk/R/chk-equal.R | 4 chk-0.3.1/chk/R/chk-equivalent.R | 4 chk-0.3.1/chk/R/chk-ext.R | 3 chk-0.3.1/chk/R/chk-false.R | 2 chk-0.3.1/chk/R/chk-file.R | 4 chk-0.3.1/chk/R/chk-flag.R | 2 chk-0.3.1/chk/R/chk-function.R | 4 chk-0.3.1/chk/R/chk-gt.R | 4 chk-0.3.1/chk/R/chk-gte.R | 4 chk-0.3.1/chk/R/chk-identical.R | 4 chk-0.3.1/chk/R/chk-lgl.R | 2 chk-0.3.1/chk/R/chk-list.R | 2 chk-0.3.1/chk/R/chk-lt.R | 4 chk-0.3.1/chk/R/chk-lte.R | 2 chk-0.3.1/chk/R/chk-match.R | 4 chk-0.3.1/chk/R/chk-matrix.R |only chk-0.3.1/chk/R/chk-named.R | 2 chk-0.3.1/chk/R/chk-not-any-na.R | 2 chk-0.3.1/chk/R/chk-not-empty.R | 2 chk-0.3.1/chk/R/chk-not-null.R | 2 chk-0.3.1/chk/R/chk-null.R | 2 chk-0.3.1/chk/R/chk-number.R | 2 chk-0.3.1/chk/R/chk-numeric.R | 2 chk-0.3.1/chk/R/chk-range.R | 6 chk-0.3.1/chk/R/chk-s3-class.R | 2 chk-0.3.1/chk/R/chk-s4-class.R | 2 chk-0.3.1/chk/R/chk-scalar.R | 2 chk-0.3.1/chk/R/chk-setequal.R | 2 chk-0.3.1/chk/R/chk-sorted.R | 2 chk-0.3.1/chk/R/chk-string.R | 2 chk-0.3.1/chk/R/chk-subset.R | 4 chk-0.3.1/chk/R/chk-superset.R | 2 chk-0.3.1/chk/R/chk-true.R | 2 chk-0.3.1/chk/R/chk-tz.R |only chk-0.3.1/chk/R/chk-unique.R | 2 chk-0.3.1/chk/R/chk-vector.R | 2 chk-0.3.1/chk/R/chk-whole-number.R | 3 chk-0.3.1/chk/R/chk-whole-numeric.R | 3 chk-0.3.1/chk/R/deprecated.R | 293 ++++++++----------- chk-0.3.1/chk/R/err.R | 20 + chk-0.3.1/chk/R/expect-chk-error.R |only chk-0.3.1/chk/build/chk.pdf |binary chk-0.3.1/chk/inst/doc/chk-families.html | 21 + chk-0.3.1/chk/inst/doc/chk.html | 34 +- chk-0.3.1/chk/man/chk_array.Rd |only chk-0.3.1/chk/man/chk_atomic.Rd | 2 chk-0.3.1/chk/man/chk_date.Rd | 1 chk-0.3.1/chk/man/chk_datetime.Rd | 1 chk-0.3.1/chk/man/chk_deprecated.Rd | 161 +++------- chk-0.3.1/chk/man/chk_environment.Rd | 2 chk-0.3.1/chk/man/chk_function.Rd | 2 chk-0.3.1/chk/man/chk_list.Rd | 2 chk-0.3.1/chk/man/chk_matrix.Rd |only chk-0.3.1/chk/man/chk_number.Rd | 1 chk-0.3.1/chk/man/chk_numeric.Rd | 2 chk-0.3.1/chk/man/chk_s3_class.Rd | 2 chk-0.3.1/chk/man/chk_s4_class.Rd | 2 chk-0.3.1/chk/man/chk_scalar.Rd | 1 chk-0.3.1/chk/man/chk_string.Rd | 1 chk-0.3.1/chk/man/chk_tz.Rd |only chk-0.3.1/chk/man/chk_vector.Rd | 2 chk-0.3.1/chk/man/chk_whole_number.Rd | 3 chk-0.3.1/chk/man/chk_whole_numeric.Rd | 2 chk-0.3.1/chk/man/deparse_backtick_chk.Rd | 11 chk-0.3.1/chk/man/expect_chk_error.Rd |only chk-0.3.1/chk/tests/testthat/test-aaa-deprecated.R | 17 + chk-0.3.1/chk/tests/testthat/test-chk-array.R |only chk-0.3.1/chk/tests/testthat/test-chk-identical.R | 26 - chk-0.3.1/chk/tests/testthat/test-chk-matrix.R |only chk-0.3.1/chk/tests/testthat/test-chk-tz.R |only chk-0.3.1/chk/tests/testthat/test-expect-chk-error.R |only 85 files changed, 468 insertions(+), 442 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-08-30 1.1
2013-12-30 0.9
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-06-06 0.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-04-06 2.0.5
2014-02-20 2.0.4
2013-07-30 2.0.3
Title: Visualization and Imputation of Missing Values
Description: New tools for the visualization of missing and/or imputed values
are introduced, which can be used for exploring the data and the structure of
the missing and/or imputed values. Depending on this structure of the missing
values, the corresponding methods may help to identify the mechanism generating
the missing values and allows to explore the data including missing values.
In addition, the quality of imputation can be visually explored using various
univariate, bivariate, multiple and multivariate plot methods (<doi:10.1007/s11634-011-0102-y>). A graphical user
interface available in the separate package VIMGUI allows an easy handling of
the implemented plot methods.
Fast imputation methods such as k-nearest neighbor imputation (<doi:10.18637/jss.v074.i07>) and
imputation using robust methods are provided (<doi:10.1016/j.csda.2011.04.012>).
Author: Matthias Templ [aut, cre] (<https://orcid.org/0000-0002-8638-5276>),
Alexander Kowarik [aut] (<https://orcid.org/0000-0001-8598-4130>),
Andreas Alfons [aut],
Bernd Prantner [ctb]
Maintainer: Matthias Templ <matthias.templ@gmail.com>
Diff between VIM versions 4.8.0 dated 2019-02-11 and 5.1.0 dated 2020-02-05
VIM-4.8.0/VIM/R/gower.dist.R |only VIM-4.8.0/VIM/README.md |only VIM-4.8.0/VIM/man/print.summary.aggr.Rd |only VIM-4.8.0/VIM/tests/testthat/Rplots.pdf |only VIM-5.1.0/VIM/DESCRIPTION | 30 VIM-5.1.0/VIM/MD5 | 145 +- VIM-5.1.0/VIM/NAMESPACE | 9 VIM-5.1.0/VIM/NEWS | 6 VIM-5.1.0/VIM/R/VIM-package.R | 293 +++++ VIM-5.1.0/VIM/R/aggr.R | 1285 +++++++++++++------------- VIM-5.1.0/VIM/R/barMiss.R | 935 +++++++++--------- VIM-5.1.0/VIM/R/colormapMiss.R | 780 +++++++-------- VIM-5.1.0/VIM/R/evaluation.R |only VIM-5.1.0/VIM/R/gowerD.R |only VIM-5.1.0/VIM/R/growdotMiss.R | 788 ++++++++------- VIM-5.1.0/VIM/R/histMiss.R | 922 +++++++++--------- VIM-5.1.0/VIM/R/hotdeck.R | 17 VIM-5.1.0/VIM/R/irmi.R | 14 VIM-5.1.0/VIM/R/kNNFaster.R | 102 -- VIM-5.1.0/VIM/R/mapMiss.R | 420 ++++---- VIM-5.1.0/VIM/R/marginmatrix.R | 222 ++-- VIM-5.1.0/VIM/R/matchImpute.R | 20 VIM-5.1.0/VIM/R/matrixplot.R | 808 ++++++++-------- VIM-5.1.0/VIM/R/maxCat.R |only VIM-5.1.0/VIM/R/mosaicMiss.R | 380 +++---- VIM-5.1.0/VIM/R/parcoordMiss.R | 828 ++++++++-------- VIM-5.1.0/VIM/R/pbox.R | 1038 ++++++++++----------- VIM-5.1.0/VIM/R/prepare.R | 446 ++++----- VIM-5.1.0/VIM/R/regressionImp.R | 342 +++--- VIM-5.1.0/VIM/R/sampleCat.R |only VIM-5.1.0/VIM/R/scattmatrixMiss.R | 746 +++++++-------- VIM-5.1.0/VIM/data/SBS5242.rda |binary VIM-5.1.0/VIM/data/bcancer.rda |only VIM-5.1.0/VIM/data/brittleness.rda |only VIM-5.1.0/VIM/data/chorizonDL.rda |binary VIM-5.1.0/VIM/data/colic.rda |only VIM-5.1.0/VIM/data/collisions.rda |only VIM-5.1.0/VIM/data/diabetes.rda |only VIM-5.1.0/VIM/data/food.rda |only VIM-5.1.0/VIM/data/kola.background.rda |binary VIM-5.1.0/VIM/data/pulplignin.rda |only VIM-5.1.0/VIM/data/sleep.rda |binary VIM-5.1.0/VIM/data/tao.rda |binary VIM-5.1.0/VIM/data/testdata.RData |binary VIM-5.1.0/VIM/data/toydataMiss.rda |only VIM-5.1.0/VIM/data/wine.rda |only VIM-5.1.0/VIM/man/aggr.Rd | 66 + VIM-5.1.0/VIM/man/barMiss.Rd | 81 + VIM-5.1.0/VIM/man/bcancer.Rd |only VIM-5.1.0/VIM/man/brittleness.Rd |only VIM-5.1.0/VIM/man/colSequence.Rd | 2 VIM-5.1.0/VIM/man/colic.Rd |only VIM-5.1.0/VIM/man/collisions.Rd |only VIM-5.1.0/VIM/man/colormapMiss.Rd | 112 ++ VIM-5.1.0/VIM/man/diabetes.Rd |only VIM-5.1.0/VIM/man/evaluation.Rd |only VIM-5.1.0/VIM/man/food.Rd |only VIM-5.1.0/VIM/man/gowerD.Rd |only VIM-5.1.0/VIM/man/growdotMiss.Rd | 113 ++ VIM-5.1.0/VIM/man/histMiss.Rd | 87 + VIM-5.1.0/VIM/man/hotdeck.Rd | 62 + VIM-5.1.0/VIM/man/irmi.Rd | 108 ++ VIM-5.1.0/VIM/man/kNN.Rd | 145 ++ VIM-5.1.0/VIM/man/mapMiss.Rd | 65 + VIM-5.1.0/VIM/man/marginmatrix.Rd | 36 VIM-5.1.0/VIM/man/marginplot.Rd | 26 VIM-5.1.0/VIM/man/matchImpute.Rd | 47 VIM-5.1.0/VIM/man/matrixplot.Rd | 82 + VIM-5.1.0/VIM/man/maxCat.Rd |only VIM-5.1.0/VIM/man/mosaicMiss.Rd | 53 + VIM-5.1.0/VIM/man/pairsVIM.Rd | 21 VIM-5.1.0/VIM/man/parcoordMiss.Rd | 95 + VIM-5.1.0/VIM/man/pbox.Rd | 91 + VIM-5.1.0/VIM/man/prepare.Rd | 36 VIM-5.1.0/VIM/man/pulplignin.Rd |only VIM-5.1.0/VIM/man/regressionImp.Rd | 44 VIM-5.1.0/VIM/man/rugNA.Rd | 13 VIM-5.1.0/VIM/man/sampleCat.Rd |only VIM-5.1.0/VIM/man/scattJitt.Rd | 26 VIM-5.1.0/VIM/man/scattMiss.Rd | 25 VIM-5.1.0/VIM/man/scattmatrixMiss.Rd | 68 + VIM-5.1.0/VIM/man/spineMiss.Rd | 25 VIM-5.1.0/VIM/man/toydataMiss.Rd |only VIM-5.1.0/VIM/man/vmGUIenvir.Rd | 4 VIM-5.1.0/VIM/man/wine.Rd |only VIM-5.1.0/VIM/src/gowerD.cpp | 24 VIM-5.1.0/VIM/tests/testthat/test_graphics.R | 53 - VIM-5.1.0/VIM/tests/testthat/test_kNN.R | 17 VIM-5.1.0/VIM/tests/testthat/test_kNN_exact.R |only 89 files changed, 6945 insertions(+), 5258 deletions(-)
Title: Symbolic Central and Noncentral Moments of the Multivariate
Normal Distribution
Description: Symbolic central and non-central moments of the multivariate normal distribution. Computes a standard representation, LateX code, and values at specified mean and covariance matrices.
Author: Kem Phillips
Maintainer: Kem Phillips <kemphillips@comcast.net>
Diff between symmoments versions 1.2 dated 2014-08-04 and 1.2.1 dated 2020-02-05
DESCRIPTION | 14 +++++----- MD5 | 22 ++++++++-------- NAMESPACE | 1 R/symmoments.R | 62 +++++++++++++++++++++++----------------------- build/vignette.rds |binary inst/doc/symmoments.R | 18 ++++++------- inst/doc/symmoments.pdf |binary inst/doc/symmoments.rnw | 33 +++++++++++++----------- man/convert.mpoly.Rd | 11 +++----- man/convert.multipol.Rd | 25 ++++++++++-------- man/symmoments-package.Rd | 12 ++++---- vignettes/symmoments.rnw | 33 +++++++++++++----------- 12 files changed, 121 insertions(+), 110 deletions(-)
Title: Pairwise Association of Functional Annotations
Description: Finds pairs of functional annotations or gene ontology (GO)
terms that are enriched within a directed network (such as a gene
regulatory network). This works with or without edge weights and
includes visualizations (both as a network where the functions are
nodes and as a heatmap). PAFway is an acronym for Pairwise Associations of
Functional annotations in biological networks and pathWAYs.
Author: Daphne Ezer [aut, cre],
Mahair Mahjoub [aut]
Maintainer: Daphne Ezer <daphne.ezer@york.ac.uk>
Diff between PAFway versions 0.1.2 dated 2019-12-16 and 0.1.3 dated 2020-02-05
DESCRIPTION | 12 +++++----- MD5 | 20 +++++++++------- NAMESPACE | 1 NEWS.md | 3 ++ R/metapafway.R |only inst/doc/index.R | 28 +++++++++++------------ inst/doc/index.Rmd | 20 +++++++++++++++- inst/doc/index.html | 54 +++++++++++++++++++++++++-------------------- man/draw_heatmap.Rd | 9 +++++-- man/pafway_edge_weights.Rd | 11 +++++++-- man/pafway_meta.Rd |only vignettes/index.Rmd | 20 +++++++++++++++- 12 files changed, 120 insertions(+), 58 deletions(-)
Title: Manage, Analyse and Simulate Hyperspectral Data
Description: Transformation of reflectance spectra, calculation of vegetation indices and red edge parameters, spectral resampling for hyperspectral remote sensing, simulation of reflectance and transmittance using the leaf reflectance model PROSPECT and the canopy reflectance model PROSAIL.
Author: Lukas W. Lehnert [cre, aut] (<https://orcid.org/0000-0002-5229-2282>),
Hanna Meyer [ctb],
Joerg Bendix [ctb]
Maintainer: Lukas W. Lehnert <lukaslehnert@googlemail.com>
Diff between hsdar versions 1.0.0 dated 2019-05-25 and 1.0.1 dated 2020-02-05
hsdar-1.0.0/hsdar/R/hyperSpec_conversion.R |only hsdar-1.0.0/hsdar/man/as_hyperSpec.Rd |only hsdar-1.0.1/hsdar/ChangeLog | 11 ++ hsdar-1.0.1/hsdar/DESCRIPTION | 10 +- hsdar-1.0.1/hsdar/MD5 | 81 +++++++++-------- hsdar-1.0.1/hsdar/R/ASD_functions.R |only hsdar-1.0.1/hsdar/R/HyperSpecRaster_methods.R | 2 hsdar-1.0.1/hsdar/R/PROSPECTinvert.R | 91 +++++++++++++++----- hsdar-1.0.1/hsdar/R/Spectra-class.R | 3 hsdar-1.0.1/hsdar/R/caret_parameters.R | 4 hsdar-1.0.1/hsdar/R/caret_preProcess.R | 6 - hsdar-1.0.1/hsdar/R/caret_predict.R | 8 - hsdar-1.0.1/hsdar/R/caret_train.R | 2 hsdar-1.0.1/hsdar/R/continuum_clman.R | 8 - hsdar-1.0.1/hsdar/R/continuum_features.R | 10 +- hsdar-1.0.1/hsdar/R/continuum_features_properties.R | 10 +- hsdar-1.0.1/hsdar/R/distance.R | 8 - hsdar-1.0.1/hsdar/R/getFiniteNri.R | 4 hsdar-1.0.1/hsdar/R/nri.R | 3 hsdar-1.0.1/hsdar/R/nri_cor_test.R | 6 - hsdar-1.0.1/hsdar/R/nri_glm.R | 4 hsdar-1.0.1/hsdar/R/nri_lm.R | 6 - hsdar-1.0.1/hsdar/R/nri_t_test.R | 6 - hsdar-1.0.1/hsdar/R/raster-methods.R | 14 +-- hsdar-1.0.1/hsdar/R/rastermeta.R | 16 +-- hsdar-1.0.1/hsdar/R/speclib.R | 29 +++--- hsdar-1.0.1/hsdar/R/speclib_SI.R | 10 +- hsdar-1.0.1/hsdar/R/speclib_dim.R | 4 hsdar-1.0.1/hsdar/R/speclib_get_reflectance.R | 2 hsdar-1.0.1/hsdar/R/speclib_index.R | 8 - hsdar-1.0.1/hsdar/R/speclib_print.R | 2 hsdar-1.0.1/hsdar/build/hsdar.pdf |binary hsdar-1.0.1/hsdar/build/vignette.rds |binary hsdar-1.0.1/hsdar/inst/doc/Hsdar-intro.R | 1 hsdar-1.0.1/hsdar/inst/doc/Hsdar-intro.pdf |binary hsdar-1.0.1/hsdar/inst/doc/References.pdf |binary hsdar-1.0.1/hsdar/man/PROSPECT2R.Rd | 9 + hsdar-1.0.1/hsdar/man/normalized.ratio.index.Rd | 5 - hsdar-1.0.1/hsdar/man/postprocess_ASD.Rd |only hsdar-1.0.1/hsdar/man/read_ASD.Rd |only hsdar-1.0.1/hsdar/man/simple.ratio.index.Rd | 8 - hsdar-1.0.1/hsdar/man/speclib.Rd | 6 - hsdar-1.0.1/hsdar/man/transform.Rd | 2 hsdar-1.0.1/hsdar/src/recursiveNRI.f90 | 4 44 files changed, 232 insertions(+), 171 deletions(-)
Title: Fitting Single and Mixture of Generalised Lambda Distributions
(RS and FMKL) using Various Methods
Description: The fitting algorithms considered in this package have two major objectives. One is to provide a smoothing device to fit distributions to data using the weight and unweighted discretised approach based on the bin width of the histogram. The other is to provide a definitive fit to the data set using the maximum likelihood and quantile matching estimation. Other methods such as moment matching, starship method, L moment matching are also provided. Diagnostics on goodness of fit can be done via qqplots, KS-resample tests and comparing mean, variance, skewness and kurtosis of the data with the fitted distribution.
Author: Steve Su, with contributions from: Diethelm Wuertz, Martin Maechler and Rmetrics core team members for low discrepancy algorithm, Juha Karvanen for L moments codes, Robert King for gld C codes and starship codes, Benjamin Dean for corrections and input in ks.gof code and R core team for histsu function.
Maintainer: Steve Su <allegro.su@gmail.com>
Diff between GLDEX versions 2.0.0.6 dated 2019-08-23 and 2.0.0.7 dated 2020-02-05
DESCRIPTION | 8 ++++---- MD5 | 11 ++++++----- NAMESPACE | 2 +- man/GLDEX.package.Rd | 22 +++++++++++----------- man/digitsBase.Rd | 4 +--- man/hiddenfunctions.Rd | 14 ++++++++++++-- src/GLDEX_init.c |only 7 files changed, 35 insertions(+), 26 deletions(-)
Title: Generalized Additive Models for Bivariate Conditional Dependence
Structures and Vine Copulas
Description: Implementation of various inference and simulation tools to
apply generalized additive models to bivariate dependence structures and
non-simplified vine copulas.
Author: Thomas Nagler [aut],
Thibault Vatter [aut, cre]
Maintainer: Thibault Vatter <thibault.vatter@gmail.com>
Diff between gamCopula versions 0.0-6 dated 2019-12-04 and 0.0-7 dated 2020-02-05
DESCRIPTION | 10 +++++----- MD5 | 36 ++++++++++++++++++------------------ NEWS.md | 7 +++++++ R/gamBiCop.R | 2 +- R/gamVine.R | 2 +- R/gamVineCopSelect.R | 6 ++++-- R/gamVineSeqFit.R | 5 +++-- R/gamVineStructureSelect.R | 4 ++-- man/condBiCopSim.Rd | 3 +-- man/gamBiCopFit.Rd | 14 +++++++++++--- man/gamBiCopPredict.Rd | 9 +++++++-- man/gamBiCopSelect.Rd | 23 ++++++++++++++++++----- man/gamBiCopSimulate.Rd | 10 ++++++++-- man/gamCopula-package.Rd | 4 ++-- man/gamVineCopSelect.Rd | 28 +++++++++++++++++++++++----- man/gamVineSeqFit.Rd | 12 ++++++++++-- man/gamVineStructureSelect.Rd | 26 ++++++++++++++++++++------ man/summary.gamBiCop-methods.Rd | 2 +- man/summary.gamVine-methods.Rd | 2 +- 19 files changed, 143 insertions(+), 62 deletions(-)
Title: Analysis of Multiplex Cytometric Bead Assays
Description: Reproducible and automated analysis of multiplex bead assays such
as CBA (Morgan et al. 2004; <doi: 10.1016/j.clim.2003.11.017>), LEGENDplex
(Yu et al. 2015; <doi: 10.1084/jem.20142318>), and MACSPlex (Miltenyi
Biotec 2014; Application note: Data acquisition and analysis without the
MACSQuant analyzer;
<https://www.miltenyibiotec.com/upload/assets/IM0021608.PDF>). The
package provides functions for streamlined reading of fcs files, and
identification of bead clusters and analyte expression. The package eases
the calculation of standard curves and the subsequent calculation of the
analyte concentration.
Author: Ulrik Stervbo [aut, cre] (<https://orcid.org/0000-0002-2831-8868>)
Maintainer: Ulrik Stervbo <ulrik.stervbo@gmail.com>
Diff between beadplexr versions 0.2.0 dated 2018-12-07 and 0.3.0 dated 2020-02-05
DESCRIPTION | 8 MD5 | 69 NEWS.md | 16 R/cluster_events.R | 5 R/panel_information.R | 28 R/read_fcs.R | 2 README.md | 4 build/vignette.rds |binary inst/doc/cba_macsplex_example.R | 20 inst/doc/cba_macsplex_example.html | 515 +++-- inst/doc/legendplex-analysis.R | 62 inst/doc/legendplex-analysis.Rmd | 2 inst/doc/legendplex-analysis.html | 955 ++++++---- inst/resources/legendplex_mouse_anti-virus_response_panel_13-plex.yml |only inst/resources/legendplex_mouse_cytokine_panel_2_13-plex.yml |only inst/resources/legendplex_mouse_free_active-total_tgf-b1_panel_mouse-rat_1-plex.yml |only inst/resources/legendplex_mouse_hsc_panel_13-plex.yml |only inst/resources/legendplex_mouse_ige_panel_1-plex.yml |only inst/resources/legendplex_mouse_immunoglobulin_isotyping_panel_6-plex.yml |only inst/resources/legendplex_mouse_inflammation_panel_13-plex.yml |only inst/resources/legendplex_mouse_proinflammatory_chemokine_panel_13-plex.yml |only inst/resources/legendplex_mouse_t_helper_cytokine_panels_13-plex.yml |only man/as_data_frame_analyte.Rd | 7 man/assign_analyte_id.Rd | 9 man/calc_analyte_mfi.Rd | 8 man/calc_std_conc.Rd | 3 man/calculate_concentration.Rd | 8 man/cluster_events.Rd | 29 man/do_find_turning_points.Rd | 3 man/facs_plot.Rd | 18 man/fit_standard_curve.Rd | 9 man/ident_bead_pop.Rd | 9 man/identify_analyte.Rd | 15 man/identify_assay_analyte.Rd | 18 man/load_panel.Rd | 12 man/plot_concentrations.Rd | 27 man/read_fcs.Rd | 13 man/trim_population.Rd | 3 man/turning_point.Rd | 23 vignettes/legendplex-analysis.Rmd | 2 40 files changed, 1245 insertions(+), 657 deletions(-)
Title: Simplicial Generalized Beta Regression
Description: Main properties and regression procedures using a generalization of the Dirichlet distribution called Simplicial Generalized Beta distribution. It is a new distribution on the simplex (i.e. on the space of compositions or positive vectors with sum of components equal to 1). The Dirichlet distribution can be constructed from a random vector of independent Gamma variables divided by their sum. The SGB follows the same construction with generalized Gamma instead of Gamma variables. The Dirichlet exponents are supplemented by an overall shape parameter and a vector of scales. The scale vector is itself a composition and can be modeled with auxiliary variables through a log-ratio transformation. Graf, M. (2017, ISBN: 978-84-947240-0-8). See also the vignette enclosed in the package.
Author: Monique Graf
Maintainer: Monique Graf <monique.p.n.graf@bluewin.ch>
Diff between SGB versions 1.0 dated 2019-05-13 and 1.0.1 dated 2020-02-05
DESCRIPTION | 8 ++--- MD5 | 16 +++++------ R/hin.SGB.R | 2 - R/initpar.SGB.R | 68 -------------------------------------------------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/vignette.pdf |binary man/SGB-package.Rd | 4 ++ man/stepSGB.Rd | 1 9 files changed, 17 insertions(+), 82 deletions(-)
Title: Exact and Approximate Implementations of the Poisson Binomial
Distribution
Description: Implementations of multiple exact and approximate methods as described in Hong (2013) <doi:10.1016/j.csda.2012.10.006> and Biscarri et al. (2018) <doi:10.1016/j.csda.2018.01.007> for computing the probability mass, cumulative distribution and quantile functions, as well as generating random numbers for the Poisson binomial distribution.
Author: Florian Junge [aut, cre]
Maintainer: Florian Junge <florian.junge@h-da.de>
Diff between PoissonBinomial versions 1.0.0 dated 2020-01-22 and 1.0.1 dated 2020-02-05
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 15 +++++++++++---- inst/doc/Approximate.html | 22 ++++++++++------------ inst/doc/Exact.html | 18 ++++++++---------- inst/doc/Rcpp.html | 8 +++----- src/PoissonBinomial.cpp | 14 +++++++------- 7 files changed, 49 insertions(+), 48 deletions(-)
More information about PoissonBinomial at CRAN
Permanent link
Title: Sensitivity Analysis of Neural Networks
Description: Analysis functions to quantify inputs importance in neural network models.
Functions are available for calculating and plotting the inputs importance and obtaining
the activation function of each neuron layer and its derivatives. The importance of a given
input is defined as the distribution of the derivatives of the output with respect to that
input in each training data point.
Author: José Portela González [aut],
Antonio Muñoz San Roque [aut],
Jaime Pizarroso Gonzalo [ctb, cre]
Maintainer: Jaime Pizarroso Gonzalo <jpizarroso@comillas.edu>
Diff between NeuralSens versions 0.1.3 dated 2020-01-11 and 0.1.4 dated 2020-02-05
DESCRIPTION | 10 - MD5 | 6 R/SensAnalysisMLP.R | 312 ++++++++++++++++++++++++++++++++++++++++--------- man/SensAnalysisMLP.Rd | 110 +++++++++++++---- 4 files changed, 355 insertions(+), 83 deletions(-)
Title: Fuzzy Forests
Description: Fuzzy forests, a new algorithm based on random forests,
is designed to reduce the bias seen in random forest feature selection
caused by the presence of correlated features. Fuzzy forests uses
recursive feature elimination random forests to select
features from separate blocks of correlated features where the
correlation within each block of features is high
and the correlation between blocks of features is low.
One final random forest is fit using the surviving features.
This package fits random forests using the 'randomForest' package and
allows for easy use of 'WGCNA' to split features into distinct blocks.
See D. Conn, Ngun, T., C. Ramirez, and G. Li (2019) <doi:10.18637/jss.v091.i09>
for further details.
Author: Daniel Conn [aut, cre],
Tuck Ngun [aut],
Christina M. Ramirez [aut]
Maintainer: Daniel Conn <djconn17@gmail.com>
Diff between fuzzyforest versions 1.0.6 dated 2019-10-26 and 1.0.7 dated 2020-02-05
DESCRIPTION | 23 +++++++++++++++-------- MD5 | 12 ++++++------ NAMESPACE | 1 - R/ff.R | 9 +-------- R/fuzzyforest.R | 1 - R/select_RF.R | 4 ++-- build/partial.rdb |binary 7 files changed, 24 insertions(+), 26 deletions(-)
Title: Perform Factorial Analysis from 'FactoMineR' with a Shiny
Application
Description: Perform factorial analysis with a menu and draw graphs interactively thanks to 'FactoMineR' and a Shiny application.
Author: Pauline Vaissie, Astrid Monge, Francois Husson
Maintainer: Francois Husson <husson@agrocampus-ouest.fr>
Diff between Factoshiny versions 2.1 dated 2020-01-17 and 2.2 dated 2020-02-05
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ NAMESPACE | 2 +- inst/FactoApp/server.R | 2 +- inst/FactoCAapp2/server.R | 9 ++++++--- inst/FactoHCPCapp2/server.R | 9 ++++++--- inst/FactoMCAapp2/server.R | 9 ++++++--- inst/FactoMFAapp/server.R | 18 +++++++++++------- inst/FactoMFAapp/ui.R | 2 -- inst/FactoPCAapp2/server.R | 9 ++++++--- inst/doc/Factoshiny.pdf |binary inst/po/fr/LC_MESSAGES/R-Factoshiny.mo |binary po/R-Fr.po | 7 +++++-- 13 files changed, 58 insertions(+), 41 deletions(-)
More information about tree.interpreter at CRAN
Permanent link
Title: Survey Standard Error Estimation for Cumulated Estimates and
their Differences in Complex Panel Designs
Description: Calculate point estimates and their standard errors in complex household surveys using bootstrap replicates. Bootstrapping considers survey design with a rotating panel. A comprehensive description of the methodology can be found under <https://statistikat.github.io/surveysd/articles/methodology.html>.
Author: Johannes Gussenbauer [aut, cre],
Alexander Kowarik [aut] (<https://orcid.org/0000-0001-8598-4130>),
Gregor de Cillia [aut],
Matthias Till [ctb]
Maintainer: Johannes Gussenbauer <Johannes.Gussenbauer@statistik.gv.at>
Diff between surveysd versions 1.1.0 dated 2019-07-15 and 1.2.0 dated 2020-02-05
DESCRIPTION | 8 MD5 | 82 +++++---- NEWS.md | 48 ++++- R/calc.stError.R | 42 +++-- R/computeFrac.R | 8 R/draw.bootstrap.R | 57 +++--- R/generateHHID.R | 4 R/helpers.R | 33 +++ R/ipf.r | 105 +++++++++--- R/plot.R | 4 R/print.R | 2 R/recalib.R | 208 ++++++++++++++++--------- R/rescaled.bootstrap.R | 39 +++- README.md | 9 - build/vignette.rds |binary inst/doc/error_estimation.R | 7 inst/doc/error_estimation.Rmd | 7 inst/doc/error_estimation.html | 273 ++++++++++++++++----------------- inst/doc/ipf.R |only inst/doc/ipf.Rmd |only inst/doc/ipf.html |only inst/doc/methodology.html | 6 inst/doc/surveysd.R | 3 inst/doc/surveysd.Rmd | 3 man/calc.stError.Rd | 53 ++++-- man/computeFrac.Rd | 8 man/draw.bootstrap.Rd | 23 ++ man/generate.HHID.Rd | 2 man/ipf.Rd | 32 ++- man/plot.surveysd.Rd | 11 - man/recalib.Rd | 44 ++++- man/rescaled.bootstrap.Rd | 19 +- src/compute_linear.cpp | 55 +++--- tests/testthat/test_calcstError.R | 3 tests/testthat/test_calcstError_long.R | 3 tests/testthat/test_drawbootstrap.R | 2 tests/testthat/test_ipf.R | 66 +++++-- tests/testthat/test_plot.R | 3 tests/testthat/test_recalib.R | 55 ++++++ vignettes/error_estimation.Rmd | 7 vignettes/ipf.Rmd |only vignettes/lib.bib | 61 +++++++ vignettes/surveysd.Rmd | 3 vignettes/surveysd.html | 101 ++++++------ 44 files changed, 975 insertions(+), 524 deletions(-)
Title: Seasonal Analysis of Health Data
Description: Routines for the seasonal analysis of health data,
including regression models, time-stratified case-crossover,
plotting functions and residual checks, see Barnett and Dobson (2010) ISBN 978-3-642-10748-1. Thanks to Yuming Guo
for checking the case-crossover code.
Author: Adrian Barnett and Peter Baker
Maintainer: Adrian Barnett <a.barnett@qut.edu.au>
Diff between season versions 0.3.8 dated 2018-09-10 and 0.3.9 dated 2020-02-05
DESCRIPTION | 6 MD5 | 17 R/casecross.R | 2 R/nscosinor.R | 2 R/plotCircular.R | 438 +++++++++++----------- README.md |only build/vignette.rds |binary inst/doc/season-vignette.R | 210 +++++----- inst/doc/season-vignette.html | 830 +++++++++++++++++++++++++++--------------- man/nscosinor.Rd | 1 10 files changed, 872 insertions(+), 634 deletions(-)
Title: Article Formats for R Markdown
Description: A suite of custom R Markdown formats and templates for
authoring journal articles and conference submissions.
Author: JJ Allaire [aut],
Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
R Foundation [aut, cph],
Hadley Wickham [aut],
Journal of Statistical Software [aut, cph],
RStudio [cph],
Ramnath Vaidyanathan [aut, cph],
Association for Computing Machinery [aut, cph],
Carl Boettiger [aut, cph],
Elsevier [aut, cph],
Karl Broman [aut, cph],
Kirill Mueller [aut, cph],
Bastiaan Quast [aut, cph],
Randall Pruim [aut, cph],
Ben Marwick [aut, cph],
Charlotte Wickham [aut, cph],
Oliver Keyes [aut, cph],
Miao Yu [aut, cph],
Daniel Emaasit [aut, cph],
Thierry Onkelinx [aut, cph],
Alessandro Gasparini [aut, cph]
(<https://orcid.org/0000-0002-8319-7624>),
Marc-Andre Desautels [aut, cph],
Dominik Leutnant [aut, cph] (<https://orcid.org/0000-0003-3293-2315>),
MDPI [aut, cph],
Taylor and Francis [aut, cph],
Oğuzhan Öğreden [aut] (<https://orcid.org/0000-0002-9949-3348>),
Dalton Hance [aut],
Daniel Nüst [aut, cph] (<https://orcid.org/0000-0002-0024-5046>),
Petter Uvesten [aut, cph],
Elio Campitelli [aut, cph] (<https://orcid.org/0000-0002-7742-9230>),
John Muschelli [aut, cph] (<https://orcid.org/0000-0001-6469-1750>),
Zhian N. Kamvar [aut, cph] (<https://orcid.org/0000-0003-1458-7108>),
Noam Ross [aut, cph] (<https://orcid.org/0000-0002-2136-0000>),
Robrecht Cannoodt [aut, cph] (<https://orcid.org/0000-0003-3641-729X>,
rcannood),
Duncan Luguern [aut],
David M. Kaplan [aut, ctb] (<https://orcid.org/0000-0001-6087-359X>,
dmkaplan2000)
Maintainer: Yihui Xie <xie@yihui.name>
Diff between rticles versions 0.13 dated 2019-12-19 and 0.14 dated 2020-02-05
rticles-0.13/rticles/inst/rmarkdown/templates/mnras_article/skeleton/mnras.cls |only rticles-0.14/rticles/DESCRIPTION | 17 ++-- rticles-0.14/rticles/MD5 | 37 +++++----- rticles-0.14/rticles/NAMESPACE | 1 rticles-0.14/rticles/NEWS.md | 13 +++ rticles-0.14/rticles/R/article.R | 16 ++++ rticles-0.14/rticles/README.md | 2 rticles-0.14/rticles/inst/rmarkdown/templates/ieee_article/resources/template.tex | 18 ++++ rticles-0.14/rticles/inst/rmarkdown/templates/ieee_article/skeleton/skeleton.Rmd | 28 +++++++ rticles-0.14/rticles/inst/rmarkdown/templates/joss_article/skeleton/skeleton.Rmd | 1 rticles-0.14/rticles/inst/rmarkdown/templates/mnras_article/resources/template.tex | 2 rticles-0.14/rticles/inst/rmarkdown/templates/oup_article |only rticles-0.14/rticles/inst/rmarkdown/templates/peerj_article/skeleton/skeleton.Rmd | 4 - rticles-0.14/rticles/inst/rmarkdown/templates/peerj_article/skeleton/view.jpg |binary rticles-0.14/rticles/inst/rmarkdown/templates/springer_article/resources/template.tex | 2 rticles-0.14/rticles/inst/rmarkdown/templates/springer_article/skeleton/skeleton.Rmd | 8 -- rticles-0.14/rticles/man/article.Rd | 15 ++++ rticles-0.14/rticles/tests/testit/test-formats.R | 1 18 files changed, 131 insertions(+), 34 deletions(-)
Title: Objects and Methods for Multi-Companion Matrices
Description: Provides a class for multi-companion matrices with methods for
arithmetic and factorization. A method for generation of
multi-companion matrices with prespecified spectral properties is
provided, as well as some utilities for periodically correlated and
multivariate time series models. See Boshnakov (2002)
<doi:10.1016/S0024-3795(01)00475-X> and Boshnakov & Iqelan (2009)
<doi:10.1111/j.1467-9892.2009.00617.x>.
Author: Georgi N. Boshnakov [aut, cre]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between mcompanion versions 0.5-1 dated 2019-12-18 and 0.5-2 dated 2020-02-05
DESCRIPTION | 8 MD5 | 148 +-- NAMESPACE | 188 +-- NEWS.md | 411 ++++---- R/chains_smc.R | 358 +++---- R/class_Jordan.R | 258 ++--- R/class_MC.R | 900 +++++++++--------- R/class_MF.R | 688 +++++++------- R/class_SMC.R | 122 +- R/class_mcSpec.R | 498 +++++----- R/mat.R | 252 ++--- R/mc.R | 362 +++---- R/mcompanion.R | 1550 ++++++++++++++++---------------- R/sim.R | 354 +++---- R/utils_Jordan.R | 300 +++--- README.md | 72 - TODO | 44 build/partial.rdb |binary inst/REFERENCES.bib | 96 - man/JordanDecomposition.Rd | 240 ++-- man/JordanDecompositionDefault-class.Rd | 140 +- man/MultiFilter-class.Rd | 328 +++--- man/SmallMultiCompanion-class.Rd | 108 +- man/VAR2pcfilter.Rd | 296 +++--- man/jordan.Rd | 274 ++--- man/mCompanion.Rd | 276 ++--- man/make_mcev.Rd | 124 +- man/make_mcmatrix.Rd | 374 +++---- man/mc.0chain.complete.Rd | 124 +- man/mc.0chain.dx.Rd | 94 - man/mc.0chain.struct.Rd | 126 +- man/mc.0chain.structfill.Rd | 98 +- man/mc.non0chain.extend.Rd | 86 - man/mcSpec-class.Rd | 198 ++-- man/mcSpec.Rd | 244 ++--- man/mcStable.Rd | 192 +-- man/mc_0chains.Rd | 150 +-- man/mc_chain_extend.Rd | 162 +-- man/mc_chain_scale.Rd | 114 +- man/mc_chain_subset.Rd | 138 +- man/mc_chains_triangulate.Rd | 142 +- man/mc_eigen.Rd | 188 +-- man/mc_factorize.Rd | 178 +-- man/mc_factors.Rd | 108 +- man/mc_from_factors.Rd | 112 +- man/mc_matrix.Rd | 286 ++--- man/mcompanion-package.Rd | 406 ++++---- man/mf_VSform.Rd | 363 +++---- man/nullComplement.Rd | 148 +-- man/optionalMatrix-class.Rd | 38 man/permute_var.Rd | 114 +- man/rblockmult.Rd | 58 - man/reduce_chains_simple.Rd | 78 - man/sim_chains.Rd | 66 - man/sim_mc.Rd | 332 +++--- man/sim_pcfilter.Rd | 148 +-- man/spec_core.Rd | 130 +- man/spec_root0.Rd | 102 +- man/spec_root1.Rd | 156 +-- man/spec_seeds1.Rd | 138 +- tests/testthat.R | 8 tests/testthat/test-co_ones.R | 102 +- tests/testthat/test-jordan.R | 246 ++--- tests/testthat/test-ldl.R | 216 ++-- tests/testthat/test-mC.gen.R | 30 tests/testthat/test-mcSpec.R | 142 +- tests/testthat/test-mcStable.R | 62 - tests/testthat/test-mc_0chains.R | 146 +-- tests/testthat/test-mc_chains.R | 30 tests/testthat/test-null_complement.R | 34 tests/testthat/test-proba.R | 24 tests/testthat/test-rblockmult.R | 32 tests/testthat/test-sim_mcseeds.R | 74 - tests/testthat/test-smc.R | 74 - tests/testthat/test-spec_root1.R | 116 +- 75 files changed, 7563 insertions(+), 7559 deletions(-)
Title: Estimation of Indicators on Social Exclusion and Poverty
Description: Estimation of indicators on social exclusion and poverty, as well
as Pareto tail modeling for empirical income distributions.
Author: Andreas Alfons [aut, cre],
Josef Holzer [aut],
Matthias Templ [aut],
Alexander Haider [ctb]
Maintainer: Andreas Alfons <alfons@ese.eur.nl>
Diff between laeken versions 0.5.0 dated 2019-01-10 and 0.5.1 dated 2020-02-05
DESCRIPTION | 8 ++++---- MD5 | 26 +++++++++++++------------- NEWS | 16 +++++++++++----- R/minAMSE.R | 4 +--- R/utils.R | 2 ++ build/partial.rdb |binary build/vignette.rds |binary data/eusilc.RData |binary data/ses.RData |binary inst/doc/laeken-intro.pdf |binary inst/doc/laeken-pareto.pdf |binary inst/doc/laeken-standard.pdf |binary inst/doc/laeken-variance.pdf |binary man/minAMSE.Rd | 6 ++++-- 14 files changed, 35 insertions(+), 27 deletions(-)
Title: Gaussian Process Laboratory
Description: Gaussian process regression with an emphasis on kernels.
Quantitative and qualitative inputs are accepted. Some
pre-defined kernels are available, such as radial or tensor-sum
for quantitative inputs, and compound symmetry, low rank, group
kernel for qualitative inputs. The user can define new kernels
and composite kernels through a formula mechanism. Useful methods
include parameter estimation by maximum likelihood, simulation,
prediction and leave-one-out validation.
Author: Yves Deville, David Ginsbourger, Olivier Roustant. Contributors: Nicolas Durrande.
Maintainer: Olivier Roustant <roustant@insa-toulouse.fr>
Diff between kergp versions 0.5.0 dated 2019-09-30 and 0.5.1 dated 2020-02-05
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- build/partial.rdb |binary inst/doc/OptimMLE.pdf |binary inst/doc/beam.pdf |binary inst/doc/groupKernel.pdf |binary man/checkX-methods.Rd | 2 +- man/corLevSymm.Rd | 2 +- man/kergp-package.Rd | 4 ++-- man/simulPar-covAll-method.Rd | 5 ----- 10 files changed, 17 insertions(+), 22 deletions(-)
Title: A Wrapper of the JavaScript Library 'DataTables'
Description: Data objects in R can be rendered as HTML tables using the
JavaScript library 'DataTables' (typically via R Markdown or Shiny). The
'DataTables' library has been included in this R package. The package name
'DT' is an abbreviation of 'DataTables'.
Author: Yihui Xie [aut, cre],
Joe Cheng [aut],
Xianying Tan [aut],
JJ Allaire [ctb],
Maximilian Girlich [ctb],
Greg Freedman Ellis [ctb],
Johannes Rauh [ctb],
jQuery contributors [ctb, cph] (jQuery in htmlwidgets/lib),
SpryMedia Limited [ctb, cph] (DataTables in htmlwidgets/lib),
Brian Reavis [ctb, cph] (selectize.js in htmlwidgets/lib),
Leon Gersen [ctb, cph] (noUiSlider in htmlwidgets/lib),
Bartek Szopka [ctb, cph] (jquery.highlight.js in htmlwidgets/lib),
RStudio Inc [cph]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between DT versions 0.11 dated 2019-12-19 and 0.12 dated 2020-02-05
DT-0.11/DT/inst/htmlwidgets/lib/datatables-extensions/AutoFill/js/autoFill.dataTables.min.js |only DT-0.11/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/js/buttons.dataTables.js |only DT-0.11/DT/inst/htmlwidgets/lib/datatables-extensions/ColReorder/js/colReorder.dataTables.min.js |only DT-0.11/DT/inst/htmlwidgets/lib/datatables-extensions/FixedColumns/js/fixedColumns.dataTables.min.js |only DT-0.11/DT/inst/htmlwidgets/lib/datatables-extensions/FixedHeader/js/fixedHeader.dataTables.min.js |only DT-0.11/DT/inst/htmlwidgets/lib/datatables-extensions/Responsive/js/responsive.dataTables.min.js |only DT-0.11/DT/inst/htmlwidgets/lib/datatables-extensions/RowGroup/js/rowGroup.dataTables.js |only DT-0.11/DT/inst/htmlwidgets/lib/datatables-extensions/Scroller/js/scroller.dataTables.min.js |only DT-0.11/DT/inst/htmlwidgets/lib/datatables-extensions/Select/js/select.dataTables.min.js |only DT-0.11/DT/inst/htmlwidgets/lib/datatables/css/dataTables.material.min.css |only DT-0.11/DT/inst/htmlwidgets/lib/datatables/css/dataTables.uikit.min.css |only DT-0.11/DT/inst/htmlwidgets/lib/datatables/js/dataTables.dataTables.min.js |only DT-0.11/DT/inst/htmlwidgets/lib/datatables/js/dataTables.material.min.js |only DT-0.11/DT/inst/htmlwidgets/lib/datatables/js/dataTables.uikit.min.js |only DT-0.12/DT/DESCRIPTION | 6 DT-0.12/DT/MD5 | 211 ++-- DT-0.12/DT/R/datatables.R | 13 DT-0.12/DT/R/package.R | 2 DT-0.12/DT/R/shiny.R | 24 DT-0.12/DT/inst/doc/DT.html | 432 +++++----- DT-0.12/DT/inst/htmlwidgets/datatables.js | 42 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/css/buttons.bootstrap.min.css | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/css/buttons.bootstrap4.min.css | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/css/buttons.dataTables.min.css | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/css/buttons.foundation.min.css | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/css/buttons.jqueryui.min.css | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/css/buttons.semanticui.min.css | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/js/buttons.bootstrap.min.js | 4 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/js/buttons.bootstrap4.min.js | 4 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/js/buttons.colVis.min.js | 14 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/js/buttons.flash.min.js | 61 - DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/js/buttons.foundation.min.js | 4 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/js/buttons.html5.min.js | 61 - DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/js/buttons.jqueryui.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/js/buttons.print.min.js | 14 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/js/buttons.semanticui.min.js | 4 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/js/dataTables.buttons.min.js | 78 - DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/js/pdfmake.min.js | 25 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Buttons/js/vfs_fonts.js | 7 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/ColReorder/js/colReorder.bootstrap.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/ColReorder/js/colReorder.bootstrap4.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/ColReorder/js/colReorder.foundation.min.js | 4 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/ColReorder/js/colReorder.jqueryui.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/ColReorder/js/colReorder.semanticui.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/ColReorder/js/dataTables.colReorder.min.js | 65 - DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/FixedColumns/css/fixedColumns.bootstrap.min.css | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/FixedColumns/css/fixedColumns.bootstrap4.min.css | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/FixedColumns/css/fixedColumns.foundation.min.css | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/FixedColumns/js/dataTables.fixedColumns.min.js | 77 + DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/FixedColumns/js/fixedColumns.bootstrap.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/FixedColumns/js/fixedColumns.bootstrap4.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/FixedColumns/js/fixedColumns.foundation.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/FixedColumns/js/fixedColumns.jqueryui.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/FixedColumns/js/fixedColumns.semanticui.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/FixedHeader/js/dataTables.fixedHeader.min.js | 45 - DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/FixedHeader/js/fixedHeader.bootstrap.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/FixedHeader/js/fixedHeader.bootstrap4.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/FixedHeader/js/fixedHeader.foundation.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/FixedHeader/js/fixedHeader.jqueryui.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/FixedHeader/js/fixedHeader.semanticui.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/KeyTable/js/dataTables.keyTable.min.js | 60 - DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/KeyTable/js/keyTable.foundation.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/RowGroup/css/rowGroup.bootstrap.min.css | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/RowGroup/css/rowGroup.bootstrap4.min.css | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/RowGroup/css/rowGroup.dataTables.min.css | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/RowGroup/css/rowGroup.foundation.min.css | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/RowGroup/css/rowGroup.jqueryui.min.css | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/RowGroup/css/rowGroup.semanticui.min.css | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/RowGroup/js/dataTables.rowGroup.min.js | 32 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/RowGroup/js/rowGroup.bootstrap.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/RowGroup/js/rowGroup.bootstrap4.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/RowGroup/js/rowGroup.foundation.min.js | 4 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/RowGroup/js/rowGroup.jqueryui.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/RowGroup/js/rowGroup.semanticui.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/RowReorder/js/dataTables.rowReorder.min.js | 45 - DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/RowReorder/js/rowReorder.bootstrap.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/RowReorder/js/rowReorder.bootstrap4.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/RowReorder/js/rowReorder.foundation.min.js | 4 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/RowReorder/js/rowReorder.jqueryui.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/RowReorder/js/rowReorder.semanticui.min.js | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Scroller/css/scroller.bootstrap.min.css | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Scroller/css/scroller.bootstrap4.min.css | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Scroller/css/scroller.dataTables.min.css | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Scroller/css/scroller.jqueryui.min.css | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Scroller/css/scroller.semanticui.min.css | 2 DT-0.12/DT/inst/htmlwidgets/lib/datatables-extensions/Scroller/js/dataTables.scroller.min.js | 62 - 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Title: Statistical Tolerance Intervals and Regions
Description: Statistical tolerance limits provide the limits between which we can expect to find a specified proportion of a sampled population with a given level of confidence. This package provides functions for estimating tolerance limits (intervals) for various univariate distributions (binomial, Cauchy, discrete Pareto, exponential, two-parameter exponential, extreme value, hypergeometric, Laplace, logistic, negative binomial, negative hypergeometric, normal, Pareto, Poisson-Lindley, Poisson, uniform, and Zipf-Mandelbrot), Bayesian normal tolerance limits, multivariate normal tolerance regions, nonparametric tolerance intervals, tolerance bands for regression settings (linear regression, nonlinear regression, nonparametric regression, and multivariate regression), and analysis of variance tolerance intervals. Visualizations are also available for most of these settings.
Author: Derek S. Young [aut, cre]
Maintainer: Derek S. Young <derek.young@uky.edu>
Diff between tolerance versions 1.3.0 dated 2017-02-04 and 2.0.0 dated 2020-02-05
DESCRIPTION | 12 MD5 | 52 +-- NAMESPACE | 3 NEWS | 28 + R/diffprop.R | 6 R/gammatolint.R | 97 +++--- R/interpextrap.R | 182 ++++++------ R/logistolint.R | 111 ++++--- R/mvregtolregion.R | 120 ++++---- R/neghyper.R | 29 -- R/nonlinregtolint.R | 4 R/normss.R | 2 R/npbetolint.R |only R/npmvtolregion.R |only R/plottol.R | 676 +++++++++++++++++++++++------------------------ R/regtolint.R | 110 +++---- man/bayesnormtolint.Rd | 2 man/dpareto.Rd | 2 man/dparetoll.Rd | 2 man/dparetotolint.Rd | 2 man/mvregtolregion.Rd | 142 ++++----- man/normOC.Rd | 2 man/normss.Rd | 2 man/npbetolint.Rd |only man/npmvtolregion.Rd |only man/plottol.Rd | 186 ++++++------ man/regtolint.Rd | 125 ++++---- man/tolerance.package.Rd | 6 man/zipfman.Rd | 110 +++---- 29 files changed, 1019 insertions(+), 994 deletions(-)
Title: Statistical Inference for Partially Observed Markov Processes
Description: Tools for data analysis with partially observed Markov process (POMP) models (also known as stochastic dynamical systems, hidden Markov models, and nonlinear, non-Gaussian, state-space models). The package provides facilities for implementing POMP models, simulating them, and fitting them to time series data by a variety of frequentist and Bayesian methods. It is also a versatile platform for implementation of inference methods for general POMP models.
Author: Aaron A. King [aut, cre],
Edward L. Ionides [aut],
Carles Breto [aut],
Stephen P. Ellner [ctb],
Matthew J. Ferrari [ctb],
Bruce E. Kendall [ctb],
Michael Lavine [ctb],
Dao Nguyen [ctb],
Daniel C. Reuman [ctb],
Helen Wearing [ctb],
Simon N. Wood [ctb],
Sebastian Funk [ctb],
Steven G. Johnson [ctb],
Eamon O'Dea [ctb]
Maintainer: Aaron A. King <kingaa@umich.edu>
Diff between pomp versions 2.5 dated 2020-01-28 and 2.6 dated 2020-02-05
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- R/objfun.R | 2 +- R/probe.R | 2 +- R/spect.R | 2 +- inst/NEWS | 4 ++++ inst/NEWS.Rd | 5 +++++ man/macros/citations.Rd | 6 +++--- man/parameter_trans.Rd | 2 +- man/summary.Rd | 6 +++--- 10 files changed, 32 insertions(+), 23 deletions(-)
Title: Dependencies for the 'jamovi' Framework
Description: A framework for creating rich interactive analyses for the jamovi
platform (see <https://www.jamovi.org> for more information).
Author: Jonathon Love
Maintainer: Jonathon Love <jon@thon.cc>
Diff between jmvcore versions 1.0.8 dated 2019-10-21 and 1.2.5 dated 2020-02-05
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/marshal.R | 1 - man/Analysis.Rd | 2 +- man/Options.Rd | 2 +- man/marshalFormula.Rd | 2 -- 6 files changed, 11 insertions(+), 14 deletions(-)
Title: A Lasso for Hierarchical Interactions
Description: Fits sparse interaction models for continuous and binary responses subject to the strong (or weak) hierarchy restriction that an interaction between two variables only be included if both (or at least one of) the variables is included as a main effect. For more details, see Bien, J., Taylor, J., Tibshirani, R., (2013) "A Lasso for Hierarchical Interactions." Annals of Statistics. 41(3). 1111-1141.
Author: Jacob Bien and Rob Tibshirani
Maintainer: Jacob Bien <jbien@usc.edu>
Diff between hierNet versions 1.8 dated 2019-12-08 and 1.9 dated 2020-02-05
DESCRIPTION | 6 +++--- MD5 | 4 ++-- man/hierNet.cv.Rd | 1 - 3 files changed, 5 insertions(+), 6 deletions(-)
Title: Ecological Metadata as Linked Data
Description: This is a utility for transforming Ecological Metadata Language
('EML') files into 'JSON-LD' and back into 'EML.' Doing so creates a
list-based representation of 'EML' in R, so that 'EML' data can easily
be manipulated using standard 'R' tools. This makes this package an
effective backend for other 'R'-based tools working with 'EML.' By
abstracting away the complexity of 'XML' Schema, developers can
build around native 'R' list objects and not have to worry about satisfying
many of the additional constraints of set by the schema (such as element
ordering, which is handled automatically). Additionally, the 'JSON-LD'
representation enables the use of developer-friendly 'JSON' parsing and
serialization that may facilitate the use of 'EML' in contexts outside of 'R,'
as well as the informatics-friendly serializations such as 'RDF' and
'SPARQL' queries.
Author: Carl Boettiger [aut, cre, cph]
(<https://orcid.org/0000-0002-1642-628X>),
Matthew B. Jones [aut, cph] (<https://orcid.org/0000-0003-0077-4738>),
Bryce Mecum [aut, cph] (<https://orcid.org/0000-0002-0381-3766>)
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between emld versions 0.3.0 dated 2019-10-11 and 0.4.0 dated 2020-02-05
DESCRIPTION | 28 +- MD5 | 47 ++-- NEWS.md | 34 +++ R/as_xml.R | 39 ++- R/eml_validate.R | 126 ++++++++---- R/eml_version.R | 33 +++ R/sysdata.rda |binary README.md | 6 build/vignette.rds |binary inst/WORDLIST | 13 - inst/doc/tutorial.R | 16 - inst/doc/tutorial.Rmd | 2 inst/doc/tutorial.html | 17 - inst/tests/eml-2.2.0/eml-data-paper.xml | 8 inst/tests/eml-2.2.0/eml-datasetNoSchemaLocation.xml |only inst/tests/eml-2.2.0/eml-datasetNoSchemaLocationInvalid.xml |only inst/tests/eml-2.2.0/eml-sample.xml | 48 ++++ inst/xsd/stmml |only man/as_xml.Rd | 16 + man/eml_validate.Rd | 2 man/emld-package.Rd | 9 man/find_real_root_name.Rd |only man/guess_root_schema.Rd |only man/guess_schema_location.Rd |only tests/testthat/test-as_emld.R | 34 +++ tests/testthat/test-validate.R | 114 +++++++++- vignettes/tutorial.Rmd | 2 27 files changed, 463 insertions(+), 131 deletions(-)
Title: Analysis of Basketball Data
Description: Collection of tools to work with basketball data. Functions available are related to friendly
web scraping and visualization. Data were obtained from <http://www.euroleague.net/>,
<http://www.eurocupbasketball.com/> and <http://www.acb.com>, following the instructions
of their respectives robots.txt files, when available. Tools for visualization include a population pyramid, 2D plots,
circular plots of players' percentiles, plots of players' monthly/yearly stats,
team heatmaps, team shooting plots, team four factors plots, cross-tables with the results of regular season games
and maps of nationalities. Please see Vinue (2020) <doi:10.1089/big.2018.0124>.
Author: Guillermo Vinue
Maintainer: Guillermo Vinue <Guillermo.Vinue@uv.es>
Diff between BAwiR versions 1.2 dated 2019-02-17 and 1.2.1 dated 2020-02-05
DESCRIPTION | 12 ++++---- MD5 | 26 +++++++++--------- NEWS | 3 ++ R/scraping_games_acb.R | 4 +- R/scraping_rosters_acb.R | 2 - R/scraping_rosters_euro.R | 11 +++++-- build/vignette.rds |binary inst/doc/BAwiR.Rmd | 2 - inst/doc/BAwiR.html | 61 +++++++++++++++++++++++++++++++------------ man/BAwiR-package.Rd | 6 ++-- man/scraping_games_acb.Rd | 2 - man/scraping_rosters_acb.Rd | 2 - man/scraping_rosters_euro.Rd | 2 - vignettes/BAwiR.Rmd | 2 - 14 files changed, 86 insertions(+), 49 deletions(-)
Title: Bayesian Modelling of Raman Spectroscopy
Description: Sequential Monte Carlo (SMC) algorithms for fitting a generalised additive
mixed model (GAMM) to surface-enhanced resonance Raman spectroscopy (SERRS),
using the method of Moores et al. (2016) <arXiv:1604.07299>. Multivariate
observations of SERRS are highly collinear and lend themselves to a reduced-rank
representation. The GAMM separates the SERRS signal into three components: a
sequence of Lorentzian, Gaussian, or pseudo-Voigt peaks; a smoothly-varying baseline;
and additive white noise. The parameters of each component of the model are estimated
iteratively using SMC. The posterior distributions of the parameters given the observed
spectra are represented as a population of weighted particles.
Author: Matt Moores [aut, cre] (<https://orcid.org/0000-0003-4531-3572>),
Jake Carson [aut] (<https://orcid.org/0000-0002-7896-0971>),
Benjamin Moskowitz [ctb],
Kirsten Gracie [dtc],
Karen Faulds [dtc] (<https://orcid.org/0000-0002-5567-7399>),
Mark Girolami [aut],
Engineering and Physical Sciences Research Council [fnd] (EPSRC
programme grant ref: EP/L014165/1),
University of Warwick [cph]
Maintainer: Matt Moores <mmoores@gmail.com>
Diff between serrsBayes versions 0.4-0 dated 2019-04-29 and 0.4-1 dated 2020-02-05
serrsBayes-0.4-0/serrsBayes/data/TAMRA.rda |only serrsBayes-0.4-0/serrsBayes/man/TAMRA.Rd |only serrsBayes-0.4-1/serrsBayes/DESCRIPTION | 14 serrsBayes-0.4-1/serrsBayes/MD5 | 40 serrsBayes-0.4-1/serrsBayes/NEWS.md | 83 - serrsBayes-0.4-1/serrsBayes/R/RcppExports.R | 666 ++++----- serrsBayes-0.4-1/serrsBayes/R/data.R | 9 serrsBayes-0.4-1/serrsBayes/R/fitVoigtIBIS.R |only serrsBayes-0.4-1/serrsBayes/R/fitVoigtPeaksSMC.R | 27 serrsBayes-0.4-1/serrsBayes/build/vignette.rds |binary serrsBayes-0.4-1/serrsBayes/data/lsTamra.rda |only serrsBayes-0.4-1/serrsBayes/inst/doc/Introduction.R | 239 +-- serrsBayes-0.4-1/serrsBayes/inst/doc/Introduction.Rmd | 17 serrsBayes-0.4-1/serrsBayes/inst/doc/Introduction.html | 1209 +++++++---------- serrsBayes-0.4-1/serrsBayes/inst/doc/Methanol.R | 206 +- serrsBayes-0.4-1/serrsBayes/inst/doc/Methanol.Rmd | 59 serrsBayes-0.4-1/serrsBayes/inst/doc/Methanol.html | 842 +++++------ serrsBayes-0.4-1/serrsBayes/man/fitVoigtIBIS.Rd |only serrsBayes-0.4-1/serrsBayes/man/lsTamra.Rd |only serrsBayes-0.4-1/serrsBayes/src/mixVoigt.cpp | 67 serrsBayes-0.4-1/serrsBayes/tests/testthat/testVoigt.R | 14 serrsBayes-0.4-1/serrsBayes/vignettes/Introduction.Rmd | 17 serrsBayes-0.4-1/serrsBayes/vignettes/Methanol.Rmd | 59 serrsBayes-0.4-1/serrsBayes/vignettes/refs.bib | 195 +- 24 files changed, 1927 insertions(+), 1836 deletions(-)
Title: Generate Fully-Sequential Space-Filling Designs Inside a Unit
Hypercube
Description: Provides three methods proposed by Shang and Apley (2019) <doi:10.1080/00224065.2019.1705207> to generate fully-sequential space-filling designs inside a unit hypercube. A 'fully-sequential space-filling design' means a sequence of nested designs (as the design size varies from one point up to some maximum number of points) with the design points added one at a time and such that the design at each size has good space-filling properties. Two methods target the minimum pairwise distance criterion and generate maximin designs, among which one method is more efficient when design size is large. One method targets the maximum hole size criterion and uses a heuristic to generate what is closer to a minimax design.
Author: Boyang Shang and Daniel W. Apley
Maintainer: Boyang Shang <boyangshang2015@u.northwestern.edu>
Diff between FSSF versions 0.1.0 dated 2020-01-31 and 0.1.1 dated 2020-02-05
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- src/kd_split.cpp | 6 +++--- 3 files changed, 9 insertions(+), 9 deletions(-)
Title: Generalized Dissimilarity Modeling
Description: A toolkit with functions to fit, plot, summarize, and apply Generalized Dissimilarity Models.
Author: Matthew C. Fitzpatrick, Karel Mokany, Glenn Manion, Matthew Lisk, Simon Ferrier, Diego Nieto-Lugilde
Maintainer: Matthew C. Fitzpatrick <mfitzpatrick@umces.edu>
Diff between gdm versions 1.3.11 dated 2018-06-05 and 1.4 dated 2020-02-05
DESCRIPTION | 14 MD5 | 12 NAMESPACE | 1 R/GDM_Table_Funcs.R | 4412 ++++++++++++++++++++++++++-------------------------- build/vignette.rds |binary src/Gdmlib.cpp | 72 src/NNLS_Double.cpp | 162 - 7 files changed, 2351 insertions(+), 2322 deletions(-)
Title: Manipulate Dates, DateTimes and Times
Description: Manipulates date (Date), datetime (POSIXct) and time (hms) vectors.
Date/times are considered discrete and are floored whenever encountered.
Times are wrapped and time zones are maintained unless explicitly altered
by the user.
Author: Joe Thorley [aut, cre] (<https://orcid.org/0000-0002-7683-4592>)
Maintainer: Joe Thorley <joe@poissonconsulting.ca>
Diff between dttr2 versions 0.0.1 dated 2019-06-28 and 0.0.2 dated 2020-02-05
DESCRIPTION | 8 ++++---- MD5 | 26 +++++++++++++------------- NEWS.md | 6 +++++- R/deprecated.R | 1 - R/subtract.R | 1 - README.md | 4 ++-- man/dtt_complete.Rd | 33 +++++++++++++++++++++++++++------ man/dtt_completed.Rd | 9 +++------ man/dtt_date_time.Rd | 6 ++---- man/dtt_daytt.Rd | 2 -- man/dtt_season.Rd | 3 +-- man/dtt_seq.Rd | 16 ++++++++++------ man/dtt_subtract_units.Rd | 2 -- man/dttr2-package.Rd | 4 ++-- 14 files changed, 69 insertions(+), 52 deletions(-)
Title: Tensor Regression with Envelope Structure and Three Generic
Envelope Estimation Approaches
Description: Provides three estimators for tensor response regression (TRR) and tensor predictor regression (TPR) models with tensor envelope structure. The three types of estimation approaches are generic and can be applied to any envelope estimation problems. The full Grassmannian (FG) optimization is often associated with likelihood-based estimation but requires heavy computation and good initialization; the one-directional optimization approaches (1D and ECD algorithms) are faster, stable and does not require carefully chosen initial values; the SIMPLS-type is motivated by the partial least squares regression and is computationally the least expensive. For details of TRR, see Li L, Zhang X (2017) <doi:10.1080/01621459.2016.1193022>. For details of TPR, see Zhang X, Li L (2017) <doi:10.1080/00401706.2016.1272495>. For details of 1D algorithm, see Cook RD, Zhang X (2016) <doi:10.1080/10618600.2015.1029577>. For details of ECD algorithm, see Cook RD, Zhang X (2018) <doi:10.5705/ss.202016.0037>.
Author: Wenjing Wang [aut],
Jing Zeng [aut, cre],
Xin Zhang [aut]
Maintainer: Jing Zeng <jing.zeng@stat.fsu.edu>
Diff between TRES versions 1.1.0 dated 2019-11-17 and 1.1.1 dated 2020-02-05
TRES-1.1.0/TRES/man/vcov.Tenv.Rd |only TRES-1.1.1/TRES/DESCRIPTION | 13 - TRES-1.1.1/TRES/MD5 | 133 ++++++----- TRES-1.1.1/TRES/NAMESPACE | 4 TRES-1.1.1/TRES/NEWS.md | 17 + TRES-1.1.1/TRES/R/ECD.R | 8 TRES-1.1.1/TRES/R/EEG.R |only TRES-1.1.1/TRES/R/EnvMU.R | 46 ++-- TRES-1.1.1/TRES/R/FG_TRR.R | 10 TRES-1.1.1/TRES/R/FGfun.R | 18 - TRES-1.1.1/TRES/R/MenvU_sim.R | 86 +++---- TRES-1.1.1/TRES/R/OptStiefelGBB.R | 10 TRES-1.1.1/TRES/R/OptimballGBB1D.R | 2 TRES-1.1.1/TRES/R/PMSE.R | 34 +-- TRES-1.1.1/TRES/R/TPR.fit.R | 289 ++++++++++++++++++-------- TRES-1.1.1/TRES/R/TPR_sim.R | 27 +- TRES-1.1.1/TRES/R/TRES-package.R | 11 TRES-1.1.1/TRES/R/TRR.fit.R | 183 +++++++++++++--- TRES-1.1.1/TRES/R/TRR_sim.R | 24 +- TRES-1.1.1/TRES/R/TensEnv_dim.R | 33 +- TRES-1.1.1/TRES/R/TensPLS_cv2d3d.R | 30 +- TRES-1.1.1/TRES/R/TensPLS_fit.R | 30 +- TRES-1.1.1/TRES/R/Tenv.R | 8 TRES-1.1.1/TRES/R/Tenv_Pval.R | 26 +- TRES-1.1.1/TRES/R/ballGBB1D_bic.R | 2 TRES-1.1.1/TRES/R/bat.R | 8 TRES-1.1.1/TRES/R/fun1D.R | 24 +- TRES-1.1.1/TRES/R/kroncov.R | 37 ++- TRES-1.1.1/TRES/R/manifold1D.R | 6 TRES-1.1.1/TRES/R/manifoldFG.R | 7 TRES-1.1.1/TRES/R/plot.Tenv.R | 56 +++-- TRES-1.1.1/TRES/R/predict.Tenv.R | 16 - TRES-1.1.1/TRES/R/square.R | 8 TRES-1.1.1/TRES/R/std_err.R |only TRES-1.1.1/TRES/R/subspace.R | 33 +- TRES-1.1.1/TRES/R/summary.Tenv.R | 61 +++-- TRES-1.1.1/TRES/R/ttt.R | 2 TRES-1.1.1/TRES/R/vcov.Tenv.R | 24 -- TRES-1.1.1/TRES/README.md | 8 TRES-1.1.1/TRES/data/EEG.rda |only TRES-1.1.1/TRES/data/bat.rda |binary TRES-1.1.1/TRES/data/datalist |only TRES-1.1.1/TRES/data/square.rda |binary TRES-1.1.1/TRES/man/EEG.Rd |only TRES-1.1.1/TRES/man/FG_TRR-deprecated.Rd | 10 TRES-1.1.1/TRES/man/OptStiefelGBB.Rd | 28 +- TRES-1.1.1/TRES/man/PMSE.Rd | 16 - TRES-1.1.1/TRES/man/TPR.fit.Rd | 124 ++++++----- TRES-1.1.1/TRES/man/TPR_sim.Rd | 13 - TRES-1.1.1/TRES/man/TRES-deprecated.Rd | 2 TRES-1.1.1/TRES/man/TRES-package.Rd | 11 TRES-1.1.1/TRES/man/TRR.fit.Rd | 133 +++++++---- TRES-1.1.1/TRES/man/TRR_sim.Rd | 14 - TRES-1.1.1/TRES/man/TensEnv_dim.Rd | 37 +-- TRES-1.1.1/TRES/man/TensPLS_cv2d3d.Rd | 22 - TRES-1.1.1/TRES/man/TensPLS_fit-deprecated.Rd | 10 TRES-1.1.1/TRES/man/Tenv-deprecated.Rd | 6 TRES-1.1.1/TRES/man/Tenv_Pval.Rd | 14 - TRES-1.1.1/TRES/man/ballGBB1D_bic.Rd | 6 TRES-1.1.1/TRES/man/bat.Rd | 8 TRES-1.1.1/TRES/man/kroncov.Rd | 22 - TRES-1.1.1/TRES/man/manifold1D.Rd | 4 TRES-1.1.1/TRES/man/manifoldFG.Rd | 5 TRES-1.1.1/TRES/man/plot.Tenv.Rd | 43 ++- TRES-1.1.1/TRES/man/predict.Tenv.Rd | 13 - TRES-1.1.1/TRES/man/square.Rd | 8 TRES-1.1.1/TRES/man/std_err.Rd |only TRES-1.1.1/TRES/man/subspace.Rd | 43 +-- TRES-1.1.1/TRES/man/summary.Tenv.Rd | 36 ++- TRES-1.1.1/TRES/tests |only 70 files changed, 1199 insertions(+), 763 deletions(-)
Title: Statistical Framework to Define Subgroups in Complex Datasets
Description: High-dimensional datasets that do not exhibit a clear intrinsic clustered structure pose a challenge to conventional clustering algorithms. For this reason, we developed an unsupervised framework that helps scientists to better subgroup their datasets based on visual cues, please see Gao S, Mutter S, Casey A, Makinen V-P (2019) Numero: a statistical framework to define multivariable subgroups in complex population-based datasets, Int J Epidemiology, 48:369-37, <doi:10.1093/ije/dyy113>. The framework includes the necessary functions to construct a self-organizing map of the data, to evaluate the statistical significance of the observed data patterns, and to visualize the results.
Author: Song Gao [aut],
Stefan Mutter [aut],
Aaron E. Casey [aut],
Ville-Petteri Makinen [aut, cre]
Maintainer: Ville-Petteri Makinen <vpmakine@gmail.com>
Diff between Numero versions 1.4.0 dated 2019-12-14 and 1.4.1 dated 2020-02-05
Numero-1.4.0/Numero/inst/extcode/a_globals.js |only Numero-1.4.0/Numero/inst/extcode/createhoverdistrict.js |only Numero-1.4.0/Numero/inst/extcode/createsymbol.js |only Numero-1.4.0/Numero/inst/extcode/downloadregions.js |only Numero-1.4.0/Numero/inst/extcode/getdistrictdata.js |only Numero-1.4.0/Numero/inst/extcode/initmenu.js |only Numero-1.4.0/Numero/inst/extcode/initpage.js |only Numero-1.4.0/Numero/inst/extcode/initregions.js |only Numero-1.4.0/Numero/inst/extcode/locatesubplot.js |only Numero-1.4.0/Numero/inst/extcode/pointerdowndistrict.js |only Numero-1.4.0/Numero/inst/extcode/pointerdownsymbol.js |only Numero-1.4.0/Numero/inst/extcode/pointeroverdistrict.js |only Numero-1.4.0/Numero/inst/extcode/pointeroversymbol.js |only Numero-1.4.0/Numero/inst/extcode/refreshmenu.js |only Numero-1.4.0/Numero/inst/extcode/removehovers.js |only Numero-1.4.0/Numero/inst/extcode/updatehighlights.js |only Numero-1.4.0/Numero/src/abacus.matrix.kruskal.cpp |only Numero-1.4.1/Numero/DESCRIPTION | 8 Numero-1.4.1/Numero/MD5 | 104 ++-- Numero-1.4.1/Numero/NAMESPACE | 1 Numero-1.4.1/Numero/R/nroAggregate.R | 11 Numero-1.4.1/Numero/R/nroColorize.R | 1 Numero-1.4.1/Numero/R/nroDestratify.R | 3 Numero-1.4.1/Numero/R/nroImpute.R | 25 - Numero-1.4.1/Numero/R/nroKmeans.R | 22 - Numero-1.4.1/Numero/R/nroKohonen.R | 4 Numero-1.4.1/Numero/R/nroLabel.R | 3 Numero-1.4.1/Numero/R/nroMatch.R | 7 Numero-1.4.1/Numero/R/nroPair.R | 25 - Numero-1.4.1/Numero/R/nroPermute.R | 37 - Numero-1.4.1/Numero/R/nroPlot.save.R | 7 Numero-1.4.1/Numero/R/nroRcppMatrix.R | 12 Numero-1.4.1/Numero/R/nroRcppVector.R |only Numero-1.4.1/Numero/R/nroStatistic.R | 2 Numero-1.4.1/Numero/R/nroTrain.R | 20 Numero-1.4.1/Numero/R/numero.clean.R | 4 Numero-1.4.1/Numero/R/numero.create.R | 9 Numero-1.4.1/Numero/inst/doc/intro.R | 6 Numero-1.4.1/Numero/inst/doc/intro.html | 345 ++++++---------- Numero-1.4.1/Numero/inst/doc/intro.rmd | 6 Numero-1.4.1/Numero/inst/extcode/circus.js |only Numero-1.4.1/Numero/inst/extcode/examples.R |only Numero-1.4.1/Numero/man/nroPair.Rd | 11 Numero-1.4.1/Numero/man/nroRcppMatrix.Rd | 2 Numero-1.4.1/Numero/man/nroRcppVector.Rd |only Numero-1.4.1/Numero/src/abacus.empirical.cpp | 1 Numero-1.4.1/Numero/src/abacus.h | 4 Numero-1.4.1/Numero/src/abacus.matrix.cpp | 9 Numero-1.4.1/Numero/src/abacus.matrix.trunk.cpp |only Numero-1.4.1/Numero/src/abacus.minimizer.cpp | 9 Numero-1.4.1/Numero/src/abacus.normal.cpp | 1 Numero-1.4.1/Numero/src/abacus.version.cpp | 2 Numero-1.4.1/Numero/src/koho.engine.cpp | 9 Numero-1.4.1/Numero/src/koho.model.cpp | 5 Numero-1.4.1/Numero/src/koho.version.cpp | 2 Numero-1.4.1/Numero/src/medusa.file.cpp | 4 Numero-1.4.1/Numero/src/medusa.table.cpp | 1 Numero-1.4.1/Numero/src/medusa.version.cpp | 2 Numero-1.4.1/Numero/src/punos.topology.cpp | 9 Numero-1.4.1/Numero/src/punos.version.cpp | 2 Numero-1.4.1/Numero/src/scriptum.artist.cpp | 9 Numero-1.4.1/Numero/src/scriptum.frame.cpp | 9 Numero-1.4.1/Numero/src/scriptum.version.cpp | 2 Numero-1.4.1/Numero/vignettes/intro.rmd | 6 64 files changed, 354 insertions(+), 407 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-07-02 0.4.3