Title: Linking R with the Open-Source 'SAGA-GIS' Software
Description: Provides an R scripting interface to the open-source 'SAGA-GIS'
(System for Automated Geoscientific Analyses Geographical Information
System) software. 'Rsagacmd' dynamically generates R functions for every
'SAGA-GIS' geoprocessing tool based on the user's currently installed
'SAGA-GIS' version. These functions are contained within an S3 object
and are accessed as a named list of libraries and tools. This structure
facilitates an easier scripting experience by organizing the large number
of 'SAGA-GIS' geoprocessing tools (>700) by their respective library.
Interactive scripting can fully take advantage of code autocompletion tools
(e.g. in 'Rstudio'), allowing for each tools syntax to be quickly
recognized. Furthermore, the most common types of spatial data (via the
'terra', 'sp', and 'sf' packages) along with non-spatial data are
automatically passed from R to the 'SAGA-GIS' command line tool for
geoprocessing operations, and the results are loaded as the appropriate R
object. Outp [...truncated...]
Author: Steven Pawley [aut, cre]
Maintainer: Steven Pawley <dr.stevenpawley@gmail.com>
Diff between Rsagacmd versions 0.2.0 dated 2022-04-04 and 0.4.0 dated 2023-05-25
Rsagacmd-0.2.0/Rsagacmd/man/figures |only Rsagacmd-0.4.0/Rsagacmd/DESCRIPTION | 25 Rsagacmd-0.4.0/Rsagacmd/MD5 | 86 Rsagacmd-0.4.0/Rsagacmd/NAMESPACE | 4 Rsagacmd-0.4.0/Rsagacmd/NEWS.md | 164 - Rsagacmd-0.4.0/Rsagacmd/R/Rsagacmd.R | 205 - Rsagacmd-0.4.0/Rsagacmd/R/data-formats.R | 88 Rsagacmd-0.4.0/Rsagacmd/R/file-extensions.R | 202 - Rsagacmd-0.4.0/Rsagacmd/R/io-read.R | 312 +- Rsagacmd-0.4.0/Rsagacmd/R/io-save.R | 480 +--- Rsagacmd-0.4.0/Rsagacmd/R/man.R | 76 Rsagacmd-0.4.0/Rsagacmd/R/parameters.R | 794 +++--- Rsagacmd-0.4.0/Rsagacmd/R/read-srtm.R | 44 Rsagacmd-0.4.0/Rsagacmd/R/run-cmd.R | 119 - Rsagacmd-0.4.0/Rsagacmd/R/saga-gis.R | 1182 ++++------ Rsagacmd-0.4.0/Rsagacmd/R/saga-version.R | 40 Rsagacmd-0.4.0/Rsagacmd/R/search-saga.R | 183 - Rsagacmd-0.4.0/Rsagacmd/R/search-tools.R | 108 Rsagacmd-0.4.0/Rsagacmd/R/tempfiles.R | 156 - Rsagacmd-0.4.0/Rsagacmd/R/tidy.R | 410 +-- Rsagacmd-0.4.0/Rsagacmd/R/tool-execute.R | 300 +- Rsagacmd-0.4.0/Rsagacmd/R/tool-function.R | 68 Rsagacmd-0.4.0/Rsagacmd/R/tool-object.R | 148 - Rsagacmd-0.4.0/Rsagacmd/R/tool-overrides.R | 132 - Rsagacmd-0.4.0/Rsagacmd/R/utils.R | 194 - Rsagacmd-0.4.0/Rsagacmd/README.md | 573 ++-- Rsagacmd-0.4.0/Rsagacmd/man/Rsagacmd.Rd | 225 - Rsagacmd-0.4.0/Rsagacmd/man/saga_env.Rd | 6 Rsagacmd-0.4.0/Rsagacmd/man/saga_gis.Rd | 16 Rsagacmd-0.4.0/Rsagacmd/man/search_saga.Rd | 25 Rsagacmd-0.4.0/Rsagacmd/man/tile_geoprocessor.Rd | 4 Rsagacmd-0.4.0/Rsagacmd/tests/testthat.R | 8 Rsagacmd-0.4.0/Rsagacmd/tests/testthat/test-backends-raster.R | 300 -- Rsagacmd-0.4.0/Rsagacmd/tests/testthat/test-backends-vector.R | 58 Rsagacmd-0.4.0/Rsagacmd/tests/testthat/test-data-formats.R | 160 - Rsagacmd-0.4.0/Rsagacmd/tests/testthat/test-outputs-grid-lists.R | 83 Rsagacmd-0.4.0/Rsagacmd/tests/testthat/test-saga-environment.R | 204 - Rsagacmd-0.4.0/Rsagacmd/tests/testthat/test-search-tools.R | 18 Rsagacmd-0.4.0/Rsagacmd/tests/testthat/test-tempfiles.R | 80 Rsagacmd-0.4.0/Rsagacmd/tests/testthat/test-tidy.R | 64 Rsagacmd-0.4.0/Rsagacmd/tests/testthat/test-tool-overrides.R | 142 - Rsagacmd-0.4.0/Rsagacmd/tests/testthat/test-tools.R | 124 - Rsagacmd-0.4.0/Rsagacmd/tests/testthat/test-utils.R | 40 Rsagacmd-0.4.0/Rsagacmd/tests/testthat/test-versions.R | 331 +- 44 files changed, 3885 insertions(+), 4096 deletions(-)
Title: Extension for 'DALEX' Package
Description: Provides wrapper of various machine learning models.
In applied machine learning, there
is a strong belief that we need to strike a balance
between interpretability and accuracy.
However, in field of the interpretable machine learning,
there are more and more new ideas for explaining black-box models,
that are implemented in 'R'.
'DALEXtra' creates 'DALEX' Biecek (2018) <arXiv:1806.08915> explainer for many type of models
including those created using 'python' 'scikit-learn' and 'keras' libraries, and 'java' 'h2o' library.
Important part of the package is Champion-Challenger analysis and innovative approach
to model performance across subsets of test data presented in Funnel Plot.
Author: Szymon Maksymiuk [aut, cre] ,
Przemyslaw Biecek [aut] ,
Hubert Baniecki [aut],
Anna Kozak [ctb]
Maintainer: Szymon Maksymiuk <sz.maksymiuk@gmail.com>
Diff between DALEXtra versions 2.2.1 dated 2022-06-14 and 2.3.0 dated 2023-05-25
DALEXtra-2.2.1/DALEXtra/R/on_attach.R |only DALEXtra-2.3.0/DALEXtra/DESCRIPTION | 14 ++--- DALEXtra-2.3.0/DALEXtra/MD5 | 25 +++++----- DALEXtra-2.3.0/DALEXtra/NAMESPACE | 1 DALEXtra-2.3.0/DALEXtra/NEWS.md | 5 ++ DALEXtra-2.3.0/DALEXtra/R/create_env.R | 52 +++++----------------- DALEXtra-2.3.0/DALEXtra/R/explain_keras.R | 1 DALEXtra-2.3.0/DALEXtra/R/explain_mlr.R | 2 DALEXtra-2.3.0/DALEXtra/R/explain_mlr3.R | 4 + DALEXtra-2.3.0/DALEXtra/R/explain_scikitlearn.R | 1 DALEXtra-2.3.0/DALEXtra/R/explain_tidymodels.R | 3 - DALEXtra-2.3.0/DALEXtra/man/explain_mlr.Rd | 2 DALEXtra-2.3.0/DALEXtra/man/explain_mlr3.Rd | 2 DALEXtra-2.3.0/DALEXtra/man/explain_tidymodels.Rd | 3 - 14 files changed, 50 insertions(+), 65 deletions(-)
Title: Nonlinear Mixed Effects Models in Population PK/PD, Estimation
Routines
Description: Fit and compare nonlinear mixed-effects models in
differential equations with flexible dosing information commonly seen
in pharmacokinetics and pharmacodynamics (Almquist, Leander, and
Jirstrand 2015 <doi:10.1007/s10928-015-9409-1>). Differential equation
solving is by compiled C code provided in the 'rxode2' package (Wang,
Hallow, and James 2015 <doi:10.1002/psp4.12052>).
Author: Matthew Fidler [aut, cre] ,
Yuan Xiong [aut],
Rik Schoemaker [aut] ,
Justin Wilkins [aut] ,
Wenping Wang [aut],
Robert Leary [ctb],
Mason McComb [ctb] ,
Vipul Mann [aut],
Mirjam Trame [ctb],
Mahmoud Abdelwahab [ctb],
Teun Post [ctb],
Richard Hooijmai [...truncated...]
Maintainer: Matthew Fidler <matt.fidler@novartis.com>
Diff between nlmixr2est versions 2.1.5 dated 2023-04-22 and 2.1.6 dated 2023-05-25
DESCRIPTION | 20 ++++++------ MD5 | 52 ++++++++++++++++++--------------- NEWS.md | 28 +++++++++++++++--- R/addCwres.R | 6 ++- R/augPred.R | 19 +++++++++++- R/cov.R | 20 +++++------- R/focei.R | 12 ------- R/foceiControl.R | 8 ++--- R/nlme.R | 5 +-- R/nlmixr2.R | 3 + R/nlmixr2Est.R | 3 + R/nlmixr2Keywords.R |only R/nlmixr2_md5.R | 2 - R/nlmixr2output.R | 4 ++ R/nmObjGet.R | 6 +++ R/saem.R | 20 ++++++++++++ R/saemControl.R | 57 ++++++++++++++++++------------------- data |only man/foceiControl.Rd | 5 +++ man/nlmixr2.Rd | 45 +++++++++++++++++++++++++++++ man/nlmixr2Keywords.Rd |only man/nlmixr2NlmeControl.Rd | 8 ++++- man/rmdhunks |only man/saemControl.Rd | 6 +++ man/setCov.Rd | 6 +++ tests/testthat/test-addCwres.R |only tests/testthat/test-augpred.R | 50 +++++++++++++++++++++++++++++++- tests/testthat/test-saem-theo_sd.R | 1 tests/testthat/test-vpcSim.R | 25 ++++++++++++++++ 29 files changed, 307 insertions(+), 104 deletions(-)
Title: R Interface for the 'H2O' Scalable Machine Learning Platform
Description: R interface for 'H2O', the scalable open source machine learning
platform that offers parallelized implementations of many supervised and
unsupervised machine learning algorithms such as Generalized Linear
Models (GLM), Gradient Boosting Machines (including XGBoost), Random Forests,
Deep Neural Networks (Deep Learning), Stacked Ensembles, Naive Bayes,
Generalized Additive Models (GAM), ANOVA GLM, Cox Proportional Hazards, K-Means, PCA, ModelSelection,
Word2Vec, as well as a fully automatic machine learning algorithm (H2O AutoML).
Author: Tomas Fryda [aut, cre],
Erin LeDell [aut],
Navdeep Gill [aut],
Spencer Aiello [aut],
Anqi Fu [aut],
Arno Candel [aut],
Cliff Click [aut],
Tom Kraljevic [aut],
Tomas Nykodym [aut],
Patrick Aboyoun [aut],
Michal Kurka [aut],
Michal Malohlava [aut],
Seb [...truncated...]
Maintainer: Tomas Fryda <tomas.fryda@h2o.ai>
Diff between h2o versions 3.40.0.1 dated 2023-02-24 and 3.40.0.4 dated 2023-05-25
h2o-3.40.0.1/h2o/inst/java |only h2o-3.40.0.4/h2o/DESCRIPTION | 28 ++++++------ h2o-3.40.0.4/h2o/MD5 | 22 +++++---- h2o-3.40.0.4/h2o/NAMESPACE | 5 ++ h2o-3.40.0.4/h2o/R/explain.R | 12 +++-- h2o-3.40.0.4/h2o/R/gam.R | 41 ++++++++++++++++++ h2o-3.40.0.4/h2o/R/models.R | 35 ++++++++------- h2o-3.40.0.4/h2o/R/modelselection.R | 16 +++++-- h2o-3.40.0.4/h2o/inst/buildnum.txt | 2 h2o-3.40.0.4/h2o/man/h2o-package.Rd | 6 +- h2o-3.40.0.4/h2o/man/h2o.gam.Rd | 4 + h2o-3.40.0.4/h2o/man/h2o.get_gam_knot_column_names.Rd |only h2o-3.40.0.4/h2o/man/h2o.get_knot_locations.Rd |only h2o-3.40.0.4/h2o/man/h2o.modelSelection.Rd | 10 +++- 14 files changed, 129 insertions(+), 52 deletions(-)
Title: Coroutines: Generators / Yield, Async / Await, and Streams
Description: Write sequential-looking code that pauses and resumes.
gen() creates a generator, an iterator that returns a
value and pauses each time it reaches a yield() call.
async() creates a promise, which runs until it reaches
a call to await(), then resumes when information is available.
These work similarly to generator and async constructs
from 'Python' or 'JavaScript'. Objects produced are
compatible with the 'iterators' and 'promises' packages.
Version 0.3 supports on.exit, single-step debugging,
stream() for making asynchronous iterators, and
delimited goto() in switch() calls.
Author: Peter Meilstrup [aut, cre]
Maintainer: Peter Meilstrup <peter.meilstrup@gmail.com>
Diff between async versions 0.3.1 dated 2023-03-22 and 0.3.2 dated 2023-05-25
async-0.3.1/async/R/iteror.R |only async-0.3.1/async/man/ilimit.Rd |only async-0.3.1/async/man/iseq.Rd |only async-0.3.1/async/man/iteror.Rd |only async-0.3.2/async/DESCRIPTION | 23 async-0.3.2/async/MD5 | 126 - async-0.3.2/async/NAMESPACE | 19 async-0.3.2/async/NEWS.md | 6 async-0.3.2/async/R/all_names.R | 49 async-0.3.2/async/R/async-package.R | 11 async-0.3.2/async/R/async.R | 18 async-0.3.2/async/R/channel.R | 213 +- async-0.3.2/async/R/collect.R | 38 async-0.3.2/async/R/coroutine.R | 19 async-0.3.2/async/R/cps.R | 12 async-0.3.2/async/R/gen.R | 38 async-0.3.2/async/R/inline.R |only async-0.3.2/async/R/pump.R | 26 async-0.3.2/async/R/run.R | 2 async-0.3.2/async/R/signals.R | 1 async-0.3.2/async/R/stream.R | 46 async-0.3.2/async/R/syntax.R | 5 async-0.3.2/async/R/util.R | 80 - async-0.3.2/async/R/walk.R | 10 async-0.3.2/async/README.md | 28 async-0.3.2/async/build/vignette.rds |binary async-0.3.2/async/inst/doc/README.R | 4 async-0.3.2/async/inst/doc/README.Rmd | 19 async-0.3.2/async/inst/doc/README.html | 19 async-0.3.2/async/inst/doc/clapping.R | 9 async-0.3.2/async/inst/doc/clapping.Rmd | 24 async-0.3.2/async/inst/doc/clapping.html | 37 async-0.3.2/async/inst/doc/language.R | 16 async-0.3.2/async/inst/doc/language.Rmd | 33 async-0.3.2/async/inst/doc/language.html | 28 async-0.3.2/async/inst/doc/spider.R |only async-0.3.2/async/inst/doc/spider.Rmd |only async-0.3.2/async/inst/doc/spider.html |only async-0.3.2/async/man/channel.Rd | 69 async-0.3.2/async/man/collect.Rd | 33 async-0.3.2/async/man/combine.Rd | 2 async-0.3.2/async/man/gen.Rd | 2 async-0.3.2/async/man/nextThen.Rd | 4 async-0.3.2/async/man/reexports.Rd |only async-0.3.2/async/man/run.Rd | 2 async-0.3.2/async/tests/testthat/test-01-syntax.R | 17 async-0.3.2/async/tests/testthat/test-02-cps.R | 4 async-0.3.2/async/tests/testthat/test-03-gen.R | 34 async-0.3.2/async/tests/testthat/test-04-async.R | 2 async-0.3.2/async/tests/testthat/test-0405-channel.R |only async-0.3.2/async/tests/testthat/test-041-stream.R | 227 -- async-0.3.2/async/tests/testthat/test-042-stream-sendNow.R | 227 -- async-0.3.2/async/tests/testthat/test-044-gc.R |only async-0.3.2/async/tests/testthat/test-07-graph.R | 9 async-0.3.2/async/tests/testthat/test-08-trans.R | 13 async-0.3.2/async/tests/testthat/test-085-debugging.R | 12 async-0.3.2/async/tests/testthat/test-09-munge.R | 2 async-0.3.2/async/tests/testthat/test-10-level-1.R | 4 async-0.3.2/async/tests/testthat/test-11-gen-level-1.R | 34 async-0.3.2/async/tests/testthat/test-11-inlining.R |only async-0.3.2/async/tests/testthat/test-12-async-level-1.R | 2 async-0.3.2/async/tests/testthat/test-121-stream-level-1.R | 227 -- async-0.3.2/async/tests/testthat/test-124-gc-level-1.R |only async-0.3.2/async/tests/testthat/test-145-debugging-level-1.R | 12 async-0.3.2/async/tests/testthat/test-15-graph-level-1.R | 9 async-0.3.2/async/vignettes/README.Rmd | 19 async-0.3.2/async/vignettes/clapping.Rmd | 24 async-0.3.2/async/vignettes/file_dataset.svg | 788 +++++----- async-0.3.2/async/vignettes/language.Rmd | 33 async-0.3.2/async/vignettes/spider.Rmd |only async-0.3.2/async/vignettes/spidered.rds |only async-0.3.2/async/vignettes/spidered_async.rds |only 72 files changed, 1346 insertions(+), 1424 deletions(-)
Title: Matching on Generalized Propensity Scores with Continuous
Exposures
Description: Provides a framework for estimating causal effects of a continuous
exposure using observational data, and implementing matching and weighting
on the generalized propensity score.
Wu, X., Mealli, F., Kioumourtzoglou, M.A., Dominici, F. and Braun, D., 2022.
Matching on generalized propensity scores with continuous exposures. Journal
of the American Statistical Association, pp.1-29.
Author: Naeem Khoshnevis [aut, cre] ,
Xiao Wu [aut] ,
Danielle Braun [aut]
Maintainer: Naeem Khoshnevis <nkhoshnevis@g.harvard.edu>
Diff between CausalGPS versions 0.3.1 dated 2023-05-16 and 0.4.0 dated 2023-05-25
CausalGPS-0.3.1/CausalGPS/R/causalgps_smooth.R |only CausalGPS-0.3.1/CausalGPS/R/estimate_hat_vals.R |only CausalGPS-0.3.1/CausalGPS/R/matching_l1.R |only CausalGPS-0.3.1/CausalGPS/man/matching_l1.Rd |only CausalGPS-0.3.1/CausalGPS/tests/testthat/test-matching_l1.R |only CausalGPS-0.4.0/CausalGPS/DESCRIPTION | 8 CausalGPS-0.4.0/CausalGPS/MD5 | 171 +-- CausalGPS-0.4.0/CausalGPS/NEWS.md | 30 CausalGPS-0.4.0/CausalGPS/R/RcppExports.R | 4 CausalGPS-0.4.0/CausalGPS/R/absolute_corr_fun.R | 8 CausalGPS-0.4.0/CausalGPS/R/absolute_weighted_corr_fun.R | 20 CausalGPS-0.4.0/CausalGPS/R/check_arguments.R | 38 CausalGPS-0.4.0/CausalGPS/R/check_covar_balance.R | 32 CausalGPS-0.4.0/CausalGPS/R/check_kolmogorov_smirnov.R | 12 CausalGPS-0.4.0/CausalGPS/R/compile_pseudo_pop.R | 38 CausalGPS-0.4.0/CausalGPS/R/compute_risk.R | 17 CausalGPS-0.4.0/CausalGPS/R/create_matching.R | 58 - CausalGPS-0.4.0/CausalGPS/R/create_weighting.R | 9 CausalGPS-0.4.0/CausalGPS/R/estimate_gps.R | 116 +- CausalGPS-0.4.0/CausalGPS/R/estimate_npmetric_erf.R | 53 - CausalGPS-0.4.0/CausalGPS/R/estimate_pmetric_erf.R | 66 - CausalGPS-0.4.0/CausalGPS/R/estimate_semipmetric_erf.R | 53 - CausalGPS-0.4.0/CausalGPS/R/generate_pseudo_pop.R | 237 +++- CausalGPS-0.4.0/CausalGPS/R/generate_synthetic_data.R | 153 ++- CausalGPS-0.4.0/CausalGPS/R/matching_fn.R |only CausalGPS-0.4.0/CausalGPS/R/smooth_erf.R | 183 +++ CausalGPS-0.4.0/CausalGPS/R/trim_gps.R |only CausalGPS-0.4.0/CausalGPS/README.md | 69 + CausalGPS-0.4.0/CausalGPS/inst/doc/CausalGPS.Rmd | 43 CausalGPS-0.4.0/CausalGPS/inst/doc/CausalGPS.html | 130 +- CausalGPS-0.4.0/CausalGPS/inst/doc/Developers-Guide.html | 80 - CausalGPS-0.4.0/CausalGPS/inst/doc/Frequently-Asked-Questions.Rmd | 10 CausalGPS-0.4.0/CausalGPS/inst/doc/Frequently-Asked-Questions.html | 17 CausalGPS-0.4.0/CausalGPS/inst/doc/Generating-Pseudo-Population.Rmd | 12 CausalGPS-0.4.0/CausalGPS/inst/doc/Generating-Pseudo-Population.html | 19 CausalGPS-0.4.0/CausalGPS/inst/doc/Singularity-Image.html | 62 - CausalGPS-0.4.0/CausalGPS/inst/doc/Synthetic-Medicare.R | 183 +-- CausalGPS-0.4.0/CausalGPS/inst/doc/Synthetic-Medicare.Rmd | 183 +-- CausalGPS-0.4.0/CausalGPS/inst/doc/Synthetic-Medicare.html | 477 +++++----- CausalGPS-0.4.0/CausalGPS/inst/doc/Testing-the-Package.Rmd | 41 CausalGPS-0.4.0/CausalGPS/inst/doc/Testing-the-Package.html | 261 ++--- CausalGPS-0.4.0/CausalGPS/man/absolute_corr_fun.Rd | 3 CausalGPS-0.4.0/CausalGPS/man/absolute_weighted_corr_fun.Rd | 8 CausalGPS-0.4.0/CausalGPS/man/check_args.Rd | 2 CausalGPS-0.4.0/CausalGPS/man/check_args_estimate_gps.Rd | 6 CausalGPS-0.4.0/CausalGPS/man/check_covar_balance.Rd | 32 CausalGPS-0.4.0/CausalGPS/man/check_kolmogorov_smirnov.Rd | 2 CausalGPS-0.4.0/CausalGPS/man/compile_pseudo_pop.Rd | 37 CausalGPS-0.4.0/CausalGPS/man/compute_risk.Rd | 5 CausalGPS-0.4.0/CausalGPS/man/create_matching.Rd | 11 CausalGPS-0.4.0/CausalGPS/man/create_weighting.Rd | 2 CausalGPS-0.4.0/CausalGPS/man/estimate_gps.Rd | 33 CausalGPS-0.4.0/CausalGPS/man/estimate_hat_vals.Rd | 2 CausalGPS-0.4.0/CausalGPS/man/estimate_npmetric_erf.Rd | 18 CausalGPS-0.4.0/CausalGPS/man/estimate_pmetric_erf.Rd | 20 CausalGPS-0.4.0/CausalGPS/man/estimate_semipmetric_erf.Rd | 16 CausalGPS-0.4.0/CausalGPS/man/generate_kernel.Rd | 2 CausalGPS-0.4.0/CausalGPS/man/generate_pseudo_pop.Rd | 58 - CausalGPS-0.4.0/CausalGPS/man/generate_syn_data.Rd | 51 - CausalGPS-0.4.0/CausalGPS/man/matching_fn.Rd |only CausalGPS-0.4.0/CausalGPS/man/preprocess_data.Rd |only CausalGPS-0.4.0/CausalGPS/man/smooth_erf.Rd | 5 CausalGPS-0.4.0/CausalGPS/man/smooth_erf_kernsmooth.Rd |only CausalGPS-0.4.0/CausalGPS/man/smooth_erf_locpol.Rd |only CausalGPS-0.4.0/CausalGPS/man/trim_gps.Rd |only CausalGPS-0.4.0/CausalGPS/man/w_fun.Rd | 2 CausalGPS-0.4.0/CausalGPS/src/RcppExports.cpp | 16 CausalGPS-0.4.0/CausalGPS/src/compute_closest_wgps_helper.cpp | 25 CausalGPS-0.4.0/CausalGPS/src/compute_closest_wgps_helper_no_sc.cpp | 19 CausalGPS-0.4.0/CausalGPS/src/compute_closest_wgps_helper_sequential.cpp |only CausalGPS-0.4.0/CausalGPS/src/compute_closest_wgps_no_sc_binary_search.cpp | 5 CausalGPS-0.4.0/CausalGPS/tests/testthat/test-CausalGPS_smooth.R | 6 CausalGPS-0.4.0/CausalGPS/tests/testthat/test-absolute_corr_fun.R | 19 CausalGPS-0.4.0/CausalGPS/tests/testthat/test-absolute_weighted_corr_fun.R | 3 CausalGPS-0.4.0/CausalGPS/tests/testthat/test-check_arguments.R | 39 CausalGPS-0.4.0/CausalGPS/tests/testthat/test-check_covar_balance.R | 45 CausalGPS-0.4.0/CausalGPS/tests/testthat/test-check_kolmogorov_smirnov.R | 20 CausalGPS-0.4.0/CausalGPS/tests/testthat/test-compile_pseudo_pop.R | 47 CausalGPS-0.4.0/CausalGPS/tests/testthat/test-create_weighting.R | 49 - CausalGPS-0.4.0/CausalGPS/tests/testthat/test-estimate_gps.R | 135 ++ CausalGPS-0.4.0/CausalGPS/tests/testthat/test-estimate_hat_vals.R | 2 CausalGPS-0.4.0/CausalGPS/tests/testthat/test-estimate_npmetric_erf.R | 32 CausalGPS-0.4.0/CausalGPS/tests/testthat/test-estimate_pmetric_erf.R | 12 CausalGPS-0.4.0/CausalGPS/tests/testthat/test-estimate_semipmetric_erf.R | 12 CausalGPS-0.4.0/CausalGPS/tests/testthat/test-generate_pseudo_pop.R | 281 ++++- CausalGPS-0.4.0/CausalGPS/tests/testthat/test-generate_synthetic_data.R | 6 CausalGPS-0.4.0/CausalGPS/tests/testthat/test-matching_fn.R |only CausalGPS-0.4.0/CausalGPS/tests/testthat/test-smooth_erf.R | 4 CausalGPS-0.4.0/CausalGPS/tests/testthat/test-trim_gps.R |only CausalGPS-0.4.0/CausalGPS/vignettes/CausalGPS.Rmd | 43 CausalGPS-0.4.0/CausalGPS/vignettes/Frequently-Asked-Questions.Rmd | 10 CausalGPS-0.4.0/CausalGPS/vignettes/Generating-Pseudo-Population.Rmd | 12 CausalGPS-0.4.0/CausalGPS/vignettes/Synthetic-Medicare.Rmd | 183 +-- CausalGPS-0.4.0/CausalGPS/vignettes/Testing-the-Package.Rmd | 41 94 files changed, 2503 insertions(+), 1771 deletions(-)
More information about HydroPortailStats at CRAN
Permanent link
Title: Download Data from Bank of Spain
Description: Tools to download data series from 'Banco de España' ('BdE')
on 'tibble' format. 'Banco de España' is the national central bank
and, within the framework of the Single Supervisory Mechanism ('SSM'),
the supervisor of the Spanish banking system along with the European
Central Bank. This package is in no way sponsored endorsed or
administered by 'Banco de España'.
Author: Diego H. Herrero [aut, cre, cph]
Maintainer: Diego H. Herrero <dev.dieghernan@gmail.com>
Diff between tidyBdE versions 0.3.2 dated 2023-04-01 and 0.3.3 dated 2023-05-25
DESCRIPTION | 8 - MD5 | 26 ++--- NEWS.md | 200 +++++++++++++++++++++---------------------- R/bde_check_access.R | 2 R/catalogs.R | 4 README.md | 4 build/vignette.rds |binary inst/doc/tidyBdE.Rmd | 2 inst/doc/tidyBdE.html | 2 man/bde_catalog_load.Rd | 2 man/bde_catalog_update.Rd | 2 man/bde_check_access.Rd | 2 tests/testthat/test-series.R | 5 - vignettes/tidyBdE.Rmd | 2 14 files changed, 132 insertions(+), 129 deletions(-)
Title: 'Stata' Markdown
Description: Settings and functions to extend the 'knitr' 'Stata' engine.
Author: Doug Hemken [aut, cre] ,
Tom Palmer [ctb] ,
Philipp Lepert [ctb]
Maintainer: Doug Hemken <dehemken@wisc.edu>
Diff between Statamarkdown versions 0.7.2 dated 2023-02-15 and 0.7.4 dated 2023-05-25
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- R/find_stata.r | 6 ++++-- R/stata_engine.r | 13 ++++++++++--- README.md | 18 ++++++++++++++---- inst/README.md | 18 ++++++++++++++---- 6 files changed, 52 insertions(+), 23 deletions(-)
Title: Climate AEMET Tools
Description: Tools to download the climatic data of the Spanish
Meteorological Agency (AEMET) directly from R using their API and
create scientific graphs (climate charts, trend analysis of climate
time series, temperature and precipitation anomalies maps, warming
stripes graphics, climatograms, etc.).
Author: Manuel Pizarro [aut, cph] ,
Diego Hernangomez [aut, cre] ,
Gema Fernandez-Aviles [aut]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between climaemet versions 1.1.0 dated 2023-02-16 and 1.1.1 dated 2023-05-25
DESCRIPTION | 6 MD5 | 68 +-- NEWS.md | 5 R/aemet_api_key.R | 10 R/aemet_api_query.R | 525 +++++++++++++-------------- R/aemet_daily.R | 279 +++++++------- R/aemet_extremes.R | 117 ++---- R/aemet_last_obs.R | 85 ++-- R/aemet_monthly.R | 280 +++++++------- R/aemet_normal.R | 6 R/aemet_stations.R | 3 R/climatogram.R | 162 +++----- R/data.R | 19 R/helpers.R | 4 R/stripes.R | 689 +++++++++++++++++------------------- R/utils.R | 2 R/windrose.R | 231 +++++------- README.md | 50 +- build/vignette.rds |binary data/aemet_munic.rda |binary data/climaemet_9434_climatogram.rda |binary data/climaemet_9434_temp.rda |binary data/climaemet_9434_wind.rda |binary inst/WORDLIST | 20 - inst/doc/climaemet.Rmd | 36 + inst/doc/climaemet.html | 42 +- inst/doc/extending-climaemet.Rmd | 68 +-- inst/doc/extending-climaemet.html | 62 +-- man/climaemet_9434_climatogram.Rd | 10 man/climaemet_9434_temp.Rd | 8 man/figures/README-spatial-1.png |binary vignettes/climaemet.Rmd | 36 + vignettes/example-gif.gif |binary vignettes/extending-climaemet.Rmd | 68 +-- vignettes/spatial-1.png |binary 35 files changed, 1387 insertions(+), 1504 deletions(-)
Title: Structure for Organizing Monte Carlo Simulation Designs
Description: Provides tools to safely and efficiently organize and execute
Monte Carlo simulation experiments in R.
The package controls the structure and back-end of Monte Carlo simulation experiments
by utilizing a generate-analyse-summarise workflow. The workflow safeguards against
common simulation coding issues, such as automatically re-simulating non-convergent results,
prevents inadvertently overwriting simulation files, catches error and warning messages
during execution, and implicitly supports parallel processing.
For a pedagogical introduction to the package see
Sigal and Chalmers (2016) <doi:10.1080/10691898.2016.1246953>. For a more in-depth overview of
the package and its design philosophy see Chalmers and Adkins (2020) <doi:10.20982/tqmp.16.4.p248>.
Author: Phil Chalmers [aut, cre] ,
Matthew Sigal [ctb],
Ogreden Oguzhan [ctb]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>
Diff between SimDesign versions 2.10.1 dated 2023-02-01 and 2.11 dated 2023-05-25
DESCRIPTION | 6 MD5 | 63 + NAMESPACE | 9 NEWS.md | 36 + R/AnalyseIf.R | 8 R/Bradley1978.R |only R/Design.R | 15 R/GenerateIf.R |only R/PBA.R |only R/SimDesign.R | 1 R/SimFunctions.R | 270 ++++++- R/SimSolve.R |only R/runSimulation.R | 149 +++- R/summary_functions.R | 6 R/util.R | 233 ++++++ build/partial.rdb |binary build/vignette.rds |binary inst/doc/Catch_errors.R | 7 inst/doc/Catch_errors.Rmd | 24 inst/doc/Catch_errors.html | 1337 +++++++++++++++++++++++++++++++++++++- inst/doc/Fixed_obj_fun.html | 1305 ++++++++++++++++++++++++++++++++++++- inst/doc/MultipleAnalyses.html | 1338 +++++++++++++++++++++++++++++++++++++- inst/doc/Parallel-computing.html | 1299 ++++++++++++++++++++++++++++++++++++- inst/doc/Saving-results.html | 1339 +++++++++++++++++++++++++++++++++++++- inst/doc/SimDesign-intro.html | 1365 +++++++++++++++++++++++++++++++++++++-- man/AnalyseIf.Rd | 6 man/Bradley1978.Rd |only man/EDR.Rd | 2 man/GenerateIf.Rd |only man/PBA.Rd |only man/SimFunctions.Rd | 60 + man/SimSolve.Rd |only man/createDesign.Rd | 4 man/nc.Rd |only man/runSimulation.Rd | 38 - tests/tests/test-SimDesign.R | 5 vignettes/Catch_errors.Rmd | 24 37 files changed, 8593 insertions(+), 356 deletions(-)
Title: Reporting Tables
Description: Reporting tables often have structure that goes beyond simple
rectangular data. The 'rtables' package provides a framework for
declaring complex multi-level tabulations and then applying them to
data. This framework models both tabulation and the resulting tables
as hierarchical, tree-like objects which support sibling sub-tables,
arbitrary splitting or grouping of data in row and column dimensions,
cells containing multiple values, and the concept of contextual
summary computations. A convenient pipe-able interface is provided for
declaring table layouts and the corresponding computations, and then
applying them to data.
Author: Gabriel Becker [aut, cre],
Adrian Waddell [aut],
Daniel Sabanes Bove [ctb],
Maximilian Mordig [ctb],
Davide Garolini [ctb]
Maintainer: Gabriel Becker <gabembecker@gmail.com>
Diff between rtables versions 0.6.0 dated 2023-03-02 and 0.6.1 dated 2023-05-25
rtables-0.6.0/rtables/man/export_as_rtf.Rd |only rtables-0.6.0/rtables/man/export_as_txt.Rd |only rtables-0.6.0/rtables/man/vpaginate_table.Rd |only rtables-0.6.0/rtables/tests/unit_test_results.xml |only rtables-0.6.1/rtables/DESCRIPTION | 51 - rtables-0.6.1/rtables/MD5 | 124 ++-- rtables-0.6.1/rtables/NAMESPACE | 10 rtables-0.6.1/rtables/NEWS.md | 21 rtables-0.6.1/rtables/R/00tabletrees.R | 14 rtables-0.6.1/rtables/R/colby_constructors.R | 58 +- rtables-0.6.1/rtables/R/deprecated.R | 23 rtables-0.6.1/rtables/R/index_footnotes.R | 23 rtables-0.6.1/rtables/R/make_split_fun.R | 2 rtables-0.6.1/rtables/R/split_funs.R | 10 rtables-0.6.1/rtables/R/summary.R | 31 - rtables-0.6.1/rtables/R/tree_accessors.R | 22 rtables-0.6.1/rtables/R/tt_dotabulation.R | 2 rtables-0.6.1/rtables/R/tt_export.R | 275 +++------- rtables-0.6.1/rtables/R/tt_paginate.R | 105 +-- rtables-0.6.1/rtables/R/tt_pos_and_access.R | 216 +++---- rtables-0.6.1/rtables/R/tt_sort.R | 140 +++-- rtables-0.6.1/rtables/R/tt_toString.R | 127 +--- rtables-0.6.1/rtables/R/zzz_constants.R | 2 rtables-0.6.1/rtables/README.md | 12 rtables-0.6.1/rtables/inst/WORDLIST | 6 rtables-0.6.1/rtables/inst/doc/advanced_usage.html | 4 rtables-0.6.1/rtables/inst/doc/baseline.html | 4 rtables-0.6.1/rtables/inst/doc/clinical_trials.html | 6 rtables-0.6.1/rtables/inst/doc/custom_appearance.html | 4 rtables-0.6.1/rtables/inst/doc/format_precedence.html | 4 rtables-0.6.1/rtables/inst/doc/introduction.html | 39 - rtables-0.6.1/rtables/inst/doc/manual_table_construction.html | 4 rtables-0.6.1/rtables/inst/doc/sorting_pruning.html | 8 rtables-0.6.1/rtables/inst/doc/split_functions.Rmd | 4 rtables-0.6.1/rtables/inst/doc/split_functions.html | 7 rtables-0.6.1/rtables/inst/doc/subsetting_tables.html | 4 rtables-0.6.1/rtables/inst/doc/tabulation_concepts.html | 2 rtables-0.6.1/rtables/inst/doc/tabulation_dplyr.html | 4 rtables-0.6.1/rtables/inst/doc/title_footer.html | 205 +------ rtables-0.6.1/rtables/man/brackets.Rd | 70 -- rtables-0.6.1/rtables/man/cell_values.Rd | 17 rtables-0.6.1/rtables/man/custom_split_funs.Rd | 4 rtables-0.6.1/rtables/man/export_as_pdf.Rd | 38 - rtables-0.6.1/rtables/man/int_methods.Rd | 70 ++ rtables-0.6.1/rtables/man/make_col_row_df.Rd | 2 rtables-0.6.1/rtables/man/make_split_fun.Rd | 3 rtables-0.6.1/rtables/man/paginate.Rd | 15 rtables-0.6.1/rtables/man/reexports.Rd |only rtables-0.6.1/rtables/man/ref_fnotes.Rd | 6 rtables-0.6.1/rtables/man/row_paths_summary.Rd | 2 rtables-0.6.1/rtables/man/score_funs.Rd | 10 rtables-0.6.1/rtables/man/sort_at_path.Rd | 94 +++ rtables-0.6.1/rtables/man/split_cols_by_multivar.Rd | 8 rtables-0.6.1/rtables/man/split_rows_by_multivar.Rd |only rtables-0.6.1/rtables/man/trim_zero_rows.Rd | 2 rtables-0.6.1/rtables/man/tt_to_flextable.Rd | 5 rtables-0.6.1/rtables/tests/testthat/test-deprecated.R | 17 rtables-0.6.1/rtables/tests/testthat/test-exporters.R | 15 rtables-0.6.1/rtables/tests/testthat/test-header-footer.R | 2 rtables-0.6.1/rtables/tests/testthat/test-lyt-tabulation.R | 19 rtables-0.6.1/rtables/tests/testthat/test-pagination.R | 30 - rtables-0.6.1/rtables/tests/testthat/test-printing.R | 48 - rtables-0.6.1/rtables/tests/testthat/test-regressions.R | 26 rtables-0.6.1/rtables/tests/testthat/test-sort-prune.R | 29 - rtables-0.6.1/rtables/tests/testthat/test-split_funs.R | 57 ++ rtables-0.6.1/rtables/vignettes/split_functions.Rmd | 4 66 files changed, 1163 insertions(+), 1003 deletions(-)
Title: Clinical Trial Style Data Readout Listings
Description: Listings are often part of the submission of clinical trial
data in regulatory settings. We provide a framework for the specific
formatting features often used when displaying large datasets in that
context.
Author: Gabriel Becker [aut, cre],
Adrian Waddell [aut],
Joe Zhu [aut],
Davide Garolini [ctb],
Emily de la Rua [ctb],
Abinaya Yogasekaram [ctb],
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Gabriel Becker <gabembecker@gmail.com>
Diff between rlistings versions 0.2.1 dated 2023-03-17 and 0.2.2 dated 2023-05-25
rlistings-0.2.1/rlistings/man/export_as_txt.Rd |only rlistings-0.2.1/rlistings/man/toString-listing_df-method.Rd |only rlistings-0.2.1/rlistings/tests/testthat/helper-rlistings.R |only rlistings-0.2.2/rlistings/DESCRIPTION | 12 rlistings-0.2.2/rlistings/MD5 | 33 - rlistings-0.2.2/rlistings/NAMESPACE | 1 rlistings-0.2.2/rlistings/NEWS.md | 3 rlistings-0.2.2/rlistings/R/listing_export.R | 148 -------- rlistings-0.2.2/rlistings/R/paginate_listing.R | 175 ++-------- rlistings-0.2.2/rlistings/R/rlistings.R | 2 rlistings-0.2.2/rlistings/R/rlistings_methods.R | 63 --- rlistings-0.2.2/rlistings/inst/WORDLIST | 3 rlistings-0.2.2/rlistings/inst/doc/rlistings.html | 30 - rlistings-0.2.2/rlistings/man/defunct.Rd |only rlistings-0.2.2/rlistings/man/listing_methods.Rd | 22 + rlistings-0.2.2/rlistings/man/paginate.Rd | 21 - rlistings-0.2.2/rlistings/man/reexports.Rd |only rlistings-0.2.2/rlistings/tests/testthat/setup.R | 5 rlistings-0.2.2/rlistings/tests/testthat/test-paginate_listing.R | 88 ++--- rlistings-0.2.2/rlistings/tests/testthat/test-print.R | 76 ++++ 20 files changed, 263 insertions(+), 419 deletions(-)
Title: Functions to Automate Downloading Geospatial Data Available from
Several Federated Data Sources
Description: Functions to automate downloading geospatial data available
from several federated data sources (mainly sources maintained by the
US Federal government). Currently, the package enables extraction from
seven datasets: The National Elevation Dataset digital elevation
models (1 and 1/3 arc-second; USGS); The National Hydrography Dataset
(USGS); The Soil Survey Geographic (SSURGO) database from the National
Cooperative Soil Survey (NCSS), which is led by the Natural Resources
Conservation Service (NRCS) under the USDA; the Global Historical
Climatology Network (GHCN), coordinated by National Climatic Data
Center at NOAA; the Daymet gridded estimates of daily weather
parameters for North America, version 3, available from the Oak Ridge
National Laboratory's Distributed Active Archive Center (DAAC); the
International Tree Ring Data Bank; and the National Land Cover
Database (NLCD).
Author: R. Kyle Bocinsky [aut, cre, cph],
Dylan Beaudette [ctb],
Scott Chamberlain [ctb, rev],
Jeffrey Hollister [ctb],
Julia Gustavsen [rev]
Maintainer: R. Kyle Bocinsky <bocinsky@gmail.com>
Diff between FedData versions 3.0.3 dated 2023-03-10 and 3.0.4 dated 2023-05-25
DESCRIPTION | 10 +++++----- MD5 | 22 +++++++++++----------- NEWS.md | 7 +++++++ R/GHCN_FUNCTIONS.R | 6 +++--- R/NHD_FUNCTIONS.R | 6 +++++- R/esri.R | 18 +++++++++++++++--- README.md | 6 +++--- man/figures/README-ITRDB-1.png |binary man/figures/README-NHD-1.png |binary man/figures/README-SSURGO-1.png |binary man/figures/README-SSURGO-area-1.png |binary tests/testthat/test.GHCN.R | 8 ++++---- 12 files changed, 53 insertions(+), 30 deletions(-)
Title: Treemap Visualization
Description: A treemap is a space-filling visualization of hierarchical
structures. This package offers great flexibility to draw treemaps.
Author: Martijn Tennekes [aut, cre],
Peter Ellis [ctb]
Maintainer: Martijn Tennekes <mtennekes@gmail.com>
Diff between treemap versions 2.4-3 dated 2021-08-22 and 2.4-4 dated 2023-05-25
DESCRIPTION | 11 - MD5 | 14 - NEWS | 3 R/datasets.R | 2 R/treemap.R | 8 build/vignette.rds |binary inst/doc/treemap-color_mapping.html | 380 ++++++++++++++---------------------- man/GNI2014.Rd | 2 8 files changed, 174 insertions(+), 246 deletions(-)
Title: Spatial Regression Analysis
Description: A collection of all the estimation functions for spatial cross-sectional models (on lattice/areal data using spatial weights matrices) contained up to now in 'spdep'. These model fitting functions include maximum likelihood methods for cross-sectional models proposed by 'Cliff' and 'Ord' (1973, ISBN:0850860369) and (1981, ISBN:0850860814), fitting methods initially described by 'Ord' (1975) <doi:10.1080/01621459.1975.10480272>. The models are further described by 'Anselin' (1988) <doi:10.1007/978-94-015-7799-1>. Spatial two stage least squares and spatial general method of moment models initially proposed by 'Kelejian' and 'Prucha' (1998) <doi:10.1023/A:1007707430416> and (1999) <doi:10.1111/1468-2354.00027> are provided. Impact methods and MCMC fitting methods proposed by 'LeSage' and 'Pace' (2009) <doi:10.1201/9781420064254> are implemented for the family of cross-sectional spatial regression models. Methods for fitting the log determinant term in maximu [...truncated...]
Author: Roger Bivand [cre, aut] ,
Gianfranco Piras [aut],
Luc Anselin [ctb],
Andrew Bernat [ctb],
Eric Blankmeyer [ctb],
Yongwan Chun [ctb],
Virgilio Gomez-Rubio [ctb],
Daniel Griffith [ctb],
Martin Gubri [ctb],
Rein Halbersma [ctb],
James LeSage [ctb],
Ange [...truncated...]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>
Diff between spatialreg versions 1.2-8 dated 2023-03-01 and 1.2-9 dated 2023-05-25
DESCRIPTION | 22 MD5 | 39 NAMESPACE | 1 NEWS.md | 14 R/ML_models.R | 29 R/SLX_WX.R | 166 --- R/impacts.R | 2 R/predict.sarlm.R | 12 R/sarlm_functions.R | 7 R/spautolm.R | 6 build/partial.rdb |binary build/vignette.rds |binary inst/doc/SpatialFiltering.html | 1553 ++++++++++++++++++++++++++++-- inst/doc/nb_igraph.html | 1712 +++++++++++++++++++++++++++++++--- inst/doc/sids_models.html | 1574 ++++++++++++++++++++++++++++--- inst/tinytest/test_Durbin.R | 44 inst/tinytest/test_SLX_no_intercept.R | 15 inst/tinytest/test_SLX_not_W.R | 8 inst/tinytest/test_TR_20_07_20.R |only man/SET_MCMC.Rd | 6 man/SLX.Rd | 7 21 files changed, 4622 insertions(+), 595 deletions(-)
Title: Non-Crossing Additive Regression Quantiles and Non-Parametric
Growth Charts
Description: Fits non-crossing regression quantiles as a function of linear covariates and multiple smooth terms, including varying coefficients, via B-splines with L1-norm difference penalties.
Random intercepts and variable selection are allowed via the lasso penalties.
The smoothing parameters are estimated as part of the model fitting, see Muggeo and others (2021) <doi:10.1177/1471082X20929802>. Monotonicity and concavity
constraints on the fitted curves are allowed, see Muggeo and others (2013) <doi:10.1007/s10651-012-0232-1>,
and also <doi:10.13140/RG.2.2.12924.85122> or <doi:10.13140/RG.2.2.29306.21445> some code examples.
Author: Vito M. R. Muggeo [aut, cre]
Maintainer: Vito M. R. Muggeo <vito.muggeo@unipa.it>
Diff between quantregGrowth versions 1.6-1 dated 2023-04-14 and 1.6-2 dated 2023-05-25
DESCRIPTION | 8 MD5 | 32 NAMESPACE | 2 NEWS | 9 R/gcrq.r | 1929 ++++++++++++++++++------------------------ R/ncross.rq.fitXB.r | 1755 ++++++++++++++++++-------------------- R/plot.gcrq.R | 12 R/ps.R | 2 R/vcov.gcrq.r | 2 inst/doc/quantregGrowth.R | 4 inst/doc/quantregGrowth.Rmd | 6 inst/doc/quantregGrowth.html | 26 man/gcrq.Rd | 2 man/ncross.rq.fitXB.Rd | 333 +++---- man/ps.Rd | 10 man/quantregGrowth-package.Rd | 4 vignettes/quantregGrowth.Rmd | 6 17 files changed, 1967 insertions(+), 2175 deletions(-)
More information about quantregGrowth at CRAN
Permanent link
Title: Crop Growing Degree Days and Agrometeorological Calculations
Description: Calculate agrometeorological variables for crops
including growing degree days (McMaster, GS & Wilhelm, WW
(1997) <doi:10.1016/S0168-1923(97)00027-0>), cumulative
rainfall, number of stress days and cumulative or mean
radiation and evaporation. Convert dates to day of year
and vice versa. Also, download curated and interpolated
Australian weather data from the Queensland Government
DES longpaddock website
<https://www.longpaddock.qld.gov.au/>. This data is
freely available under the Creative Commons 4.0 licence.
Author: Peter Baker [aut, cre] ,
Miranda Mortlock [aut]
Maintainer: Peter Baker <drpetebaker@gmail.com>
Diff between cropgrowdays versions 0.1.1 dated 2021-12-10 and 0.2.0 dated 2023-05-25
DESCRIPTION | 14 MD5 | 64 +-- NAMESPACE | 1 NEWS.md | 26 + R/cumulative.R | 16 R/daily_mean.R | 14 R/day_of_year.R | 13 R/get_multi_silodata.R | 4 R/get_silodata.R | 97 ++++- R/growing_degree_days.R | 18 - R/stress_days_over.R | 14 R/weather_extract.R | 23 - README.md | 143 ++++---- build/partial.rdb |binary build/vignette.rds |binary inst/doc/crop-grow-days.R | 23 - inst/doc/crop-grow-days.html | 587 +++++++++++++++++++++++++++-------- inst/doc/getting-weather-data.R | 1 inst/doc/getting-weather-data.Rmd | 12 inst/doc/getting-weather-data.html | 453 +++++++++++++++++++++------ man/cumulative.Rd | 12 man/daily_mean.Rd | 10 man/fragments/agro_met_calcs.Rmd | 30 + man/fragments/boonah_description.Rmd | 6 man/fragments/intro.Rmd | 8 man/get_multi_silodata.Rd | 10 man/get_silodata.Rd | 39 +- man/growing_degree_days.Rd | 10 man/stress_days_over.Rd | 10 man/weather_extract.Rd | 11 tests/testthat.R | 2 tests/testthat/test_weather_calcs.R | 58 +-- vignettes/getting-weather-data.Rmd | 12 33 files changed, 1240 insertions(+), 501 deletions(-)
Title: Count Transformation Models
Description: Count transformation models featuring
parameters interpretable as discrete hazard ratios, odds ratios,
reverse-time discrete hazard ratios, or transformed expectations.
An appropriate data transformation for a count outcome and
regression coefficients are simultaneously estimated by maximising
the exact discrete log-likelihood using the computational framework
provided in package 'mlt', technical details are given in
Siegfried & Hothorn (2020) <DOI:10.1111/2041-210X.13383>.
The package also contains an experimental implementation of
multivariate count transformation models with an application
to multi-species distribution models <arXiv:2201.13095>.
Author: Sandra Siegfried [aut, cre] ,
Luisa Barbanti [aut] ,
Torsten Hothorn [aut]
Maintainer: Sandra Siegfried <sandra.siegfried@uzh.ch>
Diff between cotram versions 0.4-2 dated 2022-11-01 and 0.4-4 dated 2023-05-25
cotram-0.4-2/cotram/R/mcotram.R |only cotram-0.4-2/cotram/demo |only cotram-0.4-2/cotram/man/mcotram.Rd |only cotram-0.4-2/cotram/tests/mcotram-Ex.R |only cotram-0.4-4/cotram/DESCRIPTION | 10 +++++----- cotram-0.4-4/cotram/MD5 | 26 +++++++++++--------------- cotram-0.4-4/cotram/NAMESPACE | 4 ++-- cotram-0.4-4/cotram/R/methods.R | 20 ++++++++++++++------ cotram-0.4-4/cotram/R/models.R | 4 ++-- cotram-0.4-4/cotram/build/partial.rdb |binary cotram-0.4-4/cotram/build/vignette.rds |binary cotram-0.4-4/cotram/data/spiders.rda |binary cotram-0.4-4/cotram/inst/CITATION | 4 ++-- cotram-0.4-4/cotram/inst/NEWS.Rd | 13 +++++++++++++ cotram-0.4-4/cotram/inst/doc/cotram.pdf |binary cotram-0.4-4/cotram/tests/Examples |only 16 files changed, 49 insertions(+), 32 deletions(-)
Title: Long Term Water Quality Trend Analysis
Description: Enable users to evaluate long-term trends using a Generalized
Additive Modeling (GAM) approach. The model development includes selecting a
GAM structure to describe nonlinear seasonally-varying changes over time,
incorporation of hydrologic variability via either a river flow or salinity,
the use of an intervention to deal with method or laboratory changes
suspected to impact data values, and representation of left- and
interval-censored data. The approach has been applied to water quality data
in the Chesapeake Bay, a major estuary on the east coast of the United
States to provide insights to a range of management- and research-focused
questions. Methodology described in Murphy (2019)
<doi:10.1016/j.envsoft.2019.03.027>.
Author: Rebecca Murphy, Elgin Perry, Jennifer Keisman, Jon Harcum, Erik W Leppo
Maintainer: Erik W Leppo <Erik.Leppo@tetratech.com>
Diff between baytrends versions 2.0.8 dated 2022-05-05 and 2.0.9 dated 2023-05-25
baytrends-2.0.8/baytrends/man/figures |only baytrends-2.0.9/baytrends/DESCRIPTION | 8 baytrends-2.0.9/baytrends/MD5 | 17 baytrends-2.0.9/baytrends/NEWS | 1715 +++++----- baytrends-2.0.9/baytrends/NEWS.md | 1715 +++++----- baytrends-2.0.9/baytrends/R/gamTest.r | 15 baytrends-2.0.9/baytrends/README.md | 21 baytrends-2.0.9/baytrends/build/vignette.rds |binary baytrends-2.0.9/baytrends/inst/doc/Detrending_Flow_and_Salinity_Data.html | 485 ++ baytrends-2.0.9/baytrends/inst/doc/Processing_Censored_Data.html | 558 ++- 10 files changed, 2584 insertions(+), 1950 deletions(-)
Title: Bayesian Models for Data from Unmarked Animals using 'Stan'
Description: Fit Bayesian hierarchical models of animal abundance and occurrence
via the 'rstan' package, the R interface to the 'Stan' C++ library.
Supported models include single-season occupancy, dynamic occupancy, and
N-mixture abundance models. Covariates on model parameters are specified
using a formula-based interface similar to package 'unmarked', while also
allowing for estimation of random slope and intercept terms. References:
Carpenter et al. (2017) <doi:10.18637/jss.v076.i01>;
Fiske and Chandler (2011) <doi:10.18637/jss.v043.i10>.
Author: Ken Kellner [cre, aut]
Maintainer: Ken Kellner <contact@kenkellner.com>
Diff between ubms versions 1.2.3 dated 2023-05-17 and 1.2.4 dated 2023-05-25
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 4 ++++ inst/doc/ubms.html | 20 ++++++++++---------- src/Makevars | 2 +- src/Makevars.win | 2 +- tests/testthat/test_ubmsFit_methods.R | 1 + 7 files changed, 27 insertions(+), 22 deletions(-)
Title: Diffusion Models R Analysis
Description: The implemented methods are: Standard Bass model, Generalized Bass model (with rectangular shock, exponential shock, and mixed shock. You can choose to add from 1 to 3 shocks), Guseo-Guidolin model and Variable Potential Market model, and UCRCD model. The Bass model consists of a simple differential equation that describes the process of how new products get adopted in a population, the Generalized Bass model is a generalization of the Bass model in which there is a "carrier" function x(t) that allows to change the speed of time sliding. In some real processes the reachable potential of the resource available in a temporal instant may appear to be not constant over time, because of this we use Variable Potential Market model, in which the Guseo-Guidolin has a particular specification for the market function. The UCRCD model (Unbalanced Competition and Regime Change Diachronic) is a diffusion model used to capture the dynamics of the competitive or collaborative transition.
Author: Savio Andrea, Zanghi Federico, Filippo Ziliotto, Bessi Alessandro
Maintainer: Savio Andrea <svandr97@gmail.com>
Diff between DIMORA versions 0.3.4 dated 2023-03-11 and 0.3.5 dated 2023-05-25
DESCRIPTION | 8 ++++---- MD5 | 6 ++++-- R/hello.R |only man/GGM.Rd | 2 +- man/hello.Rd |only 5 files changed, 9 insertions(+), 7 deletions(-)
Title: Microbial Community Ecology Data Analysis
Description: A series of statistical and plotting approaches in microbial community ecology based on the R6 class. The classes are designed for data preprocessing, taxa abundance plotting, alpha diversity analysis, beta diversity analysis, differential abundance test, null model analysis, network analysis, machine learning, environmental data analysis and functional analysis.
Author: Chi Liu [aut, cre],
Felipe R. P. Mansoldo [ctb],
Umer Zeeshan Ijaz [ctb],
Chenhao Li [ctb],
Yang Cao [ctb],
Minjie Yao [ctb],
Xiangzhen Li [ctb]
Maintainer: Chi Liu <liuchi0426@126.com>
Diff between microeco versions 0.17.0 dated 2023-05-02 and 0.19.0 dated 2023-05-25
DESCRIPTION | 6 - MD5 | 34 +++++----- R/microtable.R | 29 +++++--- R/trans_abund.R | 73 ++++++++++++++++------ R/trans_alpha.R | 103 +++++++++++++++++++++++-------- R/trans_diff.R | 124 ++++++++++++++++++++++++++------------ R/trans_env.R | 166 +++++++++++++++++++++++++++++++++------------------ R/trans_func.R | 36 +++++------ R/trans_network.R | 2 R/trans_venn.R | 14 ++-- data/dataset.RData |binary man/microtable.Rd | 18 +++-- man/trans_abund.Rd | 12 +++ man/trans_alpha.Rd | 29 +++++--- man/trans_diff.Rd | 51 +++++++++++---- man/trans_env.Rd | 30 +++++---- man/trans_network.Rd | 2 man/trans_venn.Rd | 4 - 18 files changed, 488 insertions(+), 245 deletions(-)
Title: Tidy and Geospatial Kernel Smoothing
Description: Extensions of the kernel smoothing functions from the 'ks' package for compatibility with the tidyverse and geospatial ecosystems <doi:10.48550/arXiv.2203.01686>.
Author: Tarn Duong [aut, cre]
Maintainer: Tarn Duong <tarn.duong@gmail.com>
Diff between eks versions 1.0.3 dated 2023-03-09 and 1.0.4 dated 2023-05-25
CHANGELOG | 4 DESCRIPTION | 8 - MD5 | 14 - R/sf-ks-prelim.R | 2 inst/doc/tidysf_kde.R | 27 +-- inst/doc/tidysf_kde.Rmd | 27 +-- inst/doc/tidysf_kde.html | 364 +++++------------------------------------------ vignettes/tidysf_kde.Rmd | 27 +-- 8 files changed, 100 insertions(+), 373 deletions(-)
Title: Bayesian Inference and Model Selection for Stochastic Epidemics
Description: Bayesian analysis for stochastic extensions of non-linear
dynamic systems using advanced computational algorithms. Described in Bouranis, L.,
Demiris, N., Kalogeropoulos, K., and Ntzoufras, I. (2022) <arXiv:2211.15229>.
Author: Lampros Bouranis [aut, cre, cph]
,
European Union [fnd]
Maintainer: Lampros Bouranis <bernadette.aueb@gmail.com>
Diff between Bernadette versions 1.1.1 dated 2023-05-18 and 1.1.2 dated 2023-05-25
DESCRIPTION | 6 ++-- MD5 | 42 ++++++++++++++++---------------- R/misc.R | 7 ++++- R/posterior_contactmatrix.R | 16 +++++++----- R/posterior_infections.R | 37 +++++++++++++++++----------- R/posterior_mortality.R | 37 +++++++++++++++++----------- R/posterior_rt.R | 40 ++++++++++++++++++++++++------- R/posterior_transmrate.R | 30 ++++++++++++++--------- R/stan_igbm.R | 2 - R/stan_igbm.fit.R | 50 ++------------------------------------- R/summary.stangbm.R | 48 +++++++++++++++++++++---------------- inst/doc/Bernadette.html | 2 - man/plot_posterior_cm.Rd | 8 ++++-- man/plot_posterior_infections.Rd | 5 ++- man/plot_posterior_mortality.Rd | 5 ++- man/plot_posterior_rt.Rd | 3 +- man/plot_posterior_transmrate.Rd | 3 +- man/posterior_infections.Rd | 12 ++++++--- man/posterior_mortality.Rd | 12 ++++++--- man/posterior_rt.Rd | 16 ++++++++++-- man/posterior_transmrate.Rd | 8 ++++-- man/summary.stanigbm.Rd | 10 ++++++- 22 files changed, 227 insertions(+), 172 deletions(-)
Title: Rational Approximations of Fractional Stochastic Partial
Differential Equations
Description: Functions that compute rational approximations of fractional elliptic stochastic partial differential equations. The package also contains functions for common statistical usage of these approximations. The main references for rSPDE are Bolin, Simas and Xiong (2023) <doi:10.48550/arXiv.2209.04670> for the covariance-based method and in Bolin and Kirchner (2020) <doi:10.1080/10618600.2019.1665537> for the operator-based rational approximation. These can be generated by the citation function in R.
Author: David Bolin [cre, aut],
Alexandre Simas [aut],
Finn Lindgren [ctb]
Maintainer: David Bolin <davidbolin@gmail.com>
Diff between rSPDE versions 2.2.0 dated 2023-04-12 and 2.3.1 dated 2023-05-25
rSPDE-2.2.0/rSPDE/man/matern.loglike.Rd |only rSPDE-2.3.1/rSPDE/DESCRIPTION | 10 rSPDE-2.3.1/rSPDE/MD5 | 109 - rSPDE-2.3.1/rSPDE/NAMESPACE | 13 rSPDE-2.3.1/rSPDE/NEWS.md | 10 rSPDE-2.3.1/rSPDE/R/fractional.computations.R | 1135 +++++----- rSPDE-2.3.1/rSPDE/R/fractional.operators.R | 494 ++++ rSPDE-2.3.1/rSPDE/R/inla_rspde.R | 52 rSPDE-2.3.1/rSPDE/R/inlabru_rspde.R | 21 rSPDE-2.3.1/rSPDE/R/rSPDE.R | 2 rSPDE-2.3.1/rSPDE/R/rspde_lme.R |only rSPDE-2.3.1/rSPDE/R/util.R | 169 + rSPDE-2.3.1/rSPDE/inst/doc/build_source.html | 94 rSPDE-2.3.1/rSPDE/inst/doc/build_source.html.asis | 3 rSPDE-2.3.1/rSPDE/inst/doc/rSPDE.html | 221 -- rSPDE-2.3.1/rSPDE/inst/doc/rSPDE.html.asis | 3 rSPDE-2.3.1/rSPDE/inst/doc/rspde_base.html | 593 +++-- rSPDE-2.3.1/rSPDE/inst/doc/rspde_base.html.asis | 3 rSPDE-2.3.1/rSPDE/inst/doc/rspde_cov.html | 1143 ++++++----- rSPDE-2.3.1/rSPDE/inst/doc/rspde_cov.html.asis | 3 rSPDE-2.3.1/rSPDE/inst/doc/rspde_inla.html | 367 +-- rSPDE-2.3.1/rSPDE/inst/doc/rspde_inla.html.asis | 3 rSPDE-2.3.1/rSPDE/inst/doc/rspde_inlabru.html | 182 - rSPDE-2.3.1/rSPDE/inst/doc/rspde_inlabru.html.asis | 3 rSPDE-2.3.1/rSPDE/man/bru_get_mapper.inla_rspde.Rd | 3 rSPDE-2.3.1/rSPDE/man/construct.spde.matern.loglike.Rd | 16 rSPDE-2.3.1/rSPDE/man/cross_validation.Rd | 19 rSPDE-2.3.1/rSPDE/man/get.initial.values.rSPDE.Rd | 3 rSPDE-2.3.1/rSPDE/man/matern.operators.Rd | 54 rSPDE-2.3.1/rSPDE/man/precision.CBrSPDEobj.Rd | 6 rSPDE-2.3.1/rSPDE/man/predict.CBrSPDEobj.Rd | 9 rSPDE-2.3.1/rSPDE/man/predict.rSPDEobj.Rd | 8 rSPDE-2.3.1/rSPDE/man/predict.rspde_lme.Rd |only rSPDE-2.3.1/rSPDE/man/rSPDE.construct.matern.loglike.Rd | 34 rSPDE-2.3.1/rSPDE/man/rSPDE.loglike.Rd | 11 rSPDE-2.3.1/rSPDE/man/rSPDE.matern.loglike.Rd | 14 rSPDE-2.3.1/rSPDE/man/rspde.make.index.Rd | 3 rSPDE-2.3.1/rSPDE/man/rspde.matern.precision.Rd | 6 rSPDE-2.3.1/rSPDE/man/rspde.matern.precision.integer.Rd | 5 rSPDE-2.3.1/rSPDE/man/rspde.result.Rd | 3 rSPDE-2.3.1/rSPDE/man/rspde_lme.Rd |only rSPDE-2.3.1/rSPDE/man/simulate.CBrSPDEobj.Rd | 10 rSPDE-2.3.1/rSPDE/man/simulate.rSPDEobj.Rd | 6 rSPDE-2.3.1/rSPDE/man/spde.matern.loglike.Rd | 17 rSPDE-2.3.1/rSPDE/man/spde.matern.operators.Rd | 20 rSPDE-2.3.1/rSPDE/man/summary.CBrSPDEobj.Rd | 6 rSPDE-2.3.1/rSPDE/man/summary.rspde_lme.Rd |only rSPDE-2.3.1/rSPDE/man/summary.rspde_result.Rd | 3 rSPDE-2.3.1/rSPDE/man/update.CBrSPDEobj.Rd | 35 rSPDE-2.3.1/rSPDE/man/update.rSPDEobj.Rd | 24 rSPDE-2.3.1/rSPDE/tests/testthat/test.CBrSPDE.R | 48 rSPDE-2.3.1/rSPDE/tests/testthat/test.fractional.operators.R | 49 rSPDE-2.3.1/rSPDE/vignettes/build_source.html.asis | 3 rSPDE-2.3.1/rSPDE/vignettes/rSPDE.html.asis | 3 rSPDE-2.3.1/rSPDE/vignettes/rspde_base.html.asis | 3 rSPDE-2.3.1/rSPDE/vignettes/rspde_cov.html.asis | 3 rSPDE-2.3.1/rSPDE/vignettes/rspde_inla.html.asis | 3 rSPDE-2.3.1/rSPDE/vignettes/rspde_inlabru.html.asis | 3 58 files changed, 2930 insertions(+), 2133 deletions(-)
Title: Financial Time Series Objects (Rmetrics)
Description: 'S4' classes and various tools for financial time series:
Basic functions such as scaling and sorting, subsetting,
mathematical operations and statistical functions.
Author: Diethelm Wuertz [aut] ,
Tobias Setz [aut],
Yohan Chalabi [aut],
Martin Maechler [ctb] ,
Georgi N. Boshnakov [cre, ctb]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between timeSeries versions 4021.105 dated 2022-10-15 and 4030.106 dated 2023-05-25
DESCRIPTION | 7 +++---- MD5 | 36 +++++++++++++++++++----------------- NAMESPACE | 8 ++++---- NEWS.md | 9 ++++++--- build/vignette.rds |binary inst/_pkgdown.yml | 37 +++++++++++++++++++++++-------------- inst/doc/timeSeriesPlot.pdf |binary inst/pkgdown.yml |only man/00timeSeries-package.Rd | 5 +++-- man/base-apply.Rd | 2 +- man/base-start.Rd | 26 ++++++++++---------------- man/fin-dummy.Rd | 14 +++++--------- man/internals.Rd |only man/methods-comment.Rd | 3 +++ man/methods-plot.Rd | 4 ++++ man/statistics-colCumsums.Rd | 20 +++++++++----------- man/timeSeries-deprecated.Rd | 3 ++- man/timeSeries-isRegular.Rd | 8 +++++++- man/timeSeries-slotFinCenter.Rd | 1 + man/utils-description.Rd | 9 ++------- 20 files changed, 102 insertions(+), 90 deletions(-)
Title: Multistage Sampling Allocation and Sample Selection
Description: Multivariate optimal allocation for different domains in one and two stages stratified sample design. 'R2BEAT' extends the Neyman (1934) – Tschuprow (1923) allocation method to the case of several variables, adopting a generalization of the Bethel’s proposal (1989). 'R2BEAT' develops this methodology but, moreover, it allows to determine the sample allocation in the multivariate and multi-domains case of estimates for two-stage stratified samples. It also allows to perform both Primary Stage Units and Secondary Stage Units selection. This package requires the availability of 'ReGenesees', that can be installed from <https://github.com/DiegoZardetto/ReGenesees>.
Author: Andrea Fasulo,Giulio Barcaroli,Stefano Falorsi,Alessio Guandalini,Daniela Pagliuca,Marco Dionisio Terribili
Maintainer: Andrea Fasulo <fasulo@istat.it>
Diff between R2BEAT versions 1.0.4 dated 2021-12-02 and 1.0.5 dated 2023-05-25
R2BEAT-1.0.4/R2BEAT/R/eval_2stage.r |only R2BEAT-1.0.5/R2BEAT/DESCRIPTION | 14 R2BEAT-1.0.5/R2BEAT/MD5 | 39 R2BEAT-1.0.5/R2BEAT/NAMESPACE | 12 R2BEAT-1.0.5/R2BEAT/NEWS.md | 64 R2BEAT-1.0.5/R2BEAT/R/beth2.R | 289 - R2BEAT-1.0.5/R2BEAT/R/build_dummy_variables.R |only R2BEAT-1.0.5/R2BEAT/R/eval_2stage_2.R |only R2BEAT-1.0.5/R2BEAT/R/input_to_beat.2st_1.R | 36 R2BEAT-1.0.5/R2BEAT/R/input_to_beat.2st_2.R | 11 R2BEAT-1.0.5/R2BEAT/R/onAttach.R |only R2BEAT-1.0.5/R2BEAT/R/prepareInputToAllocation1.R | 163 R2BEAT-1.0.5/R2BEAT/R/select_PSU.R | 84 R2BEAT-1.0.5/R2BEAT/R/select_PSU2.R |only R2BEAT-1.0.5/R2BEAT/R/select_SSU.R | 115 R2BEAT-1.0.5/R2BEAT/R/sens_names.R |only R2BEAT-1.0.5/R2BEAT/inst/doc/R2BEAT_methodology.html | 1477 +++++++- R2BEAT-1.0.5/R2BEAT/inst/doc/R2BEAT_workflow.html | 2008 ++++++++--- R2BEAT-1.0.5/R2BEAT/inst/doc/R2BEAT_workflow_from_frame.html | 1880 ++++++++-- R2BEAT-1.0.5/R2BEAT/man/allocation.Rd | 1 R2BEAT-1.0.5/R2BEAT/man/build_dummy_variables.Rd |only R2BEAT-1.0.5/R2BEAT/man/eval_2stage.Rd | 9 R2BEAT-1.0.5/R2BEAT/man/select_PSU2.Rd |only R2BEAT-1.0.5/R2BEAT/man/select_SSU.Rd | 3 R2BEAT-1.0.5/R2BEAT/man/sens_names.Rd |only 25 files changed, 4968 insertions(+), 1237 deletions(-)
Title: Creating and Working with Pedigrees and Marker Data
Description: A comprehensive collection of tools for creating,
manipulating and visualising pedigrees and genetic marker data.
Pedigrees can be read from text files or created on the fly with
built-in functions. A range of utilities enable modifications like
adding or removing individuals, breaking loops, and merging pedigrees.
An online tool for creating pedigrees interactively, based on
'pedtools', is available at <https://magnusdv.shinyapps.io/quickped>.
'pedtools' is the hub of the 'ped suite', a collection of packages for
pedigree analysis. A detailed presentation of the 'ped suite' is given
in the book 'Pedigree Analysis in R' (Vigeland, 2021,
ISBN:9780128244302).
Author: Magnus Dehli Vigeland [aut, cre]
Maintainer: Magnus Dehli Vigeland <m.d.vigeland@medisin.uio.no>
Diff between pedtools versions 2.1.1 dated 2023-01-05 and 2.2.0 dated 2023-05-25
pedtools-2.1.1/pedtools/R/ped_accessors.R |only pedtools-2.1.1/pedtools/man/pedtools.Rd |only pedtools-2.2.0/pedtools/DESCRIPTION | 10 pedtools-2.2.0/pedtools/MD5 | 73 +-- pedtools-2.2.0/pedtools/NAMESPACE | 3 pedtools-2.2.0/pedtools/NEWS.md | 23 + pedtools-2.2.0/pedtools/R/marker.R | 55 ++ pedtools-2.2.0/pedtools/R/marker_allelematrix.R | 5 pedtools-2.2.0/pedtools/R/marker_attach.R | 34 - pedtools-2.2.0/pedtools/R/marker_database.R | 25 + pedtools-2.2.0/pedtools/R/ped.R | 41 + pedtools-2.2.0/pedtools/R/ped_labels.R |only pedtools-2.2.0/pedtools/R/ped_methods.R | 5 pedtools-2.2.0/pedtools/R/ped_modify.R | 9 pedtools-2.2.0/pedtools/R/ped_plot.R | 67 ++- pedtools-2.2.0/pedtools/R/ped_sex.R |only pedtools-2.2.0/pedtools/R/ped_utils.R | 95 +++- pedtools-2.2.0/pedtools/R/pedtools-package.R | 23 - pedtools-2.2.0/pedtools/R/plot_dag.R | 36 - pedtools-2.2.0/pedtools/R/plot_internal.R | 206 ++++++---- pedtools-2.2.0/pedtools/R/randomPed.R | 76 +++ pedtools-2.2.0/pedtools/R/setMutmod.R |only pedtools-2.2.0/pedtools/build/vignette.rds |binary pedtools-2.2.0/pedtools/inst/doc/pedtools.html | 6 pedtools-2.2.0/pedtools/man/famid.Rd | 2 pedtools-2.2.0/pedtools/man/freqDatabase.Rd | 10 pedtools-2.2.0/pedtools/man/getSex.Rd | 23 - pedtools-2.2.0/pedtools/man/internalplot.Rd | 45 +- pedtools-2.2.0/pedtools/man/marker.Rd | 23 - pedtools-2.2.0/pedtools/man/ped_modify.Rd | 6 pedtools-2.2.0/pedtools/man/ped_utils.Rd | 29 - pedtools-2.2.0/pedtools/man/pedtools-package.Rd |only pedtools-2.2.0/pedtools/man/plot.ped.Rd | 14 pedtools-2.2.0/pedtools/man/plotPedList.Rd | 42 -- pedtools-2.2.0/pedtools/man/randomPed.Rd | 30 + pedtools-2.2.0/pedtools/man/relabel.Rd | 2 pedtools-2.2.0/pedtools/man/setMutmod.Rd |only pedtools-2.2.0/pedtools/man/validatePed.Rd | 29 + pedtools-2.2.0/pedtools/tests/testthat/test-marker-attach.R | 12 pedtools-2.2.0/pedtools/tests/testthat/test-ped-modifications.R | 5 pedtools-2.2.0/pedtools/tests/testthat/test-ped-write.R | 12 41 files changed, 748 insertions(+), 328 deletions(-)
Title: Model-Free Functional Chi-Squared and Exact Tests
Description: Statistical hypothesis testing methods for
inferring model-free functional dependency using asymptotic
chi-squared or exact distributions. Functional test
statistics are asymmetric and functionally optimal, unique
from other related statistics. Tests in this package reveal
evidence for causality based on the causality-by-
functionality principle. They include asymptotic functional
chi-squared tests (Zhang & Song 2013) <arXiv:1311.2707>,
an adapted functional chi-squared test (Kumar & Song 2022)
<doi:10.1093/bioinformatics/btac206>,
and an exact functional test (Zhong & Song 2019)
<doi:10.1109/TCBB.2018.2809743> (Nguyen et al. 2020)
<doi:10.24963/ijcai.2020/372>. The normalized functional
chi-squared test was used by Best Performer 'NMSUSongLab'
in HPN-DREAM (DREAM8) Breast Cancer Network Inference
Challenges (Hill et al. 2016) <doi:10.1038/nmeth.3773>. A
function index (Zhong & Song 2019)
<doi:10.1186/s12920-019-0565-9> (Kumar et al. [...truncated...]
Author: Yang Zhang [aut],
Hua Zhong [aut] ,
Hien Nguyen [aut] ,
Ruby Sharma [aut] ,
Sajal Kumar [aut] ,
Yiyi Li [aut],
Joe Song [aut, cre]
Maintainer: Joe Song <joemsong@cs.nmsu.edu>
Diff between FunChisq versions 2.5.2 dated 2021-05-19 and 2.5.3 dated 2023-05-25
FunChisq-2.5.2/FunChisq/NEWS |only FunChisq-2.5.2/FunChisq/src/Makevars |only FunChisq-2.5.2/FunChisq/src/Makevars.win |only FunChisq-2.5.3/FunChisq/DESCRIPTION | 40 - FunChisq-2.5.3/FunChisq/MD5 | 40 - FunChisq-2.5.3/FunChisq/NEWS.md |only FunChisq-2.5.3/FunChisq/R/AdpFunChisq.R | 2 FunChisq-2.5.3/FunChisq/R/CondFunChisq.R | 39 - FunChisq-2.5.3/FunChisq/R/simulate_tables.R | 75 +- FunChisq-2.5.3/FunChisq/README.md | 16 FunChisq-2.5.3/FunChisq/build/partial.rdb |binary FunChisq-2.5.3/FunChisq/build/vignette.rds |binary FunChisq-2.5.3/FunChisq/inst/CITATION | 14 FunChisq-2.5.3/FunChisq/inst/REFERENCES.bib | 12 FunChisq-2.5.3/FunChisq/inst/doc/adapted.fun.chisq.test.html | 384 ++++++++--- FunChisq-2.5.3/FunChisq/inst/doc/exact.fun.test.html | 360 ++++++++-- FunChisq-2.5.3/FunChisq/inst/doc/fun.chisq.test.html | 263 +++++++ FunChisq-2.5.3/FunChisq/inst/doc/patterns.html | 351 ++++++++-- FunChisq-2.5.3/FunChisq/man/FunChisq-package.Rd | 6 FunChisq-2.5.3/FunChisq/man/fun.chisq.test.Rd | 2 FunChisq-2.5.3/FunChisq/man/simulate_tables.Rd | 8 FunChisq-2.5.3/FunChisq/src/RcppExports.cpp | 5 FunChisq-2.5.3/FunChisq/tests/testthat/test_simulate.R | 35 - 23 files changed, 1313 insertions(+), 339 deletions(-)
Title: Joint Clustering and Alignment of Functional Data
Description: Implementations of the k-means, hierarchical agglomerative and
DBSCAN clustering methods for functional data which allows for jointly
aligning and clustering curves. It supports functional data defined on
one-dimensional domains but possibly evaluating in multivariate codomains.
It supports functional data defined in arrays but also via the 'fd' and
'funData' classes for functional data defined in the 'fda' and 'funData'
packages respectively. It currently supports shift, dilation and affine
warping functions for functional data defined on the real line and uses the
SRSF framework to handle boundary-preserving warping for functional data
defined on a specific interval. Main reference for the k-means algorithm:
Sangalli L.M., Secchi P., Vantini S., Vitelli V. (2010) "k-mean alignment
for curve clustering" <doi:10.1016/j.csda.2009.12.008>. Main reference for
the SRSF framework: Tucker, J. D., Wu, W., & Srivastava, A. (2013)
"Generative models for functional data using phase and [...truncated...]
Author: Aymeric Stamm [aut, cre] ,
Laura Sangalli [ctb],
Piercesare Secchi [ctb],
Simone Vantini [ctb],
Valeria Vitelli [ctb],
Alessandro Zito [ctb]
Maintainer: Aymeric Stamm <aymeric.stamm@cnrs.fr>
Diff between fdacluster versions 0.2.1 dated 2023-05-19 and 0.2.2 dated 2023-05-25
DESCRIPTION | 13 ++++++------- MD5 | 18 +++++++++--------- NAMESPACE | 2 +- NEWS.md | 5 +++++ R/caps-class.R | 2 +- R/fdacluster-package.R | 14 +++++--------- R/fdakmeans.R | 44 +++++++++++++++++++++++--------------------- R/utils.R | 4 ++-- man/caps.Rd | 2 +- src/kmap.h | 5 +++++ 10 files changed, 58 insertions(+), 51 deletions(-)
Title: Bayesian Non- And Semi-Parametric Model Fitting
Description: MCMC algorithms & processing functions for: 1. single response multiple regression, see Papageorgiou, G. (2018) <doi: 10.32614/RJ-2018-069>, 2. multivariate response multiple regression, with nonparametric models for the means, the variances and the correlation matrix, with variable selection, see Papageorgiou, G. and Marshall, B. C. (2020) <doi: 10.1080/10618600.2020.1739534>, 3. joint mean-covariance models for multivariate responses, see Papageorgiou, G. (2022) <doi: 10.1002/sim.9376>, and 4.Dirichlet process mixtures, see Papageorgiou, G. (2019) <doi: 10.1111/anzs.12273>.
Author: Georgios Papageorgiou
Maintainer: Georgios Papageorgiou <gpapageo@gmail.com>
Diff between BNSP versions 2.2.2 dated 2023-03-26 and 2.2.3 dated 2023-05-25
BNSP-2.2.2/BNSP/R/bnpMulti.R |only BNSP-2.2.2/BNSP/R/test.R |only BNSP-2.2.3/BNSP/DESCRIPTION | 8 BNSP-2.2.3/BNSP/MD5 | 35 BNSP-2.2.3/BNSP/R/basics.R |only BNSP-2.2.3/BNSP/R/mvrm.R | 2022 ++++++++++++++++++++++++++++------ BNSP-2.2.3/BNSP/R/plot.R | 103 - BNSP-2.2.3/BNSP/man/BNSP-package.Rd | 4 BNSP-2.2.3/BNSP/man/mvrm.Rd | 5 BNSP-2.2.3/BNSP/man/predict.mvrm.Rd | 8 BNSP-2.2.3/BNSP/man/sinusoid.Rd | 12 BNSP-2.2.3/BNSP/src/BNSP_init.c | 4 BNSP-2.2.3/BNSP/src/LongMult.c | 6 BNSP-2.2.3/BNSP/src/MultGT.c | 4 BNSP-2.2.3/BNSP/src/MultGVT.c | 5 BNSP-2.2.3/BNSP/src/MultT.c | 15 BNSP-2.2.3/BNSP/src/Univariate.c | 361 ++++-- BNSP-2.2.3/BNSP/src/other.functions.h | 85 + BNSP-2.2.3/BNSP/src/sampling.h | 19 BNSP-2.2.3/BNSP/src/spec.BCM.h | 2 20 files changed, 2155 insertions(+), 543 deletions(-)
Title: A Collection of Utilities
Description: This is a new version of the 'userfriendlyscience' package,
which has grown a bit unwieldy. Therefore, distinct functionalities
are being 'consciously uncoupled' into different packages. This package
contains the general-purpose tools and utilities (see the
'behaviorchange' package, the 'rosetta' package, and the
soon-to-be-released 'scd' package for other functionality), and
is the most direct 'successor' of the original 'userfriendlyscience' package.
For example, this package contains a number of basic functions to create
higher level plots, such as diamond plots, to easily plot sampling
distributions, to generate confidence intervals, to plan study sample sizes
for confidence intervals, and to do some basic operations such as
(dis)attenuate effect size estimates.
Author: Gjalt-Jorn Peters [aut, cre] ,
Stefan Gruijters [ctb]
Maintainer: Gjalt-Jorn Peters <ufs@opens.science>
Diff between ufs versions 0.5.2 dated 2021-11-13 and 0.5.6 dated 2023-05-25
DESCRIPTION | 22 - MD5 | 233 +++++++++-------- NAMESPACE | 8 R/CIM.R | 13 R/diamondPlot.R | 2 R/getData.R | 8 R/ggSave.R | 39 ++ R/opts.R | 2 R/pCurve_from_d.R |only R/parallelSubscales.R |only R/scaleStructure.R | 68 +++-- R/suspectParticipants.R | 2 R/testRetestAlpha.R |only R/testRetestCES.R |only R/testRetestReliability.R |only build/partial.rdb |binary inst/CITATION | 14 - man/A_VarghaDelaney.Rd | 72 ++--- man/BAC_plot.Rd | 164 ++++++------ man/areColors.Rd | 60 ++-- man/arr.Rd | 98 +++---- man/associationMatrix.Rd | 334 ++++++++++++------------- man/associationMatrixHelperFunctions.Rd | 204 +++++++-------- man/associationsDiamondPlot.Rd | 314 +++++++++++------------ man/attenuate.d.Rd | 64 ++-- man/attenuate.r.Rd | 44 +-- man/basicDiamondplotFunctions.Rd | 368 +++++++++++++-------------- man/bfi-data.Rd | 44 +-- man/biAxisDiamondPlot.Rd | 294 +++++++++++----------- man/carelessObject.Rd | 86 +++--- man/carelessReport.Rd | 154 +++++------ man/cat0.Rd | 46 +-- man/checkDataIntegrity.Rd | 206 +++++++-------- man/checkPkgs.Rd | 108 ++++---- man/cohensDdistribution.Rd | 410 +++++++++++++++--------------- man/comparisonDiamondPlots.Rd | 426 ++++++++++++++++---------------- man/confIntOmegaSq.Rd | 116 ++++---- man/confIntProp.Rd | 112 ++++---- man/confIntR.Rd | 152 +++++------ man/confintdjmv.Rd | 50 +-- man/confintrjmv.Rd | 50 +-- man/convert.Rd | 240 +++++++++--------- man/convert.d.to.U3.Rd | 42 +-- man/convertToNumeric.Rd | 46 +-- man/cramersV.Rd | 128 ++++----- man/descriptives.Rd | 6 man/diamondPlot.Rd | 240 +++++++++--------- man/disattenuate.d.Rd | 66 ++-- man/disattenuate.r.Rd | 44 +-- man/escapeRegex.Rd | 110 ++++---- man/exceptionalScore.Rd | 124 ++++----- man/exceptionalScores.Rd | 126 ++++----- man/exportToHTML.Rd | 74 ++--- man/extractVarName.Rd | 64 ++-- man/fa_failsafe.Rd | 66 ++-- man/factorLoadingHeatmap.Rd | 214 ++++++++-------- man/findShortestInterval.Rd | 58 ++-- man/formatCI.Rd | 94 +++---- man/formatPvalue.Rd | 78 ++--- man/formatR.Rd | 50 +-- man/getData.Rd | 188 ++++++-------- man/ggBarChart.Rd | 70 ++--- man/ggBoxplot.Rd | 136 +++++----- man/ggEasyPlots.Rd | 214 ++++++++-------- man/ggPie.Rd | 60 ++-- man/ggProportionPlot.Rd | 390 ++++++++++++++--------------- man/ggSave.Rd | 109 ++++---- man/ggqq.Rd | 176 ++++++------- man/heading.Rd | 70 ++--- man/ifelseObj.Rd | 52 +-- man/invertingItems.Rd | 96 +++---- man/iqrOutlier.Rd | 70 ++--- man/irpplot.Rd | 100 +++---- man/is.nr.Rd | 48 +-- man/isTrue.Rd | 50 +-- man/itemScaleColours.Rd | 62 ++-- man/knitAndSave.Rd | 94 +++---- man/knitFig.Rd | 132 ++++----- man/makeScales.Rd | 62 ++-- man/massConvertToNumeric.Rd | 90 +++--- man/meanConfInt.Rd | 88 +++--- man/meanSDtoDiamondPlot.Rd | 236 ++++++++--------- man/meansDiamondPlot.Rd | 276 ++++++++++---------- man/meansDiamondPlotjmv.Rd | 54 ++-- man/multiResponse.Rd | 112 ++++---- man/multiResponsejmv.Rd | 60 ++-- man/multiVarFreq.Rd | 86 +++--- man/nncConversion.Rd | 180 ++++++------- man/noZero.Rd | 46 +-- man/normalHist.Rd | 204 +++++++-------- man/normalityAssessment.Rd | 414 +++++++++++++++---------------- man/omegasq.Rd | 148 +++++------ man/opts.Rd | 124 ++++----- man/parallelSubscales.Rd |only man/pwr.bootES.Rd | 122 ++++----- man/pwr.confIntProp.Rd | 70 ++--- man/pwr.confIntR.Rd | 128 ++++----- man/pwr.omegasq.Rd | 144 +++++----- man/qVec.Rd | 50 +-- man/quietRemotesInstall.Rd | 102 +++---- man/rbind_df_list.Rd | 40 +-- man/rbind_dfs.Rd | 48 +-- man/regrInfluential.Rd | 100 +++---- man/repeatStr.Rd | 54 ++-- man/report.Rd | 54 ++-- man/scaleStructure.Rd | 11 man/sharedSubString.Rd | 66 ++-- man/simDataSet.Rd | 288 ++++++++++----------- man/spearmanBrown.Rd | 68 ++--- man/strToFilename.Rd | 44 +-- man/suspectParticipants.Rd | 76 ++--- man/testRetestAlpha.Rd |only man/testRetestCES.Rd |only man/testRetestReliability.Rd |only man/testRetestSimData.Rd | 106 +++---- man/vecTxt.Rd | 124 ++++----- man/viridisPalette.Rd | 34 +- man/wrapVector.Rd | 70 ++--- man/zotero_construct_export_call.Rd | 80 +++--- man/zotero_download_and_export_items.Rd | 78 ++--- man/zotero_get_all_items.Rd | 44 +-- man/zotero_nr_of_items.Rd | 40 +-- 122 files changed, 6337 insertions(+), 6258 deletions(-)
Title: Executes 'SQL' Statements
Description: Runs 'SQL' statements on in-memory data frames within a temporary in-memory 'duckdb' data base.
Author: Jean-Luc Lipatz [aut, cre, cph]
Maintainer: Jean-Luc Lipatz <jllipatz@protonmail.com>
Diff between SQL versions 0.1.0 dated 2023-04-27 and 0.1.1 dated 2023-05-25
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/tables.R | 9 +++++++-- 3 files changed, 12 insertions(+), 7 deletions(-)
Title: The Online Regularized K-Means Clustering Algorithm
Description: Algorithm of online regularized k-means to deal with online multi(single) view data.
The philosophy of the package is described in Guo G. (2020)
<doi:10.1080/02331888.2020.1823979>.
Author: Guangbao Guo [aut, cre] ,
Miao Yu [aut],
Haoyue Song [aut],
Ruiling Niu [aut]
Maintainer: Guangbao Guo <ggb11111111@163.com>
Diff between ORKM versions 0.6.0.0 dated 2023-05-06 and 0.7.0.0 dated 2023-05-25
ORKM-0.6.0.0/ORKM/data/QCMX.rda |only ORKM-0.6.0.0/ORKM/data/seedX.rda |only ORKM-0.6.0.0/ORKM/man/QCMX.Rd |only ORKM-0.6.0.0/ORKM/man/seedX.Rd |only ORKM-0.7.0.0/ORKM/DESCRIPTION | 8 +- ORKM-0.7.0.0/ORKM/MD5 | 68 +++++++++++++++++++------ ORKM-0.7.0.0/ORKM/NAMESPACE | 2 ORKM-0.7.0.0/ORKM/data/QCM.rda |only ORKM-0.7.0.0/ORKM/data/Washington_cites.rda |only ORKM-0.7.0.0/ORKM/data/Washington_content.rda |only ORKM-0.7.0.0/ORKM/data/Washington_inbound.rda |only ORKM-0.7.0.0/ORKM/data/Washington_outbound.rda |only ORKM-0.7.0.0/ORKM/data/Wisconsin_cites.rda |only ORKM-0.7.0.0/ORKM/data/Wisconsin_content.rda |only ORKM-0.7.0.0/ORKM/data/Wisconsin_inbound.rda |only ORKM-0.7.0.0/ORKM/data/Wisconsin_outbound.rda |only ORKM-0.7.0.0/ORKM/data/cornell_cites.rda |only ORKM-0.7.0.0/ORKM/data/cornell_content.rda |only ORKM-0.7.0.0/ORKM/data/cornell_inbound.rda |only ORKM-0.7.0.0/ORKM/data/cornell_outbound.rda |only ORKM-0.7.0.0/ORKM/data/labelTexas.rda |only ORKM-0.7.0.0/ORKM/data/labelWashington.rda |only ORKM-0.7.0.0/ORKM/data/labelWisconsin.rda |only ORKM-0.7.0.0/ORKM/data/labelcornell.rda |only ORKM-0.7.0.0/ORKM/data/seed.rda |only ORKM-0.7.0.0/ORKM/data/texas_cites.rda |only ORKM-0.7.0.0/ORKM/data/texas_content.rda |only ORKM-0.7.0.0/ORKM/data/texas_inbound.rda |only ORKM-0.7.0.0/ORKM/data/texas_outbound.rda |only ORKM-0.7.0.0/ORKM/man/QCM.Rd |only ORKM-0.7.0.0/ORKM/man/Washington_cites.Rd |only ORKM-0.7.0.0/ORKM/man/Washington_content.Rd |only ORKM-0.7.0.0/ORKM/man/Washington_inbound.Rd |only ORKM-0.7.0.0/ORKM/man/Washington_outbound.Rd |only ORKM-0.7.0.0/ORKM/man/Wisconsin_cites.Rd |only ORKM-0.7.0.0/ORKM/man/Wisconsin_content.Rd |only ORKM-0.7.0.0/ORKM/man/Wisconsin_inbound.Rd |only ORKM-0.7.0.0/ORKM/man/Wisconsin_outbound.Rd |only ORKM-0.7.0.0/ORKM/man/cora_view1.Rd | 4 - ORKM-0.7.0.0/ORKM/man/cora_view2.Rd | 6 +- ORKM-0.7.0.0/ORKM/man/cora_view3.Rd | 6 +- ORKM-0.7.0.0/ORKM/man/cora_view4.Rd | 6 +- ORKM-0.7.0.0/ORKM/man/cornell_cites.Rd |only ORKM-0.7.0.0/ORKM/man/cornell_content.Rd |only ORKM-0.7.0.0/ORKM/man/cornell_inbound.Rd |only ORKM-0.7.0.0/ORKM/man/cornell_outbound.Rd |only ORKM-0.7.0.0/ORKM/man/labelTexas.Rd |only ORKM-0.7.0.0/ORKM/man/labelWashington.Rd |only ORKM-0.7.0.0/ORKM/man/labelWisconsin.Rd |only ORKM-0.7.0.0/ORKM/man/labelcornell.Rd |only ORKM-0.7.0.0/ORKM/man/movie_1.Rd | 4 - ORKM-0.7.0.0/ORKM/man/movie_2.Rd | 4 - ORKM-0.7.0.0/ORKM/man/seed.Rd |only ORKM-0.7.0.0/ORKM/man/sobar.Rd | 4 - ORKM-0.7.0.0/ORKM/man/texas_cites.Rd |only ORKM-0.7.0.0/ORKM/man/texas_content.Rd |only ORKM-0.7.0.0/ORKM/man/texas_inbound.Rd |only ORKM-0.7.0.0/ORKM/man/texas_outbound.Rd |only ORKM-0.7.0.0/ORKM/man/turelabel.Rd | 2 59 files changed, 77 insertions(+), 37 deletions(-)
Title: A General-Purpose Package for Dynamic Report Generation in R
Description: Provides a general-purpose tool for dynamic report generation in R
using Literate Programming techniques.
Author: Yihui Xie [aut, cre] ,
Abhraneel Sarma [ctb],
Adam Vogt [ctb],
Alastair Andrew [ctb],
Alex Zvoleff [ctb],
Amar Al-Zubaidi [ctb],
Andre Simon [ctb] ,
Aron Atkins [ctb],
Aaron Wolen [ctb],
Ashley Manton [ctb],
Atsushi Yasumoto [ctb] ,
Ben Baumer [ctb], [...truncated...]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between knitr versions 1.42 dated 2023-01-25 and 1.43 dated 2023-05-25
DESCRIPTION | 29 +++-- MD5 | 60 +++++------ R/block.R | 24 ++-- R/cache.R | 2 R/citation.R | 1 R/engine.R | 12 +- R/hooks-md.R | 1 R/output.R | 69 ++++++++++--- R/parser.R | 5 R/plot.R | 6 - R/table.R | 16 +-- R/utils-rd2html.R | 2 R/utils-upload.R | 40 ++++--- R/utils.R | 88 ++++++++++++----- build/vignette.rds |binary inst/CITATION | 18 +-- inst/doc/datatables.html | 162 +++++++++++++++++++------------ inst/doc/docco-classic.html | 88 +++++++++++++++-- inst/doc/docco-linear.html | 20 +-- inst/doc/knit_expand.html | 166 ++++++++++++++++++++------------ inst/doc/knit_print.html | 210 ++++++++++++++++++++--------------------- inst/doc/knitr-intro.html | 24 ++-- inst/doc/knitr-markdown.html | 172 ++++++++++++++++++++------------- inst/doc/knitr-refcard.pdf |binary inst/misc/gWidgetsWWW2-knitr.R | 2 inst/opencpu/apps/index.html | 2 inst/shiny/server.R | 2 man/imgur_upload.Rd | 17 ++- man/kable.Rd | 10 - tests/testit/test-hooks-md.R | 4 tests/testit/test-utils.R | 14 +- 31 files changed, 773 insertions(+), 493 deletions(-)
Title: Evaluating the Quality of Natural Forest
Description: Including tree height classification, tree height model establishment, sectional area growth and stock growth modeling, and calculation of actual and potential forest productivity.
Author: Liyong Fu [aut],
Shirong Liu [aut],
Shouzheng Tang [aut],
Guangshuang Duan [aut],
Zhong Wang [aut],
Linyan Feng [aut],
Dongbo Xie [aut],
Yuanyuan Han [aut, cre]
Maintainer: Yuanyuan Han <jackhanyuan@foxmail.com>
Diff between forestat versions 1.0.0 dated 2023-05-22 and 1.0.1 dated 2023-05-25
DESCRIPTION | 21 +++++++++++++++++---- MD5 | 10 +++++----- NEWS.md | 9 ++++++++- inst/doc/vignette.Rmd | 15 ++++----------- inst/doc/vignette.html | 41 +++++++++++++++++------------------------ vignettes/vignette.Rmd | 15 ++++----------- 6 files changed, 55 insertions(+), 56 deletions(-)
Title: R Bindings to the Calendaring Functionality of 'QuantLib'
Description: 'QuantLib' bindings are provided for R using 'Rcpp' via an evolved version
of the initial header-only 'Quantuccia' project offering an subset of 'QuantLib' (now
maintained separately just for the calendaring subset). See the included file 'AUTHORS'
for a full list of contributors to 'QuantLib' (and hence also 'Quantuccia').
Author: Dirk Eddelbuettel; the authors and contributors of QuantLib
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between qlcal versions 0.0.5 dated 2023-04-20 and 0.0.6 dated 2023-05-25
qlcal-0.0.5/qlcal/src/ql/time/asx.hpp |only qlcal-0.0.5/qlcal/src/ql/time/ecb.hpp |only qlcal-0.0.5/qlcal/src/ql/time/imm.hpp |only qlcal-0.0.6/qlcal/ChangeLog | 52 +++ qlcal-0.0.6/qlcal/DESCRIPTION | 8 qlcal-0.0.6/qlcal/MD5 | 63 ++-- qlcal-0.0.6/qlcal/build/partial.rdb |binary qlcal-0.0.6/qlcal/demo/allUScalendars.R | 2 qlcal-0.0.6/qlcal/inst/NEWS.Rd | 10 qlcal-0.0.6/qlcal/src/Makevars | 1 qlcal-0.0.6/qlcal/src/Makevars.win | 1 qlcal-0.0.6/qlcal/src/ql/errors.cpp | 2 qlcal-0.0.6/qlcal/src/ql/errors.hpp | 18 - qlcal-0.0.6/qlcal/src/ql/optional.cpp |only qlcal-0.0.6/qlcal/src/ql/optional.hpp |only qlcal-0.0.6/qlcal/src/ql/patterns/observable.cpp | 12 qlcal-0.0.6/qlcal/src/ql/patterns/observable.hpp | 229 ++++++++-------- qlcal-0.0.6/qlcal/src/ql/patterns/singleton.hpp | 168 +++-------- qlcal-0.0.6/qlcal/src/ql/settings.hpp | 17 - qlcal-0.0.6/qlcal/src/ql/time/all.hpp | 6 qlcal-0.0.6/qlcal/src/ql/time/calendars/hongkong.cpp | 52 +++ qlcal-0.0.6/qlcal/src/ql/time/calendars/india.cpp | 127 ++++++++ qlcal-0.0.6/qlcal/src/ql/time/calendars/india.hpp | 2 qlcal-0.0.6/qlcal/src/ql/time/calendars/singapore.cpp | 88 ++++++ qlcal-0.0.6/qlcal/src/ql/time/calendars/southafrica.cpp | 2 qlcal-0.0.6/qlcal/src/ql/time/calendars/southkorea.cpp | 3 qlcal-0.0.6/qlcal/src/ql/time/date.cpp | 37 +- qlcal-0.0.6/qlcal/src/ql/time/date.hpp | 30 +- qlcal-0.0.6/qlcal/src/ql/time/period.cpp | 68 +--- qlcal-0.0.6/qlcal/src/ql/time/period.hpp | 8 qlcal-0.0.6/qlcal/src/ql/utilities/dataformatters.hpp | 2 qlcal-0.0.6/qlcal/src/ql/utilities/dataparsers.cpp | 7 qlcal-0.0.6/qlcal/src/ql/utilities/dataparsers.hpp | 12 qlcal-0.0.6/qlcal/src/ql/utilities/null.hpp | 47 +-- qlcal-0.0.6/qlcal/src/ql/utilities/observablevalue.hpp | 16 + 35 files changed, 697 insertions(+), 393 deletions(-)
Title: Fits Multivariate Spatio-Temporal Occupancy Model
Description: Spatio-temporal multivariate occupancy models can handle multiple species in occupancy models. This method for fitting such models is described in Hepler and Erhardt (2021) "A spatiotemporal model for multivariate occupancy data" <https://onlinelibrary.wiley.com/doi/abs/10.1002/env.2657>.
Author: Staci Hepler [aut, cre],
Rob Erhardt [aut]
Maintainer: Staci Hepler <heplersa@wfu.edu>
Diff between multiocc versions 0.1.0 dated 2022-07-15 and 0.2.0 dated 2023-05-25
multiocc-0.1.0/multiocc/R/create.data.R |only multiocc-0.1.0/multiocc/R/data.R |only multiocc-0.1.0/multiocc/R/make.basis.R |only multiocc-0.1.0/multiocc/R/run.mcmc.R |only multiocc-0.1.0/multiocc/data/Example.rda |only multiocc-0.1.0/multiocc/man/create.data.Rd |only multiocc-0.1.0/multiocc/man/make.basis.Rd |only multiocc-0.1.0/multiocc/man/run.mcmc.Rd |only multiocc-0.2.0/multiocc/DESCRIPTION | 17 +++++---- multiocc-0.2.0/multiocc/MD5 | 43 +++++++++++++++--------- multiocc-0.2.0/multiocc/NAMESPACE | 22 ++++++++---- multiocc-0.2.0/multiocc/R/GibbsSampler.R |only multiocc-0.2.0/multiocc/R/MakeBasis.R |only multiocc-0.2.0/multiocc/R/coords.R | 2 - multiocc-0.2.0/multiocc/R/detection.R | 2 - multiocc-0.2.0/multiocc/R/multiocc-package.R |only multiocc-0.2.0/multiocc/R/multioccbuild.R |only multiocc-0.2.0/multiocc/R/occupancy.R | 2 - multiocc-0.2.0/multiocc/build |only multiocc-0.2.0/multiocc/data/coords.rda |only multiocc-0.2.0/multiocc/data/detection.rda |only multiocc-0.2.0/multiocc/data/occupancy.rda |only multiocc-0.2.0/multiocc/inst |only multiocc-0.2.0/multiocc/man/GibbsSampler.Rd |only multiocc-0.2.0/multiocc/man/MakeBasis.Rd |only multiocc-0.2.0/multiocc/man/coords.Rd | 2 - multiocc-0.2.0/multiocc/man/detection.Rd | 2 - multiocc-0.2.0/multiocc/man/multiocc-package.Rd |only multiocc-0.2.0/multiocc/man/multioccbuild.Rd |only multiocc-0.2.0/multiocc/man/occupancy.Rd | 4 +- multiocc-0.2.0/multiocc/tests |only multiocc-0.2.0/multiocc/vignettes |only 32 files changed, 60 insertions(+), 36 deletions(-)
Title: Logistic Knowledge Tracing
Description: Computes Logistic Knowledge Tracing ('LKT') which is a general method for tracking human learning in an educational software system. Please see Pavlik, Eglington, and Harrel-Williams (2021) <https://ieeexplore.ieee.org/document/9616435>. 'LKT' is a method to compute features of student data that are used as predictors of subsequent performance. 'LKT' allows great flexibility in the choice of predictive components and features computed for these predictive components. The system is built on top of 'LiblineaR', which enables extremely fast solutions compared to base glm() in R.
Author: Philip I. Pavlik Jr. [aut, ctb, cre]
,
Luke G. Eglington [aut, ctb]
Maintainer: Philip I. Pavlik Jr. <imrryr@gmail.com>
Diff between LKT versions 1.3.0 dated 2022-10-10 and 1.5.0 dated 2023-05-25
LKT-1.3.0/LKT/man/countOutcome.Rd |only LKT-1.3.0/LKT/vignettes/vigfig-unnamed-chunk-18-1.png |only LKT-1.3.0/LKT/vignettes/vigfig-unnamed-chunk-18-2.png |only LKT-1.3.0/LKT/vignettes/vigfig-unnamed-chunk-18-3.png |only LKT-1.3.0/LKT/vignettes/vigfig-unnamed-chunk-18-4.png |only LKT-1.5.0/LKT/DESCRIPTION | 15 LKT-1.5.0/LKT/MD5 | 55 LKT-1.5.0/LKT/NAMESPACE | 13 LKT-1.5.0/LKT/NEWS.md | 6 LKT-1.5.0/LKT/R/LKTfunctions.R | 1135 ++-- LKT-1.5.0/LKT/R/data.R | 4 LKT-1.5.0/LKT/build/vignette.rds |binary LKT-1.5.0/LKT/data/largerawsample.rda |binary LKT-1.5.0/LKT/inst/doc/Basic_Operations.html | 18 LKT-1.5.0/LKT/inst/doc/Examples.Rmd | 4341 +++++++++++---- LKT-1.5.0/LKT/inst/doc/Examples.html | 4888 ++++++++++++------ LKT-1.5.0/LKT/man/LASSOLKTData.Rd |only LKT-1.5.0/LKT/man/LASSOLKTModel.Rd |only LKT-1.5.0/LKT/man/LKT.Rd | 89 LKT-1.5.0/LKT/man/LKT_HDI.Rd | 4 LKT-1.5.0/LKT/man/buildLKTModel.Rd |only LKT-1.5.0/LKT/man/countOutcomeold.Rd |only LKT-1.5.0/LKT/man/largerawsample.Rd | 2 LKT-1.5.0/LKT/man/samplelkt.Rd | 2 LKT-1.5.0/LKT/vignettes/Examples.Rmd | 4341 +++++++++++---- LKT-1.5.0/LKT/vignettes/Examples.Rmd.orig | 277 - LKT-1.5.0/LKT/vignettes/precompile.R |only LKT-1.5.0/LKT/vignettes/vigfig-unnamed-chunk-14-1.png |binary LKT-1.5.0/LKT/vignettes/vigfig-unnamed-chunk-14-2.png |binary LKT-1.5.0/LKT/vignettes/vigfig-unnamed-chunk-14-3.png |binary LKT-1.5.0/LKT/vignettes/vigfig-unnamed-chunk-20-1.png |only LKT-1.5.0/LKT/vignettes/vigfig-unnamed-chunk-22-1.png |only LKT-1.5.0/LKT/vignettes/vigfig-unnamed-chunk-23-1.png |only LKT-1.5.0/LKT/vignettes/vigfig-unnamed-chunk-24-1.png |only LKT-1.5.0/LKT/vignettes/vigfig-unnamed-chunk-25-1.png |only LKT-1.5.0/LKT/vignettes/vigfig-unnamed-chunk-26-1.png |only LKT-1.5.0/LKT/vignettes/vigfig-unnamed-chunk-27-1.png |only 37 files changed, 10634 insertions(+), 4556 deletions(-)
Title: Multivariate and Functional Spatial Scan Statistics
Description: Allows to detect spatial clusters of abnormal values on multivariate or functional data. Martin KULLDORFF and Lan HUANG and Kevin KONTY (2009) <doi:10.1186/1476-072X-8-58>, Inkyung JUNG and Ho Jin CHO (2015) <doi:10.1186/s12942-015-0024-6>, Lionel CUCALA and Michael GENIN and Caroline LANIER and Florent OCCELLI (2017) <doi:10.1016/j.spasta.2017.06.001>, Lionel CUCALA and Michael GENIN and Florent OCCELLI and Julien SOULA (2019) <doi:10.1016/j.spasta.2018.10.002>, Camille FREVENT and Mohamed-Salem AHMED and Matthieu MARBAC and Michael GENIN (2021) <doi:10.1016/j.spasta.2021.100550>, Zaineb SMIDA and Lionel CUCALA and Ali GANNOUN and Ghislain Durif (2022) <doi:10.1016/j.csda.2021.107378>, Camille FREVENT and Mohamed-Salem AHMED and Sophie DABO-NIANG and Michael GENIN (2023) <doi:10.1093/jrsssc/qlad017>.
Author: Camille FREVENT [aut, cre, cph],
Mohamed-Salem AHMED [aut],
Julien SOULA [aut],
Zaineb SMIDA [aut],
Lionel CUCALA [aut],
Sophie DABO-NIANG [aut],
Michael GENIN [aut]
Maintainer: Camille FREVENT <camille.frevent@univ-lille.fr>
Diff between HDSpatialScan versions 1.0.3 dated 2022-08-05 and 1.0.4 dated 2023-05-25
DESCRIPTION | 10 +++++----- MD5 | 24 ++++++++++++------------ NAMESPACE | 2 +- R/documentation_page.R | 12 ++++++------ R/plot_map.R | 4 ++-- R/scan_fonc.R | 12 ++++++------ man/DFFSS.Rd | 2 +- man/HDSpatialScan-package.Rd | 10 +++++----- man/MDFFSS.Rd | 2 +- man/MPFSS.Rd | 2 +- man/MRBFSS.Rd | 2 +- man/NPFSS.Rd | 2 +- man/PFSS.Rd | 2 +- 13 files changed, 43 insertions(+), 43 deletions(-)
Title: Multiple Fill and Colour Scales in 'ggplot2'
Description: Use multiple fill and colour scales in 'ggplot2'.
Author: Elio Campitelli [cre, aut]
Maintainer: Elio Campitelli <elio.campitelli@cima.fcen.uba.ar>
Diff between ggnewscale versions 0.4.8 dated 2022-10-06 and 0.4.9 dated 2023-05-25
DESCRIPTION | 9 MD5 | 19 - NEWS.md | 6 R/new-scale.R | 12 README.md | 242 ++++++++++++++++---- man/figures/README-unnamed-chunk-3-1.png |binary man/ggnewscale-package.Rd | 8 tests/testthat/Rplots.pdf |binary tests/testthat/_snaps/newscale/implicit-mapping.svg |only tests/testthat/_snaps/newscale/many-layers.svg | 18 - tests/testthat/test-newscale.R | 38 ++- 11 files changed, 279 insertions(+), 73 deletions(-)
Title: Generalized Autoregressive Score Models
Description: Estimation, forecasting, and simulation of generalized
autoregressive score (GAS) models of Creal, Koopman, and Lucas (2013)
<doi:10.1002/jae.1279> and Harvey (2013) <doi:10.1017/cbo9781139540933>.
Model specification allows for various conditional distributions, different
parametrizations, exogenous variables, joint and separate modeling of
exogenous variables and dynamics,higher score and autoregressive orders,
custom and unconditional initial values of time-varying parameters, fixed
and bounded values of coefficients, and missing values. Model estimation is
performed by the maximum likelihood method and the Hessian matrix.
Author: Vladimir Holy [aut, cre]
Maintainer: Vladimir Holy <vladimir.holy@vse.cz>
Diff between gasmodel versions 0.2.0 dated 2023-01-06 and 0.3.0 dated 2023-05-25
DESCRIPTION | 13 MD5 | 129 ++++---- NEWS.md | 13 R/data.R | 26 + R/distr_beta_conc.R |only R/distr_beta_meansize.R |only R/distr_beta_meanvar.R |only R/distr_dirichlet_conc.R |only R/distr_exp_rate.R | 6 R/distr_exp_scale.R | 6 R/distr_gamma_rate.R | 6 R/distr_gamma_scale.R | 6 R/distr_gengamma_rate.R | 2 R/distr_gengamma_scale.R | 4 R/distr_geom_mean.R | 6 R/distr_geom_prob.R | 6 R/distr_laplace_meanscale.R |only R/distr_mvnorm_meanvar.R | 6 R/distr_mvt_meanvar.R | 6 R/distr_negbin_nb2.R | 6 R/distr_negbin_prob.R | 6 R/distr_norm_meanvar.R | 6 R/distr_pluce_worth.R | 390 +++++++++++++------------- R/distr_pois_mean.R | 6 R/distr_skellam_diff.R | 6 R/distr_skellam_meandisp.R | 6 R/distr_skellam_meanvar.R | 6 R/distr_t_meanvar.R | 6 R/distr_vonmises_meanconc.R |only R/distr_weibull_rate.R | 6 R/distr_weibull_scale.R | 6 R/distr_zigeom_mean.R | 8 R/distr_zinegbin_nb2.R | 8 R/distr_zipois_mean.R | 8 R/distr_ziskellam_diff.R | 8 R/distr_ziskellam_meandisp.R | 8 R/distr_ziskellam_meanvar.R | 8 R/helper_check.R | 14 R/helper_likelihood.R | 2 R/helper_matrix.R | 18 - R/helper_setup.R | 32 +- R/helper_silent.R |only R/main_bootstrap.R | 2 R/main_estimate.R | 12 R/main_filter.R | 4 R/main_forecast.R | 2 R/main_simulate.R | 2 R/main_wrappers.R | 6 R/sysdata.rda |binary README.md | 184 ++++++------ build/partial.rdb |binary data/german_car_market_cap.rda |only inst/doc/case_durations.Rmd | 4 inst/doc/case_durations.html | 19 - inst/doc/case_rankings.Rmd | 3 inst/doc/case_rankings.html | 18 - inst/doc/distributions.Rmd | 284 ++++++++++++++++++- inst/doc/distributions.html | 549 +++++++++++++++++++++++++++++++------- man/gas.Rd | 6 man/gas_bootstrap.Rd | 2 man/gas_filter.Rd | 2 man/gas_forecast.Rd | 2 man/gas_simulate.Rd | 2 man/german_car_market_cap.Rd |only man/ice_hockey_championships.Rd | 4 vignettes/case_durations.Rmd | 4 vignettes/case_durations.Rmd.orig | 4 vignettes/case_rankings.Rmd | 3 vignettes/case_rankings.Rmd.orig | 3 vignettes/distributions.Rmd | 284 ++++++++++++++++++- 70 files changed, 1601 insertions(+), 603 deletions(-)
Title: ASCII Formatting for Values and Tables
Description: We provide a framework for rendering complex tables to ASCII,
and a set of formatters for transforming values or sets of values into
ASCII-ready display strings.
Author: Gabriel Becker [aut, cre],
Adrian Waddell [aut],
Davide Garolini [ctb],
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Gabriel Becker <gabembecker@gmail.com>
Diff between formatters versions 0.4.1 dated 2023-04-14 and 0.5.0 dated 2023-05-25
DESCRIPTION | 8 MD5 | 49 +- NAMESPACE | 20 NEWS.md | 19 R/generics.R | 55 ++ R/matrix_form.R | 630 ++++++++++++++++++++++++++--- R/mpf_exporters.R | 216 ++++++++++ R/page_size.R | 53 +- R/pagination.R | 826 +++++++++++++++++++++++++++++++++++---- R/tostring.R | 476 +++++++++++----------- README.md | 6 inst/WORDLIST | 8 inst/doc/formatters.html | 4 man/MatrixPrintForm.Rd | 13 man/MatrixPrintForm_class.Rd |only man/do_forced_paginate.Rd |only man/export_as_rtf.Rd |only man/export_as_txt.Rd |only man/font_lcpi.Rd | 2 man/mpf_accessors.Rd | 29 + man/mpf_to_rtf.Rd | 4 man/num_rep_cols.Rd |only man/page_lcpp.Rd | 6 man/paginate_indices.Rd |only man/ref_df_row.Rd |only man/tostring.Rd | 2 tests/testthat/test-exporters.R | 112 +++++ tests/testthat/test-formatters.R | 2 tests/testthat/test-pagination.R | 207 +++++++-- 29 files changed, 2238 insertions(+), 509 deletions(-)
Title: Load and Analyze Live Data from the COVID-19 Pandemic
Description: Load and analyze updated time series worldwide data of reported cases for the Novel Coronavirus Disease (COVID-19) from different sources, including the Johns Hopkins University Center for Systems Science and Engineering (JHU CSSE) data repository <https://github.com/CSSEGISandData/COVID-19>, "Our World in Data" <https://github.com/owid/> among several others. The datasets reporting the COVID-19 cases are available in two main modalities, as a time series sequences and aggregated data for the last day with greater spatial resolution. Several analysis, visualization and modelling functions are available in the package that will allow the user to compute and visualize total number of cases, total number of changes and growth rate globally or for an specific geographical location, while at the same time generating models using these trends; generate interactive visualizations and generate Susceptible-Infected-Recovered (SIR) model for the disease spread.
Author: Marcelo Ponce [aut, cre], Amit Sandhel [ctb]
Maintainer: Marcelo Ponce <m.ponce@utoronto.ca>
Diff between covid19.analytics versions 2.1.3 dated 2022-08-18 and 2.1.3.1 dated 2023-05-25
DESCRIPTION | 8 ++-- MD5 | 18 +++++----- NEWS | 4 +- R/covid19_print.R | 3 + README.md | 30 ++++++++++++---- inst/CITATION | 6 +-- inst/doc/covid19.analytics.html | 71 +++++++++++++++++++++------------------- man/print.Rd |only man/print.report.Rd | 11 +----- vignettes/man/print.Rd |only vignettes/man/print.report.Rd | 11 +----- 11 files changed, 88 insertions(+), 74 deletions(-)
More information about covid19.analytics at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-03-27 0.0.24
2022-09-20 0.0.22
2021-04-05 0.0.21
2019-05-29 0.0.20
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-05-11 0.1.0
Title: Mining Frequent Sequences
Description: Add-on for arules to handle and mine frequent sequences.
Provides interfaces to the C++ implementation of cSPADE by
Mohammed J. Zaki.
Author: Christian Buchta and Michael Hahsler, with contributions from
Daniel Diaz
Maintainer: Christian Buchta <christian.buchta@wu.ac.at>
Diff between arulesSequences versions 0.2-29 dated 2023-05-18 and 0.2-30 dated 2023-05-25
CHANGELOG | 6 ++++++ DESCRIPTION | 6 +++--- MD5 | 21 ++++++++++++--------- R/04parameter.R | 3 +++ R/05read_write.R | 20 +++++++++++++------- man/SPcontrol-class.Rd | 2 ++ man/cspade.Rd | 7 +++++-- src/TPOSE/getconf.cc | 4 ++++ src/ptree.c | 6 +++--- tests/ptree.Rout.save | 4 ++-- tests/timeout.R |only tests/timeout.Rout.save |only tests/timeout.Rout.windows |only 13 files changed, 53 insertions(+), 26 deletions(-)
More information about arulesSequences at CRAN
Permanent link