Title: Spectral Entropy for Mass Spectrometry Data
Description: Clean the MS/MS spectrum, calculate spectral entropy, unweighted entropy similarity, and entropy similarity for mass spectrometry data. The entropy similarity is a novel similarity measure for MS/MS spectra which outperform the widely used dot product similarity in compound identification. For more details, please refer to the paper: Yuanyue Li et al. (2021) "Spectral entropy outperforms MS/MS dot product similarity for small-molecule compound identification" <doi:10.1038/s41592-021-01331-z>.
Author: Yuanyue Li [aut, cre]
Maintainer: Yuanyue Li <liyuanyue@gmail.com>
Diff between msentropy versions 0.1.3 dated 2023-06-22 and 0.1.4 dated 2023-08-07
DESCRIPTION | 11 ++++++----- MD5 | 9 +++++++-- R/msentropy_similarity.R |only build |only man/msentropy_similarity.Rd |only src/entropy.cpp | 1 + tests |only 7 files changed, 14 insertions(+), 7 deletions(-)
Title: A Batch Process for High Dimensional Imputation
Description: A correlation-based batch process for fast, accurate imputation for
high dimensional missing data problems via chained random forests.
See Waggoner (2023) <doi:10.1007/s00180-023-01325-9> for more on 'hdImpute',
Stekhoven and Bühlmann (2012) <doi:10.1093/bioinformatics/btr597> for more on 'missForest',
and Mayer (2022) <https://github.com/mayer79/missRanger> for more on 'missRanger'.
Author: Philip Waggoner [aut, cre]
Maintainer: Philip Waggoner <philip.waggoner@gmail.com>
Diff between hdImpute versions 0.1.1 dated 2022-04-20 and 0.2.1 dated 2023-08-07
DESCRIPTION | 19 - LICENSE | 2 MD5 | 44 ++-- NAMESPACE | 1 NEWS.md |only R/globals.R | 2 R/hdImpute.R | 13 - R/mad.R |only R/na_checks.R |only R/zzz.R |only README.md | 25 -- build/vignette.rds |binary inst/doc/Getting-Started.R | 3 inst/doc/Getting-Started.Rmd | 17 + inst/doc/Getting-Started.html | 426 ++++++++++++++++++++---------------------- inst/doc/MAD-Evaluation.R |only inst/doc/MAD-Evaluation.Rmd |only inst/doc/MAD-Evaluation.html |only inst/doc/NA-Checking.R |only inst/doc/NA-Checking.Rmd |only inst/doc/NA-Checking.html |only man/check_feature_na.Rd |only man/check_row_na.Rd |only man/feature_cor.Rd | 4 man/hdImpute.Rd | 6 man/impute_batches.Rd | 6 man/mad.Rd |only tests/testthat/test_mad.R |only vignettes/Getting-Started.Rmd | 17 + vignettes/MAD-Evaluation.Rmd |only vignettes/NA-Checking.Rmd |only 31 files changed, 315 insertions(+), 270 deletions(-)
Title: Constrained Regression for Survey Data
Description: Domain mean estimation with monotonicity or block monotone constraints. See Xu X, Meyer MC and Opsomer JD (2021)<doi:10.1016/j.jspi.2021.02.004> for more details.
Author: Xiyue Liao
Maintainer: Xiyue Liao <xliao@sdsu.edu>
Diff between csurvey versions 1.4 dated 2022-08-27 and 1.6 dated 2023-08-07
ChangeLog |only DESCRIPTION | 29 MD5 | 15 NAMESPACE | 44 R/csurvey.R | 7196 ++++++++++++++++++++++++++++--------------------------- data/nhdat.rda |binary man/block.Ord.Rd | 4 man/csvy.Rd | 446 +-- man/nhdat.Rd | 48 9 files changed, 4033 insertions(+), 3749 deletions(-)
Title: Load US Census Boundary and Attribute Data as 'tidyverse' and
'sf'-Ready Data Frames
Description: An integrated R interface to several United States Census Bureau
APIs (<https://www.census.gov/data/developers/data-sets.html>) and the US Census Bureau's
geographic boundary files. Allows R users to return Census and ACS data as
tidyverse-ready data frames, and optionally returns a list-column with feature geometry for mapping
and spatial analysis.
Author: Kyle Walker [aut, cre],
Matt Herman [aut],
Kris Eberwein [ctb]
Maintainer: Kyle Walker <kyle@walker-data.com>
Diff between tidycensus versions 1.4.1 dated 2023-06-03 and 1.4.4 dated 2023-08-07
DESCRIPTION | 8 MD5 | 20 - NEWS.md | 5 R/acs.R | 4 R/census.R | 4 R/estimates.R | 668 +++++++++++++++++++++++++++++++++----------------- R/helpers.R | 3 R/search_variables.R | 41 ++- R/zzz.r | 6 man/get_estimates.Rd | 20 - man/load_variables.Rd | 34 +- 11 files changed, 547 insertions(+), 266 deletions(-)
Title: Reconstruction Set Test
Description: Contains logic for sample-level variable set scoring using randomized reduced rank reconstruction error.
Frost, H. Robert (2023) "Reconstruction Set Test (RESET): a computationally efficient method for
single sample gene set testing based on randomized reduced rank reconstruction error" <doi:10.1101/2023.04.03.535366>.
Author: H. Robert Frost [aut, cre]
Maintainer: H. Robert Frost <rob.frost@dartmouth.edu>
Diff between RESET versions 0.1.0 dated 2023-04-07 and 0.2.0 dated 2023-08-07
DESCRIPTION | 7 - MD5 | 26 +++-- NAMESPACE | 3 NEWS | 10 ++ R/RESET.R | 91 +++++++++++++++++--- R/SeuratWrapperForRESET.R | 56 +++++++++++- build/vignette.rds |binary inst/doc/RESET_PBMC3K_BioCarta_LogNormalization.pdf |binary inst/doc/RESET_pbmc_small.pdf |binary man/ConvertToPerVarScores.Rd |only man/ConvertToPerVarScoresForSeurat.Rd |only man/RESET-package.Rd | 2 man/RESET.Rd | 7 + man/RESETForSeurat.Rd | 10 +- man/RESETViaPCA.Rd | 3 15 files changed, 175 insertions(+), 40 deletions(-)
Title: Inference Tools in Time Series Based on Record Statistics
Description: Statistical tools based on the probabilistic properties of the
record occurrence in a sequence of independent and identically distributed
continuous random variables. In particular, tools to prepare a time series
as well as distribution-free trend and change-point tests and graphical
tools to study the record occurrence. Details about the implemented tools
can be found in Castillo-Mateo et al. (2023a) <doi:10.18637/jss.v106.i05>
and Castillo-Mateo et al. (2023b) <doi:10.1016/j.atmosres.2023.106934>.
Author: Jorge Castillo-Mateo [aut, cre, cph]
,
Ana C. Cebrian [ths] ,
Jesus Asin [ths]
Maintainer: Jorge Castillo-Mateo <jorgecastillomateo@gmail.com>
Diff between RecordTest versions 2.1.2 dated 2023-03-15 and 2.2.0 dated 2023-08-07
RecordTest-2.1.2/RecordTest/man/figures |only RecordTest-2.2.0/RecordTest/DESCRIPTION | 11 RecordTest-2.2.0/RecordTest/MD5 | 147 ++-- RecordTest-2.2.0/RecordTest/NAMESPACE | 7 RecordTest-2.2.0/RecordTest/R/I.record.R | 15 RecordTest-2.2.0/RecordTest/R/L.plot.R | 9 RecordTest-2.2.0/RecordTest/R/L.record.R | 15 RecordTest-2.2.0/RecordTest/R/MonteCarlo.R | 26 RecordTest-2.2.0/RecordTest/R/N.plot.R | 12 RecordTest-2.2.0/RecordTest/R/N.record.R | 9 RecordTest-2.2.0/RecordTest/R/N.test.R | 95 ++- RecordTest-2.2.0/RecordTest/R/Olympic_records_200m.R | 4 RecordTest-2.2.0/RecordTest/R/R.record.R | 15 RecordTest-2.2.0/RecordTest/R/RecordTest.R | 56 + RecordTest-2.2.0/RecordTest/R/TX_Zaragoza-data.R | 11 RecordTest-2.2.0/RecordTest/R/ZaragozaSeries-data.R | 3 RecordTest-2.2.0/RecordTest/R/brown.method.R | 13 RecordTest-2.2.0/RecordTest/R/change.point.R | 123 ++- RecordTest-2.2.0/RecordTest/R/fisher.method.R | 3 RecordTest-2.2.0/RecordTest/R/foster.plot.R | 15 RecordTest-2.2.0/RecordTest/R/foster.test.R | 526 +++++++++------- RecordTest-2.2.0/RecordTest/R/global.test.R | 5 RecordTest-2.2.0/RecordTest/R/lr.test.R | 7 RecordTest-2.2.0/RecordTest/R/p.chisq.test.R | 12 RecordTest-2.2.0/RecordTest/R/p.plot.R | 15 RecordTest-2.2.0/RecordTest/R/p.record.R | 11 RecordTest-2.2.0/RecordTest/R/p.regression.test.R | 18 RecordTest-2.2.0/RecordTest/R/poisbinom.R | 7 RecordTest-2.2.0/RecordTest/R/rcrm.R | 6 RecordTest-2.2.0/RecordTest/R/records.R | 10 RecordTest-2.2.0/RecordTest/R/score.test.R | 11 RecordTest-2.2.0/RecordTest/R/series_double.R | 5 RecordTest-2.2.0/RecordTest/R/series_record.R | 8 RecordTest-2.2.0/RecordTest/R/series_rev.R | 3 RecordTest-2.2.0/RecordTest/R/series_split.R | 10 RecordTest-2.2.0/RecordTest/R/series_ties.R | 15 RecordTest-2.2.0/RecordTest/R/series_uncor.R | 11 RecordTest-2.2.0/RecordTest/R/series_untie.R | 14 RecordTest-2.2.0/RecordTest/README.md | 51 + RecordTest-2.2.0/RecordTest/build/partial.rdb |binary RecordTest-2.2.0/RecordTest/build/vignette.rds |binary RecordTest-2.2.0/RecordTest/inst/CITATION | 3 RecordTest-2.2.0/RecordTest/inst/NEWS.Rd | 21 RecordTest-2.2.0/RecordTest/inst/doc/RecordTest.R | 5 RecordTest-2.2.0/RecordTest/inst/doc/RecordTest.Rmd | 7 RecordTest-2.2.0/RecordTest/inst/doc/RecordTest.html | 570 +++++++++--------- RecordTest-2.2.0/RecordTest/inst/img |only RecordTest-2.2.0/RecordTest/inst/scripts |only RecordTest-2.2.0/RecordTest/man/I.record.Rd | 1 RecordTest-2.2.0/RecordTest/man/L.plot.Rd | 1 RecordTest-2.2.0/RecordTest/man/L.record.Rd | 9 RecordTest-2.2.0/RecordTest/man/N.plot.Rd | 2 RecordTest-2.2.0/RecordTest/man/N.record.Rd | 1 RecordTest-2.2.0/RecordTest/man/N.test.Rd | 43 + RecordTest-2.2.0/RecordTest/man/R.record.Rd | 9 RecordTest-2.2.0/RecordTest/man/RecordTest-package.Rd | 52 - RecordTest-2.2.0/RecordTest/man/TX_Zaragoza.Rd | 1 RecordTest-2.2.0/RecordTest/man/brown.method.Rd | 8 RecordTest-2.2.0/RecordTest/man/change.point.Rd | 63 + RecordTest-2.2.0/RecordTest/man/dpoisbinom.Rd | 1 RecordTest-2.2.0/RecordTest/man/fisher.method.Rd | 3 RecordTest-2.2.0/RecordTest/man/foster.plot.Rd | 9 RecordTest-2.2.0/RecordTest/man/foster.test.Rd | 59 + RecordTest-2.2.0/RecordTest/man/lr.test.Rd | 2 RecordTest-2.2.0/RecordTest/man/p.chisq.test.Rd | 6 RecordTest-2.2.0/RecordTest/man/p.plot.Rd | 10 RecordTest-2.2.0/RecordTest/man/p.record.Rd | 4 RecordTest-2.2.0/RecordTest/man/p.regression.test.Rd | 6 RecordTest-2.2.0/RecordTest/man/rcrm.Rd | 1 RecordTest-2.2.0/RecordTest/man/score.test.Rd | 4 RecordTest-2.2.0/RecordTest/man/series_split.Rd | 4 RecordTest-2.2.0/RecordTest/man/series_ties.Rd | 3 RecordTest-2.2.0/RecordTest/man/series_uncor.Rd | 4 RecordTest-2.2.0/RecordTest/man/series_untie.Rd | 1 RecordTest-2.2.0/RecordTest/vignettes/RecordTest.Rmd | 7 75 files changed, 1376 insertions(+), 878 deletions(-)
Title: 'NoSQL' Database Connector
Description: Simplified document database access and manipulation,
providing a common API across supported 'NoSQL' databases
'Elasticsearch', 'CouchDB', 'MongoDB' as well as
'SQLite/JSON1', 'PostgreSQL', and 'DuckDB'.
Author: Ralf Herold [aut, cre] ,
Scott Chamberlain [aut] ,
Rich FitzJohn [aut],
Jeroen Ooms [aut]
Maintainer: Ralf Herold <ralf.herold@mailbox.org>
Diff between nodbi versions 0.9.5 dated 2023-05-26 and 0.9.6 dated 2023-08-07
DESCRIPTION | 10 +- MD5 | 72 +++++++++--------- NEWS.md | 173 +++++++++++++++++++------------------------- R/create.R | 47 +++++------ R/delete.R | 21 ++--- R/exists.R | 4 - R/get.R | 52 +++++-------- R/list.R | 7 - R/nodbi-package.R | 6 - R/query.R | 121 +++++++++++++++++------------- R/src.R | 4 - R/src_couchdb.R | 12 ++- R/src_duckdb.R | 12 ++- R/src_elasticsearch.R | 14 ++- R/src_mongo.R | 10 ++ R/src_postgres.R | 18 ++++ R/src_sqlite.R | 12 ++- R/update.R | 29 ++++--- man/contacts.Rd | 4 - man/diamonds.Rd | 4 - man/docdb_create.Rd | 36 +++++---- man/docdb_delete.Rd | 29 +++---- man/docdb_exists.Rd | 13 ++- man/docdb_get.Rd | 15 ++- man/docdb_list.Rd | 9 -- man/docdb_query.Rd | 30 ++++--- man/docdb_update.Rd | 42 +++++----- man/mapdata.Rd | 4 - man/src.Rd | 4 - man/src_couchdb.Rd | 13 ++- man/src_duckdb.Rd | 13 +++ man/src_elastic.Rd | 15 +++ man/src_mongo.Rd | 11 ++ man/src_postgres.Rd | 19 ++++ man/src_sqlite.Rd | 13 +++ tests/testthat/core-nodbi.R | 14 +-- tests/testthat/helper.R | 9 ++ 37 files changed, 524 insertions(+), 397 deletions(-)
Title: General Smoothing Splines
Description: A comprehensive package for structural multivariate
function estimation using smoothing splines.
Author: Chong Gu <chong@purdue.edu>
Maintainer: Chong Gu <chong@purdue.edu>
Diff between gss versions 2.2-5 dated 2023-06-18 and 2.2-6 dated 2023-08-07
ChangeLog | 8 ++++++++ DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ man/mkterm.copu.Rd | 2 +- src/dchdc0.f | 2 +- src/dcoef.f | 4 ++-- src/dmudr1.f | 8 ++++---- src/gaussq.f | 51 ++++++++++++++++++++++++++++++++------------------- src/ratfor/dcoef.r | 2 +- src/ratfor/dmudr1.r | 4 ++-- src/ratfor/reg.r | 4 ++-- src/reg.f | 6 +++--- src/smolyak.c | 5 +++-- 13 files changed, 75 insertions(+), 53 deletions(-)
Title: Procedures for Gaussian and Non Gaussian Geostatistical (Large)
Data Analysis
Description: Functions for Gaussian and Non Gaussian (bivariate) spatial and spatio-temporal data analysis are provided for a) simulation and inference for random fields using standard likelihood and a likelihood approximation method called weighted composite likelihood based on pairs and b) prediction using (local) best linear unbiased prediction. Weighted composite likelihood can be very efficient for estimating massive datasets. Both regression and spatial (temporal) dependence analysis can be jointly performed. Covariance functions for spatial and spatial-temporal data on Euclidean domains and spheres are provided. There are also many useful functions for plotting and performing diagnostic analysis. Different non Gaussian random fields can be considered in the analysis. Among them, random fields with marginal distributions such as Skew-Gaussian, Student-t, Tukey-h, Sin-Arcsin, Two-piece, Weibull, Gamma, Log-Gaussian, Binomial, Negative Binomial and Poisson. See the URL for the papers associ [...truncated...]
Author: Moreno Bevilacqua [aut, cre] ,
Victor Morales-Onate [aut] ,
Christian Caamano-Carrillo [aut]
Maintainer: Moreno Bevilacqua <moreno.bevilacqua89@gmail.com>
Diff between GeoModels versions 1.0.8 dated 2023-05-30 and 1.0.9 dated 2023-08-07
GeoModels-1.0.8/GeoModels/man/NuisParam.Rd |only GeoModels-1.0.9/GeoModels/DESCRIPTION | 8 - GeoModels-1.0.9/GeoModels/MD5 | 51 ++++++------ GeoModels-1.0.9/GeoModels/NAMESPACE | 3 GeoModels-1.0.9/GeoModels/R/GeoCovDisplay.R | 2 GeoModels-1.0.9/GeoModels/R/GeoCovariogram.r | 4 GeoModels-1.0.9/GeoModels/R/GeoCovmatrix.r | 91 ++++++++++++++++++++-- GeoModels-1.0.9/GeoModels/R/GeoFit.r | 22 +++++ GeoModels-1.0.9/GeoModels/R/GeoFit2.R | 40 ++++++++- GeoModels-1.0.9/GeoModels/R/GeoIndCompositeLik2.R | 15 ++- GeoModels-1.0.9/GeoModels/R/GeoKrig.r | 10 +- GeoModels-1.0.9/GeoModels/R/GeoResiduals.r | 4 GeoModels-1.0.9/GeoModels/R/GeoSim.r | 10 ++ GeoModels-1.0.9/GeoModels/R/GeoSimapprox.r | 10 ++ GeoModels-1.0.9/GeoModels/R/Geovarestbootstrap.R | 5 - GeoModels-1.0.9/GeoModels/R/Utility.r | 33 +++++-- GeoModels-1.0.9/GeoModels/man/GeoCovDisplay.Rd | 2 GeoModels-1.0.9/GeoModels/man/GeoCovariogram.Rd | 12 +- GeoModels-1.0.9/GeoModels/man/GeoCovmatrix.Rd | 8 - GeoModels-1.0.9/GeoModels/man/GeoFit2.Rd | 6 - GeoModels-1.0.9/GeoModels/man/GeoKrig.Rd | 6 - GeoModels-1.0.9/GeoModels/man/GeoKrigloc.Rd | 2 GeoModels-1.0.9/GeoModels/man/GeoSim.Rd | 4 GeoModels-1.0.9/GeoModels/man/GeoSimCopula.Rd | 5 - GeoModels-1.0.9/GeoModels/man/NuisParam.rd |only GeoModels-1.0.9/GeoModels/man/NuisParam2.Rd |only GeoModels-1.0.9/GeoModels/man/Prscores.Rd | 2 GeoModels-1.0.9/GeoModels/src/Distributions.c | 12 -- 28 files changed, 266 insertions(+), 101 deletions(-)
Title: Robust Bayesian Variable Selection via Expectation-Maximization
Description: Variable selection methods have been extensively developed for analyzing high-dimensional omics data within both the frequentist and Bayesian frameworks. This package implemented the spike-and-slab quantile LASSO which has been developed along the line of Bayesian hierarchical model but deeply rooted in the frequentist regularization methods by utilizing the Expectation–Maximization (EM) algorithm. Therefore, the proposed method borrows strength from both the frequentist and Bayesian frameworks while overcoming their respective limitations. The spike-and-slab quantile LASSO can handle data irregularity in terms of skewness and outliers in the disease trait, compared to its nonrobust alternative, the spike-and-slab LASSO, which has also been implemented in the package. The core module of this package is developed in 'C++'.
Author: Yuwen Liu [aut, cre],
Cen Wu [aut]
Maintainer: Yuwen Liu <yuwen@ksu.edu>
Diff between emBayes versions 0.1.1 dated 2023-06-06 and 0.1.2 dated 2023-08-07
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/emBayes-package.R | 2 +- man/emBayes-package.Rd | 2 +- src/EM.cpp | 12 ++++++++---- 5 files changed, 18 insertions(+), 14 deletions(-)
Title: Computational Methods for Economic Complexity
Description: A wrapper of different methods from Linear Algebra for the equations
introduced in The Atlas of Economic Complexity and related literature. This
package provides standard matrix and graph output that can be used seamlessly
with other packages. See <doi:10.21105/joss.01866> for a summary
of these methods and its evolution in literature.
Author: Mauricio Vargas Sepulveda [aut, cre, cph]
,
Carlo Bottai [ctb] ,
Diego Kozlowski [ctb] ,
Nico Pintar [rev] ,
The World Bank [dtc] ,
Open Trade Statistics [dtc]
Maintainer: Mauricio Vargas Sepulveda <m.sepulveda@mail.utoronto.ca>
Diff between economiccomplexity versions 1.4.0 dated 2022-09-04 and 1.5.0 dated 2023-08-07
DESCRIPTION | 18 MD5 | 44 +- R/balassa_index.R | 2 R/complexity_measures.R | 26 - R/complexity_outlook.R | 14 R/density.R | 6 R/distance.R | 6 R/productivity_levels.R | 8 R/projections.R | 12 R/proximity.R | 4 build/partial.rdb |binary build/vignette.rds |binary inst/doc/economiccomplexity.R | 416 ++++++++++++++++++- inst/doc/economiccomplexity.Rmd | 516 ++++++++++++++++++++++-- inst/doc/economiccomplexity.html | 836 ++++++++++++++++++++++++++++++--------- man/balassa_index.Rd | 2 man/complexity_outlook.Rd | 8 man/density.Rd | 6 man/distance.Rd | 6 man/productivity_levels.Rd | 4 man/projections.Rd | 8 man/proximity.Rd | 4 vignettes/economiccomplexity.Rmd | 516 ++++++++++++++++++++++-- 23 files changed, 2082 insertions(+), 380 deletions(-)
More information about economiccomplexity at CRAN
Permanent link
Title: Bayesian Deep Gaussian Processes using MCMC
Description: Performs Bayesian posterior inference for deep Gaussian processes following
Sauer, Gramacy, and Higdon (2023, <arXiv:2012.08015>). See Sauer (2023,
<http://hdl.handle.net/10919/114845>) for comprehensive methodological details and
<https://bitbucket.org/gramacylab/deepgp-ex/> for a variety of coding examples.
Models are trained through
MCMC including elliptical slice sampling of latent Gaussian layers and Metropolis-Hastings
sampling of kernel hyperparameters. Vecchia-approximation for faster computation is implemented
following Sauer, Cooper, and Gramacy (2022, <arXiv:2204.02904>). Downstream tasks include
sequential design through active learning Cohn/integrated mean squared error (ALC/IMSE; Sauer,
Gramacy, and Higdon, 2023), optimization through expected improvement (EI;
Gramacy, Sauer, and Wycoff, 2021 <arXiv:2112.07457>), and contour location through entropy
(Sauer, 2023). Models extend up to three layers deep; a one layer model is equivalent to
t [...truncated...]
Author: Annie S. Booth <annie_booth@ncsu.edu>
Maintainer: Annie S. Booth <annie_booth@ncsu.edu>
Diff between deepgp versions 1.1.0 dated 2022-12-15 and 1.1.1 dated 2023-08-07
deepgp-1.1.0/deepgp/R/seq_design.R |only deepgp-1.1.1/deepgp/DESCRIPTION | 33 - deepgp-1.1.1/deepgp/MD5 | 67 +-- deepgp-1.1.1/deepgp/R/ALC.R |only deepgp-1.1.1/deepgp/R/IMSE.R |only deepgp-1.1.1/deepgp/R/RcppExports.R | 20 deepgp-1.1.1/deepgp/R/deepgp-package.R | 69 +-- deepgp-1.1.1/deepgp/R/fit.R | 101 ++-- deepgp-1.1.1/deepgp/R/general.R | 44 +- deepgp-1.1.1/deepgp/R/gibbs.R | 30 + deepgp-1.1.1/deepgp/R/gibbs_vecchia.R | 33 + deepgp-1.1.1/deepgp/R/mcmc.R | 28 - deepgp-1.1.1/deepgp/R/mcmc_vecchia.R | 24 - deepgp-1.1.1/deepgp/R/plot.R | 126 ++++-- deepgp-1.1.1/deepgp/R/predict.R | 557 +++++++++++++++++++-------- deepgp-1.1.1/deepgp/R/predict_vecchia.R | 493 ++++++++++++++++------- deepgp-1.1.1/deepgp/R/trim.R | 3 deepgp-1.1.1/deepgp/R/vecchia.R | 97 ++-- deepgp-1.1.1/deepgp/README.md | 26 - deepgp-1.1.1/deepgp/inst/doc/deepgp.R | 18 deepgp-1.1.1/deepgp/inst/doc/deepgp.Rmd | 64 ++- deepgp-1.1.1/deepgp/inst/doc/deepgp.html | 83 ++-- deepgp-1.1.1/deepgp/man/ALC.Rd | 6 deepgp-1.1.1/deepgp/man/IMSE.Rd | 8 deepgp-1.1.1/deepgp/man/deepgp-package.Rd | 69 +-- deepgp-1.1.1/deepgp/man/fit_one_layer.Rd | 16 deepgp-1.1.1/deepgp/man/fit_three_layer.Rd | 30 - deepgp-1.1.1/deepgp/man/fit_two_layer.Rd | 29 - deepgp-1.1.1/deepgp/man/plot.Rd | 3 deepgp-1.1.1/deepgp/man/predict.Rd | 63 ++- deepgp-1.1.1/deepgp/src/RcppExports.cpp | 86 ++-- deepgp-1.1.1/deepgp/src/cov.cpp | 18 deepgp-1.1.1/deepgp/src/cov.h | 2 deepgp-1.1.1/deepgp/src/vecchia.cpp | 206 ++++++--- deepgp-1.1.1/deepgp/vignettes/deepgp.Rmd | 64 ++- deepgp-1.1.1/deepgp/vignettes/references.bib | 38 + 36 files changed, 1733 insertions(+), 821 deletions(-)
Title: 'DataRobot' Predictive Modeling API
Description: For working with the 'DataRobot' predictive modeling platform's API <https://www.datarobot.com/>.
Author: Ron Pearson [aut],
Zachary Deane-Mayer [aut],
David Chudzicki [aut],
Dallin Akagi [aut],
Sergey Yurgenson [aut],
Thakur Raj Anand [aut],
Peter Hurford [aut],
Chester Ismay [aut],
AJ Alon [aut],
Andrew Watson [aut],
Gregory Williams [aut],
Anastasiia [...truncated...]
Maintainer: AJ Alon <api-maintainer@datarobot.com>
Diff between datarobot versions 2.18.2 dated 2022-05-06 and 2.18.4 dated 2023-08-07
DESCRIPTION | 18 MD5 | 103 ++--- NEWS.md | 43 ++ R/ComplianceDocumentation.R | 10 R/ConnectToDataRobot.R | 2 R/DataRobotRequests.R | 21 + R/Deprecated.R | 49 ++ R/Enums.R | 6 R/FeatureImpact.R | 8 R/PredictionDatasets.R | 11 R/Projects.R | 23 - R/StartAutopilot.R | 10 R/UploadData.R | 20 - R/asDataFrame.R | 3 build/vignette.rds |binary inst/doc/AdvancedTuning.html | 66 ++- inst/doc/AdvancedVignette.Rmd | 2 inst/doc/AdvancedVignette.html | 168 ++++++--- inst/doc/Calendars.html | 48 +- inst/doc/ComparingSubsets.html | 521 ++++++++++++++++++++++++---- inst/doc/ComplianceDocumentation.html | 54 ++ inst/doc/DatetimePartitionedProjects.html | 54 ++ inst/doc/Deployment.html | 70 ++- inst/doc/IntroductionToDataRobot.R | 53 +- inst/doc/IntroductionToDataRobot.Rmd | 82 ++-- inst/doc/IntroductionToDataRobot.html | 555 +++++++++++++++++++++--------- inst/doc/Multiclass.html | 110 ++++- inst/doc/PartialDependence.html | 513 +++++++++++++++++++++++---- inst/doc/PredictionExplanations.R | 1 inst/doc/PredictionExplanations.Rmd | 3 inst/doc/PredictionExplanations.html | 173 +++++++-- inst/doc/RatingTables.html | 157 +++++--- inst/doc/TimeSeries.html | 272 +++++++++++--- inst/doc/TrainingPredictions.html | 45 +- inst/doc/VariableImportance.html | 380 +++++++++++++++++--- man/AutopilotMode.Rd | 3 man/DeprecatedHeaderMessage.Rd |only man/GetAnomalyAssessmentExplanations.Rd | 4 man/GetDeploymentAssociationId.Rd | 4 man/GetProject.Rd | 1 man/ListProjects.Rd | 8 man/RequestFeatureImpact.Rd | 5 man/SetTarget.Rd | 4 man/StartProject.Rd | 2 man/UploadData.Rd | 5 man/datarobot-package.Rd | 2 tests/testthat/helper-mock-expectations.R |only tests/testthat/test-StartAutopilot.R | 13 tests/testthat/test-UploadData.R |only vignettes/AdvancedVignette.Rmd | 2 vignettes/AmesprojectObject.rds |only vignettes/IntroFeatureImpactAmes.RDS |only vignettes/IntroductionToDataRobot.Rmd | 82 ++-- vignettes/PredictionExplanations.Rmd | 3 vignettes/bestPredictionsAmes.rds |only vignettes/listOfAmesModels.rds |only 56 files changed, 2938 insertions(+), 854 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-11-01 0.1.6
Title: Satellite Derived Water Quality Detection Algorithms
Description: The main purpose of waterquality is to quickly and easily convert
satellite-based reflectance imagery into one or many well-known water quality
algorithms designed for the detection of harmful algal blooms or the following
pigment proxies: chlorophyll-a, blue-green algae (phycocyanin), and turbidity.
Johansen et al. (2019) <doi:10.21079/11681/35053>.
Author: Richard Johansen [aut, cre] ,
Jakub Nowosad [aut] ,
Molly Reif [aut] ,
Erich Emery [aut],
U.S. Army Corps of Engineers [fnd]
Maintainer: Richard Johansen <richard.a.johansen@erdc.dren.mil>
Diff between waterquality versions 0.3.0 dated 2022-02-09 and 1.0.0 dated 2023-08-07
waterquality-0.3.0/waterquality/man/Map_WQ_basemap.Rd |only waterquality-1.0.0/waterquality/DESCRIPTION | 14 waterquality-1.0.0/waterquality/MD5 | 163 +- waterquality-1.0.0/waterquality/NAMESPACE | 4 waterquality-1.0.0/waterquality/R/algorithms.R | 122 - waterquality-1.0.0/waterquality/R/extract_lm_functions.R | 2 waterquality-1.0.0/waterquality/R/map_wq.R | 49 waterquality-1.0.0/waterquality/R/wq_calc.R | 29 waterquality-1.0.0/waterquality/README.md | 34 waterquality-1.0.0/waterquality/build/partial.rdb |only waterquality-1.0.0/waterquality/build/vignette.rds |binary waterquality-1.0.0/waterquality/inst/CITATION | 29 waterquality-1.0.0/waterquality/inst/doc/waterquality_vignette.R | 43 waterquality-1.0.0/waterquality/inst/doc/waterquality_vignette.Rmd | 58 waterquality-1.0.0/waterquality/inst/doc/waterquality_vignette.html | 705 +++++++--- waterquality-1.0.0/waterquality/man/Al10SABI.Rd | 2 waterquality-1.0.0/waterquality/man/Am092Bsub.Rd | 2 waterquality-1.0.0/waterquality/man/Am09KBBI.Rd | 2 waterquality-1.0.0/waterquality/man/Be162B643sub629.Rd | 2 waterquality-1.0.0/waterquality/man/Be162B700sub601.Rd | 2 waterquality-1.0.0/waterquality/man/Be162BsubPhy.Rd | 2 waterquality-1.0.0/waterquality/man/Be16FLHBlueRedNIR_LS8.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHBlueRedNIR_MERIS.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHBlueRedNIR_OLCI.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHBlueRedNIR_S2.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHBlueRedNIR_WV2.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHGreenRedNIR_LS8.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHGreenRedNIR_MERIS.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHGreenRedNIR_OLCI.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHGreenRedNIR_S2.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHGreenRedNIR_WV2.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHVioletRedNIR_LS8.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHVioletRedNIR_MERIS.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHVioletRedNIR_OLCI.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHVioletRedNIR_S2.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHVioletRedNIR_WV2.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHblue_LS8.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHblue_MERIS.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHblue_OLCI.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHblue_S2.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHblue_WV2.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHviolet_LS8.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHviolet_MERIS.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHviolet_OLCI.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHviolet_S2.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16FLHviolet_WV2.Rd | 176 +- waterquality-1.0.0/waterquality/man/Be16NDPhyI.Rd | 2 waterquality-1.0.0/waterquality/man/Be16NDPhyI644over615.Rd | 2 waterquality-1.0.0/waterquality/man/Be16NDPhyI644over629.Rd | 2 waterquality-1.0.0/waterquality/man/Be16NDTIblue.Rd | 2 waterquality-1.0.0/waterquality/man/Be16NDTIviolet.Rd | 2 waterquality-1.0.0/waterquality/man/Be16Phy2BDA644over629.Rd | 2 waterquality-1.0.0/waterquality/man/Da052BDA.Rd | 2 waterquality-1.0.0/waterquality/man/De933BDA.Rd | 2 waterquality-1.0.0/waterquality/man/Gi033BDA.Rd | 2 waterquality-1.0.0/waterquality/man/Go04MCI.Rd | 2 waterquality-1.0.0/waterquality/man/HU103BDA.Rd | 2 waterquality-1.0.0/waterquality/man/Kn07KIVU.Rd | 2 waterquality-1.0.0/waterquality/man/MI092BDA.Rd | 2 waterquality-1.0.0/waterquality/man/MM092BDA.Rd | 2 waterquality-1.0.0/waterquality/man/MM12NDCI.Rd | 2 waterquality-1.0.0/waterquality/man/MM12NDCIalt.Rd | 2 waterquality-1.0.0/waterquality/man/MM143BDAopt.Rd | 2 waterquality-1.0.0/waterquality/man/Map_WQ_raster.Rd | 72 - waterquality-1.0.0/waterquality/man/SI052BDA.Rd | 2 waterquality-1.0.0/waterquality/man/SM122BDA.Rd | 2 waterquality-1.0.0/waterquality/man/SY002BDA.Rd | 2 waterquality-1.0.0/waterquality/man/TurbBe16GreenPlusRedBothOverViolet.Rd | 2 waterquality-1.0.0/waterquality/man/TurbBe16RedOverViolet.Rd | 2 waterquality-1.0.0/waterquality/man/TurbBow06RedOverGreen.Rd | 2 waterquality-1.0.0/waterquality/man/TurbChip09NIROverGreen.Rd | 2 waterquality-1.0.0/waterquality/man/TurbDox02NIRoverRed.Rd | 2 waterquality-1.0.0/waterquality/man/TurbFrohn09GreenPlusRedBothOverBlue.Rd | 2 waterquality-1.0.0/waterquality/man/TurbHarr92NIR.Rd | 2 waterquality-1.0.0/waterquality/man/TurbLath91RedOverBlue.Rd | 2 waterquality-1.0.0/waterquality/man/TurbMoore80Red.Rd | 2 waterquality-1.0.0/waterquality/man/Wy08CI.Rd | 2 waterquality-1.0.0/waterquality/man/figures/README-example_output-1.png |binary waterquality-1.0.0/waterquality/man/figures/README-unnamed-chunk-2-1.png |only waterquality-1.0.0/waterquality/man/waterquality-package.Rd | 6 waterquality-1.0.0/waterquality/man/wq_calc.Rd | 14 waterquality-1.0.0/waterquality/tests/testthat.R | 2 waterquality-1.0.0/waterquality/tests/testthat/test-calc.R | 8 waterquality-1.0.0/waterquality/vignettes/waterquality_vignette.Rmd | 58 84 files changed, 3041 insertions(+), 2843 deletions(-)
Title: Maximum Likelihood Shrinkage using Generalized Ridge or Least
Angle Regression
Description: Functions are provided to calculate and display ridge TRACE Diagnostics for a
variety of alternative Shrinkage Paths. While all methods focus on Maximum Likelihood
estimation of unknown true effects under normal distribution-theory, some estimates are
modified to be Unbiased or to have "Correct Range" when estimating either [1] the noncentrality
of the F-ratio for testing that true Beta coefficients are Zeros or [2] the "relative" MSE
Risk (i.e. MSE divided by true sigma-square, where the "relative" variance of OLS is known.)
The eff.ridge() function implements the "Efficient Shrinkage Path" introduced in Obenchain
(2022) <Open Statistics>. This "p-Parameter" Shrinkage-Path always passes through the
vector of regression coefficient estimates Most-Likely to achieve the overall Optimal
Variance-Bias Trade-Off and is the shortest Path with this property. Functions eff.aug() and
eff.biv() augment the calculations made by eff.ridge() to provide plots of the bivariate
confidence ellips [...truncated...]
Author: Bob Obenchain
Maintainer: Bob Obenchain <wizbob@att.net>
Diff between RXshrink versions 2.2 dated 2022-09-07 and 2.3 dated 2023-08-07
DESCRIPTION | 9 +++++---- MD5 | 9 ++++++--- NAMESPACE | 7 +++++-- R/syxi.R |only man/RXshrink-package.Rd | 6 +++--- man/plot.syxi.Rd |only man/syxi.Rd |only 7 files changed, 19 insertions(+), 12 deletions(-)
Title: Embed 'SWI'-'Prolog'
Description: Interface to 'SWI'-'Prolog', <https://www.swi-prolog.org/>. This package is normally not loaded directly, please refer to package 'rolog' instead. The purpose of this package is to provide the 'Prolog' runtime on systems that do not have a software installation of 'SWI'-'Prolog'.
Author: Matthias Gondan [aut, com, cre] ,
Jan Wielemaker [ctb, cph] ,
European Commission [fnd]
Maintainer: Matthias Gondan <Matthias.Gondan-Rochon@uibk.ac.at>
Diff between rswipl versions 9.1.11 dated 2023-07-05 and 9.1.12 dated 2023-08-07
rswipl-9.1.11/rswipl/src/swipl-devel/debian/swi-prolog-x.manpages |only rswipl-9.1.12/rswipl/.aspell |only rswipl-9.1.12/rswipl/DESCRIPTION | 8 rswipl-9.1.12/rswipl/MD5 | 141 +-- rswipl-9.1.12/rswipl/NEWS.md | 6 rswipl-9.1.12/rswipl/src/Makevars | 6 rswipl-9.1.12/rswipl/src/Makevars.win | 2 rswipl-9.1.12/rswipl/src/swipl-devel/VERSION | 2 rswipl-9.1.12/rswipl/src/swipl-devel/bench/zebra.pl | 4 rswipl-9.1.12/rswipl/src/swipl-devel/boot/syspred.pl | 47 - rswipl-9.1.12/rswipl/src/swipl-devel/cmake/PackageSelection.cmake | 8 rswipl-9.1.12/rswipl/src/swipl-devel/debian/changelog | 66 - rswipl-9.1.12/rswipl/src/swipl-devel/debian/control | 7 rswipl-9.1.12/rswipl/src/swipl-devel/debian/rules | 1 rswipl-9.1.12/rswipl/src/swipl-devel/debian/watch | 2 rswipl-9.1.12/rswipl/src/swipl-devel/library/dialect/swi/syspred_options.pl | 6 rswipl-9.1.12/rswipl/src/swipl-devel/library/prolog_evaluable.pl | 76 + rswipl-9.1.12/rswipl/src/swipl-devel/library/shlib.pl | 66 - rswipl-9.1.12/rswipl/src/swipl-devel/packages/archive/test_archive.pl | 4 rswipl-9.1.12/rswipl/src/swipl-devel/packages/cpp/SWI-cpp2-plx.h | 10 rswipl-9.1.12/rswipl/src/swipl-devel/packages/cpp/SWI-cpp2.cpp | 8 rswipl-9.1.12/rswipl/src/swipl-devel/packages/cpp/SWI-cpp2.h | 211 ++++ rswipl-9.1.12/rswipl/src/swipl-devel/packages/cpp/pl2cpp2.doc | 437 ++++++++-- rswipl-9.1.12/rswipl/src/swipl-devel/packages/cpp/test_cpp.cpp | 101 ++ rswipl-9.1.12/rswipl/src/swipl-devel/packages/cpp/test_cpp.pl | 82 + rswipl-9.1.12/rswipl/src/swipl-devel/packages/cpp/test_ffi.pl | 25 rswipl-9.1.12/rswipl/src/swipl-devel/packages/http/html_write.pl | 18 rswipl-9.1.12/rswipl/src/swipl-devel/packages/http/http_header.pl | 10 rswipl-9.1.12/rswipl/src/swipl-devel/packages/index.html | 4 rswipl-9.1.12/rswipl/src/swipl-devel/packages/pcre/CMakeLists.txt | 5 rswipl-9.1.12/rswipl/src/swipl-devel/packages/plunit |only rswipl-9.1.12/rswipl/src/swipl-devel/packages/utf8proc |only rswipl-9.1.12/rswipl/src/swipl-devel/scripts/make-distribution | 1 rswipl-9.1.12/rswipl/src/swipl-devel/scripts/make-src-tape | 2 rswipl-9.1.12/rswipl/src/swipl-devel/snap/snapcraft.yaml | 2 rswipl-9.1.12/rswipl/src/swipl-devel/src/ATOMS | 3 rswipl-9.1.12/rswipl/src/swipl-devel/src/SWI-Prolog.h | 11 rswipl-9.1.12/rswipl/src/swipl-devel/src/Tests/library/test_evaluable_property.pl |only rswipl-9.1.12/rswipl/src/swipl-devel/src/Tests/save/input/unicode.pl | 4 rswipl-9.1.12/rswipl/src/swipl-devel/src/config.h.cmake | 1 rswipl-9.1.12/rswipl/src/swipl-devel/src/os/pl-file.c | 8 rswipl-9.1.12/rswipl/src/swipl-devel/src/os/pl-files.c | 30 rswipl-9.1.12/rswipl/src/swipl-devel/src/os/pl-glob.c | 5 rswipl-9.1.12/rswipl/src/swipl-devel/src/os/pl-option.c | 2 rswipl-9.1.12/rswipl/src/swipl-devel/src/os/pl-os.c | 42 rswipl-9.1.12/rswipl/src/swipl-devel/src/os/pl-os.h | 8 rswipl-9.1.12/rswipl/src/swipl-devel/src/os/pl-text.c | 25 rswipl-9.1.12/rswipl/src/swipl-devel/src/pl-atom.c | 2 rswipl-9.1.12/rswipl/src/swipl-devel/src/pl-dict.c | 36 rswipl-9.1.12/rswipl/src/swipl-devel/src/pl-dict.h | 5 rswipl-9.1.12/rswipl/src/swipl-devel/src/pl-error.c | 7 rswipl-9.1.12/rswipl/src/swipl-devel/src/pl-fli.c | 38 rswipl-9.1.12/rswipl/src/swipl-devel/src/pl-gmp.c | 50 - rswipl-9.1.12/rswipl/src/swipl-devel/src/pl-init.c | 8 rswipl-9.1.12/rswipl/src/swipl-devel/src/pl-load.c | 83 + rswipl-9.1.12/rswipl/src/swipl-devel/src/pl-read.c | 17 rswipl-9.1.12/rswipl/src/swipl-devel/src/pl-term.c | 126 +- rswipl-9.1.12/rswipl/src/swipl-devel/src/pl-trace.c | 4 rswipl-9.1.12/rswipl/src/swipl-devel/src/pl-wam.c | 6 rswipl-9.1.12/rswipl/src/swipl-devel/src/pl-wic.c | 181 ++-- rswipl-9.1.12/rswipl/src/swipl-devel/src/pl-write.c | 2 61 files changed, 1548 insertions(+), 524 deletions(-)
Title: R Interface to the 'QuantLib' Library
Description: The 'RQuantLib' package makes parts of 'QuantLib' accessible from R
The 'QuantLib' project aims to provide a comprehensive software framework
for quantitative finance. The goal is to provide a standard open source library
for quantitative analysis, modeling, trading, and risk management of financial
assets.
Author: Dirk Eddelbuettel, Khanh Nguyen , Terry Leitch
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RQuantLib versions 0.4.18 dated 2023-05-01 and 0.4.19 dated 2023-08-07
ChangeLog | 38 ++++++++++++++++++++++++++++ DESCRIPTION | 8 ++--- MD5 | 30 +++++++++++----------- README.md | 7 +++-- configure | 57 ++++++++++++++++++++++-------------------- configure.ac | 24 ++++++++++------- data/tsQuotes.RData |binary data/vcube.RData |binary inst/NEWS.Rd | 11 ++++++++ inst/tinytest/test_schedule.R | 12 ++++++-- man/AffineSwaption.Rd | 18 +++++++------ man/BermudanSwaption.Rd | 12 ++++---- man/Bond.Rd | 19 +++++++------- man/DiscountCurve.Rd | 12 ++++---- man/EuropeanOptionArrays.Rd | 17 ++++++------ src/Makevars.win | 2 - 16 files changed, 168 insertions(+), 99 deletions(-)
Title: A Collection of Efficient and Extremely Fast R Functions II
Description: A collection of fast statistical and utility functions for data analysis. Functions for regression, maximum likelihood, column-wise statistics and many more have been included. C++ has been utilized to speed up the functions.
Author: Manos Papadakis, Michail Tsagris, Stefanos Fafalios and Marios Dimitriadis.
Maintainer: Manos Papadakis <rfastofficial@gmail.com>
Diff between Rfast2 versions 0.1.5 dated 2023-07-17 and 0.1.5.1 dated 2023-08-07
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 2 +- inst/include/Rfast2/parallel.h | 12 ++++++------ man/Rfast2-package.Rd | 4 ++-- man/covequal.Rd | 6 +++--- 6 files changed, 21 insertions(+), 21 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],
Sebastian Funk [ctb] ,
Steven G. Johnson [ctb],
Bruce E. Kendall [ctb] ,
Michael Lavine [ctb],
Dao Nguyen [ctb] ,
Eamon B. O [...truncated...]
Maintainer: Aaron A. King <kingaa@umich.edu>
Diff between pomp versions 5.3 dated 2023-07-15 and 5.4 dated 2023-08-07
DESCRIPTION | 8 ++++---- MD5 | 28 ++++++++++++++-------------- R/bake.R | 21 +++++++++------------ R/pomp_fun.R | 1 - R/resample.R | 2 +- inst/NEWS | 7 +++++++ inst/NEWS.Rd | 6 ++++++ man/bake.Rd | 1 + man/pomp_fun.Rd | 2 -- man/resample.Rd | 2 +- src/decls.h | 4 ++-- src/euler.c | 2 +- src/init.c | 2 -- src/rprocess.c | 4 ++-- src/userdata.c | 11 ++--------- 15 files changed, 50 insertions(+), 51 deletions(-)
Title: Simple, Consistent Package Options
Description: Simple mechanisms for defining and interpreting package options. Provides
helpers for interpreting environment variables, global options, defining
default values and more.
Author: Doug Kelkhoff [aut, cre]
Maintainer: Doug Kelkhoff <doug.kelkhoff@gmail.com>
Diff between options versions 0.0.1 dated 2023-01-09 and 0.0.2 dated 2023-08-07
options-0.0.1/options/inst/options.example/NAMESPACE |only options-0.0.2/options/DESCRIPTION | 9 options-0.0.2/options/MD5 | 56 - options-0.0.2/options/NAMESPACE | 1 options-0.0.2/options/NEWS.md | 12 options-0.0.2/options/R/crayon.R | 1 options-0.0.2/options/R/define_option.R | 2 options-0.0.2/options/R/options_env.R | 41 + options-0.0.2/options/R/options_get.R | 17 options-0.0.2/options/R/options_roxygen.R | 59 + options-0.0.2/options/R/options_spec.R | 8 options-0.0.2/options/R/utils.R | 2 options-0.0.2/options/README.md | 3 options-0.0.2/options/build/vignette.rds |binary options-0.0.2/options/inst/doc/envvars.html | 466 ++++++-------- options-0.0.2/options/inst/doc/options.html | 285 ++++---- options-0.0.2/options/inst/options.example/DESCRIPTION | 10 options-0.0.2/options/inst/options.example/LICENSE |only options-0.0.2/options/inst/options.example/R/helpers.R | 2 options-0.0.2/options/inst/options.example/R/roxygen2.R | 2 options-0.0.2/options/man/format.options_list.Rd |only options-0.0.2/options/man/format_value.Rd | 9 options-0.0.2/options/man/opt.Rd | 5 options-0.0.2/options/man/options_env.Rd | 5 options-0.0.2/options/man/options_fmts.Rd | 3 options-0.0.2/options/tests/testthat/setup.R |only options-0.0.2/options/tests/testthat/test-define-option.R | 41 - options-0.0.2/options/tests/testthat/test-opt.R |only options-0.0.2/options/tests/testthat/test-output.R | 5 options-0.0.2/options/tests/testthat/test-precedence.R | 6 options-0.0.2/options/tests/testthat/test-rcmdcheck.R |only options-0.0.2/options/tests/testthat/test-roxygen2.R | 10 32 files changed, 551 insertions(+), 509 deletions(-)
Title: NNG (Nanomsg Next Gen) Lightweight Messaging Library
Description: R binding for NNG (Nanomsg Next Gen), a successor to ZeroMQ. NNG is
a socket library providing high-performance scalability protocols, a
cross-platform standard for messaging and communications. Serves as a
concurrency framework for building distributed applications, utilising 'aio'
objects which resolve automatically upon completion of asynchronous
operations. Implements connections with transport layer security, and
synchronisation primitives, which allow R execution to wait upon events
being signalled by concurrent messaging threads.
Author: Charlie Gao [aut, cre] ,
Hibiki AI Limited [cph],
R Consortium [fnd]
Maintainer: Charlie Gao <charlie.gao@shikokuchuo.net>
Diff between nanonext versions 0.9.1 dated 2023-07-12 and 0.9.2 dated 2023-08-07
nanonext-0.9.1/nanonext/man/timed_signal.Rd |only nanonext-0.9.2/nanonext/DESCRIPTION | 8 nanonext-0.9.2/nanonext/MD5 | 68 +- nanonext-0.9.2/nanonext/NAMESPACE | 2 nanonext-0.9.2/nanonext/NEWS.md | 21 nanonext-0.9.2/nanonext/R/aio.R | 14 nanonext-0.9.2/nanonext/R/nano.R | 11 nanonext-0.9.2/nanonext/R/ncurl.R | 22 nanonext-0.9.2/nanonext/R/sendrecv.R | 19 nanonext-0.9.2/nanonext/R/socket.R | 17 nanonext-0.9.2/nanonext/R/sync.R | 38 - nanonext-0.9.2/nanonext/R/tls.R | 56 +- nanonext-0.9.2/nanonext/R/utils.R | 2 nanonext-0.9.2/nanonext/README.md | 137 +++-- nanonext-0.9.2/nanonext/man/base64enc.Rd | 35 - nanonext-0.9.2/nanonext/man/figures/RConsortium.png |only nanonext-0.9.2/nanonext/man/ncurl.Rd | 22 nanonext-0.9.2/nanonext/man/ncurl_session.Rd | 4 nanonext-0.9.2/nanonext/man/recv.Rd | 19 nanonext-0.9.2/nanonext/man/recv_aio.Rd | 21 nanonext-0.9.2/nanonext/man/request.Rd | 7 nanonext-0.9.2/nanonext/man/sha1.Rd | 6 nanonext-0.9.2/nanonext/man/sha256.Rd | 6 nanonext-0.9.2/nanonext/man/socket.Rd | 17 nanonext-0.9.2/nanonext/man/tls_config.Rd | 28 - nanonext-0.9.2/nanonext/man/weakref.Rd | 1 nanonext-0.9.2/nanonext/src/aio.c | 221 +++----- nanonext-0.9.2/nanonext/src/core.c | 492 ++++++++++++-------- nanonext-0.9.2/nanonext/src/init.c | 18 nanonext-0.9.2/nanonext/src/keycert.c | 2 nanonext-0.9.2/nanonext/src/nanonext.h | 89 +++ nanonext-0.9.2/nanonext/src/protocol.c | 8 nanonext-0.9.2/nanonext/src/thread.c | 61 -- nanonext-0.9.2/nanonext/src/tls.c | 204 +++----- nanonext-0.9.2/nanonext/src/utils.c | 90 +-- nanonext-0.9.2/nanonext/tests/tests.R | 214 ++++---- 36 files changed, 1021 insertions(+), 959 deletions(-)
Title: NanoString Quality Control Dashboard
Description: NanoString nCounter data are gene expression assays
where there is no need for the use of enzymes or amplification
protocols and work with fluorescent barcodes (Geiss et al. (2018)
<doi:10.1038/nbt1385>). Each barcode is assigned a
messenger-RNA/micro-RNA (mRNA/miRNA) which after bonding with its
target can be counted. As a result each count of a specific barcode
represents the presence of its target mRNA/miRNA. 'NACHO' (NAnoString
quality Control dasHbOard) is able to analyse the exported NanoString
nCounter data and facilitates the user in performing a quality
control. 'NACHO' does this by visualising quality control metrics,
expression of control genes, principal components and sample specific
size factors in an interactive web application.
Author: Mickael Canouil [aut, cre] ,
Roderick Slieker [aut] ,
Gerard Bouland [aut]
Maintainer: Mickael Canouil <pro@mickael.canouil.dev>
Diff between NACHO versions 2.0.4 dated 2023-04-01 and 2.0.5 dated 2023-08-07
DESCRIPTION | 6 MD5 | 22 +- NEWS.md | 16 + R/autoplot.R | 12 - README.md | 5 build/partial.rdb |binary build/vignette.rds |binary inst/app/www/about-nacho.md | 2 inst/doc/NACHO-analysis.html | 56 +++--- inst/doc/NACHO.html | 46 ++--- tests/testthat.R | 70 ++++--- tests/testthat/test-load_rcc.R | 363 ++++++++++++++++++++--------------------- 12 files changed, 308 insertions(+), 290 deletions(-)
Title: R Interface to 'IGN' Web Services
Description: Automatic open data acquisition from resources of IGN
('Institut National de Information Geographique et forestiere')
(<https://www.ign.fr/>). Available datasets include various types of
raster and vector data, such as digital elevation models, state
borders, spatial databases, cadastral parcels, and more. There also
access to point clouds data ('LIDAR') and specifics API
(<https://apicarto.ign.fr/api/doc/>).
Author: Paul Carteron [aut, cre]
Maintainer: Paul Carteron <carteronpaul@gmail.com>
Diff between happign versions 0.1.9 dated 2023-04-12 and 0.2.0 dated 2023-08-07
happign-0.1.9/happign/R/get_apicarto_commune.R |only happign-0.1.9/happign/R/get_wms_info.R |only happign-0.1.9/happign/data/cog_2022.rda |only happign-0.1.9/happign/man/cog_2022.Rd |only happign-0.1.9/happign/man/get_apicarto_commune.Rd |only happign-0.1.9/happign/man/get_wms_info.Rd |only happign-0.1.9/happign/tests/testthat/api_gpu_x_input/apicarto.ign.fr/api/gpu/document-6c9cbf.R |only happign-0.1.9/happign/tests/testthat/get_apicarto_gpu partition |only happign-0.1.9/happign/tests/testthat/get_apicarto_rpg/apicarto.ign.fr/api/rpg/v1-f72596.R |only happign-0.1.9/happign/tests/testthat/get_apicarto_rpg/apicarto.ign.fr/api/rpg/v2-0d3f80.R |only happign-0.1.9/happign/tests/testthat/get_apicarto_rpg/apicarto.ign.fr/api/rpg/v2-331be3.R |only happign-0.1.9/happign/tests/testthat/get_apicarto_rpg/apicarto.ign.fr/api/rpg/v2-b3b77f.R |only happign-0.1.9/happign/tests/testthat/get_apicarto_rpg/apicarto.ign.fr/api/rpg/v2-b7c8d6.R |only happign-0.1.9/happign/tests/testthat/get_apicarto_rpg/apicarto.ign.fr/api/rpg/v2-df8fca.R |only happign-0.1.9/happign/tests/testthat/get_last_news_error |only happign-0.1.9/happign/tests/testthat/get_wms_info return error |only happign-0.1.9/happign/tests/testthat/get_wms_info works |only happign-0.1.9/happign/tests/testthat/test-get_wms_info.R |only happign-0.2.0/happign/DESCRIPTION | 10 happign-0.2.0/happign/MD5 | 190 - happign-0.2.0/happign/NAMESPACE | 22 happign-0.2.0/happign/NEWS.md | 13 happign-0.2.0/happign/R/check_input.R | 30 happign-0.2.0/happign/R/data.R | 14 happign-0.2.0/happign/R/get_apicarto_cadastre.R | 22 happign-0.2.0/happign/R/get_apicarto_viticole.R | 1 happign-0.2.0/happign/R/get_apikeys.R | 7 happign-0.2.0/happign/R/get_last_news.R | 3 happign-0.2.0/happign/R/get_layers_metadata.R | 56 happign-0.2.0/happign/R/get_location_info.R |only happign-0.2.0/happign/R/get_raw_lidar.R | 18 happign-0.2.0/happign/R/get_wfs.R | 181 - happign-0.2.0/happign/R/get_wfs_attributes.R | 17 happign-0.2.0/happign/R/get_wms_raster.R | 305 - happign-0.2.0/happign/R/hit_api.R | 77 happign-0.2.0/happign/R/utils.R | 146 happign-0.2.0/happign/R/zzz.R | 3 happign-0.2.0/happign/README.md | 2 happign-0.2.0/happign/build/vignette.rds |binary happign-0.2.0/happign/data/cog_2023.rda |only happign-0.2.0/happign/inst/doc/Getting_started.Rmd | 97 happign-0.2.0/happign/inst/doc/Getting_started.html | 210 - happign-0.2.0/happign/inst/doc/SCAN_25_SCAN_100_SCAN_OACI.R | 15 happign-0.2.0/happign/inst/doc/SCAN_25_SCAN_100_SCAN_OACI.Rmd | 15 happign-0.2.0/happign/inst/doc/SCAN_25_SCAN_100_SCAN_OACI.html | 39 happign-0.2.0/happign/man/are_queryable.Rd | 10 happign-0.2.0/happign/man/cog_2023.Rd |only happign-0.2.0/happign/man/get_apicarto_cadastre.Rd | 6 happign-0.2.0/happign/man/get_apicarto_codes_postaux.Rd | 58 happign-0.2.0/happign/man/get_apicarto_gpu.Rd | 178 - happign-0.2.0/happign/man/get_apicarto_rpg.Rd | 136 happign-0.2.0/happign/man/get_apicarto_viticole.Rd | 76 happign-0.2.0/happign/man/get_apikeys.Rd | 53 happign-0.2.0/happign/man/get_last_news.Rd | 42 happign-0.2.0/happign/man/get_layers_metadata.Rd | 86 happign-0.2.0/happign/man/get_location_info.Rd |only happign-0.2.0/happign/man/get_raw_lidar.Rd | 104 happign-0.2.0/happign/man/get_wfs.Rd | 76 happign-0.2.0/happign/man/get_wfs_attributes.Rd | 69 happign-0.2.0/happign/man/get_wms_raster.Rd | 77 happign-0.2.0/happign/tests/testthat/api_gpu_x_input/apicarto.ign.fr/api/gpu/document-07eb73.R | 2 happign-0.2.0/happign/tests/testthat/api_gpu_x_input/apicarto.ign.fr/api/gpu/document-1b1365.R | 2 happign-0.2.0/happign/tests/testthat/api_gpu_x_input/apicarto.ign.fr/api/gpu/document-b95b4f.R | 4 happign-0.2.0/happign/tests/testthat/api_gpu_x_input/apicarto.ign.fr/api/gpu/municipality-0b161d.R | 4 happign-0.2.0/happign/tests/testthat/api_gpu_x_input/apicarto.ign.fr/api/gpu/municipality-5738ea.R | 4 happign-0.2.0/happign/tests/testthat/are_queryable works/wxs.ign.fr/administratif/geoportail/r/wms-21553a.R | 4 happign-0.2.0/happign/tests/testthat/get_api_codes_postaux/apicarto.ign.fr/api/codes-postaux/communes/29160.R | 2 happign-0.2.0/happign/tests/testthat/get_api_codes_postaux/apicarto.ign.fr/api/codes-postaux/communes/29760.R | 2 happign-0.2.0/happign/tests/testthat/get_apicarto_rpg/apicarto.ign.fr/api/rpg/v1-b814e7.R |only happign-0.2.0/happign/tests/testthat/get_apicarto_rpg/apicarto.ign.fr/api/rpg/v2-0b352a.R |only happign-0.2.0/happign/tests/testthat/get_apicarto_rpg/apicarto.ign.fr/api/rpg/v2-2a3af1.R |only happign-0.2.0/happign/tests/testthat/get_apicarto_rpg/apicarto.ign.fr/api/rpg/v2-4f2bf7.R |only happign-0.2.0/happign/tests/testthat/get_apicarto_rpg/apicarto.ign.fr/api/rpg/v2-9a095b.R |only happign-0.2.0/happign/tests/testthat/get_apicarto_rpg/apicarto.ign.fr/api/rpg/v2-e397b2.R |only happign-0.2.0/happign/tests/testthat/get_last_news/geoservices.ign.fr/actualites/rss.xml.R | 1740 ++++------ happign-0.2.0/happign/tests/testthat/get_layers_metada_null |only happign-0.2.0/happign/tests/testthat/get_layers_metada_wfs/wxs.ign.fr/altimetrie/geoportail/wfs-866ab9.xml | 2 happign-0.2.0/happign/tests/testthat/get_layers_metada_wms/wxs.ign.fr/ortho/geoportail/r/wms-3fee96.R | 4 happign-0.2.0/happign/tests/testthat/get_loc_info |only happign-0.2.0/happign/tests/testthat/get_loc_info error |only happign-0.2.0/happign/tests/testthat/get_loc_info no data |only happign-0.2.0/happign/tests/testthat/get_loc_info no layer |only happign-0.2.0/happign/tests/testthat/get_loc_info sf |only happign-0.2.0/happign/tests/testthat/get_wfs_default_crs |only happign-0.2.0/happign/tests/testthat/hit_api_error |only happign-0.2.0/happign/tests/testthat/test-check_input.R | 15 happign-0.2.0/happign/tests/testthat/test-get_apicarto_gpu.R | 8 happign-0.2.0/happign/tests/testthat/test-get_apikeys.R | 3 happign-0.2.0/happign/tests/testthat/test-get_last_news.R | 7 happign-0.2.0/happign/tests/testthat/test-get_layers_metadata.R | 18 happign-0.2.0/happign/tests/testthat/test-get_location_info.R |only happign-0.2.0/happign/tests/testthat/test-get_wfs.R | 86 happign-0.2.0/happign/tests/testthat/test-get_wms_raster.R | 143 happign-0.2.0/happign/tests/testthat/test-hit_api.R |only happign-0.2.0/happign/tests/testthat/test-utils.R | 74 happign-0.2.0/happign/tests/testthat/wfs_ecql_filter/wxs.ign.fr/administratif/geoportail/wfs-866ab9.R | 4 happign-0.2.0/happign/tests/testthat/wfs_ecql_filter/wxs.ign.fr/administratif/geoportail/wfs-8dfae6-e3ab15-POST.R | 4 happign-0.2.0/happign/tests/testthat/wfs_empty/wxs.ign.fr/administratif/geoportail/wfs-8dfae6-b509dc-POST.R | 4 happign-0.2.0/happign/tests/testthat/wfs_intersect/wxs.ign.fr/administratif/geoportail/wfs-866ab9.R | 4 happign-0.2.0/happign/tests/testthat/wfs_intersect/wxs.ign.fr/administratif/geoportail/wfs-8dfae6-228390-POST.R | 4 happign-0.2.0/happign/tests/testthat/wfs_intersect/wxs.ign.fr/administratif/geoportail/wfs-8dfae6-2763fd-POST.R | 4 happign-0.2.0/happign/tests/testthat/wfs_intersect/wxs.ign.fr/administratif/geoportail/wfs-8dfae6-7d0655-POST.R | 4 happign-0.2.0/happign/tests/testthat/wfs_intersect/wxs.ign.fr/administratif/geoportail/wfs-8dfae6-7f4ecc-POST.R | 4 happign-0.2.0/happign/tests/testthat/wfs_intersect/wxs.ign.fr/administratif/geoportail/wfs-8dfae6-b217b6-POST.R | 4 happign-0.2.0/happign/tests/testthat/wfs_intersect/wxs.ign.fr/administratif/geoportail/wfs-8dfae6-f3c7f9-POST.R | 4 happign-0.2.0/happign/vignettes/Getting_started-unnamed-chunk-6-1.png |binary happign-0.2.0/happign/vignettes/Getting_started-unnamed-chunk-8-1.png |binary happign-0.2.0/happign/vignettes/Getting_started.Rmd | 97 happign-0.2.0/happign/vignettes/Getting_started.Rmd.orig | 48 happign-0.2.0/happign/vignettes/SCAN25.tif |only happign-0.2.0/happign/vignettes/SCAN_25_SCAN_100_SCAN_OACI.Rmd | 15 happign-0.2.0/happign/vignettes/web_only/api_carto.Rmd | 29 happign-0.2.0/happign/vignettes/web_only/happign_for_foresters.Rmd | 122 113 files changed, 2545 insertions(+), 2394 deletions(-)
Title: Cohen's D_p Computation with Confidence Intervals
Description: Computing Cohen's d_p in any experimental designs (between-subject, within-subject, and single-group design). Cousineau (2022) <https://github.com/dcousin3/CohensdpLibrary>; Cohen (1969, ISBN: 0-8058-0283-5).
Author: Denis Cousineau [aut, cre] ,
Douglas Fitts [ctb]
Maintainer: Denis Cousineau <denis.cousineau@uottawa.ca>
Diff between CohensdpLibrary versions 0.5.9 dated 2023-06-22 and 0.5.10 dated 2023-08-07
DESCRIPTION | 8 +++--- MD5 | 56 ++++++++++++++++++++++---------------------- NEWS.md | 4 +++ build/partial.rdb |binary inst/refs/CG057-1.dta | 14 +++++------ inst/refs/L0003-1.dta | 14 +++++------ inst/refs/MICHEL2008535.dta | 16 ++++++------ inst/refs/ak03.dta | 14 +++++------ inst/refs/c22a.dta | 14 +++++------ inst/refs/c22b.dta | 8 +++--- inst/refs/c69.dta | 10 +++---- inst/refs/cg20.dta | 12 ++++----- inst/refs/cgh21.dta | 14 +++++------ inst/refs/f22.dta | 18 +++++++------- inst/refs/gc18.dta | 16 ++++++------ inst/refs/h81.dta | 14 +++++------ inst/refs/k22.dta | 10 +++---- inst/refs/l07.dta | 14 +++++------ inst/refs/l22.dta | 12 ++++----- inst/refs/l99.dta | 14 +++++------ inst/refs/m00.dta | 14 +++++------ inst/refs/m14.dta | 10 +++---- inst/refs/oc14.dta | 16 ++++++------ inst/refs/p20.dta | 10 +++---- inst/refs/pl10.dta | 14 +++++------ inst/refs/pl10b.dta | 10 +++---- inst/refs/w16.dta | 4 +-- inst/refs/w21.dta | 10 +++---- src/2F1.f90 | 2 - 29 files changed, 188 insertions(+), 184 deletions(-)
More information about CohensdpLibrary at CRAN
Permanent link
Title: R Client for BitMEX
Description: A client for cryptocurrency exchange BitMEX
<https://www.bitmex.com/> including the ability to obtain historic
trade data and place, edit and cancel orders. BitMEX's Testnet and
live API are both supported.
Author: Harry Fisher [cre, aut, cph]
Maintainer: Harry Fisher <harryfisher21@gmail.com>
Diff between bitmexr versions 0.3.2 dated 2022-09-30 and 0.3.3 dated 2023-08-07
DESCRIPTION | 8 - MD5 | 22 ++-- NEWS.md | 6 + R/bucket_trades.R | 54 +++++------ R/map_trades.R | 4 R/trades.R | 44 ++++----- R/utils.R | 3 build/vignette.rds |binary inst/doc/authentication.html | 41 +++----- inst/doc/getting-started.html | 56 ++++++----- inst/doc/placing-orders.html | 114 ++++++++++++----------- inst/doc/trade-data.html | 205 +++++++++++++++++++++++------------------- 12 files changed, 293 insertions(+), 264 deletions(-)
Title: Efficient Bayesian Algorithms for Binary and Categorical Data
Regression Models
Description: Efficient Bayesian implementations of probit, logit, multinomial logit and binomial logit models. Functions for plotting and tabulating the estimation output are available as well. Estimation is based on Gibbs sampling where the Markov chain Monte Carlo algorithms are based on the latent variable representations and marginal data augmentation algorithms outlined in Zens G., Fr<fc>hwirth-Schnatter S., Wagner H. (2020) <arXiv:2011.06898>.
Author: Gregor Zens [aut, cre],
Sylvia Fr<fc>hwirth-Schnatter [aut],
Helga Wagner [aut]
Maintainer: Gregor Zens <zens@iiasa.ac.at>
Diff between UPG versions 0.3.2 dated 2023-04-28 and 0.3.3 dated 2023-08-07
DESCRIPTION | 18 +++++++++--------- MD5 | 4 ++-- inst/doc/vignette.pdf |binary 3 files changed, 11 insertions(+), 11 deletions(-)
Title: jsTree Bindings for Shiny
Description: Exposes bindings to jsTree -- a JavaScript library
that supports interactive trees -- to enable a rich, editable trees in
Shiny.
Author: Trestle Technology, LLC [aut],
Jeff Allen [aut],
Institut de Radioprotection et de Sûrete Nucleaire [cph],
Ivan Bozhanov [ctb, cph] ,
The Dojo Foundation [ctb, cph] ,
jQuery Foundation, Inc. [ctb, cph],
Mike Schaffer [ctb],
Timm Danker [ctb],
Michael [...truncated...]
Maintainer: Michael Bell <bell_michael_a@lilly.com>
Diff between shinyTree versions 0.2.7 dated 2019-05-27 and 0.3.1 dated 2023-08-07
DESCRIPTION | 28 +- MD5 | 46 ++- NAMESPACE | 6 NEWS | 14 + R/data.tree-conversion.R |only R/get-checked.R |only R/init.R | 73 ++++-- R/shiny-tree.R | 34 ++ R/tree_traversal.R |only R/update-tree.R | 46 ++- README.md | 95 ++++++- inst/examples/18-modules |only inst/examples/19-data.tree |only inst/examples/20-api |only inst/examples/21-options |only inst/examples/22-dfToTree |only inst/examples/23-file-icons |only inst/examples/24-checkbox-options |only inst/www/shinyTree.js | 66 +++-- man/depth.Rd |only man/dfToTree.Rd |only man/dfrapply.Rd |only man/get_checked.Rd |only man/set_node_attrs.Rd |only man/shinyTree.Rd | 44 +++ man/treeToDf.Rd |only man/treeToJSON.Rd |only tests/testthat/apps |only tests/testthat/test_dfTreeConversion.R |only tests/testthat/test_tree.R | 397 +++++++++++++++++++++++++++++++-- tests/testthat/test_tree_interactive.R |only tests/testthat/test_tree_traversal.R |only 32 files changed, 716 insertions(+), 133 deletions(-)
Title: Client for 'Mapzen' and Related Map APIs
Description: Provides an interface to 'Mapzen'-based APIs (including
geocode.earth, Nextzen, and NYC GeoSearch) for geographic search
and geocoding, isochrone calculation, and vector data to draw map tiles.
See <https://www.mapzen.com/documentation/> for more information. The original
Mapzen has gone out of business, but 'rmapzen' can be set up to work with
any provider who implements the Mapzen API.
Author: Tarak Shah [aut, cre],
Daniel Possenriede [ctb]
Maintainer: Tarak Shah <tarak.shah@gmail.com>
Diff between rmapzen versions 0.4.4 dated 2023-03-07 and 0.5.0 dated 2023-08-07
rmapzen-0.4.4/rmapzen/man/as_sp.Rd |only rmapzen-0.4.4/rmapzen/tests/testthat/test-as-sp.R |only rmapzen-0.5.0/rmapzen/DESCRIPTION | 13 - rmapzen-0.5.0/rmapzen/MD5 | 34 +-- rmapzen-0.5.0/rmapzen/NAMESPACE | 4 rmapzen-0.5.0/rmapzen/NEWS.md | 3 rmapzen-0.5.0/rmapzen/R/as-sp.R | 91 -------- rmapzen-0.5.0/rmapzen/R/isochrone.R | 2 rmapzen-0.5.0/rmapzen/R/mz-references.R | 14 - rmapzen-0.5.0/rmapzen/R/rmapzen.R | 6 rmapzen-0.5.0/rmapzen/R/vector-tiles.R | 2 rmapzen-0.5.0/rmapzen/build/vignette.rds |binary rmapzen-0.5.0/rmapzen/inst/doc/rmapzen-introduction.Rmd | 6 rmapzen-0.5.0/rmapzen/inst/doc/rmapzen-introduction.html | 154 ++++++++------- rmapzen-0.5.0/rmapzen/man/mapzen_references.Rd | 2 rmapzen-0.5.0/rmapzen/man/mz_isochrone.Rd | 2 rmapzen-0.5.0/rmapzen/man/mz_vector_tiles.Rd | 2 rmapzen-0.5.0/rmapzen/man/rmapzen.Rd | 6 rmapzen-0.5.0/rmapzen/vignettes/rmapzen-introduction.Rmd | 6 19 files changed, 132 insertions(+), 215 deletions(-)
Title: Enhance Reproducibility of R Code
Description: A collection of high-level, machine- and OS-independent tools
for making reproducible and reusable content in R.
The two workhorse functions are Cache() and prepInputs(). Cache()
allows for nested caching, is robust to environments and objects with
environments (like functions), and has deals with some classes of
file-backed R objects e.g., from terra and raster packages.
Both functions have been developed to
be foundational components of data retrieval
and processing in continuous workflow situations. In both functions,
efforts are made to make the first and subsequent calls of functions have
the same result, but faster at subsequent times by way of checksums
and digesting. Several features are still under development, including
cloud storage of cached objects, allowing for sharing between users. Several
advanced options are available, see ?reproducibleOptions().
Author: Eliot J B McIntire [aut, cre] ,
Alex M Chubaty [aut] ,
Tati Micheletti [ctb] ,
Ceres Barros [ctb] ,
Ian Eddy [ctb] ,
His Majesty the King in Right of Canada, as represented by the Minister
of Natural Resources Canada [cph]
Maintainer: Eliot J B McIntire <eliot.mcintire@canada.ca>
Diff between reproducible versions 2.0.5 dated 2023-07-03 and 2.0.7 dated 2023-08-07
DESCRIPTION | 8 MD5 | 71 - NAMESPACE | 2 NEWS.md | 9 R/DBI.R | 2 R/cache.R | 31 R/checksums.R | 10 R/cloud.R | 6 R/download.R | 3 R/helpers.R | 27 R/postProcess.R | 8 R/preProcess.R | 20 R/prepInputs.R | 11 inst/CITATION | 10 inst/WORDLIST | 29 inst/doc/Intro-to-Cache.html | 1456 +++++++++++------------ inst/examples/example_assessDataType.R | 39 inst/examples/example_postProcess.R | 7 man/Cache.Rd | 2 man/CacheDigest.Rd | 2 man/assessDataType.Rd | 39 man/deprecated.Rd | 10 man/dlGeneric.Rd | 2 man/internetExists.Rd |only man/postProcess.Rd | 7 man/prepInputs.Rd | 2 man/robustDigest.Rd | 2 tests/testthat/helper-allEqual.R | 30 tests/testthat/test-cache.R | 29 tests/testthat/test-cloud.R | 5 tests/testthat/test-download.R | 3 tests/testthat/test-filesMissingExtension.R | 11 tests/testthat/test-preProcessDoesntWork.R | 15 tests/testthat/test-preProcessWorks.R | 152 -- tests/testthat/test-prepInputs-large-files.R | 2 tests/testthat/test-prepInputs.R | 12 tests/testthat/test-prepInputsInNestedArchives.R | 50 37 files changed, 1051 insertions(+), 1073 deletions(-)
Title: Read 'Bibtex' Files and Convert Between Bibliography Formats
Description: Read and write 'Bibtex' files. Convert between bibliography
formats, including 'Bibtex', 'Biblatex', 'PubMed', 'Endnote', and
'Bibentry'. Includes a port of the 'bibutils' utilities by Chris
Putnam <https://sourceforge.net/projects/bibutils/>. Supports all
bibliography formats and character encodings implemented in
'bibutils'.
Author: Georgi N. Boshnakov [aut, cre] ),
Chris Putman [aut] ,
Richard Mathar [ctb] ,
Johannes Wilm [ctb]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between rbibutils versions 2.2.13 dated 2023-01-13 and 2.2.14 dated 2023-08-07
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 6 ++++++ R/sysdata.rda |binary build/partial.rdb |binary tests/testthat/test-convert.R | 23 +++++++++++++++++++++-- 6 files changed, 35 insertions(+), 10 deletions(-)
Title: Lambert-W Function
Description: Implements both real-valued branches of the Lambert-W function
(Corless et al, 1996) <doi:10.1007/BF02124750> without the need for
installing the entire GSL.
Author: Avraham Adler [aut, cph, cre]
Maintainer: Avraham Adler <Avraham.Adler@gmail.com>
Diff between lamW versions 2.1.2 dated 2023-02-28 and 2.2.0 dated 2023-08-07
DESCRIPTION | 10 ++-- MD5 | 23 +++++---- R/RcppExports.R | 2 README.md | 13 +++-- build/partial.rdb |binary inst/CITATION | 2 inst/News.Rd | 99 +++++++++++++++++++++++++++---------------- inst/tinytest/test_lamW.R | 18 ++----- inst/tinytest/test_version.R |only man/lamW-internal.Rd | 7 ++- man/lamW-package.Rd | 3 + man/lamW.Rd | 3 + src/lambertW.cpp | 69 +++++++++++++++++++++++++---- 13 files changed, 166 insertions(+), 83 deletions(-)
Title: River Network Distance Computation and Applications
Description: Reads river network shape files and computes network distances.
Also included are a variety of computation and graphical tools designed
for fisheries telemetry research, such as minimum home range, kernel density
estimation, and clustering analysis using empirical k-functions with
a bootstrap envelope. Tools are also provided for editing the river
networks, meaning there is no reliance on external software.
Author: Matt Tyers [aut, cre]
Maintainer: Matt Tyers <matttyersstat@gmail.com>
Diff between riverdist versions 0.15.5 dated 2022-01-04 and 0.16.0 dated 2023-08-07
DESCRIPTION | 14 MD5 | 97 - NAMESPACE | 13 NEWS.md | 220 +-- R/apps_of_direction.R | 16 R/apps_of_riverdistance.R | 10 R/cleanup_verts.R | 28 R/dataset_help.R | 9 R/detectbraiding.R | 10 R/detectroute_riverdistance.R | 2 R/dissolve_zoom.R | 28 R/plotdensity.R | 2 R/riverdist_1.R | 558 ++------ R/segs_direction.R | 11 R/segsplit.R | 53 R/shortestroute_cleanup.R | 12 README.md | 16 build/vignette.rds |binary data/Gulk.rda |binary data/Kenai1.rda |binary data/Kenai2.rda |binary data/Kenai3.rda |binary data/KilleyW.rda |binary data/Koyukuk0.rda |binary data/Koyukuk1.rda |binary data/Koyukuk2.rda |binary data/abstreams.rda |binary data/abstreams0.rda |binary data/fakefish_density.rda |binary inst/doc/riverdist_vignette.R | 636 ++++----- inst/doc/riverdist_vignette.Rmd | 4 inst/doc/riverdist_vignette.html | 2330 ++++++++++++++++++++++------------- inst/extdata/West_Fork_Trib2.dbf |only inst/extdata/West_Fork_Trib2.prj |only inst/extdata/West_Fork_Trib2.sbn |only inst/extdata/West_Fork_Trib2.sbx |only inst/extdata/West_Fork_Trib2.shp |only inst/extdata/West_Fork_Trib2.shp.xml |only inst/extdata/West_Fork_Trib2.shx |only man/cleanup_verts.Rd | 12 man/highlightseg.Rd | 9 man/line2network.Rd | 29 man/plot.rivernetwork.Rd | 10 man/pointshp2segvert.Rd | 3 man/riverdist-package.Rd | 68 - man/riverdistancelist.Rd | 2 man/rivernetwork.Rd | 9 man/riverpoints.Rd | 6 man/routelist.Rd | 2 man/trimriver.Rd | 4 man/xy2segvert.Rd | 9 tests/testthat/test_riverdist.R | 968 +++++++------- vignettes/riverdist_vignette.Rmd | 4 53 files changed, 2854 insertions(+), 2350 deletions(-)
Title: Easily Create Structured Lists or Data Frames with Input
Validation
Description: Easily define templates for lists and data frames that validate
each element. Specify the expected type (i.e., character, numeric, etc),
expected length, minimum and maximum values, allowable values, and more for
each element in your data. Decide whether violations of these expectations
should throw an error or a warning. This package is useful for validating
data within R processes which pull from dynamic data sources such as
databases and web APIs to provide an extra layer of validation around input
and output data.
Author: Chris Walker [aut, cre, cph]
Maintainer: Chris Walker <walkerjameschris@gmail.com>
Diff between dataclass versions 0.2.1 dated 2023-03-21 and 0.3.0 dated 2023-08-07
DESCRIPTION | 6 LICENSE | 2 MD5 | 31 - NAMESPACE | 25 - R/dataclass.R | 499 +++++++++++++++--------- R/utilities.R |only R/validator.R | 1005 +++++++++++++++++++++----------------------------- README.md | 28 - man/any_obj.Rd | 98 ++-- man/atm_vec.Rd | 132 +++--- man/chr_vec.Rd | 114 ++--- man/data_validator.Rd | 118 ++--- man/dataclass.Rd | 144 +++---- man/df_like.Rd | 80 +-- man/dte_vec.Rd | 128 +++--- man/lgl_vec.Rd | 84 ++-- man/num_vec.Rd | 162 ++++---- 17 files changed, 1322 insertions(+), 1334 deletions(-)
Title: Classification with Parallel Factor Analysis
Description: Classification using Richard A. Harshman's Parallel Factor Analysis (Parafac) model-1 fit to a three-way or four-way data tensor/array. See Harshman and Lundy (1994): <doi:10.1016/0167-9473(94)90132-5>. Uses Parafac factor weights from one mode of this model as predictors to tune parameters for one or more classification methods via a k-fold cross-validation procedure. Supports penalized logistic regression, support vector machine, random forest, and feed-forward neural network. Supports binary and multiclass classification. Predicts class labels or class probabilities and calculates multiple classification performance measures. Parallel computing is implemented via the 'parallel' and 'doParallel' packages.
Author: Matthew A. Snodgress <snodg031@umn.edu>
Maintainer: Matthew A. Snodgress <snodg031@umn.edu>
Diff between cpfa versions 1.0-4 dated 2022-06-20 and 1.0-5 dated 2023-08-07
DESCRIPTION | 8 MD5 | 14 + R/cpfa.R | 424 +++++++++++----------------------------------------- R/cpm.all.R |only R/tune.cpfa.R |only man/cpfa.Rd | 102 ++++-------- man/cpm.Rd | 4 man/cpm.all.Rd |only man/predict.cpfa.Rd | 8 man/tune.cpfa.Rd |only 10 files changed, 148 insertions(+), 412 deletions(-)
Title: Semi-Automatic Preprocessing of Messy Data with Change Tracking
for Dataset Cleaning
Description: Tools for assessing data quality, performing exploratory analysis, and
semi-automatic preprocessing of messy data with change tracking for integral dataset cleaning.
Author: David Hervas Marin
Maintainer: David Hervas Marin <ddhervas@yahoo.es>
Diff between clickR versions 0.8.3 dated 2022-09-24 and 0.9.39 dated 2023-08-07
DESCRIPTION | 12 + MD5 | 24 ++- NAMESPACE | 3 NEWS | 4 R/check_quality.R | 7 - R/fix_functions.R | 325 ++++++++++++++++++++++++++++++-------------------- R/mtcars_messy-data.R |only README.md | 107 ++++++++++++++++ data |only man/check_quality.Rd | 3 man/fix_NA.Rd | 5 man/fix_dates.Rd | 5 man/fix_numerics.Rd | 11 + man/mtcars_messy.Rd |only man/v_df_changes.Rd |only 15 files changed, 355 insertions(+), 151 deletions(-)
Title: Tools for Analyzing Shapes and Patterns
Description: This is an evolving and growing collection of tools for the quantification, assessment, and comparison of shape and pattern. This collection provides tools for: (1) the spatial decomposition of planar shapes using 'ShrinkShape' to incrementally shrink shapes to extinction while computing area, perimeter, and number of parts at each iteration of shrinking; the spectra of results are returned in graphic and tabular formats (Remmel 2015) <doi:10.1111/cag.12222>, (2) simulating landscape patterns, (3) provision of tools for estimating composition and configuration parameters from a categorical (binary) landscape map (grid) and then simulates a selected number of statistically similar landscapes. Class-focused pattern metrics are computed for each simulated map to produce empirical distributions against which statistical comparisons can be made. The code permits the analysis of single maps or pairs of maps (Remmel and Fortin 2013) <doi:10.1007/s10980-013-9905-x>, (4) counting th [...truncated...]
Author: Tarmo K. Remmel [aut, cre] ,
Marie-Josee Fortin [ctb],
Ferenc Csillag [ctb],
Sandor Kabos [ctb]
Maintainer: Tarmo K. Remmel <remmelt@yorku.ca>
Diff between ShapePattern versions 2.2.0 dated 2021-12-10 and 3.0.0 dated 2023-08-07
ShapePattern-2.2.0/ShapePattern/R/batchssr.R |only ShapePattern-2.2.0/ShapePattern/R/shpsplitter.R |only ShapePattern-2.2.0/ShapePattern/man/batchssr.Rd |only ShapePattern-2.2.0/ShapePattern/man/shpsplitter.Rd |only ShapePattern-3.0.0/ShapePattern/DESCRIPTION | 10 ShapePattern-3.0.0/ShapePattern/MD5 | 24 -- ShapePattern-3.0.0/ShapePattern/NAMESPACE | 10 ShapePattern-3.0.0/ShapePattern/NEWS.md | 11 ShapePattern-3.0.0/ShapePattern/R/CARsimu.R | 5 ShapePattern-3.0.0/ShapePattern/R/build.lut.R | 4 ShapePattern-3.0.0/ShapePattern/R/ssr.R | 133 ++++++------ ShapePattern-3.0.0/ShapePattern/build/partial.rdb |binary ShapePattern-3.0.0/ShapePattern/man/ShapePattern-package.Rd | 2 ShapePattern-3.0.0/ShapePattern/man/build.lut.Rd | 12 - ShapePattern-3.0.0/ShapePattern/man/ssr.Rd | 21 + 15 files changed, 128 insertions(+), 104 deletions(-)
Title: Creation, Reading and Validation of 'mzqc' Files
Description: Reads, writes and validates 'mzQC' files. The 'mzQC' format is a
standardized file format for the exchange, transmission, and archiving of
quality metrics derived from biological mass spectrometry data, as defined
by the HUPO-PSI (Human Proteome Organisation - Proteomics Standards Initiative)
Quality Control working group.
See <https://hupo-psi.github.io/mzQC/> for details.
Author: Chris Bielow [aut, cre] ,
David Jimenez-Morales [rev, ctb]
Maintainer: Chris Bielow <chris.bielow@bsc.fu-berlin.de>
Diff between rmzqc versions 0.5.1 dated 2023-07-11 and 0.5.2 dated 2023-08-07
rmzqc-0.5.1/rmzqc/man/rmzqc.Rd |only rmzqc-0.5.2/rmzqc/DESCRIPTION | 8 - rmzqc-0.5.2/rmzqc/MD5 | 41 ++++----- rmzqc-0.5.2/rmzqc/NAMESPACE | 1 rmzqc-0.5.2/rmzqc/NEWS.md | 10 ++ rmzqc-0.5.2/rmzqc/R/io.R | 88 ++++++++++---------- rmzqc-0.5.2/rmzqc/R/misc.R | 2 rmzqc-0.5.2/rmzqc/R/obo.R | 92 +++++++++++++-------- rmzqc-0.5.2/rmzqc/R/rmzqc-package.R |only rmzqc-0.5.2/rmzqc/R/rmzqc.R | 7 - rmzqc-0.5.2/rmzqc/inst/doc/basic_guide.R | 10 ++ rmzqc-0.5.2/rmzqc/inst/doc/basic_guide.Rmd | 23 +++++ rmzqc-0.5.2/rmzqc/inst/doc/basic_guide.html | 38 +++++++- rmzqc-0.5.2/rmzqc/inst/doc/using_a_custom_cv.R | 16 ++- rmzqc-0.5.2/rmzqc/inst/doc/using_a_custom_cv.Rmd | 16 ++- rmzqc-0.5.2/rmzqc/inst/doc/using_a_custom_cv.html | 34 ++++--- rmzqc-0.5.2/rmzqc/inst/doc/validation_guide.html | 4 rmzqc-0.5.2/rmzqc/man/CV_.Rd | 55 ++++++++---- rmzqc-0.5.2/rmzqc/man/rmzqc-package.Rd |only rmzqc-0.5.2/rmzqc/tests/testthat/test_conversion.R | 3 rmzqc-0.5.2/rmzqc/tests/testthat/test_obo.R | 2 rmzqc-0.5.2/rmzqc/vignettes/basic_guide.Rmd | 23 +++++ rmzqc-0.5.2/rmzqc/vignettes/using_a_custom_cv.Rmd | 16 ++- 23 files changed, 316 insertions(+), 173 deletions(-)
Title: Interface to 'MLflow'
Description: R interface to 'MLflow', open source platform for
the complete machine learning life cycle, see <https://mlflow.org/>.
This package supports installing 'MLflow', tracking experiments,
creating and running projects, and saving and serving models.
Author: Matei Zaharia [aut, cre],
Javier Luraschi [aut],
Kevin Kuo [aut] ,
RStudio [cph]
Maintainer: Matei Zaharia <matei@databricks.com>
Diff between mlflow versions 2.4.1 dated 2023-06-13 and 2.5.0 dated 2023-08-07
DESCRIPTION | 6 +++--- MD5 | 2 +- 2 files changed, 4 insertions(+), 4 deletions(-)
Title: Differential Evolution Optimization in Pure R
Description: Differential Evolution (DE) stochastic heuristic algorithms for
global optimization of problems with and without general constraints.
The aim is to curate a collection of its variants that
(1) do not sacrifice simplicity of design,
(2) are essentially tuning-free, and
(3) can be efficiently implemented directly in the R language.
Currently, it provides implementations of the algorithms 'jDE' by
Brest et al. (2006) <doi:10.1109/TEVC.2006.872133> for single-objective
optimization and 'NCDE' by Qu et al. (2012) <doi:10.1109/TEVC.2011.2161873>
for multimodal optimization.
Author: Eduardo L. T. Conceicao [aut, cre],
Martin Maechler [ctb]
Maintainer: Eduardo L. T. Conceicao <mail@eduardoconceicao.org>
Diff between DEoptimR versions 1.1-0 dated 2023-07-12 and 1.1-1 dated 2023-08-07
DESCRIPTION | 12 ++--- MD5 | 14 +++--- R/JDEoptim.R | 15 ++++-- R/NCDEoptim.R | 113 +++++++++++++++++++++++++------------------------- inst/NEWS.Rd | 13 +++-- man/JDEoptim.Rd | 10 ++-- man/NCDEoptim.Rd | 19 ++++---- tests/NCDEoptim-tst.R | 4 - 8 files changed, 105 insertions(+), 95 deletions(-)
Title: Multivariate Polynomials with Rational Coefficients
Description: Symbolic calculation and evaluation of multivariate
polynomials with rational coefficients. This package is strongly
inspired by the 'spray' package. It also provides a function to
compute Gröbner bases (reference <doi:10.1007/978-3-319-16721-3>).
Author: Stephane Laurent [aut, cre],
Robin Hankin [ctb, cph]
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Diff between qspray versions 2.0.0 dated 2023-07-15 and 2.1.0 dated 2023-08-07
qspray-2.0.0/qspray/man/qspray-package.Rd |only qspray-2.1.0/qspray/DESCRIPTION | 8 - qspray-2.1.0/qspray/MD5 | 23 ++- qspray-2.1.0/qspray/NAMESPACE | 2 qspray-2.1.0/qspray/NEWS.md | 9 + qspray-2.1.0/qspray/R/RcppExports.R | 8 + qspray-2.1.0/qspray/R/groebner.R | 171 +++++++++++++++++++++++++---- qspray-2.1.0/qspray/R/internal.R | 6 - qspray-2.1.0/qspray/README.md | 2 qspray-2.1.0/qspray/inst |only qspray-2.1.0/qspray/man/implicitization.Rd |only qspray-2.1.0/qspray/src/RcppExports.cpp | 29 ++++ qspray-2.1.0/qspray/src/armalex.cpp |only qspray-2.1.0/qspray/src/qspray.cpp | 171 +++++++++++++++++++++++++---- 14 files changed, 371 insertions(+), 58 deletions(-)
Title: Automated Uncertainty Analysis
Description: Methods and tools for model selection and multi-model inference (Burnham and Anderson (2002) <doi:10.1007/b97636>, among others).
'SUR' (for parameter estimation), 'logit'/'probit' (for binary classification), and 'VARMA' (for time-series forecasting) are implemented.
Evaluations are both in-sample and out-of-sample.
It is designed to be efficient in terms of CPU usage and memory consumption.
Author: Ramin Mojab [aut, cre],
Stephen Becker [cph] by Ciyou Zhu . L-BFGS-B Version 3.0 is an
algorithmic update from 2011, with coding changes by J. L. Morales)
Maintainer: Ramin Mojab <rmojab63@gmail.com>
Diff between ldt versions 0.3.1.0 dated 2023-07-07 and 0.3.2.1 dated 2023-08-07
DESCRIPTION | 18 +- MD5 | 160 ++++++++++----------- NEWS.md | 8 + R/RcppExports.R | 8 - R/helpers.R | 46 +++--- R/options.R | 14 + R/sur.R | 19 ++ R/varma.R | 10 + inst/doc/bin.html | 16 +- inst/doc/sur.html | 8 - inst/doc/varma.html | 6 man/estim.sur.Rd | 3 man/estim.varma.Rd | 3 man/get.options.metric.Rd | 5 src/RcppExports.cpp | 18 +- src/array.cpp | 11 - src/array.h | 235 +++++++++++++++++++++++++++++++- src/clustering.h | 6 src/correlation.cpp | 11 - src/correlation.h | 3 src/data_split.cpp | 25 +-- src/dataset.cpp | 18 +- src/decompositions.cpp | 8 - src/derivative.cpp | 14 + src/descriptive.cpp | 14 + src/discrete_choice.cpp | 87 +++++++---- src/discrete_choice.h | 9 - src/discrete_choice_extended.cpp | 16 +- src/discrete_choice_modelset.cpp | 75 ++++++---- src/discrete_choice_sim.cpp | 67 +++++---- src/distance.cpp | 20 +- src/distribution_gld.cpp | 5 src/distributions_uni.cpp | 215 +++++++++++++++++++---------- src/frequency_cost.cpp | 25 +-- src/group_data.cpp | 35 ++-- src/hcluster.cpp | 11 - src/helpers.cpp | 36 ---- src/helpers.h | 77 ++++++++-- src/lmbfgsb.cpp | 3 src/matrix.cpp | 286 ++++++++++++++++++++++----------------- src/matrix.h | 20 +- src/matrix_la.cpp | 71 ++++++--- src/matrix_sym.cpp | 10 - src/mixture.cpp | 17 +- src/mnormal.cpp | 5 src/modelset.cpp | 21 +- src/mpolynomial.cpp | 25 +-- src/nelder_mead.cpp | 8 - src/newton.cpp | 15 +- src/pca.cpp | 42 +++-- src/polynomial.cpp | 9 - src/r_clustering.cpp | 10 - src/r_dc.cpp | 66 +++++---- src/r_ldt.cpp | 162 +++++++++++++++------- src/r_statistics.cpp | 46 +++--- src/r_sur.cpp | 132 +++++++++++++----- src/r_varma.cpp | 121 ++++++++++++---- src/roc.cpp | 22 +-- src/scoring.cpp | 101 +------------ src/scoring.h | 24 --- src/searcher.cpp | 35 ++-- src/searchers.h | 3 src/statistics.cpp | 25 ++- src/summary.cpp | 30 ++-- src/sur.cpp | 61 ++++---- src/sur.h | 14 + src/sur_extended.cpp | 35 ++-- src/sur_modelset.cpp | 41 +++-- src/sur_projection.cpp | 3 src/sur_simulation.cpp | 76 +++++++--- src/varma.cpp | 38 +++-- src/varma.h | 25 ++- src/varma_arma.cpp | 5 src/varma_extended.cpp | 31 ++-- src/varma_forecast.cpp | 18 +- src/varma_modelset.cpp | 96 +++++++------ src/varma_restriction.cpp | 18 +- src/varma_simulation.cpp | 224 +++++++++++++++++++++++++----- src/varma_sizes.cpp | 8 - tests/testthat/test-sur.R | 15 ++ tests/testthat/test-varma.R | 12 + 81 files changed, 2212 insertions(+), 1182 deletions(-)
Title: Isolation-Based Outlier Detection
Description: Fast and multi-threaded implementation of
isolation forest (Liu, Ting, Zhou (2008) <doi:10.1109/ICDM.2008.17>),
extended isolation forest (Hariri, Kind, Brunner (2018) <arXiv:1811.02141>),
SCiForest (Liu, Ting, Zhou (2010) <doi:10.1007/978-3-642-15883-4_18>),
fair-cut forest (Cortes (2021) <arXiv:2110:13402>),
robust random-cut forest (Guha, Mishra, Roy, Schrijvers (2016) <http://proceedings.mlr.press/v48/guha16.html>),
and customizable variations of them, for isolation-based outlier detection, clustered outlier detection,
distance or similarity approximation (Cortes (2019) <arXiv:1910.12362>),
isolation kernel calculation (Ting, Zhu, Zhou (2018) <doi:10.1145/3219819.3219990>),
and imputation of missing values (Cortes (2019) <arXiv:1911.06646>),
based on random or guided decision tree splitting, and providing different metrics for
scoring anomalies based on isolation depth or density (Cortes (2021) <arXiv:2111.11639>).
Provides simp [...truncated...]
Author: David Cortes [aut, cre, cph],
Thibaut Goetghebuer-Planchon [cph] ,
David Blackman [cph] ,
Sebastiano Vigna [cph] ,
NumPy Developers [cph] ,
SciPy Developers [cph] ,
Enthought Inc [cph] ,
Stephen Moshier [cph]
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between isotree versions 0.5.20 dated 2023-05-23 and 0.5.22 dated 2023-08-07
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- configure | 29 ++++++++++++++--------------- configure.ac | 2 +- src/impute.h | 48 ++++++++++++++++++++++++++++++++++++++---------- src/sql.cpp | 4 ++-- 6 files changed, 64 insertions(+), 37 deletions(-)
Title: Gaussian Model Invariant by Permutation Symmetry
Description: Find the permutation symmetry group such that the covariance
matrix of the given data is approximately invariant under it.
Discovering such a permutation decreases the number of observations
needed to fit a Gaussian model, which is of great use when it is
smaller than the number of variables. Even if that is not the case,
the covariance matrix found with 'gips' approximates the actual
covariance with less statistical error. The methods implemented in
this package are described in Graczyk et al. (2022)
<doi:10.1214/22-AOS2174>.
Author: Adam Przemyslaw Chojecki [aut, cre],
Pawel Morgen [aut],
Bartosz Kolodziejek [aut]
Maintainer: Adam Przemyslaw Chojecki <adam.prze.choj@gmail.com>
Diff between gips versions 1.0.0 dated 2022-10-13 and 1.2.0 dated 2023-08-07
gips-1.0.0/gips/man/as.character.Rd |only gips-1.0.0/gips/tests/testthat/Rplots.pdf |only gips-1.2.0/gips/DESCRIPTION | 37 gips-1.2.0/gips/MD5 | 124 - gips-1.2.0/gips/NAMESPACE | 7 gips-1.2.0/gips/NEWS.md | 42 gips-1.2.0/gips/R/calculate_gamma_function.R | 39 gips-1.2.0/gips/R/estimate_probabilities.R | 28 gips-1.2.0/gips/R/find_MAP.R | 237 +- gips-1.2.0/gips/R/get_structure_constants.R | 36 gips-1.2.0/gips/R/gips_class.R | 863 +++++++--- gips-1.2.0/gips/R/gips_perm_class.R | 77 gips-1.2.0/gips/R/log_posteriori_of_gips.R | 245 +- gips-1.2.0/gips/R/prepare_orthogonal_matrix.R | 26 gips-1.2.0/gips/R/project_matrix.R | 63 gips-1.2.0/gips/R/sysdata.rda |only gips-1.2.0/gips/R/utils.R | 3 gips-1.2.0/gips/README.md | 194 +- gips-1.2.0/gips/build/partial.rdb |binary gips-1.2.0/gips/build/vignette.rds |binary gips-1.2.0/gips/inst/WORDLIST | 16 gips-1.2.0/gips/inst/doc/Optimizers.R | 148 + gips-1.2.0/gips/inst/doc/Optimizers.Rmd | 289 ++- gips-1.2.0/gips/inst/doc/Optimizers.html | 674 ++++--- gips-1.2.0/gips/inst/doc/Theory.R | 116 - gips-1.2.0/gips/inst/doc/Theory.Rmd | 217 +- gips-1.2.0/gips/inst/doc/Theory.html | 544 +++--- gips-1.2.0/gips/inst/doc/gips.R | 147 + gips-1.2.0/gips/inst/doc/gips.Rmd | 205 +- gips-1.2.0/gips/inst/doc/gips.html | 473 ++--- gips-1.2.0/gips/man/AIC.gips.Rd |only gips-1.2.0/gips/man/as.character.gips.Rd |only gips-1.2.0/gips/man/as.character.gips_perm.Rd |only gips-1.2.0/gips/man/calculate_gamma_function.Rd | 30 gips-1.2.0/gips/man/compare_posteriories_of_perms.Rd | 52 gips-1.2.0/gips/man/figures/README-example_mean_known1_1-1.png |only gips-1.2.0/gips/man/figures/README-example_mean_known3_1-1.png |only gips-1.2.0/gips/man/figures/README-example_mean_known6-1.png |binary gips-1.2.0/gips/man/figures/README-example_mean_unknown2-1.png |binary gips-1.2.0/gips/man/figures/README-example_mean_unknown4-1.png |binary gips-1.2.0/gips/man/find_MAP.Rd | 101 - gips-1.2.0/gips/man/forget_perms.Rd | 10 gips-1.2.0/gips/man/get_probabilities_from_gips.Rd | 15 gips-1.2.0/gips/man/get_structure_constants.Rd | 10 gips-1.2.0/gips/man/gips.Rd | 64 gips-1.2.0/gips/man/gips_perm.Rd | 33 gips-1.2.0/gips/man/logLik.gips.Rd |only gips-1.2.0/gips/man/log_posteriori_of_gips.Rd | 44 gips-1.2.0/gips/man/plot.gips.Rd | 42 gips-1.2.0/gips/man/prepare_orthogonal_matrix.Rd | 22 gips-1.2.0/gips/man/print.gips.Rd | 10 gips-1.2.0/gips/man/print.gips_perm.Rd | 8 gips-1.2.0/gips/man/project_matrix.Rd | 39 gips-1.2.0/gips/man/summary.gips.Rd | 124 - gips-1.2.0/gips/tests/testthat/setup.R | 1 gips-1.2.0/gips/tests/testthat/test-calculate_gamma_function.R | 7 gips-1.2.0/gips/tests/testthat/test-dependencies.R |only gips-1.2.0/gips/tests/testthat/test-find_MAP.R | 53 gips-1.2.0/gips/tests/testthat/test-get_structure_constants.R | 21 gips-1.2.0/gips/tests/testthat/test-gips_class.R | 390 +++- gips-1.2.0/gips/tests/testthat/test-gips_perm_class.R | 25 gips-1.2.0/gips/tests/testthat/test-log_posteriori_of_gips.R | 102 + gips-1.2.0/gips/tests/testthat/test-prepare_orthogonal_matrix.R | 8 gips-1.2.0/gips/tests/testthat/test-project_matrix.R | 67 gips-1.2.0/gips/tests/testthat/test-utils.R | 8 gips-1.2.0/gips/vignettes/Optimizers.Rmd | 289 ++- gips-1.2.0/gips/vignettes/Theory.Rmd | 217 +- gips-1.2.0/gips/vignettes/gips.Rmd | 205 +- 68 files changed, 4530 insertions(+), 2317 deletions(-)
Title: Volumetric Analysis using Graphic Double Integration
Description: Tools implementing an automated version of the graphic double integration technique first employed by Jerison (1973) <ISBN:9780323141086> and Hurlburt (1999) <doi:10.1080/02724634.1999.10011145>. Graphic double integration is primarily used for volume or mass estimation of (extinct) animals, and the package 'gdi' aims to make this technique as convenient and versatile as possible. The main functions of 'gdi' provide utilities for automatically measuring diameters from digital silhouettes provided as image files, and for calculating volume via graphic double integration with a simple elliptical, superelliptical (following Motani 2001 <doi:10.1666/0094-8373(2001)027%3C0735:EBMFST%3E2.0.CO;2>) or complex cross-sectional model. Additionally, the package contains functions to help with estimating the position of the center of mass (COM), and for visualizing results.
Author: Darius Nau [aut, cre]
Maintainer: Darius Nau <dariusnau@gmx.at>
Diff between gdi versions 1.2.2 dated 2023-06-07 and 1.4.1 dated 2023-08-07
DESCRIPTION | 10 - MD5 | 37 +++- NAMESPACE | 5 NEWS.md | 40 +++++ R/gdi.r | 328 +++++++++++++++++++++++++++++++++++-------- build/vignette.rds |binary inst/doc/estimating_COM.R |only inst/doc/estimating_COM.Rmd |only inst/doc/estimating_COM.html |only inst/doc/gdi.R | 14 + inst/doc/gdi.Rmd | 31 +++- inst/doc/gdi.html | 69 ++++++--- inst/exdata/dors.png |binary inst/exdata/fl.png |only inst/exdata/hl.png |only inst/exdata/lat.png |binary man/gdi.Rd | 9 - man/hCOM.Rd |only man/measuresil.Rd | 15 + man/plot_sil.Rd |only man/vCOM.Rd |only tests/testthat/test-tests.R | 37 ++++ vignettes/estimating_COM.Rmd |only vignettes/gdi.Rmd | 31 +++- 24 files changed, 513 insertions(+), 113 deletions(-)
Title: Miscellaneous Functions for Environmental Analyses
Description: Small toolbox for data analyses in environmental chemistry and
ecotoxicology. Provides, for example, calibration() to calculate calibration
curves and corresponding limits of detection (LODs) and limits of
quantification (LOQs) according to German DIN 32645 (2008). texture() makes
it easy to estimate soil particle size distributions from hydrometer
measurements (ASTM D422-63, 2007).
Author: Zacharias Steinmetz [aut, cre]
,
Julius Albert [ctb] ,
Kilian Kenngott [ctb]
Maintainer: Zacharias Steinmetz <z.steinmetz@rptu.de>
Diff between envalysis versions 0.5.4 dated 2022-10-07 and 0.5.5 dated 2023-08-07
envalysis-0.5.4/envalysis/inst/doc/texture.html |only envalysis-0.5.5/envalysis/DESCRIPTION | 18 +-- envalysis-0.5.5/envalysis/MD5 | 45 +++---- envalysis-0.5.5/envalysis/NEWS.md | 11 + envalysis-0.5.5/envalysis/R/calibration.R | 22 ++- envalysis-0.5.5/envalysis/R/theme_publish.R | 17 +- envalysis-0.5.5/envalysis/README.md | 4 envalysis-0.5.5/envalysis/build/partial.rdb |binary envalysis-0.5.5/envalysis/build/vignette.rds |binary envalysis-0.5.5/envalysis/inst/doc/texture.Rmd | 58 ++++++---- envalysis-0.5.5/envalysis/inst/doc/texture.pdf |only envalysis-0.5.5/envalysis/inst/doc/theme_publish.html | 22 +-- envalysis-0.5.5/envalysis/man/calibration.Rd | 2 envalysis-0.5.5/envalysis/man/envalysis-package.Rd | 6 - envalysis-0.5.5/envalysis/man/theme_publish.Rd | 4 envalysis-0.5.5/envalysis/tests/testthat/_snaps/calibration.md | 50 ++++++++ envalysis-0.5.5/envalysis/tests/testthat/_snaps/calibration/plot.png |binary envalysis-0.5.5/envalysis/tests/testthat/_snaps/texture/plot.png |binary envalysis-0.5.5/envalysis/tests/testthat/test-calibration.R | 8 + envalysis-0.5.5/envalysis/tests/testthat/test-theme_publish.R | 2 envalysis-0.5.5/envalysis/vignettes/texture.Rmd | 58 ++++++---- envalysis-0.5.5/envalysis/vignettes/texture.html |only envalysis-0.5.5/envalysis/vignettes/texture_files/figure-html/texture-1.png |binary envalysis-0.5.5/envalysis/vignettes/theme_publish_files/figure-html/theme_publish-1.png |binary envalysis-0.5.5/envalysis/vignettes/theme_publish_files/figure-html/theme_publish-2.png |binary 25 files changed, 206 insertions(+), 121 deletions(-)
Title: Economic Statistics System of the Bank of Korea
Description: API wrapper to download statistical information from the Economic
Statistics System (ECOS) of the Bank of Korea
<https://ecos.bok.or.kr/api/#/>.
Author: Seokhoon Joo [aut, cre],
Jaehyun Joo [ctb]
Maintainer: Seokhoon Joo <seokhoonj@gmail.com>
Diff between ecos versions 0.1.4 dated 2023-07-20 and 0.1.5 dated 2023-08-07
ecos-0.1.4/ecos/man/setKey.Rd |only ecos-0.1.5/ecos/DESCRIPTION | 8 ++--- ecos-0.1.5/ecos/MD5 | 45 ++++++++++++++--------------- ecos-0.1.5/ecos/NAMESPACE | 4 +- ecos-0.1.5/ecos/NEWS.md |only ecos-0.1.5/ecos/R/ecos-package.R | 2 - ecos-0.1.5/ecos/R/keyStatList.R | 17 ++++------ ecos-0.1.5/ecos/R/setKey.R | 20 ++++++------ ecos-0.1.5/ecos/R/statItemList.R | 21 +++++-------- ecos-0.1.5/ecos/R/statMeta.R | 19 +++++------- ecos-0.1.5/ecos/R/statSearch.R | 25 ++++++---------- ecos-0.1.5/ecos/R/statTableList.R | 19 +++++------- ecos-0.1.5/ecos/R/statWord.R | 19 +++++------- ecos-0.1.5/ecos/R/utils.R | 48 +++++++++++++------------------ ecos-0.1.5/ecos/README.md | 48 +++++++++++++++++++++---------- ecos-0.1.5/ecos/man/ecos-package.Rd | 4 +- ecos-0.1.5/ecos/man/ecos.setKey.Rd |only ecos-0.1.5/ecos/man/keyStatList.Rd | 11 ------- ecos-0.1.5/ecos/man/showStatItemList.Rd | 11 +------ ecos-0.1.5/ecos/man/showStatTableList.Rd | 4 -- ecos-0.1.5/ecos/man/statItemList.Rd | 5 --- ecos-0.1.5/ecos/man/statMeta.Rd | 12 ------- ecos-0.1.5/ecos/man/statSearch.Rd | 5 --- ecos-0.1.5/ecos/man/statTableList.Rd | 11 ------- ecos-0.1.5/ecos/man/statWord.Rd | 12 ------- 25 files changed, 153 insertions(+), 217 deletions(-)
Title: Functions Useful in the Design and ANOVA of Experiments
Description: The content falls into the following groupings: (i) Data, (ii)
Factor manipulation functions, (iii) Design functions, (iv) ANOVA functions, (v)
Matrix functions, (vi) Projector and canonical efficiency functions, and (vii)
Miscellaneous functions. There is a vignette describing how to use the
design functions for randomizing and assessing designs available as a
vignette called 'DesignNotes'. The ANOVA functions facilitate the extraction of
information when the 'Error' function has been used in the call to 'aov'.
The package 'dae' can also be installed from
<http://chris.brien.name/rpackages/>.
Author: Chris Brien [aut, cre]
Maintainer: Chris Brien <chris.brien@adelaide.edu.au>
Diff between dae versions 3.2.15 dated 2023-03-10 and 3.2.19 dated 2023-08-07
DESCRIPTION | 12 +-- MD5 | 52 ++++++++------ NAMESPACE | 1 R/dae.utilties.r | 15 ++-- R/designGGPlot.v1.r | 118 +++++++++++++++++++++++++++----- R/projs.canon.v5.r | 11 +- R/projs2.canon.v5.r | 4 - R/pstructure.v3.r | 2 build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 18 ++++ inst/doc/DesignNotes.pdf |binary inst/doc/dae-manual.pdf |binary man/as.numfac.Rd | 4 - man/dae-package.Rd | 4 - man/designBlocksGGPlot.Rd | 13 +++ man/designGGPlot.Rd | 28 ++++++- man/fac.uselogical.Rd | 2 tests/testthat.R | 2 tests/testthat/_snaps |only tests/testthat/testCanon.r | 3 tests/testthat/testDesignGGPlot.r |only tests/testthat/testInteractionABCplot.r | 15 ++-- tests/testthat/testthat-problems.rds |only 24 files changed, 230 insertions(+), 74 deletions(-)
Title: Multidimensional Cluster Generation Using Support Lines
Description: An implementation of the clugen algorithm for generating
multidimensional clusters with arbitrary distributions. Each cluster is
supported by a line segment, the position, orientation and length of which
guide where the respective points are placed. This package is described in
Fachada & de Andrade (2023) <doi:10.1016/j.knosys.2023.110836>.
Author: Nuno Fachada [aut, cre, cph]
Maintainer: Nuno Fachada <faken@fakenmc.com>
Diff between clugenr versions 0.4.0 dated 2023-06-25 and 1.0.0 dated 2023-08-07
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- README.md | 6 ++++-- build/clugenr.pdf |binary build/stage23.rdb |binary build/vignette.rds |binary inst/CITATION | 9 ++++++--- inst/doc/examples3d1.html | 28 ++++++++++++++-------------- inst/doc/examples3d2.html | 28 ++++++++++++++-------------- 9 files changed, 50 insertions(+), 45 deletions(-)
Title: Helpers for Model Coefficients Tibbles
Description: Provides suite of functions to work with regression model
'broom::tidy()' tibbles. The suite includes functions to group
regression model terms by variable, insert reference and header rows
for categorical variables, add variable labels, and more.
Author: Joseph Larmarange [aut, cre] ,
Daniel D. Sjoberg [aut]
Maintainer: Joseph Larmarange <joseph@larmarange.net>
Diff between broom.helpers versions 1.13.0 dated 2023-03-28 and 1.14.0 dated 2023-08-07
DESCRIPTION | 22 MD5 | 175 +-- NAMESPACE | 9 NEWS.md | 12 R/assert_package.R | 32 R/broom.helpers-package.R | 7 R/custom_tidiers.R | 175 ++- R/marginal_tidiers.R | 170 +-- R/model_compute_terms_contributions.R | 50 R/model_get_assign.R | 4 R/model_get_coefficients_type.R | 43 R/model_get_contrasts.R | 30 R/model_get_model_matrix.R | 20 R/model_get_n.R | 23 R/model_get_nlevels.R | 3 R/model_get_offset.R | 2 R/model_get_pairwise_contrasts.R | 70 - R/model_get_response.R | 3 R/model_get_terms.R | 6 R/model_get_xlevels.R | 5 R/model_identify_variables.R | 3 R/model_list_contrasts.R | 20 R/model_list_higher_order_variables.R | 3 R/model_list_terms_levels.R | 108 + R/model_list_variables.R | 119 +- R/select_helpers.R | 69 - R/select_utilities.R | 163 +- R/tidy_add_coefficients_type.R | 13 R/tidy_add_contrasts.R | 6 R/tidy_add_estimate_to_reference_rows.R | 78 - R/tidy_add_header_rows.R | 174 ++- R/tidy_add_n.R | 12 R/tidy_add_pairwise_contrasts.R | 38 R/tidy_add_reference_rows.R | 107 + R/tidy_add_term_labels.R | 7 R/tidy_and_attach.R | 71 - R/tidy_disambiguate_terms.R | 20 R/tidy_identify_variables.R | 11 R/tidy_plus_plus.R | 35 R/tidy_select_variables.R | 11 build/vignette.rds |binary data/supported_models.rda |binary inst/WORDLIST | 6 inst/doc/tidy.R | 13 inst/doc/tidy.Rmd | 13 inst/doc/tidy.html | 1046 ++++++++++--------- man/model_get_contrasts.Rd | 9 man/model_get_model_matrix.Rd | 3 man/model_get_n.Rd | 3 man/model_get_pairwise_contrasts.Rd | 13 man/model_get_terms.Rd | 3 man/model_list_contrasts.Rd | 2 man/model_list_terms_levels.Rd | 12 man/model_list_variables.Rd | 44 man/select_helpers.Rd | 13 man/supported_models.Rd | 3 man/tidy_add_estimate_to_reference_rows.Rd | 50 man/tidy_add_header_rows.Rd | 52 man/tidy_add_n.Rd | 2 man/tidy_add_pairwise_contrasts.Rd | 4 man/tidy_add_reference_rows.Rd | 51 man/tidy_broom.Rd | 3 man/tidy_disambiguate_terms.Rd | 10 man/tidy_multgee.Rd | 3 man/tidy_parameters.Rd | 15 man/tidy_plus_plus.Rd | 24 man/tidy_with_broom_or_parameters.Rd | 3 man/tidy_zeroinfl.Rd |only tests/spelling.R | 9 tests/testthat/test-add_coefficients_type.R | 16 tests/testthat/test-add_contrasts.R | 57 - tests/testthat/test-add_estimate_to_reference_rows.R | 10 tests/testthat/test-add_header_rows.R | 41 tests/testthat/test-add_n.R | 4 tests/testthat/test-add_pairwise_contrasts.R | 24 tests/testthat/test-add_reference_rows.R | 28 tests/testthat/test-add_term_labels.R | 70 + tests/testthat/test-add_variable_labels.R | 17 tests/testthat/test-assert_package.R | 2 tests/testthat/test-attach_and_detach.R | 6 tests/testthat/test-disambiguate_terms.R | 20 tests/testthat/test-identify_variables.R | 85 - tests/testthat/test-list_higher_order_variables.R | 2 tests/testthat/test-marginal_tidiers.R | 3 tests/testthat/test-model_get_n.R | 47 tests/testthat/test-select_helpers.R | 110 + tests/testthat/test-select_variables.R | 1 tests/testthat/test-tidy_plus_plus.R | 208 +++ vignettes/tidy.Rmd | 13 89 files changed, 2592 insertions(+), 1510 deletions(-)
Title: Network-Based Genome Wide Association Studies
Description: A multi-core R package that contains a set of tools based on copula graphical
models for accomplishing the three interrelated goals in genetics and genomics in an
unified way: (1) linkage map construction, (2) constructing linkage disequilibrium
networks, and (3) exploring high-dimensional genotype-phenotype network and genotype-
phenotype-environment interactions networks.
The 'netgwas' package can deal with biparental inbreeding and outbreeding species with
any ploidy level, namely diploid (2 sets of chromosomes), triploid (3 sets of chromosomes),
tetraploid (4 sets of chromosomes) and so on. We target on high-dimensional data where
number of variables p is considerably larger than number of sample sizes (p >> n).
The computations is memory-optimized using the sparse matrix output. The 'netgwas'
implements the methodological developments in Behrouzi and Wit (2017)
<doi:10.1111/rssc.12287> and Behrouzi and Wit (2017) <doi:10.1093/bioinformatics/bty777>.
Author: Pariya Behrouzi [aut, cre] ,
Ernst C. Wit [ctb]
Maintainer: Pariya Behrouzi <pariya.behrouzi@gmail.com>
Diff between netgwas versions 1.14.1 dated 2022-08-25 and 1.14.2 dated 2023-08-07
DESCRIPTION | 8 ++--- MD5 | 16 +++++----- inst/CITATION | 72 ++++++++++++++++++++++++++---------------------- man/R.approx.Rd | 2 - man/R.gibbs.Rd | 2 - man/netgwas-internal.Rd | 21 +++++++------- man/netgwas-package.Rd | 2 - man/selectnet.Rd | 2 - man/simGeno.Rd | 2 - 9 files changed, 68 insertions(+), 59 deletions(-)
Title: Tools to Calibrate and Work with NEON Atmospheric Isotope Data
Description: Functions for downloading,
calibrating, and analyzing atmospheric isotope data bundled
into the eddy covariance data products of the National Ecological
Observatory Network (NEON) <https://www.neonscience.org>.
Calibration tools are provided for carbon and water isotope products.
Carbon isotope calibration details are found in Fiorella et al. (2021)
<doi:10.1029/2020JG005862>, and the readme
file at <https://github.com/lanl/NEONiso>. Tools for calibrating water
isotope products have been added as of 0.6.0, but have known deficiencies
and should be considered very experimental currently.
Author: Rich Fiorella [aut, cre]
Maintainer: Rich Fiorella <rfiorella@lanl.gov>
Diff between NEONiso versions 0.6.1 dated 2022-09-22 and 0.6.2 dated 2023-08-07
NEONiso-0.6.1/NEONiso/man/filter_median_Brock86.Rd |only NEONiso-0.6.1/NEONiso/tests/testthat/test-reference_extractions.R |only NEONiso-0.6.2/NEONiso/DESCRIPTION | 12 NEONiso-0.6.2/NEONiso/MD5 | 112 +- NEONiso-0.6.2/NEONiso/NAMESPACE | 1 NEONiso-0.6.2/NEONiso/NEWS.md | 20 NEONiso-0.6.2/NEONiso/R/NEONiso.R | 6 NEONiso-0.6.2/NEONiso/R/calibrate_ambient_carbon_Bowling2003.R | 30 NEONiso-0.6.2/NEONiso/R/calibrate_ambient_carbon_linreg.R | 47 - NEONiso-0.6.2/NEONiso/R/calibrate_ambient_water_isotopes.R | 12 NEONiso-0.6.2/NEONiso/R/calibrate_carbon.R | 122 +- NEONiso-0.6.2/NEONiso/R/calibrate_carbon_bymonth.R | 67 - NEONiso-0.6.2/NEONiso/R/calibrate_standards_carbon.R | 399 --------- NEONiso-0.6.2/NEONiso/R/calibrate_standards_water.R | 73 - NEONiso-0.6.2/NEONiso/R/calibrate_water.R | 82 + NEONiso-0.6.2/NEONiso/R/calibrate_water_linreg_bymonth.R | 248 ++--- NEONiso-0.6.2/NEONiso/R/filtering_functions.R | 2 NEONiso-0.6.2/NEONiso/R/isotope_conversions.R | 8 NEONiso-0.6.2/NEONiso/R/output_functions.R | 125 +- NEONiso-0.6.2/NEONiso/R/quality_control.R | 98 +- NEONiso-0.6.2/NEONiso/R/reference_data_extraction.R | 72 - NEONiso-0.6.2/NEONiso/R/reference_data_regression.R | 41 NEONiso-0.6.2/NEONiso/R/reference_data_selection.R | 17 NEONiso-0.6.2/NEONiso/R/restructure_data.R | 418 +++++++--- NEONiso-0.6.2/NEONiso/R/standard_corrections.R | 19 NEONiso-0.6.2/NEONiso/R/time_functions.R | 4 NEONiso-0.6.2/NEONiso/R/utility_functions.R | 60 + NEONiso-0.6.2/NEONiso/README.md | 13 NEONiso-0.6.2/NEONiso/build/vignette.rds |binary NEONiso-0.6.2/NEONiso/inst/CITATION | 4 NEONiso-0.6.2/NEONiso/inst/doc/example_workflow.R | 32 NEONiso-0.6.2/NEONiso/inst/doc/example_workflow.Rmd | 32 NEONiso-0.6.2/NEONiso/inst/doc/example_workflow.html | 151 +-- NEONiso-0.6.2/NEONiso/inst/doc/reference_corrections.R | 2 NEONiso-0.6.2/NEONiso/inst/doc/reference_corrections.Rmd | 4 NEONiso-0.6.2/NEONiso/inst/doc/reference_corrections.html | 14 NEONiso-0.6.2/NEONiso/inst/extdata/NEON.D15.ONAQ.DP4.00200.001.nsae.2019-05.basic.packed.h5 |binary NEONiso-0.6.2/NEONiso/inst/extdata/NEON.D15.ONAQ.DP4.00200.001.nsae.2020-06-01.basic.packed.h5 |only NEONiso-0.6.2/NEONiso/inst/extdata/NEON.D15.ONAQ.DP4.00200.001.nsae.2020-06-02.basic.packed.h5 |only NEONiso-0.6.2/NEONiso/inst/extdata/NEON.D15.ONAQ.DP4.00200.001.nsae.2020-06-03.basic.packed.h5 |only NEONiso-0.6.2/NEONiso/man/calibrate_ambient_carbon_linreg.Rd | 9 NEONiso-0.6.2/NEONiso/man/calibrate_carbon.Rd | 53 - NEONiso-0.6.2/NEONiso/man/calibrate_carbon_bymonth.Rd | 19 NEONiso-0.6.2/NEONiso/man/calibrate_standards_carbon.Rd | 2 NEONiso-0.6.2/NEONiso/man/calibrate_water.Rd | 13 NEONiso-0.6.2/NEONiso/man/carbon_regression_plots.Rd | 2 NEONiso-0.6.2/NEONiso/man/delta_to_R.Rd | 2 NEONiso-0.6.2/NEONiso/man/extract_water_calibration_data.Rd | 4 NEONiso-0.6.2/NEONiso/man/filter_median_brock86.Rd |only NEONiso-0.6.2/NEONiso/man/get_Rstd.Rd | 5 NEONiso-0.6.2/NEONiso/man/ingest_data.Rd | 4 NEONiso-0.6.2/NEONiso/man/manage_local_EC_archive.Rd | 7 NEONiso-0.6.2/NEONiso/tests/testthat/test-data_extraction.R | 34 NEONiso-0.6.2/NEONiso/tests/testthat/test-data_ingestion.R | 86 +- NEONiso-0.6.2/NEONiso/tests/testthat/test-data_regression.R | 67 + NEONiso-0.6.2/NEONiso/tests/testthat/test-high_level_functions.R | 30 NEONiso-0.6.2/NEONiso/tests/testthat/test-output_values.R | 2 NEONiso-0.6.2/NEONiso/tests/testthat/test-standard_corrections.R | 56 - NEONiso-0.6.2/NEONiso/vignettes/example_workflow.Rmd | 32 NEONiso-0.6.2/NEONiso/vignettes/reference_corrections.Rmd | 4 60 files changed, 1412 insertions(+), 1366 deletions(-)
Title: Comprehensive Luminescence Dating Data Analysis
Description: A collection of various R functions for the purpose of Luminescence
dating data analysis. This includes, amongst others, data import, export,
application of age models, curve deconvolution, sequence analysis and
plotting of equivalent dose distributions.
Author: Sebastian Kreutzer [aut, trl, cre, dtc]
,
Christoph Burow [aut, trl, dtc]
,
Michael Dietze [aut] ,
Margret C. Fuchs [aut] ,
Christoph Schmidt [aut] ,
Manfred Fischer [aut, trl],
Johannes Friedrich [aut] ,
Norbert Mercier [aut] ,
Rachel K. Smedley [ct [...truncated...]
Maintainer: Sebastian Kreutzer <sebastian.kreutzer@uni-heidelberg.de>
Diff between Luminescence versions 0.9.21 dated 2023-02-03 and 0.9.22 dated 2023-08-07
DESCRIPTION | 34 +- MD5 | 305 ++++++++++++------------- NAMESPACE | 1 NEWS.md | 73 ++--- R/analyse_SAR.CWOSL.R | 12 R/analyse_baSAR.R | 15 - R/analyse_pIRIRSequence.R | 2 R/calc_OSLLxTxRatio.R | 1 R/convert_Activity2Concentration.R | 2 R/convert_PSL2CSV.R | 31 ++ R/extract_IrradiationTimes.R | 100 +++++--- R/fit_SurfaceExposure.R | 60 +++- R/merge_RLum.R | 27 -- R/merge_Risoe.BINfileData.R | 30 -- R/plot_DetPlot.R | 90 +++---- R/subset_SingleGrainData.R |only R/verify_SingleGrainData.R | 14 - R/write_RLum2CSV.R | 32 -- README.md | 2 build/partial.rdb |binary build/vignette.rds |binary man/Analyse_SAR.OSLdata.Rd | 2 man/CW2pHMi.Rd | 2 man/CW2pLM.Rd | 2 man/CW2pLMi.Rd | 2 man/CW2pPMi.Rd | 2 man/GitHub-API.Rd | 2 man/PSL2Risoe.BINfileData.Rd | 2 man/RLum-class.Rd | 2 man/RLum.Analysis-class.Rd | 2 man/RLum.Data.Curve-class.Rd | 2 man/RLum.Data.Image-class.Rd | 2 man/RLum.Data.Spectrum-class.Rd | 2 man/RLum.Results-class.Rd | 2 man/Risoe.BINfileData-class.Rd | 2 man/Risoe.BINfileData2RLum.Analysis.Rd | 2 man/Second2Gray.Rd | 2 man/analyse_Al2O3C_CrossTalk.Rd | 2 man/analyse_Al2O3C_ITC.Rd | 2 man/analyse_Al2O3C_Measurement.Rd | 2 man/analyse_FadingMeasurement.Rd | 2 man/analyse_IRSAR.RF.Rd | 2 man/analyse_SAR.CWOSL.Rd | 12 man/analyse_SAR.TL.Rd | 2 man/analyse_baSAR.Rd | 4 man/analyse_pIRIRSequence.Rd | 4 man/analyse_portableOSL.Rd | 2 man/apply_CosmicRayRemoval.Rd | 2 man/apply_EfficiencyCorrection.Rd | 2 man/bin_RLum.Data.Rd | 2 man/calc_AliquotSize.Rd | 2 man/calc_AverageDose.Rd | 2 man/calc_CentralDose.Rd | 2 man/calc_CobbleDoseRate.Rd | 2 man/calc_CommonDose.Rd | 2 man/calc_CosmicDoseRate.Rd | 2 man/calc_FadingCorr.Rd | 2 man/calc_FastRatio.Rd | 2 man/calc_FiniteMixture.Rd | 2 man/calc_FuchsLang2001.Rd | 2 man/calc_HomogeneityTest.Rd | 2 man/calc_Huntley2006.Rd | 2 man/calc_IEU.Rd | 2 man/calc_Kars2008.Rd | 2 man/calc_Lamothe2003.Rd | 2 man/calc_MaxDose.Rd | 2 man/calc_MinDose.Rd | 2 man/calc_OSLLxTxDecomposed.Rd | 2 man/calc_OSLLxTxRatio.Rd | 3 man/calc_SourceDoseRate.Rd | 2 man/calc_Statistics.Rd | 2 man/calc_TLLxTxRatio.Rd | 2 man/calc_ThermalLifetime.Rd | 2 man/calc_WodaFuchs2008.Rd | 2 man/calc_gSGC.Rd | 2 man/calc_gSGC_feldspar.Rd | 2 man/combine_De_Dr.Rd | 2 man/convert_Activity2Concentration.Rd | 4 man/convert_BIN2CSV.Rd | 2 man/convert_Concentration2DoseRate.Rd | 2 man/convert_Daybreak2CSV.Rd | 2 man/convert_PSL2CSV.Rd | 2 man/convert_RLum2Risoe.BINfileData.Rd | 2 man/convert_SG2MG.Rd | 2 man/convert_Wavelength2Energy.Rd | 2 man/convert_XSYG2CSV.Rd | 2 man/extract_IrradiationTimes.Rd | 11 man/extract_ROI.Rd | 2 man/fit_CWCurve.Rd | 2 man/fit_EmissionSpectra.Rd | 2 man/fit_LMCurve.Rd | 2 man/fit_OSLLifeTimes.Rd | 2 man/fit_SurfaceExposure.Rd | 32 +- man/fit_ThermalQuenching.Rd | 2 man/get_Layout.Rd | 2 man/get_Quote.Rd | 2 man/get_RLum.Rd | 2 man/get_Risoe.BINfileData.Rd | 2 man/get_rightAnswer.Rd | 2 man/length_RLum.Rd | 2 man/merge_RLum.Analysis.Rd | 2 man/merge_RLum.Data.Curve.Rd | 2 man/merge_RLum.Rd | 5 man/merge_RLum.Results.Rd | 2 man/merge_Risoe.BINfileData.Rd | 4 man/names_RLum.Rd | 2 man/plot_AbanicoPlot.Rd | 2 man/plot_DRCSummary.Rd | 2 man/plot_DRTResults.Rd | 2 man/plot_DetPlot.Rd | 24 - man/plot_FilterCombinations.Rd | 2 man/plot_GrowthCurve.Rd | 2 man/plot_Histogram.Rd | 2 man/plot_KDE.Rd | 2 man/plot_NRt.Rd | 2 man/plot_OSLAgeSummary.Rd | 2 man/plot_RLum.Analysis.Rd | 2 man/plot_RLum.Data.Curve.Rd | 2 man/plot_RLum.Data.Image.Rd | 2 man/plot_RLum.Data.Spectrum.Rd | 2 man/plot_RLum.Rd | 2 man/plot_RLum.Results.Rd | 2 man/plot_ROI.Rd | 2 man/plot_RadialPlot.Rd | 2 man/plot_Risoe.BINfileData.Rd | 2 man/plot_ViolinPlot.Rd | 2 man/read_BIN2R.Rd | 2 man/read_Daybreak2R.Rd | 2 man/read_PSL2R.Rd | 2 man/read_RF2R.Rd | 2 man/read_SPE2R.Rd | 2 man/read_TIFF2R.Rd | 2 man/read_XSYG2R.Rd | 2 man/replicate_RLum.Rd | 2 man/report_RLum.Rd | 2 man/sTeve.Rd | 2 man/scale_GammaDose.Rd | 2 man/set_RLum.Rd | 2 man/set_Risoe.BINfileData.Rd | 2 man/smooth_RLum.Rd | 2 man/structure_RLum.Rd | 2 man/subset_SingleGrainData.Rd |only man/template_DRAC.Rd | 2 man/tune_Data.Rd | 2 man/use_DRAC.Rd | 2 man/verify_SingleGrainData.Rd | 2 man/write_R2BIN.Rd | 2 man/write_R2TIFF.Rd | 2 man/write_RLum2CSV.Rd | 4 tests/testthat/test_convert_PSL2CSV.R | 16 + tests/testthat/test_extract_IrradiationTimes.R | 7 tests/testthat/test_merge_RLum.R |only tests/testthat/test_merge_RisoeBINfileData.R | 2 tests/testthat/test_plot_DetPlot.R |only tests/testthat/test_subset_SingleGrainData.R |only tests/testthat/test_write_RLum2CSV.R | 1 156 files changed, 619 insertions(+), 577 deletions(-)
Title: Visualizations for 'mice' with 'ggplot2'
Description: Enhance a 'mice' imputation workflow with visualizations for
incomplete and/or imputed data. The plotting functions produce
'ggplot' objects which may be easily manipulated or extended. Use
'ggmice' to inspect missing data, develop imputation models, evaluate
algorithmic convergence, or compare observed versus imputed data.
Author: Hanne Oberman [aut, cre] ,
Utrecht University [fnd],
University Medical Centre Utrecht [fnd],
Thom Volker [ctb] ,
Gerko Vink [ctb] ,
Pepijn Vink [ctb] ,
Jamie Wallis [ctb]
Maintainer: Hanne Oberman <h.i.oberman@uu.nl>
Diff between ggmice versions 0.0.1 dated 2022-03-17 and 0.1.0 dated 2023-08-07
ggmice-0.0.1/ggmice/R/corr.R |only ggmice-0.0.1/ggmice/R/flux.R |only ggmice-0.0.1/ggmice/R/pattern.R |only ggmice-0.0.1/ggmice/R/pred.R |only ggmice-0.0.1/ggmice/R/trace.R |only ggmice-0.0.1/ggmice/man/figures/ggmice.psd |only ggmice-0.0.1/ggmice/man/pat_to_chr.Rd |only ggmice-0.0.1/ggmice/tests/testthat/test-plot_functions.R |only ggmice-0.1.0/ggmice/DESCRIPTION | 40 ggmice-0.1.0/ggmice/MD5 | 88 ggmice-0.1.0/ggmice/NAMESPACE | 1 ggmice-0.1.0/ggmice/NEWS.md | 38 ggmice-0.1.0/ggmice/R/ggmice.R | 176 - ggmice-0.1.0/ggmice/R/old_friends.R | 169 - ggmice-0.1.0/ggmice/R/plot_corr.R |only ggmice-0.1.0/ggmice/R/plot_flux.R |only ggmice-0.1.0/ggmice/R/plot_pattern.R |only ggmice-0.1.0/ggmice/R/plot_pred.R |only ggmice-0.1.0/ggmice/R/plot_trace.R |only ggmice-0.1.0/ggmice/R/theme.R | 60 ggmice-0.1.0/ggmice/R/utils.R | 83 ggmice-0.1.0/ggmice/README.md | 88 ggmice-0.1.0/ggmice/build/vignette.rds |binary ggmice-0.1.0/ggmice/inst/doc/ggmice.R | 144 ggmice-0.1.0/ggmice/inst/doc/ggmice.Rmd | 479 +- ggmice-0.1.0/ggmice/inst/doc/ggmice.html | 684 ++-- ggmice-0.1.0/ggmice/inst/doc/old_friends.R | 152 ggmice-0.1.0/ggmice/inst/doc/old_friends.Rmd | 183 - ggmice-0.1.0/ggmice/inst/doc/old_friends.html | 2403 +++++++++++++-- ggmice-0.1.0/ggmice/man/bwplot.Rd | 42 ggmice-0.1.0/ggmice/man/densityplot.Rd | 42 ggmice-0.1.0/ggmice/man/figures/README-example-1.png |binary ggmice-0.1.0/ggmice/man/figures/README-example-2.png |binary ggmice-0.1.0/ggmice/man/ggmice.Rd | 54 ggmice-0.1.0/ggmice/man/pipe.Rd | 40 ggmice-0.1.0/ggmice/man/plot_corr.Rd | 77 ggmice-0.1.0/ggmice/man/plot_flux.Rd | 52 ggmice-0.1.0/ggmice/man/plot_pattern.Rd | 68 ggmice-0.1.0/ggmice/man/plot_pred.Rd | 65 ggmice-0.1.0/ggmice/man/plot_trace.Rd | 46 ggmice-0.1.0/ggmice/man/stripplot.Rd | 42 ggmice-0.1.0/ggmice/man/theme_mice.Rd | 28 ggmice-0.1.0/ggmice/man/theme_minimice.Rd | 28 ggmice-0.1.0/ggmice/man/xyplot.Rd | 42 ggmice-0.1.0/ggmice/tests/testthat.R | 4 ggmice-0.1.0/ggmice/tests/testthat/test-ggmice.R | 102 ggmice-0.1.0/ggmice/tests/testthat/test-old_friends.R | 18 ggmice-0.1.0/ggmice/tests/testthat/test-plot_corr.R |only ggmice-0.1.0/ggmice/tests/testthat/test-plot_flux.R |only ggmice-0.1.0/ggmice/tests/testthat/test-plot_pattern.R |only ggmice-0.1.0/ggmice/tests/testthat/test-plot_pred.R |only ggmice-0.1.0/ggmice/tests/testthat/test-plot_trace.R |only ggmice-0.1.0/ggmice/vignettes/ggmice.Rmd | 479 +- ggmice-0.1.0/ggmice/vignettes/old_friends.Rmd | 183 - 54 files changed, 4623 insertions(+), 1577 deletions(-)
Title: Dungeons & Dragons Functions for Players and Dungeon Masters
Description: The goal of 'dndR' is to provide a suite of Dungeons & Dragons related functions.
This package is meant to be useful both to players and Dungeon Masters (DMs).
All functions currently focus on Fifth Edition (a.k.a. "5e") but once the next edition is published functions will likely be expanded to include any rule changes.
Author: Nicholas Lyon [aut, cre, cph] ,
Tim Schatto-Eckrodt [ctb] ,
Humberto Nappo [ctb]
Maintainer: Nicholas Lyon <njlyon@alumni.iastate.edu>
Diff between dndR versions 1.3.0 dated 2023-07-12 and 1.3.1 dated 2023-08-07
DESCRIPTION | 6 +-- MD5 | 8 ++--- NEWS.md | 6 +++ data/spells.rda |binary inst/doc/dndR_Vignette.html | 68 ++++++++++++++++++++++---------------------- 5 files changed, 47 insertions(+), 41 deletions(-)
Title: Delete or Merge Regressors Algorithms for Linear and Logistic
Model Selection and High-Dimensional Data
Description: Model selection algorithms for regression and classification, where the predictors can be continuous or categorical and the number of regressors may exceed the number of observations. The selected model consists of a subset of numerical regressors and partitions of levels of factors. Szymon Nowakowski, Piotr Pokarowski, Wojciech Rejchel and Agnieszka Sołtys, 2023. Improving Group Lasso for High-Dimensional Categorical Data. In: Computational Science – ICCS 2023. Lecture Notes in Computer Science, vol 14074, p. 455-470. Springer, Cham. <doi:10.1007/978-3-031-36021-3_47>. Aleksandra Maj-Kańska, Piotr Pokarowski and Agnieszka Prochenka, 2015. Delete or merge regressors for linear model selection. Electronic Journal of Statistics 9(2): 1749-1778. <doi:10.1214/15-EJS1050>. Piotr Pokarowski and Jan Mielniczuk, 2015. Combined l1 and greedy l0 penalized least squares for linear model selection. Journal of Machine Learning Research 16(29): 961-992. <https://www.jmlr.org/papers/vo [...truncated...]
Author: Agnieszka Prochenka-Soltys [aut] ,
Piotr Pokarowski [aut],
Szymon Nowakowski [aut, cre]
Maintainer: Szymon Nowakowski <s.nowakowski@mimuw.edu.pl>
Diff between DMRnet versions 0.3.4 dated 2023-01-31 and 0.4.0 dated 2023-08-07
DMRnet-0.3.4/DMRnet/R/clusters_4glm_help.R |only DMRnet-0.3.4/DMRnet/R/clusters_4lm_help.R |only DMRnet-0.4.0/DMRnet/DESCRIPTION | 10 DMRnet-0.4.0/DMRnet/MD5 | 65 +-- DMRnet-0.4.0/DMRnet/NEWS.md | 9 DMRnet-0.4.0/DMRnet/R/DMR.R | 7 DMRnet-0.4.0/DMRnet/R/DMR4glm.R | 2 DMRnet-0.4.0/DMRnet/R/DMR4glm_help.R | 1 DMRnet-0.4.0/DMRnet/R/DMR4lm.R | 1 DMRnet-0.4.0/DMRnet/R/DMR4lm_help.R | 20 - DMRnet-0.4.0/DMRnet/R/DMRnet.R | 39 +- DMRnet-0.4.0/DMRnet/R/artificial_clustering.R |only DMRnet-0.4.0/DMRnet/R/calculate_model_groups.R |only DMRnet-0.4.0/DMRnet/R/clusters1D_4glm_help.R |only DMRnet-0.4.0/DMRnet/R/clusters1D_4lm_help.R |only DMRnet-0.4.0/DMRnet/R/cv.DMRnet.R | 8 DMRnet-0.4.0/DMRnet/R/cv_GIC_indexed.R | 6 DMRnet-0.4.0/DMRnet/R/cv_MD_indexed.R | 4 DMRnet-0.4.0/DMRnet/R/cv_indexation.mode_distribute.R | 3 DMRnet-0.4.0/DMRnet/R/glamer_4glm_help.R | 2 DMRnet-0.4.0/DMRnet/R/glamer_4lm_help.R | 2 DMRnet-0.4.0/DMRnet/R/onAttach.R | 8 DMRnet-0.4.0/DMRnet/R/part2beta_help.R | 2 DMRnet-0.4.0/DMRnet/R/plot.cv.DMR.R | 28 + DMRnet-0.4.0/DMRnet/R/predict.DMR.R | 6 DMRnet-0.4.0/DMRnet/R/prelasso_binomial.R | 2 DMRnet-0.4.0/DMRnet/R/prevent_merging_levels.R |only DMRnet-0.4.0/DMRnet/R/wrap_up_binomial.R | 41 +- DMRnet-0.4.0/DMRnet/R/wrap_up_gaussian.R | 45 +- DMRnet-0.4.0/DMRnet/README.md | 2 DMRnet-0.4.0/DMRnet/inst/CITATION | 34 + DMRnet-0.4.0/DMRnet/inst/doc/getting-started.R | 7 DMRnet-0.4.0/DMRnet/inst/doc/getting-started.Rmd | 31 + DMRnet-0.4.0/DMRnet/inst/doc/getting-started.html | 321 ++++++++++-------- DMRnet-0.4.0/DMRnet/man/DMRnet.Rd | 10 DMRnet-0.4.0/DMRnet/man/cv.DMRnet.Rd | 10 DMRnet-0.4.0/DMRnet/vignettes/getting-started.Rmd | 31 + 37 files changed, 445 insertions(+), 312 deletions(-)
Title: The Maybe Monad
Description: The maybe type represents the possibility of some value or nothing.
It is often used instead of throwing an error or returning `NULL`.
The advantage of using a maybe type over `NULL` is that it is both composable
and requires the developer to explicitly acknowledge the potential absence
of a value, helping to avoid the existence of unexpected behaviour.
Author: Andrew McNeil [aut, cre]
Maintainer: Andrew McNeil <andrew.richard.mcneil@gmail.com>
Diff between maybe versions 1.0.0 dated 2022-05-28 and 1.1.0 dated 2023-08-07
DESCRIPTION | 8 +- MD5 | 20 ++++-- NAMESPACE | 3 NEWS.md | 12 +++ R/maybe.R | 100 ++++++++++++++++++++++++++++--- R/predicates.R | 6 - README.md | 124 ++++++++++++++++++++++++--------------- man/and_then2.Rd |only man/and_then3.Rd |only man/maybe_map3.Rd |only tests/testthat/test-and_then2.R |only tests/testthat/test-and_then3.R |only tests/testthat/test-maybe_map2.R | 26 +++----- tests/testthat/test-maybe_map3.R |only 14 files changed, 214 insertions(+), 85 deletions(-)
Title: Converts ISCO-08 to Job Prestige Scores, ISCO-88 and Job Name
Description: Implementation of functions to assign corresponding common job prestige scores (SIOPS, ISEI), the official job or group title and the ISCO-88 code to given ISCO-08 codes. ISCO-08 is the latest version of the International Standard Classification of Occupations which is used to organise information on labour and jobs.
Author: Nicole Schwitter [aut, cre, orcid=0000-0002-3837-680X]
Maintainer: Nicole Schwitter <Nicole.Schwitter.1@warwick.ac.uk>
Diff between ISCO08ConveRsions versions 0.1.1 dated 2021-12-08 and 0.2.0 dated 2023-08-07
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- R/ISCO08toPRestige.R | 4 ++-- man/isco08toisei08_2.Rd | 2 +- 4 files changed, 11 insertions(+), 11 deletions(-)
More information about ISCO08ConveRsions at CRAN
Permanent link
Title: Hierarchical Clustering of Univariate (1d) Data
Description: Univariate agglomerative hierarchical clustering with a comprehensive list of choices of a linkage function in O(n*log n) time. The better algorithmic time complexity is paired with an efficient 'C++' implementation.
Author: Szymon Nowakowski [aut, cre]
Maintainer: Szymon Nowakowski <s.nowakowski@mimuw.edu.pl>
Diff between hclust1d versions 0.1.0 dated 2023-07-10 and 0.1.1 dated 2023-08-07
DESCRIPTION | 6 MD5 | 20 +- NEWS.md | 4 build/vignette.rds |binary inst/CITATION | 22 +- inst/doc/getting-started.Rmd | 47 +++--- inst/doc/getting-started.html | 90 ++++++----- inst/doc/replacing-hclust.Rmd | 315 ++++++++++++++++++++--------------------- inst/doc/replacing-hclust.html | 48 ++++-- vignettes/getting-started.Rmd | 47 +++--- vignettes/replacing-hclust.Rmd | 315 ++++++++++++++++++++--------------------- 11 files changed, 489 insertions(+), 425 deletions(-)
Title: 'ggplot2' Based Plots with Statistical Details
Description: Extension of 'ggplot2', 'ggstatsplot' creates graphics with
details from statistical tests included in the plots themselves. It
provides an easier syntax to generate information-rich plots for
statistical analysis of continuous (violin plots, scatterplots,
histograms, dot plots, dot-and-whisker plots) or categorical (pie and
bar charts) data. Currently, it supports the most common types of
statistical approaches and tests: parametric, nonparametric, robust,
and Bayesian versions of t-test/ANOVA, correlation analyses,
contingency table analysis, meta-analysis, and regression analyses.
References: Patil (2021) <doi:10.21105/joss.03236>.
Author: Indrajeet Patil [cre, aut, cph]
,
Chuck Powell [ctb]
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between ggstatsplot versions 0.11.1 dated 2023-04-14 and 0.12.0 dated 2023-08-07
ggstatsplot-0.11.1/ggstatsplot/R/global_vars.R |only ggstatsplot-0.11.1/ggstatsplot/tests/testthat/_snaps/ggbetweenstats/box-plot.svg |only ggstatsplot-0.11.1/ggstatsplot/tests/testthat/_snaps/ggbetweenstats/violin-plot.svg |only ggstatsplot-0.12.0/ggstatsplot/DESCRIPTION | 26 - ggstatsplot-0.12.0/ggstatsplot/MD5 | 166 +++---- ggstatsplot-0.12.0/ggstatsplot/NEWS.md | 72 ++- ggstatsplot-0.12.0/ggstatsplot/R/combine_plots.R | 6 ggstatsplot-0.12.0/ggstatsplot/R/extract_stats.R | 2 ggstatsplot-0.12.0/ggstatsplot/R/ggbarstats.R | 16 ggstatsplot-0.12.0/ggstatsplot/R/ggbetweenstats.R | 79 +-- ggstatsplot-0.12.0/ggstatsplot/R/ggbetweenstats_helpers.R | 22 - ggstatsplot-0.12.0/ggstatsplot/R/ggcoefstats.R | 18 ggstatsplot-0.12.0/ggstatsplot/R/ggcorrmat.R | 26 - ggstatsplot-0.12.0/ggstatsplot/R/ggdotplotstats.R | 22 - ggstatsplot-0.12.0/ggstatsplot/R/gghistostats.R | 29 - ggstatsplot-0.12.0/ggstatsplot/R/gghistostats_helpers.R | 1 ggstatsplot-0.12.0/ggstatsplot/R/ggpiestats.R | 26 - ggstatsplot-0.12.0/ggstatsplot/R/ggpiestats_ggbarstats_helpers.R | 24 - ggstatsplot-0.12.0/ggstatsplot/R/ggscatterstats.R | 28 - ggstatsplot-0.12.0/ggstatsplot/R/ggwithinstats.R | 66 +-- ggstatsplot-0.12.0/ggstatsplot/R/globals.R |only ggstatsplot-0.12.0/ggstatsplot/R/utils.R | 2 ggstatsplot-0.12.0/ggstatsplot/README.md | 1 ggstatsplot-0.12.0/ggstatsplot/build/partial.rdb |binary ggstatsplot-0.12.0/ggstatsplot/build/vignette.rds |binary ggstatsplot-0.12.0/ggstatsplot/inst/doc/additional.html | 4 ggstatsplot-0.12.0/ggstatsplot/inst/doc/ggstatsplot.html | 9 ggstatsplot-0.12.0/ggstatsplot/man/combine_plots.Rd | 4 ggstatsplot-0.12.0/ggstatsplot/man/figures/README-ggbetweenstats1-1.png |binary ggstatsplot-0.12.0/ggstatsplot/man/figures/README-ggbetweenstats2-1.png |binary ggstatsplot-0.12.0/ggstatsplot/man/figures/README-ggwithinstats1-1.png |binary ggstatsplot-0.12.0/ggstatsplot/man/figures/README-ggwithinstats2-1.png |binary ggstatsplot-0.12.0/ggstatsplot/man/ggbetweenstats.Rd | 50 +- ggstatsplot-0.12.0/ggstatsplot/man/ggcorrmat.Rd | 6 ggstatsplot-0.12.0/ggstatsplot/man/gghistostats.Rd | 2 ggstatsplot-0.12.0/ggstatsplot/man/ggscatterstats.Rd | 4 ggstatsplot-0.12.0/ggstatsplot/man/ggwithinstats.Rd | 57 +- ggstatsplot-0.12.0/ggstatsplot/man/grouped_ggbetweenstats.Rd | 21 ggstatsplot-0.12.0/ggstatsplot/man/grouped_ggcorrmat.Rd | 6 ggstatsplot-0.12.0/ggstatsplot/man/grouped_gghistostats.Rd | 2 ggstatsplot-0.12.0/ggstatsplot/man/grouped_ggscatterstats.Rd | 2 ggstatsplot-0.12.0/ggstatsplot/man/grouped_ggwithinstats.Rd | 36 - ggstatsplot-0.12.0/ggstatsplot/man/rmd-fragments/ggbetweenstats_graphics.Rmd | 2 ggstatsplot-0.12.0/ggstatsplot/tests/testthat.R | 2 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/ggbetweenstats/default-plot-as-expected.svg | 24 - ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/ggbetweenstats/modification-with-ggplot2-works-as-expected.svg | 211 ++++------ ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/ggbetweenstats/plot-with-outliers-as-expected.svg |only ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/ggbetweenstats/specific-geoms-removed.svg |only ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/ggwithinstats/centrality-path-can-be-turned-off.svg | 4 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/ggwithinstats/defaults-plots-more-than-two-groups.svg | 10 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/ggwithinstats/defaults-plots-two-groups.svg | 4 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/ggwithinstats/ggplot2-commands-work.svg | 10 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/ggwithinstats/grouped-plots-default.svg | 6 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/adding-caption-works.svg | 2 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/between-bayes.svg | 1 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/between-non-parametric-all.svg | 21 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/between-non-parametric-only-non-significant.svg | 21 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/between-non-parametric-only-significant.svg | 21 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/between-parametric-all.svg | 7 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/between-parametric-only-non-significant.svg | 7 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/between-parametric-only-significant.svg | 7 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/between-robust-all.svg | 2 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/between-robust-only-non-significant.svg | 2 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/between-robust-only-significant.svg | 2 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/within-bayes.svg | 2 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/within-non-parametric-all.svg | 2 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/within-non-parametric-only-non-significant.svg | 2 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/within-non-parametric-only-significant.svg | 2 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/within-parametric-all.svg | 2 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/within-parametric-only-non-significant.svg | 2 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/within-parametric-only-significant.svg | 2 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/within-robust-all.svg | 2 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/within-robust-only-non-significant.svg | 2 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/_snaps/pairwise_ggsignif/within-robust-only-significant.svg | 2 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/test-extract_stats.R | 1 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/test-ggbetweenstats.R | 73 +-- ggstatsplot-0.12.0/ggstatsplot/tests/testthat/test-ggcorrmat.R | 9 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/test-ggdotplotstats.R | 1 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/test-gghistostats.R | 1 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/test-ggscatterstats.R | 2 ggstatsplot-0.12.0/ggstatsplot/tests/testthat/test-ggwithinstats.R | 19 ggstatsplot-0.12.0/ggstatsplot/vignettes/web_only/faq.Rmd | 22 - ggstatsplot-0.12.0/ggstatsplot/vignettes/web_only/ggbarstats.Rmd | 2 ggstatsplot-0.12.0/ggstatsplot/vignettes/web_only/ggbetweenstats.Rmd | 28 - ggstatsplot-0.12.0/ggstatsplot/vignettes/web_only/ggpiestats.Rmd | 2 ggstatsplot-0.12.0/ggstatsplot/vignettes/web_only/ggwithinstats.Rmd | 11 ggstatsplot-0.12.0/ggstatsplot/vignettes/web_only/purrr_examples.Rmd | 1 87 files changed, 603 insertions(+), 790 deletions(-)
Title: Simple Git Client for R
Description: Simple git client for R based on 'libgit2' <https://libgit2.org> with
support for SSH and HTTPS remotes. All functions in 'gert' use basic R data
types (such as vectors and data-frames) for their arguments and return values.
User credentials are shared with command line 'git' through the git-credential
store and ssh keys stored on disk or ssh-agent.
Author: Jeroen Ooms [aut, cre] ,
Jennifer Bryan [ctb]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between gert versions 1.9.2 dated 2022-12-05 and 1.9.3 dated 2023-08-07
DESCRIPTION | 8 ++-- LICENSE | 2 - MD5 | 60 +++++++++++++++++++----------------- NAMESPACE | 4 ++ NEWS | 5 +++ R/commit.R | 8 ++++ R/ignore.R |only R/init.R | 5 --- build/vignette.rds |binary cleanup | 1 inst/doc/gert.R | 5 +++ inst/doc/gert.Rmd | 5 +++ inst/doc/gert.html | 71 +++++++++++++++++++++---------------------- man/git_archive.Rd | 1 man/git_branch.Rd | 1 man/git_commit.Rd | 4 ++ man/git_config.Rd | 1 man/git_diff.Rd | 1 man/git_fetch.Rd | 1 man/git_ignore.Rd |only man/git_merge.Rd | 1 man/git_rebase.Rd | 1 man/git_remote.Rd | 1 man/git_repo.Rd | 1 man/git_signature.Rd | 1 man/git_stash.Rd | 1 man/git_tag.Rd | 1 src/commit.c | 20 ++++++++++++ src/ignore.c |only src/init.c | 4 ++ src/submodules.c | 3 - tests/testthat/test-ignore.R |only vignettes/gert.Rmd | 5 +++ 33 files changed, 146 insertions(+), 76 deletions(-)
Title: Groupwise Statistics, LSmeans, Linear Estimates, Utilities
Description: Utility package containing:
1) Facilities for working with grouped data: 'do' something to data
stratified 'by' some variables.
2) LSmeans (least-squares means), general linear estimates.
3) Restrict functions to a smaller domain.
4) Miscellaneous other utilities.
Author: Soeren Hoejsgaard <sorenh@math.aau.dk> and Ulrich Halekoh
<uhalekoh@health.sdu.dk>
Maintainer: Soeren Hoejsgaard <sorenh@math.aau.dk>
Diff between doBy versions 4.6.17 dated 2023-07-12 and 4.6.18 dated 2023-08-07
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS.md | 7 +++++++ R/interaction_plot.R | 12 ++++++------ inst/doc/doby.pdf |binary inst/doc/linest_lsmeans.pdf |binary inst/doc/section_fun.pdf |binary man/interaction-plot.Rd | 8 ++++---- 8 files changed, 28 insertions(+), 21 deletions(-)
Title: Augments 'ASReml-R' in Fitting Mixed Models and Packages
Generally in Exploring Prediction Differences
Description: Assists in automating the selection of terms to include in mixed models when
'asreml' is used to fit the models. Also used to display, in tables and graphs, predictions
obtained using any model fitting function and to explore differences between predictions.
The content falls into the following natural groupings: (i) Data, (ii) Object
manipulation functions, (iii) Model modification functions, (iv) Model testing functions,
(v) Model diagnostics functions, (vi) Prediction production and presentation functions,
(vii) Response transformation functions, and (viii) Miscellaneous functions (for further
details see 'asremlPlus-package' in help). A history of
the fitting of a sequence of models is kept in a data frame. Procedures are available for
choosing models that conform to the hierarchy or marginality principle and for displaying
predictions for significant terms in tables and graphs. The 'asreml' package provides a
computationally efficient algorithm for fitting a wide range of linear [...truncated...]
Author: Chris Brien [aut, cre]
Maintainer: Chris Brien <chris.brien@adelaide.edu.au>
Diff between asremlPlus versions 4.3.55 dated 2023-06-13 and 4.4.12 dated 2023-08-07
asremlPlus-4.3.55/asremlPlus/tests/testthat/test4ChangeTerms.r |only asremlPlus-4.3.55/asremlPlus/tests/testthat/test4EstimateV.r |only asremlPlus-4.3.55/asremlPlus/tests/testthat/test4GeneticCane.R |only asremlPlus-4.3.55/asremlPlus/tests/testthat/test4HEB25estimateV.r |only asremlPlus-4.3.55/asremlPlus/tests/testthat/test4MET.r |only asremlPlus-4.3.55/asremlPlus/tests/testthat/test4Orange.r |only asremlPlus-4.3.55/asremlPlus/tests/testthat/test4PredictionsFrame.r |only asremlPlus-4.3.55/asremlPlus/tests/testthat/test4PredictionsPresentation.r |only asremlPlus-4.3.55/asremlPlus/tests/testthat/test4REMLRTIC.r |only asremlPlus-4.3.55/asremlPlus/tests/testthat/test4Selection.r |only asremlPlus-4.3.55/asremlPlus/tests/testthat/test4Simulate.r |only asremlPlus-4.3.55/asremlPlus/tests/testthat/test4Sortalldiffs.r |only asremlPlus-4.3.55/asremlPlus/tests/testthat/test4SpatialModels.r |only asremlPlus-4.3.55/asremlPlus/tests/testthat/test4Variofaces.r |only asremlPlus-4.3.55/asremlPlus/tests/testthat/test4Wheat.r |only asremlPlus-4.3.55/asremlPlus/tests/testthat/test4WheatSpatialVignette.r |only asremlPlus-4.3.55/asremlPlus/tests/testthat/test4WheatVignette.r |only asremlPlus-4.3.55/asremlPlus/tests/testthat/test4alldiffs.r |only asremlPlus-4.3.55/asremlPlus/tests/testthat/test4alldiffslme.r |only asremlPlus-4.3.55/asremlPlus/tests/testthat/test4bootREMLRTWheat.r |only asremlPlus-4.3.55/asremlPlus/tests/testthat/testglm.r |only asremlPlus-4.4.12/asremlPlus/DESCRIPTION | 28 asremlPlus-4.4.12/asremlPlus/MD5 | 116 +- asremlPlus-4.4.12/asremlPlus/NAMESPACE | 12 asremlPlus-4.4.12/asremlPlus/R/REMLRTIC.v3.r | 185 +-- asremlPlus-4.4.12/asremlPlus/R/alldiffs.v2.r | 52 asremlPlus-4.4.12/asremlPlus/R/asremlPlusUtilities.r | 175 ++- asremlPlus-4.4.12/asremlPlus/R/bootREMLRT.v3.r | 160 +- asremlPlus-4.4.12/asremlPlus/R/estimateV.v3.R | 139 +- asremlPlus-4.4.12/asremlPlus/R/needasreml4.R | 4 asremlPlus-4.4.12/asremlPlus/R/reml4.v8.r | 185 ++- asremlPlus-4.4.12/asremlPlus/R/spatial.funcs.r | 115 +- asremlPlus-4.4.12/asremlPlus/R/variogram.faces.v5.r | 205 ++- asremlPlus-4.4.12/asremlPlus/build/partial.rdb |binary asremlPlus-4.4.12/asremlPlus/build/vignette.rds |binary asremlPlus-4.4.12/asremlPlus/inst/NEWS.Rd | 539 ---------- asremlPlus-4.4.12/asremlPlus/inst/doc/Ladybird.asreml.pdf |binary asremlPlus-4.4.12/asremlPlus/inst/doc/Ladybird.lm.pdf |binary asremlPlus-4.4.12/asremlPlus/inst/doc/Wheat.analysis.pdf |binary asremlPlus-4.4.12/asremlPlus/inst/doc/Wheat.infoCriteria.pdf |binary asremlPlus-4.4.12/asremlPlus/inst/doc/WheatSpatialModels.pdf |binary asremlPlus-4.4.12/asremlPlus/inst/doc/asremlPlus-manual.pdf |binary asremlPlus-4.4.12/asremlPlus/man/addSpatialModel.asrtests.Rd | 12 asremlPlus-4.4.12/asremlPlus/man/addSpatialModelOnIC.asrtests.Rd | 14 asremlPlus-4.4.12/asremlPlus/man/asremlPlus-package.Rd | 1 asremlPlus-4.4.12/asremlPlus/man/chooseSpatialModelOnIC.asrtests.Rd | 14 asremlPlus-4.4.12/asremlPlus/man/variofaces.asreml.Rd | 2 asremlPlus-4.4.12/asremlPlus/tests/testthat.R | 25 asremlPlus-4.4.12/asremlPlus/tests/testthat/data/ChickpeaEnd.dat.rda |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test3REMLRTIC.r | 2 asremlPlus-4.4.12/asremlPlus/tests/testthat/test41ChangeTerms.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test41EstimateV.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test41GeneticCane.R |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test41HEB25estimateV.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test41MET.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test41Orange.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test41PredictionsFrame.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test41PredictionsPresentation.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test41REMLRTIC.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test41Selection.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test41Simulate.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test41Sortalldiffs.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test41SpatialModels.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test41Variofaces.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test41WheatSpatialVignette.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test41WheatVignette.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test41alldiffs.asr.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test41alldiffslme.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test41bootREMLRTWheat.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42ChangeTerms.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42EstimateV.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42GeneticCane.R |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42HEB25estimateV.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42MET.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42Orange.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42Parallel.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42PredictionsFrame.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42PredictionsPresentation.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42REMLRTIC.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42Selection.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42Simulate.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42Sortalldiffs.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42SpatialModels.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42Variofaces.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42WheatSpatialVignette.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42WheatVignette.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42alldiffsasr.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42alldiffslme.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42bootREMLRTWheat.r |only asremlPlus-4.4.12/asremlPlus/tests/testthat/test42glm.r |only 90 files changed, 984 insertions(+), 1001 deletions(-)
Title: Endogenous Switching and Sample Selection Regression Models
Description: Estimate the parameters of multivariate endogenous switching and sample selection models using methods described in Newey (2009) <doi:10.1111/j.1368-423X.2008.00263.x>, E. Kossova, B. Potanin (2018) <https://ideas.repec.org/a/ris/apltrx/0346.html>, E. Kossova, L. Kupriianova, B. Potanin (2020) <https://ideas.repec.org/a/ris/apltrx/0391.html> and E. Kossova, B. Potanin (2022) <https://ideas.repec.org/a/ris/apltrx/0455.html>.
Author: Bogdan Potanin [aut, cre, ctb],
Sofiia Dolgikh [ctb]
Maintainer: Bogdan Potanin <bogdanpotanin@gmail.com>
Diff between switchSelection versions 1.0.1 dated 2023-05-08 and 1.1.0 dated 2023-08-07
DESCRIPTION | 20 MD5 | 101 +- NAMESPACE | 21 R/RcppExports.R | 20 R/coef.R |only R/cps.R |only R/delta.R |only R/fitted.R |only R/formula.R | 150 +++ R/helpFunctions.R | 9 R/lm.R | 8 R/logLik.R |only R/lrtest.R | 15 R/mnprobit.R | 1052 +++--------------------- R/mvoprobit.R | 1628 ++++++-------------------------------- R/opt.R |only R/par.R |only R/predict.R |only R/regularization.R |only R/sigma.R |only R/summary.R |only R/tbl.R |only R/vcov.R |only data |only man/boot.Rd | 6 man/coef.mnprobit.Rd |only man/coef.mvoprobit.Rd |only man/cps.Rd |only man/delta_method.Rd |only man/fitted.mnprobit.Rd |only man/fitted.mvoprobit.Rd |only man/formula.mnprobit.Rd |only man/formula.mvoprobit.Rd |only man/grad_mnprobit.Rd | 11 man/grad_mvoprobit.Rd | 5 man/lnL_mnprobit.Rd | 11 man/lnL_mvoprobit.Rd | 11 man/logLik.mnprobit.Rd | 2 man/logLik.mvoprobit.Rd | 2 man/loocv.Rd | 2 man/lrtest.Rd | 4 man/mnprobit.Rd | 104 ++ man/mvoprobit.Rd | 249 ++++- man/nobs.mnprobit.Rd | 2 man/nobs.mvoprobit.Rd | 2 man/predict.mnprobit.Rd | 26 man/predict.mvoprobit.Rd | 16 man/print.lrtest.Rd | 4 man/print.mnprobit.Rd | 8 man/print.mvoprobit.Rd | 8 man/print.summary.delta_method.Rd |only man/print.summary.mnprobit.Rd | 7 man/print.summary.mvoprobit.Rd | 7 man/sigma.mnprobit.Rd |only man/sigma.mvoprobit.Rd |only man/summary.delta_method.Rd |only man/summary.mnprobit.Rd | 25 man/summary.mvoprobit.Rd | 25 man/vcov.mnprobit.Rd |only man/vcov.mvoprobit.Rd |only src/RcppExports.cpp | 36 src/helpFunctions.cpp | 2 src/mnprobit.cpp | 141 ++- src/mnprobit.h | 6 src/mvoprobit.cpp | 154 +++ src/mvoprobit.h |only 66 files changed, 1380 insertions(+), 2520 deletions(-)
More information about switchSelection at CRAN
Permanent link
Title: Spatial Stochastic Frontier Analysis
Description: Spatial Stochastic Frontier Analysis (SSFA) is an original method for controlling the spatial heterogeneity in Stochastic Frontier Analysis (SFA) models, for cross-sectional data, by splitting the inefficiency term into three terms: the first one related to spatial peculiarities of the territory in which each single unit operates, the second one related to the specific production features and the third one representing the error term.
Author: Elisa Fusco, Francesco Vidoli
Maintainer: Elisa Fusco <fusco_elisa@libero.it>
Diff between ssfa versions 1.2 dated 2022-01-05 and 1.2.1 dated 2023-08-07
DESCRIPTION | 8 - MD5 | 12 +- NAMESPACE | 2 NEWS | 6 + build/vignette.rds |binary inst/doc/ssfavignette.R | 272 +++++++++++++++++++++++----------------------- inst/doc/ssfavignette.pdf |binary 7 files changed, 153 insertions(+), 147 deletions(-)
Title: Implementation of Spirometry Equations
Description: Implementation of various spirometry equations
in R, currently the GLI-2012 (Global Lung Initiative;
Quanjer et al. 2012 <doi:10.1183/09031936.00080312>),
the race-neutral GLI global 2022 (Global Lung Initiative;
Bowerman et al. 2023 <doi:10.1164/rccm.202205-0963OC>) and the
NHANES3 (National Health and Nutrition Examination Survey;
Hankinson et al. 1999 <doi:10.1164/ajrccm.159.1.9712108>)
equations.
Contains user-friendly functions to calculate predicted
and LLN (Lower Limit of Normal) values for different
spirometric parameters such as FEV1 (Forced Expiratory
Volume in 1 second), FVC (Forced Vital Capacity), etc,
and to convert absolute spirometry measurements
to percent (%) predicted and z-scores.
Author: Theodore Lytras
Maintainer: Theodore Lytras <thlytras@gmail.com>
Diff between rspiro versions 0.2 dated 2020-03-26 and 0.4 dated 2023-08-07
rspiro-0.2/rspiro/man/rspiro_check_data.Rd |only rspiro-0.4/rspiro/DESCRIPTION | 27 +++++++------ rspiro-0.4/rspiro/MD5 | 55 ++++++++++++++++++---------- rspiro-0.4/rspiro/NAMESPACE | 7 +++ rspiro-0.4/rspiro/R/LLN_GLI.R | 3 + rspiro-0.4/rspiro/R/LLN_GLIgl.R |only rspiro-0.4/rspiro/R/LLN_NHANES3.R | 17 ++++---- rspiro-0.4/rspiro/R/getLMS.R | 2 - rspiro-0.4/rspiro/R/getLMS_GLIgl.R |only rspiro-0.4/rspiro/R/include.R | 45 +++++++++++++++++++--- rspiro-0.4/rspiro/R/pctpred_GLI.R | 28 ++++++-------- rspiro-0.4/rspiro/R/pctpred_GLIgl.R |only rspiro-0.4/rspiro/R/pctpred_NHANES3.R | 18 ++++----- rspiro-0.4/rspiro/R/pred_GLI.R | 7 ++- rspiro-0.4/rspiro/R/pred_GLIgl.R |only rspiro-0.4/rspiro/R/pred_NHANES3.R | 11 +++-- rspiro-0.4/rspiro/R/raw_GLI.R |only rspiro-0.4/rspiro/R/raw_GLIgl.R |only rspiro-0.4/rspiro/R/sysdata.rda |binary rspiro-0.4/rspiro/R/zscores_GLI.R | 41 +++++++++----------- rspiro-0.4/rspiro/R/zscores_GLIgl.R |only rspiro-0.4/rspiro/R/zscores_NHANES3.R |only rspiro-0.4/rspiro/README.md | 8 ++-- rspiro-0.4/rspiro/man/LLN_GLIgl.Rd |only rspiro-0.4/rspiro/man/LLN_NHANES3.Rd | 2 - rspiro-0.4/rspiro/man/getLMS_GLIgl.Rd |only rspiro-0.4/rspiro/man/pctpred_GLIgl.Rd |only rspiro-0.4/rspiro/man/pred_GLI.Rd | 4 +- rspiro-0.4/rspiro/man/pred_GLIgl.Rd |only rspiro-0.4/rspiro/man/pred_NHANES3.Rd | 2 - rspiro-0.4/rspiro/man/raw_GLI.Rd |only rspiro-0.4/rspiro/man/raw_GLIgl.Rd |only rspiro-0.4/rspiro/man/rspiro_check_input.Rd |only rspiro-0.4/rspiro/man/rspiro_check_somat.Rd |only rspiro-0.4/rspiro/man/zscore_GLI.Rd | 10 ++--- rspiro-0.4/rspiro/man/zscore_GLIgl.Rd |only rspiro-0.4/rspiro/man/zscore_NHANES3.Rd |only rspiro-0.4/rspiro/tests |only 38 files changed, 171 insertions(+), 116 deletions(-)
Title: Producing and Reproducing Results
Description: A system for embedded scientific computing and reproducible research with R.
The OpenCPU server exposes a simple but powerful HTTP api for RPC and data interchange
with R. This provides a reliable and scalable foundation for statistical services or
building R web applications. The OpenCPU server runs either as a single-user development
server within the interactive R session, or as a multi-user Linux stack based on Apache2.
The entire system is fully open source and permissively licensed. The OpenCPU website
has detailed documentation and example apps.
Author: Jeroen Ooms [aut, cre]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between opencpu versions 2.2.10 dated 2023-06-29 and 2.2.11 dated 2023-08-07
DESCRIPTION | 9 +++++---- MD5 | 12 ++++++------ NEWS | 5 +++++ R/evaluate.R | 44 +++++++++++++++++++++++++++++++++++++++++++- R/utils.R | 7 ++++--- inst/config/defaults.conf | 1 + inst/doc/opencpu-paper.pdf |binary 7 files changed, 64 insertions(+), 14 deletions(-)
Title: Miscellaneous Functions 'T. Yanagida'
Description: Miscellaneous functions for descriptive statistics (e.g., frequency table, cross tabulation, multilevel descriptive statistics, multilevel R-squared measures, within-group and between-group correlation matrix, various effect size measures), data management (e.g., grand-mean and group-mean centering, coding variables and reverse coding items, scale and group scores, reading and writing SPSS and Excel files), missing data (e.g., descriptive statistics for missing data, missing data pattern, Little's test of Missing Completely at Random, and auxiliary variable analysis), item analysis (e.g., coefficient alpha and omega, multilevel confirmatory factor analysis, between-group and longitudinal measurement equivalence evaluation, cross-level measurement equivalence evaluation, and multilevel composite reliability), and statistical analysis (e.g., confidence intervals, collinearity and residual diagnostics, dominance analysis, between- and within-subject analysis of variance, t-test, z-test, s [...truncated...]
Author: Takuya Yanagida [aut, cre]
Maintainer: Takuya Yanagida <takuya.yanagida@univie.ac.at>
Diff between misty versions 0.4.12 dated 2023-07-08 and 0.5.0 dated 2023-08-07
DESCRIPTION | 12 MD5 | 112 - NAMESPACE | 24 NEWS.md | 35 R/check.resid.R |only R/cor.matrix.R | 8 R/crosstab.R | 4 R/dominance.R |only R/dominance.manual.R |only R/freq.R | 4 R/item.alpha.R | 4 R/item.cfa.R | 242 ++- R/item.invar.R |only R/item.omega.R | 4 R/mplus.lpa.R |only R/multilevel.cfa.R | 181 ++ R/multilevel.cor.R | 42 R/multilevel.descript.R | 2 R/multilevel.fit.R | 2 R/multilevel.invar.R | 111 + R/multilevel.omega.R | 10 R/multilevel.r2.R | 6 R/na.auxiliary.R | 2 R/na.coverage.R | 8 R/na.descript.R | 8 R/na.pattern.R | 8 R/na.test.R | 2 R/print.misty.object.R | 2971 +++++++++++++++++++++++++++++++++++----------- R/read.mplus.R | 5 R/result.lpa.R |only R/robust.coef.R |only R/std.coef.R | 55 R/test.t.R | 2 R/test.welch.R | 2 R/write.result.R | 930 ++++++++++++-- man/aov.w.Rd | 2 man/check.resid.Rd |only man/chr.trim.Rd | 2 man/dominance.Rd |only man/dominance.manual.Rd |only man/item.cfa.Rd | 33 man/item.invar.Rd |only man/mplus.lpa.Rd |only man/multilevel.cfa.Rd | 33 man/multilevel.cor.Rd | 8 man/multilevel.invar.Rd | 33 man/multilevel.omega.Rd | 4 man/na.auxiliary.Rd | 2 man/na.coverage.Rd | 2 man/na.descript.Rd | 2 man/na.pattern.Rd | 2 man/na.test.Rd | 2 man/print.misty.object.Rd | 15 man/read.sav.Rd | 2 man/result.lpa.Rd |only man/robust.coef.Rd |only man/size.cor.Rd | 2 man/size.mean.Rd | 2 man/size.prop.Rd | 2 man/std.coef.Rd | 6 man/test.t.Rd | 2 man/test.welch.Rd | 2 man/write.result.Rd | 310 ++-- man/write.sav.Rd | 5 64 files changed, 3914 insertions(+), 1355 deletions(-)
Title: Advanced Graphics and Image-Processing in R
Description: Bindings to 'ImageMagick': the most comprehensive open-source image
processing library available. Supports many common formats (png, jpeg, tiff,
pdf, etc) and manipulations (rotate, scale, crop, trim, flip, blur, etc).
All operations are vectorized via the Magick++ STL meaning they operate either
on a single frame or a series of frames for working with layers, collages,
or animation. In RStudio images are automatically previewed when printed to
the console, resulting in an interactive editing environment. The latest
version of the package includes a native graphics device for creating
in-memory graphics or drawing onto images using pixel coordinates.
Author: Jeroen Ooms [aut, cre]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between magick versions 2.7.4 dated 2023-03-09 and 2.7.5 dated 2023-08-07
magick-2.7.4/magick/src/Makevars.ucrt |only magick-2.7.5/magick/DESCRIPTION | 8 - magick-2.7.5/magick/MD5 | 29 +++--- magick-2.7.5/magick/NEWS | 3 magick-2.7.5/magick/R/device.R | 2 magick-2.7.5/magick/R/ocr.R | 2 magick-2.7.5/magick/R/segmentation.R | 2 magick-2.7.5/magick/build/vignette.rds |binary magick-2.7.5/magick/cleanup | 1 magick-2.7.5/magick/configure | 10 -- magick-2.7.5/magick/inst/doc/intro.R | 10 +- magick-2.7.5/magick/inst/doc/intro.html | 140 +++++++++++++++----------------- magick-2.7.5/magick/man/device.Rd | 2 magick-2.7.5/magick/man/ocr.Rd | 8 + magick-2.7.5/magick/man/segmentation.Rd | 2 magick-2.7.5/magick/src/Makevars.win | 15 ++- 16 files changed, 119 insertions(+), 115 deletions(-)
Title: String Manipulation Package for Those Familiar with 'Microsoft
Excel'
Description: The goal of 'forstringr' is to enable complex string
manipulation in R especially to those more familiar with LEFT(),
RIGHT(), and MID() functions in Microsoft Excel. The package combines
the power of 'stringr' with other manipulation packages such as
'dplyr' and 'tidyr'.
Author: Ezekiel Ogundepo [aut, cre] ,
Olubukunola Oyedele [ctb],
Fatimo Adebanjo [ctb]
Maintainer: Ezekiel Ogundepo <gbganalyst@gmail.com>
Diff between forstringr versions 0.1.1 dated 2023-04-11 and 1.0.0 dated 2023-08-07
DESCRIPTION | 10 - MD5 | 27 ++-- NAMESPACE | 34 ++--- NEWS.md | 40 +++--- R/forstringr-package.R |only R/str_englue.R | 1 R/str_rm_whitespace.R | 53 ++++---- R/str_title_case.R |only README.md | 44 +++++- build/vignette.rds |binary inst/doc/forstringr.Rmd | 4 inst/doc/forstringr.html | 203 +++++++++++++++----------------- man/forstringr-package.Rd |only man/str_title_case.Rd |only tests/testthat/test-str_split_extract.R | 13 +- tests/testthat/test-str_title_case.R |only vignettes/forstringr.Rmd | 4 17 files changed, 237 insertions(+), 196 deletions(-)
Title: Solutions for Common Problems in Base R
Description: Contains functions for solving commonly encountered problems while
programming in R. This package is intended to provide a lightweight
supplement to Base R, and will be useful for almost any R user.
Author: David Bosak [aut, cre],
Duong Tran [ctb]
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between common versions 1.0.7 dated 2023-06-29 and 1.0.8 dated 2023-08-07
DESCRIPTION | 12 - MD5 | 20 +- NEWS.md | 4 R/common.R | 1 R/file_functions.R | 19 -- R/syspath.R | 312 +++++++++++++++++++++++++++++++++-- README.md | 2 build/vignette.rds |binary man/Sys.path.Rd | 2 man/common.Rd | 1 tests/testthat/test-file_functions.R | 23 ++ 11 files changed, 349 insertions(+), 47 deletions(-)
Title: Universal Storage Engine for Sparse and Dense Multidimensional
Arrays
Description: The universal storage engine 'TileDB' introduces a
powerful on-disk format for multi-dimensional arrays. It supports
dense and sparse arrays, dataframes and key-values stores, cloud
storage ('S3', 'GCS', 'Azure'), chunked arrays, multiple compression,
encryption and checksum filters, uses a fully multi-threaded
implementation, supports parallel I/O, data versioning ('time
travel'), metadata and groups. It is implemented as an embeddable
cross-platform C++ library with APIs from several languages, and
integrations.
Author: TileDB, Inc. [aut, cph],
Dirk Eddelbuettel [cre]
Maintainer: Dirk Eddelbuettel <dirk@tiledb.com>
Diff between tiledb versions 0.20.1 dated 2023-07-18 and 0.20.3 dated 2023-08-07
DESCRIPTION | 6 MD5 | 85 ++++---- NAMESPACE | 1 NEWS.md | 30 ++ R/ArraySchema.R | 50 ++-- R/ArraySchemaEvolution.R | 5 R/BatchedQuery.R | 2 R/Config.R | 13 - R/Ctx.R | 5 R/Error.R | 5 R/Query.R | 6 R/QueryCondition.R | 3 R/RcppExports.R | 4 R/Stats.R | 12 - R/Subarray.R | 5 R/TileDBArray.R | 15 - README.md | 5 configure | 40 +-- configure.ac | 6 inst/tinytest/test_arrowio.R | 5 inst/tinytest/test_attr.R | 2 inst/tinytest/test_dataframe.R | 1 inst/tinytest/test_datetime.R | 1 inst/tinytest/test_dim.R | 4 inst/tinytest/test_dimsubset.R | 1 inst/tinytest/test_filter.R | 3 inst/tinytest/test_fragmentinfo.R | 2 inst/tinytest/test_libtiledb.R | 1 inst/tinytest/test_matrix.R | 1 inst/tinytest/test_misc.R | 2 inst/tinytest/test_query.R | 5 inst/tinytest/test_querycondition.R | 4 inst/tinytest/test_shmem.R | 2 inst/tinytest/test_tiledbarray.R | 20 + inst/tinytest/test_timetravel.R | 2 man/tiledb_array_schema_version.Rd |only src/RcppExports.cpp | 12 + src/arrow_adapter.h | 2 src/arrowio.cpp | 31 --- src/column_buffer.cpp | 6 src/deprecation.cpp | 4 src/libtiledb.cpp | 361 +++--------------------------------- src/updated_arrow_io_impl.h | 4 tools/tiledbVersion.txt | 4 44 files changed, 224 insertions(+), 554 deletions(-)
Title: Some Datetime Pickers for 'Shiny'
Description: Provides three types of datetime pickers for usage in a
'Shiny' UI. A datetime picker is an input field for selecting both a
date and a time.
Author: Stephane Laurent [aut, cre],
Wojciech Maj [cph] ),
Porinn [cph] ),
Dmitriy Kovalenko [cph] )
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Diff between shinyDatetimePickers versions 1.0.0 dated 2022-12-08 and 1.1.0 dated 2023-08-07
DESCRIPTION | 34 MD5 | 44 NAMESPACE | 20 NEWS.md | 11 R/cssDependency.R | 40 R/datetimeMaterialPicker.R | 182 R/datetimePicker.R | 164 R/datetimeSliderPicker.R | 176 R/internal.R | 40 R/zzz.R | 36 README.md | 6 inst/www/datetimePicker/css/datetime-mui-picker/Calendar.css | 32 inst/www/datetimePicker/css/datetime-mui-picker/FrontUI.css | 8 inst/www/datetimePicker/css/datetime-picker/Calendar.css | 236 inst/www/datetimePicker/css/datetime-picker/Clock.css | 108 inst/www/datetimePicker/css/datetime-picker/DateTimePicker.css | 212 inst/www/datetimePicker/css/datetime-slider-picker/Calendar.css | 82 inst/www/datetimePicker/css/datetime-slider-picker/Picker.css | 54 inst/www/datetimePicker/datetimePicker.js |15622 ++++------ inst/www/datetimePicker/datetimePicker.js.map | 2 man/datetimeMaterialPickerInput.Rd | 138 man/datetimePickerInput.Rd | 116 man/datetimeSliderPickerInput.Rd | 124 23 files changed, 8190 insertions(+), 9297 deletions(-)
More information about shinyDatetimePickers at CRAN
Permanent link
Title: Visualization and Tools for Ichimoku Kinko Hyo Strategies
Description: An implementation of 'Ichimoku Kinko Hyo', also commonly known as
'cloud charts'. Static and interactive visualizations with tools for
creating, backtesting and development of quantitative 'ichimoku' strategies.
As described in Sasaki (1996, ISBN:4925152009), the technique is a refinement
on candlestick charting, originating from Japan and now in widespread use in
technical analysis worldwide. Translating as 'one-glance equilibrium chart',
it allows the price action and market structure of financial securities to
be determined 'at-a-glance'. Incorporates an interface with the OANDA
fxTrade API <https://developer.oanda.com/> for retrieving historical and
live streaming price data for major currencies, metals, commodities,
government bonds and stock indices.
Author: Charlie Gao [aut, cre] ,
Hibiki AI Limited [cph]
Maintainer: Charlie Gao <charlie.gao@shikokuchuo.net>
Diff between ichimoku versions 1.4.6 dated 2023-04-29 and 1.4.7 dated 2023-08-07
DESCRIPTION | 7 MD5 | 24 +- NEWS.md | 6 R/ichimoku-package.R | 2 R/oanda.R | 7 README.md | 1 build/vignette.rds |binary inst/CITATION | 2 inst/doc/reference.html | 268 ++++++++++++------------- inst/doc/strategies.html | 502 +++++++++++++++++++++++------------------------ inst/doc/utilities.html | 388 ++++++++++++++++++------------------ inst/doc/xoanda.html | 100 ++++----- src/shikokuchuo.c | 33 +-- 13 files changed, 674 insertions(+), 666 deletions(-)
Title: Hyperbolic Geometry
Description: Hyperbolic geometry in the Minkowski model and the Poincaré
model. The methods are based on the gyrovector space theory developed
by A. A. Ungar that can be found in the book 'Analytic Hyperbolic
Geometry: Mathematical Foundations And Applications'
<doi:10.1142/5914>. The package provides functions to plot
three-dimensional hyperbolic polyhedra and to plot hyperbolic tilings
of the Poincaré disk.
Author: Stephane Laurent
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Diff between gyro versions 1.2.0 dated 2023-07-01 and 1.3.0 dated 2023-08-07
DESCRIPTION | 6 ++-- MD5 | 13 +++++---- NAMESPACE | 2 + NEWS.md | 7 +++++ R/gyro.R | 70 +++++++++++++++++++++++++++++++++++++++++++++++++- R/gyroreflection.R |only README.md | 2 + man/gyroray.Rd |only man/gyroreflection.Rd |only 9 files changed, 91 insertions(+), 9 deletions(-)
Title: Wearable Accelerometer Data File Readers
Description: Reads data collected from wearable acceleratometers as used in sleep and physical activity research. Currently supports file formats: binary data from 'GENEActiv' <https://activinsights.com/>, binary data from GENEA devices (not for sale), and .cwa-format and .wav-format data from 'Axivity' <https://axivity.com>. Primarily designed to complement R package GGIR <https://CRAN.R-project.org/package=GGIR>.
Author: Vincent T van Hees [aut, cre],
Patrick Bos [aut] ,
Lena Kushleyeva [ctb],
Jing Hua Zhao [ctb],
Evgeny Mirkes [ctb],
Dan Jackson [ctb],
Jairo H Migueles [ctb],
Medical Research Council UK [cph, fnd],
Accelting [cph, fnd]
Maintainer: Vincent T van Hees <v.vanhees@accelting.com>
Diff between GGIRread versions 0.2.8 dated 2023-05-26 and 0.3.0 dated 2023-08-07
DESCRIPTION | 10 MD5 | 51 - NAMESPACE | 8 R/RcppExports.R | 30 R/readAxivity.R | 1225 ++++++++++++++++++------------------ R/readGENEActiv.R | 168 ++-- R/readGenea.R | 848 ++++++++++++------------ R/readWav.R | 230 +++--- R/zzz.R | 26 README.md | 26 inst/NEWS.Rd | 151 ++-- inst/testfiles/ax6_testfile.cwa |only man/GENEActivReader.Rd | 84 +- man/GGIRread-package.Rd | 58 - man/readAxivity.Rd | 171 +++-- man/readGENEActiv.Rd | 138 ++-- man/readGenea.Rd | 88 +- man/readWav.Rd | 74 +- man/resample.Rd | 72 +- src/GENEActivReader.cpp | 23 src/resample.cpp | 6 tests/testthat.R | 4 tests/testthat/test_readAxivity.R | 126 ++- tests/testthat/test_readGENEActiv.R | 128 +-- tests/testthat/test_readGenea.R | 48 - tests/testthat/test_readWav.R | 18 tests/testthat/test_resample.R | 48 - 27 files changed, 1999 insertions(+), 1860 deletions(-)
Title: Read, Write and Edit 'xlsx' Files
Description: Simplifies the creation of 'xlsx' files by
providing a high level interface to writing, styling and editing
worksheets.
Author: Jordan Mark Barbone [aut] ,
Jan Marvin Garbuszus [aut, cre],
openxlsx authors [cph] ,
Arseny Kapoulkine [ctb, cph]
Maintainer: Jan Marvin Garbuszus <jan.garbuszus@ruhr-uni-bochum.de>
Diff between openxlsx2 versions 0.7.1 dated 2023-06-30 and 0.8 dated 2023-08-07
openxlsx2-0.7.1/openxlsx2/R/all-equal.R |only openxlsx2-0.7.1/openxlsx2/R/expect-wrapper.R |only openxlsx2-0.7.1/openxlsx2/R/helperFunctions.R |only openxlsx2-0.7.1/openxlsx2/R/openxlsx2.R |only openxlsx2-0.7.1/openxlsx2/R/readWorkbook.R |only openxlsx2-0.7.1/openxlsx2/R/testthat-helpers.R |only openxlsx2-0.7.1/openxlsx2/inst/doc/openxlsx2_basic_manual.R |only openxlsx2-0.7.1/openxlsx2/inst/doc/openxlsx2_basic_manual.Rmd |only openxlsx2-0.7.1/openxlsx2/inst/doc/openxlsx2_basic_manual.html |only openxlsx2-0.7.1/openxlsx2/man/convertToExcelDate.Rd |only openxlsx2-0.7.1/openxlsx2/man/get_cell_refs.Rd |only openxlsx2-0.7.1/openxlsx2/man/get_date_origin.Rd |only openxlsx2-0.7.1/openxlsx2/man/guess_col_type.Rd |only openxlsx2-0.7.1/openxlsx2/man/openxlsx2.Rd |only openxlsx2-0.7.1/openxlsx2/man/read_sheet_names.Rd |only openxlsx2-0.7.1/openxlsx2/man/read_xlsx.Rd |only openxlsx2-0.7.1/openxlsx2/man/style_mgr.Rd |only openxlsx2-0.7.1/openxlsx2/man/wbColour.Rd |only openxlsx2-0.7.1/openxlsx2/man/wbComment.Rd |only openxlsx2-0.7.1/openxlsx2/man/wbHyperlink.Rd |only openxlsx2-0.7.1/openxlsx2/man/wbSheetData.Rd |only openxlsx2-0.7.1/openxlsx2/man/wbWorksheet.Rd |only openxlsx2-0.7.1/openxlsx2/man/wb_add_filter.Rd |only openxlsx2-0.7.1/openxlsx2/man/wb_get_base_font.Rd |only openxlsx2-0.7.1/openxlsx2/man/wb_get_sheet_names.Rd |only openxlsx2-0.7.1/openxlsx2/man/wb_grid_lines.Rd |only openxlsx2-0.7.1/openxlsx2/man/wb_modify_basefont.Rd |only openxlsx2-0.7.1/openxlsx2/man/wb_read.Rd |only openxlsx2-0.7.1/openxlsx2/man/wb_remove_col_widths.Rd |only openxlsx2-0.7.1/openxlsx2/man/wb_remove_filter.Rd |only openxlsx2-0.7.1/openxlsx2/man/wb_set_col_widths.Rd |only openxlsx2-0.7.1/openxlsx2/man/wb_set_sheet_names.Rd |only openxlsx2-0.7.1/openxlsx2/man/workbook_grouping.Rd |only openxlsx2-0.7.1/openxlsx2/man/write_file.Rd |only openxlsx2-0.7.1/openxlsx2/man/ws_cell_merge.Rd |only openxlsx2-0.7.1/openxlsx2/man/ws_page_setup.Rd |only openxlsx2-0.7.1/openxlsx2/tests/testthat/test-getCellRefs.R |only openxlsx2-0.7.1/openxlsx2/tests/testthat/test-helper_functions.R |only openxlsx2-0.7.1/openxlsx2/vignettes/openxlsx2_basic_manual.Rmd |only openxlsx2-0.8/openxlsx2/DESCRIPTION | 13 openxlsx2-0.8/openxlsx2/MD5 | 326 - 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Title: A Power Analysis Toolbox to Find Cost-Efficient Study Designs
Description: We implement a surrogate modeling algorithm to guide simulation-based
sample size planning. The method is described in detail in a recent preprint
(Zimmer & Debelak (2022) <doi:10.31234/osf.io/tnhb2>).
It supports multiple study design parameters and optimization with respect to a
cost function. It can find optimal designs that correspond to a desired
statistical power or that fulfill a cost constraint.
Author: Felix Zimmer [aut, cre] ,
Rudolf Debelak [aut]
Maintainer: Felix Zimmer <felix.zimmer@mail.de>
Diff between mlpwr versions 1.0.1 dated 2023-07-07 and 1.1.0 dated 2023-08-07
DESCRIPTION | 8 MD5 | 51 +- NAMESPACE | 1 NEWS.md | 14 R/check.term.R | 4 R/extensions_results.R |only R/find.design.R | 558 +++++++++++++++------------ R/fit.surrogate.R | 31 - R/get.pred.R | 19 R/helper.R | 5 R/initpoints.R | 10 R/plot.designresult.R | 95 ++-- R/plot1d.R | 50 +- R/plot2d_heat.R | 211 +++++----- R/plot2d_line.R | 3 R/simulations_data.R |only README.md | 6 build/vignette.rds |binary data |only inst/doc/extensions.R |only inst/doc/extensions.Rmd |only inst/doc/extensions.html |only inst/doc/simulation_functions.R | 60 +- inst/doc/simulation_functions.Rmd | 764 ++++++++++++++++++------------------- inst/doc/simulation_functions.html | 86 ++-- man/extensions_results.Rd |only man/find.design.Rd | 74 +++ man/plot.designresult.Rd | 6 man/simulations_data.Rd |only vignettes/extensions.Rmd |only vignettes/simulation_functions.Rmd | 764 ++++++++++++++++++------------------- 31 files changed, 1517 insertions(+), 1303 deletions(-)
Title: Estimation of Life Years Lost
Description: Estimation of life expectancy and
Life Years Lost (LYL, or lillies for short) for a given population, for
example those with a given disease or condition. In addition, the package
can be used to compare estimates from different populations, or to estimate
confidence intervals. Technical details of the method are available in
Plana-Ripoll et al. (2020) <doi:10.1371/journal.pone.0228073> and Andersen
(2017) <doi:10.1002/sim.7357>.
Author: Oleguer Plana-Ripoll [aut, cre]
Maintainer: Oleguer Plana-Ripoll <opr@clin.au.dk>
Diff between lillies versions 0.2.10 dated 2023-02-05 and 0.2.12 dated 2023-08-07
DESCRIPTION | 10 +++++----- MD5 | 4 ++-- R/lyl_aux.R | 2 +- 3 files changed, 8 insertions(+), 8 deletions(-)
Title: Minimal Examples of Using Rust Code in R
Description: Template R package with minimal setup to use Rust code in R without
hacks or frameworks. Includes basic examples of importing cargo dependencies,
spawning threads and passing numbers or strings from Rust to R. Cargo crates
are automatically 'vendored' in the R source package to support offline
installation. The GitHub repository for this package has more details and also
explains how to set up CI. This project was first presented at 'Erum2018' to
showcase R-Rust integration <https://jeroen.github.io/erum2018/>; for a real
world use-case, see the 'gifski' package on 'CRAN'.
Author: Jeroen Ooms [aut, cre] ,
Authors of the dependency Rust crates [cph]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between hellorust versions 1.0.2 dated 2023-06-08 and 1.1.0 dated 2023-08-07
DESCRIPTION | 27 +++++++++++++++------------ MD5 | 14 ++++++++++---- NEWS | 3 +++ cleanup |only inst |only src/Makevars | 7 ++++--- src/Makevars.win | 1 + src/myrustlib/vendor-authors.R |only src/myrustlib/vendor-config.toml |only src/myrustlib/vendor-update.sh |only src/myrustlib/vendor.tar.xz |only 11 files changed, 33 insertions(+), 19 deletions(-)