Title: Bayesian Dynamic Borrowing Analysis and Simulation
Description: Bayesian dynamic borrowing is an approach to incorporating external
data to supplement a randomized, controlled trial analysis in which
external data are incorporated in a dynamic way (e.g., based on similarity
of outcomes); see Viele 2013 <doi:10.1002/pst.1589> for an overview.
This package implements the hierarchical commensurate prior approach to dynamic borrowing
as described in Hobbes 2011 <doi:10.1111/j.1541-0420.2011.01564.x>.
There are three main functionalities. First, 'psborrow2' provides a user-friendly
interface for applying dynamic borrowing on the study results handles the Markov Chain
Monte Carlo sampling on behalf of the user. Second, 'psborrow2' provides a
simulation framework to compare different borrowing parameters (e.g. full borrowing, no
borrowing, dynamic borrowing) and other trial and borrowing characteristics
(e.g. sample size, covariates) in a unified way. Third, 'psborrow2' provides
a set of functions to generate data for simulation studies, and a [...truncated...]
Author: Matt Secrest [aut, cre] ,
Isaac Gravestock [aut],
Craig Gower-Page [ctb],
Manoj Khanal [ctb],
Mingyang Shan [ctb],
Kexin Jin [ctb],
Zhi Yang [ctb],
Genentech, Inc. [cph, fnd]
Maintainer: Matt Secrest <secrestm@gene.com>
Diff between psborrow2 versions 0.0.3.2 dated 2024-04-03 and 0.0.3.3 dated 2024-04-12
DESCRIPTION | 34 + MD5 | 47 ++ R/simulate_data.R | 3 inst/doc/simulation_study.Rmd | 84 ++++ inst/doc/simulation_study.html | 123 ++++++ man/figures/favicon.ico |only tests/testthat/test-simulate_data.R | 18 vignettes/figure-match_weight_01_methods-unnamed-chunk-25-1.png |only vignettes/figure-match_weight_01_methods-unnamed-chunk-26-1.png |only vignettes/figure-match_weight_01_methods-unnamed-chunk-28-1.png |only vignettes/figure-match_weight_01_methods-unnamed-chunk-53-1.png |only vignettes/figure-match_weight_01_methods-unnamed-chunk-54-1.png |only vignettes/figure-match_weight_01_methods-unnamed-chunk-55-1.png |only vignettes/figure-match_weight_01_methods-unnamed-chunk-59-1.png |only vignettes/figure-match_weight_01_methods-unnamed-chunk-60-1.png |only vignettes/figure-match_weight_01_methods-unnamed-chunk-61-1.png |only vignettes/figure-match_weight_01_methods-unnamed-chunk-62-1.png |only vignettes/figure-match_weight_01_methods-unnamed-chunk-67-1.png |only vignettes/figure-match_weight_02_application-unnamed-chunk-10-1.png |only vignettes/figure-match_weight_02_application-unnamed-chunk-10-2.png |only vignettes/figure-match_weight_02_application-unnamed-chunk-12-1.png |only vignettes/figure-match_weight_02_application-unnamed-chunk-19-1.png |only vignettes/figure-match_weight_02_application-unnamed-chunk-19-2.png |only vignettes/figure-match_weight_02_application-unnamed-chunk-21-1.png |only vignettes/figure-match_weight_02_application-unnamed-chunk-31-1.png |only vignettes/figure-match_weight_02_application-unnamed-chunk-32-1.png |only vignettes/figure-match_weight_02_application-unnamed-chunk-32-2.png |only vignettes/figure-match_weight_02_application-unnamed-chunk-42-1.png |only vignettes/figure-match_weight_02_application-unnamed-chunk-43-1.png |only vignettes/figure-match_weight_02_application-unnamed-chunk-44-1.png |only vignettes/figure-match_weight_02_application-unnamed-chunk-44-2.png |only vignettes/figure-match_weight_02_application-unnamed-chunk-44-3.png |only vignettes/figure-match_weight_02_application-unnamed-chunk-44-4.png |only vignettes/figure-match_weight_02_application-unnamed-chunk-51-1.png |only vignettes/figure-match_weight_02_application-unnamed-chunk-53-1.png |only vignettes/figure-match_weight_02_application-unnamed-chunk-60-1.png |only vignettes/figure-match_weight_02_application-unnamed-chunk-62-1.png |only vignettes/figure-simulation_study-unnamed-chunk-26-1.png |only vignettes/figure-simulation_study-unnamed-chunk-27-1.png |only vignettes/references.bib | 184 +++++++++- vignettes/simulation_study.Rmd | 84 ++++ 41 files changed, 558 insertions(+), 19 deletions(-)
Title: Estimate the Confidence Intervals for Predictive Values
Description: Computes confidence intervals for the positive predictive value (PPV) and negative predictive value (NPV) based on varied scenarios. In situations where the proportion of diseased subjects does not correspond to the disease prevalence (e.g. case-control studies), this package provides two types of solutions: 1) five methods for estimating confidence intervals for PPV and NPV via ratio of two binomial proportions including Gart & Nam (1988), Walter (1975), MOVER-J (Laud, 2017), Fieller (1954), and Bootstrap (Efron, 1979); 2) three direct methods that compute the confidence intervals including Pepe (2003), Zhou (2007), and Delta. In prospective studies where the proportion of diseased subjects is an unbiased estimate of the disease prevalence, this package provides several methods for calculating the confidence intervals for PPV and NPV including Clopper-Pearson, Wald, Wilson, Agresti-Coull, and Beta. See the Details and References sections in the corresponding functions.
Author: Dadong Zhang <dzhang4@illumina.com>,
Jingye Wang <jwang16@illumina.com>,
Suqin Cai <scai1@illumina.com>,
Johan Surtihadi <jsurtihadi@illumina.com>
Maintainer: Dadong Zhang <dzhang4@illumina.com>
Diff between CIfinder versions 1.0.2 dated 2023-10-30 and 2.0.0 dated 2024-04-12
DESCRIPTION | 13 - MD5 | 24 +- NAMESPACE | 3 R/ppv_npv_ci.R | 377 ++++++++++++++++++++++++++++++++++----- build/partial.rdb |binary build/vignette.rds |binary inst/REFERENCES.bib | 26 ++ inst/doc/CIfinder.R | 10 - inst/doc/CIfinder.Rmd | 17 + inst/doc/CIfinder.html | 276 +++++++++++++++++----------- man/ppv_npv_ci.Rd | 24 +- tests/testthat/test-ppv_npv_ci.R | 5 vignettes/CIfinder.Rmd | 17 + 13 files changed, 611 insertions(+), 181 deletions(-)
Title: Optimum Threshold Estimation
Description: Functions that provide point and interval estimations of optimum thresholds for continuous diagnostic tests. The methodology used is based on minimizing an overall cost function in the two- and three-state settings. We also provide functions for sample size determination and estimation of diagnostic accuracy measures. We also include graphical tools. The statistical methodology used here can be found in Perez-Jaume et al (2017) <doi:10.18637/jss.v082.i04> and in Skaltsa et al (2010, 2012) <doi:10.1002/bimj.200900294>, <doi:10.1002/sim.4369>.
Author: Sara Perez-Jaume [aut, cre],
Natalia Pallares [aut],
Konstantina Skaltsa [aut]
Maintainer: Sara Perez-Jaume <spjaume@gmail.com>
Diff between ThresholdROC versions 2.9.3 dated 2024-03-21 and 2.9.4 dated 2024-04-12
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/ThresholdROC-3states.R | 2 +- man/secondDer3.Rd | 2 -- 4 files changed, 8 insertions(+), 10 deletions(-)
Title: Lookup Tables to Generate Poverty Likelihoods and Rates using
the Poverty Probability Index (PPI)
Description: The Poverty Probability Index (PPI) is a poverty measurement tool
for organizations and businesses with a mission to serve the poor. The PPI
is statistically-sound, yet simple to use: the answers to 10 questions about
a household’s characteristics and asset ownership are scored to compute the
likelihood that the household is living below the poverty line – or above by
only a narrow margin. This package contains country-specific lookup data tables
used as reference to determine the poverty likelihood of a household based
on their score from the country-specific PPI questionnaire. These lookup
tables have been extracted from documentation of the PPI found at
<https://www.povertyindex.org> and managed by Innovations for Poverty Action
<https://poverty-action.org/>.
Author: Ernest Guevarra [aut, cre]
Maintainer: Ernest Guevarra <ernestgmd@gmail.com>
Diff between ppitables versions 0.5.4 dated 2020-10-25 and 0.5.5 dated 2024-04-12
ppitables-0.5.4/ppitables/R/data.R |only ppitables-0.5.4/ppitables/R/find_table.R |only ppitables-0.5.4/ppitables/R/get_table.R |only ppitables-0.5.4/ppitables/R/ppitables.R |only ppitables-0.5.4/ppitables/inst/_pkgdown.yml |only ppitables-0.5.4/ppitables/inst/createHexSticker.R |only ppitables-0.5.4/ppitables/inst/figures |only ppitables-0.5.4/ppitables/man/figures/ppitables.png |only ppitables-0.5.5/ppitables/DESCRIPTION | 16 ppitables-0.5.5/ppitables/MD5 | 274 +++-- ppitables-0.5.5/ppitables/NEWS.md | 12 ppitables-0.5.5/ppitables/R/00_benin.R |only ppitables-0.5.5/ppitables/R/00_bolivia.R |only ppitables-0.5.5/ppitables/R/00_burkina_faso.R |only ppitables-0.5.5/ppitables/R/00_cambodia.R |only ppitables-0.5.5/ppitables/R/00_ecuador.R |only ppitables-0.5.5/ppitables/R/00_el_salvador.R |only ppitables-0.5.5/ppitables/R/00_ethiopia.R |only ppitables-0.5.5/ppitables/R/00_guatemala.R |only ppitables-0.5.5/ppitables/R/00_honduras.R |only ppitables-0.5.5/ppitables/R/00_indonesia.R |only 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Title: Support Functions for Wrangling and Visualization
Description: Suite of helper functions for data wrangling and visualization.
The only theme for these functions is that they tend towards simple, short, and narrowly-scoped.
These functions are built for tasks that often recur but are not large enough in scope to warrant an ecosystem of interdependent functions.
Author: Nicholas J Lyon [aut, cre, cph]
Maintainer: Nicholas J Lyon <njlyon@alumni.iastate.edu>
Diff between supportR versions 1.2.0 dated 2023-08-22 and 1.3.0 dated 2024-04-12
DESCRIPTION | 11 - MD5 | 44 +++-- NAMESPACE | 3 NEWS.md | 8 + R/diff_check.R | 2 R/force_num.R |only R/name_vec.R | 2 R/num_check.R | 4 R/rmd_export.R | 5 R/safe_rename.R |only R/summary_table.R | 2 R/tabularize_md.R |only README.md | 8 + inst/doc/supportR.R | 23 ++ inst/doc/supportR.Rmd | 38 ++++ inst/doc/supportR.html | 372 ++++++++++++++++++++++++++---------------------- man/diff_check.Rd | 2 man/force_num.Rd |only man/name_vec.Rd | 2 man/num_check.Rd | 4 man/rmd_export.Rd | 2 man/safe_rename.Rd |only man/summary_table.Rd | 2 man/supportR-package.Rd | 9 + man/tabularize_md.Rd |only vignettes/supportR.Rmd | 38 ++++ 26 files changed, 374 insertions(+), 207 deletions(-)
Title: Generalized Price and Quantity Indexes
Description: Tools to build and work with bilateral generalized-mean
price indexes (and by extension quantity indexes), and indexes composed of
generalized-mean indexes (e.g., superlative quadratic-mean indexes, GEKS).
Covers the core mathematical machinery for making bilateral price indexes,
computing price relatives, detecting outliers, and decomposing indexes,
with wrappers for all common (and many uncommon) index-number
formulas. Implements and extends many of the methods in
Balk (2008, ISBN:978-1-107-40496-0),
von der Lippe (2001, ISBN:3-8246-0638-0), and the
CPI manual (2020, ISBN:978-1-51354-298-0).
Author: Steve Martin [aut, cre, cph]
Maintainer: Steve Martin <marberts@protonmail.com>
Diff between gpindex versions 0.6.0 dated 2023-11-15 and 0.6.1 dated 2024-04-12
DESCRIPTION | 19 ++-- MD5 | 70 +++++++------- NAMESPACE | 1 NEWS.md | 15 +++ R/contributions.R | 14 ++ R/geks.R | 80 ++++++++++------- R/gpindex-package.R | 1 R/means.R | 31 +++--- R/offset_prices.R | 10 +- R/outliers.R | 12 +- R/price_indexes.R | 4 R/splice.R |only R/weights.R | 94 +++++++++++++++----- README.md | 9 + build/vignette.rds |binary inst/CITATION | 2 inst/doc/gpindex.R | 8 + inst/doc/gpindex.Rmd | 7 + inst/doc/gpindex.html | 62 +++++++------ man/contributions.Rd | 10 +- man/factor_weights.Rd | 4 man/figures |only man/geks.Rd | 50 +++++++--- man/gpindex-package.Rd | 7 - man/index_weights.Rd | 7 - man/lehmer_mean.Rd | 2 man/nested_mean.Rd | 20 +--- man/outliers.Rd | 8 + man/price_indexes.Rd | 7 - man/scale_weights.Rd | 4 man/splice_index.Rd |only man/transmute_weights.Rd | 27 ++++- tests/Examples/gpindex-Ex.Rout.save | 169 +++++++++++++++++++++++++----------- tests/testthat/test-geks.R | 29 ++++++ tests/testthat/test-means.R | 7 + tests/testthat/test-splice.R |only tests/testthat/test-weights.R | 21 +++- vignettes/gpindex.Rmd | 7 + 38 files changed, 553 insertions(+), 265 deletions(-)
Title: Dunn's Test of Multiple Comparisons Using Rank Sums
Description: Computes Dunn's test (1964) for stochastic dominance and reports the results among multiple pairwise comparisons after a Kruskal-Wallis test for 0th-order stochastic dominance among k groups (Kruskal and Wallis, 1952). 'dunn.test' makes k(k-1)/2 multiple pairwise comparisons based on Dunn's z-test-statistic approximations to the actual rank statistics. The null hypothesis for each pairwise comparison is that the probability of observing a randomly selected value from the first group that is larger than a randomly selected value from the second group equals one half; this null hypothesis corresponds to that of the Wilcoxon-Mann-Whitney rank-sum test. Like the rank-sum test, if the data can be assumed to be continuous, and the distributions are assumed identical except for a difference in location, Dunn's test may be understood as a test for median difference and for mean difference. 'dunn.test' accounts for tied ranks.
Author: Alexis Dinno
Maintainer: Alexis Dinno <alexis.dinno@pdx.edu>
Diff between dunn.test versions 1.3.5 dated 2017-10-27 and 1.3.6 dated 2024-04-12
DESCRIPTION | 14 +++++----- MD5 | 9 +++--- R/dunn.test.R | 4 +- build |only man/dunn.test.Rd | 77 ++++++++++++++++++++++++++++++++++++------------------- man/homecare.Rd | 2 - 6 files changed, 66 insertions(+), 40 deletions(-)
Title: Fitting Survival Regression Models via 'Stan'
Description: Parametric survival regression models under the maximum likelihood approach via 'Stan'. Implemented regression models include accelerated failure time models, proportional hazards models, proportional odds models, accelerated hazard models, Yang and Prentice models, and extended hazard models. Available baseline survival distributions include exponential, Weibull, log-normal, log-logistic, gamma, generalized gamma, rayleigh, Gompertz and fatigue (Birnbaum-Saunders) distributions. References: Lawless (2002) <ISBN:9780471372158>; Bennett (1982) <doi:10.1002/sim.4780020223>; Chen and Wang(2000) <doi:10.1080/01621459.2000.10474236>; Demarqui and Mayrink (2021) <doi:10.1214/20-BJPS471>.
Author: Fabio Demarqui [aut, cre, cph]
,
Andrew Johnson [ctb]
Maintainer: Fabio Demarqui <fndemarqui@est.ufmg.br>
Diff between survstan versions 0.0.7 dated 2024-03-20 and 0.0.7.1 dated 2024-04-12
DESCRIPTION | 6 +- MD5 | 10 ++-- NEWS.md | 5 ++ R/survfit.R | 111 +++++++++++++++++++++++++----------------------- build/partial.rdb |binary man/survfit.survstan.Rd | 6 +- 6 files changed, 76 insertions(+), 62 deletions(-)
Title: Convert Digital Images into 'SpatRaster' Objects
Description: Generate 'SpatRaster' objects, as defined by the 'terra'
package, from digital images, using a specified spatial object as a
geographical reference.
Author: Diego Hernangomez [aut, cre, cph]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between rasterpic versions 0.2.4 dated 2024-01-18 and 0.2.5 dated 2024-04-12
DESCRIPTION | 17 - MD5 | 38 +- NEWS.md | 11 R/asp_ratio.R | 70 ++-- R/rasterpic_img.R | 526 ++++++++++++++++--------------- R/utils.R | 10 README.md | 32 + build/vignette.rds |binary inst/CITATION | 2 inst/WORDLIST | 2 inst/doc/rasterpic.R | 1 inst/doc/rasterpic.Rmd | 207 ++++++------ inst/doc/rasterpic.html | 41 +- inst/schemaorg.json | 10 man/asp_ratio.Rd | 3 man/figures/README-align-crop-mask-1.png |binary man/figures/README-example-basic-1.png |binary man/rasterpic-package.Rd | 4 man/rasterpic_img.Rd | 152 +++++--- vignettes/rasterpic.Rmd | 207 ++++++------ 20 files changed, 719 insertions(+), 614 deletions(-)
Title: Derivation of Regression-Based Normative Data
Description: Normative data are often used to estimate the relative position of a raw test score in the population. This package allows for deriving regression-based normative data. It includes functions that enable the fitting of regression models for the mean and residual (or variance) structures, test the model assumptions, derive the normative data in the form of normative tables or automatic scoring sheets, and estimate confidence intervals for the norms. This package accompanies the book Van der Elst, W. (2024). Regression-based normative data for psychological assessment. A hands-on approach using R. Springer Nature.
Author: Wim Van der Elst [aut, cre]
Maintainer: Wim Van der Elst <Wim.vanderelst@gmail.com>
Diff between NormData versions 1.0 dated 2024-02-06 and 1.1 dated 2024-04-12
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/Bootstrap.Stage.2.NormScore.R | 6 +++--- R/Summary.Stage.1.R | 8 ++++---- 4 files changed, 13 insertions(+), 13 deletions(-)
Title: Nuclear Decay Data for Dosimetric Calculations - ICRP 107
Description: Nuclear Decay Data for Dosimetric Calculations from the
International Commission on Radiological Protection from ICRP
Publication 107. Ann. ICRP 38 (3). Eckerman, Keith and Endo, Akira 2008
<doi:10.1016/j.icrp.2008.10.004>
<https://www.icrp.org/publication.asp?id=ICRP%20Publication%20107>.
This is a database of the physical data needed in calculations of
radionuclide-specific protection and operational quantities. The
data is prescribed by the ICRP, the international authority on
radiation dose standards, for estimating dose from the intake of or
exposure to radionuclides in the workplace and the environment.
The database contains information on the half-lives, decay chains,
and yields and energies of radiations emitted in nuclear transformations
of 1252 radionuclides of 97 elements.
Author: Mark Hogue [aut, cre],
KF Eckerman [dtc, cph],
A Endo [dtc, cph]
Maintainer: Mark Hogue <mark.hogue.chp@gmail.com>
Diff between RadData versions 1.0.1 dated 2021-04-13 and 1.0.2 dated 2024-04-12
DESCRIPTION | 8 +++--- MD5 | 16 ++++++------ NEWS.md | 6 +--- R/data.R | 51 +++++++++++++++++++++++++++++++++++++--- README.md | 67 +++++++++++++++++++++++++++++++++++------------------ man/ICRP_07.BET.Rd | 3 ++ man/ICRP_07.NDX.Rd | 32 +++++++++++++++++++++++++ man/ICRP_07.RAD.Rd | 6 ++++ man/rad_codes.Rd | 10 +++++-- 9 files changed, 155 insertions(+), 44 deletions(-)
Title: Set of Tools to Data Analysis using Generalized Linear Models
Description: Set of tools for the statistical analysis of data using: (1) normal linear models; (2) generalized linear models; (3) negative binomial regression models as alternative to the Poisson regression models under the presence of overdispersion; (4) beta-binomial and random-clumped binomial regression models as alternative to the binomial regression models under the presence of overdispersion; (5) Zero-inflated and zero-altered regression models to deal with zero-excess in count data; (6) generalized nonlinear models; (7) generalized estimating equations for cluster correlated data.
Author: Luis Hernando Vanegas [aut, cre],
Luz Marina Rondon [aut],
Gilberto A. Paula [aut]
Maintainer: Luis Hernando Vanegas <lhvanegasp@unal.edu.co>
Diff between glmtoolbox versions 0.1.10 dated 2024-01-13 and 0.1.11 dated 2024-04-12
DESCRIPTION | 7 - MD5 | 29 ++--- NAMESPACE | 2 R/data.R | 203 ++++++++++++++++++++++++++++++++++----- R/geeglm.R | 117 ++++++++++++++-------- R/glms.R | 188 +++++++++++++++++++++++++----------- R/overglm3.R | 223 +++++++++++++++++++++++-------------------- man/BoxTidwell.glm.Rd | 2 man/BoxTidwell.lm.Rd | 2 man/ROCc.Rd | 23 ++++ man/bestSubset.Rd |only man/gnm.Rd | 2 man/stepCriterion.glm.Rd | 15 ++ man/stepCriterion.glmgee.Rd | 15 ++ man/stepCriterion.lm.Rd | 8 + man/stepCriterion.overglm.Rd | 12 +- 16 files changed, 595 insertions(+), 253 deletions(-)
Title: Multi-Calibration Boosting
Description: Implements 'Multi-Calibration Boosting' (2018) <https://proceedings.mlr.press/v80/hebert-johnson18a.html> and
'Multi-Accuracy Boosting' (2019) <doi:10.48550/arXiv.1805.12317> for the multi-calibration of a machine learning model's prediction.
'MCBoost' updates predictions for sub-groups in an iterative fashion in order to mitigate biases like poor calibration or large accuracy differences across subgroups.
Multi-Calibration works best in scenarios where the underlying data & labels are unbiased, but resulting models are.
This is often the case, e.g. when an algorithm fits a majority population while ignoring or under-fitting minority populations.
Author: Florian Pfisterer [aut] ,
Susanne Dandl [ctb] ,
Christoph Kern [ctb] ,
Carolin Becker [ctb],
Bernd Bischl [ctb] ,
Sebastian Fischer [ctb, cre]
Maintainer: Sebastian Fischer <sebf.fischer@gmail.com>
Diff between mcboost versions 0.4.2 dated 2022-08-18 and 0.4.3 dated 2024-04-12
DESCRIPTION | 27 - MD5 | 20 NEWS.md | 7 R/PipeOpMCBoost.R | 26 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/mcboost_basics_extensions.Rmd | 9 inst/doc/mcboost_basics_extensions.html | 737 ++++++++++++++++++-------------- inst/doc/mcboost_example.html | 600 ++++++++++++++------------ man/mcboost-package.Rd | 9 vignettes/mcboost_basics_extensions.Rmd | 9 11 files changed, 817 insertions(+), 627 deletions(-)
Title: Simple Functions to Save Time and Memory
Description: Fast and memory-efficient (or 'cheap') tools to facilitate
efficient programming, saving time and memory. It aims to provide
'cheaper' alternatives to common base R functions, as well as some
additional functions.
Author: Nick Christofides [aut, cre]
Maintainer: Nick Christofides <nick.christofides.r@gmail.com>
Diff between cheapr versions 0.5.0 dated 2024-04-05 and 0.8.0 dated 2024-04-12
DESCRIPTION | 6 MD5 | 42 - NAMESPACE | 14 NEWS.md | 17 R/cpp11.R | 72 ++ R/scalars.R | 5 R/sequences.R | 28 - R/set_math.R |only R/sset.R | 120 ++-- R/utils.R | 10 README.md | 156 +++--- man/set_math.Rd |only man/sset.Rd | 17 src/cheapr_cpp.h | 7 src/cpp11.cpp | 144 +++++ src/nas.cpp | 162 +----- src/sequences.cpp | 29 + src/set_math.cpp |only src/sset.cpp | 968 ++++++++++++++++++++++++---------------- src/utils.cpp | 36 - src/which.cpp | 66 +- tests/testthat/test-sequences.R | 5 tests/testthat/test-set_math.R |only tests/testthat/test-sset.R | 70 +- 24 files changed, 1181 insertions(+), 793 deletions(-)
Title: Interface to the API 'Sede Electronica Del Catastro'
Description: Access public spatial data available under the 'INSPIRE'
directive. Tools for downloading references and addresses of
properties, as well as map images.
Author: Angel Delgado Panadero [aut, cph]
,
Inaki Ucar [ctb] ,
Diego Hernangomez [aut, cre]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between CatastRo versions 0.3.0 dated 2024-01-18 and 0.3.1 dated 2024-04-12
CatastRo-0.3.0/CatastRo/man/catr_detect_cache_dir.Rd |only CatastRo-0.3.0/CatastRo/vignettes/dataviz-1.png |only CatastRo-0.3.1/CatastRo/DESCRIPTION | 15 - CatastRo-0.3.1/CatastRo/MD5 | 122 +++++------ CatastRo-0.3.1/CatastRo/NEWS.md | 117 +++++----- CatastRo-0.3.1/CatastRo/R/atom_ad.R | 18 - CatastRo-0.3.1/CatastRo/R/atom_ad_db.R | 8 CatastRo-0.3.1/CatastRo/R/atom_bu.R | 39 +-- CatastRo-0.3.1/CatastRo/R/atom_bu_db.R | 13 - CatastRo-0.3.1/CatastRo/R/atom_cp.R | 10 CatastRo-0.3.1/CatastRo/R/atom_cp_db.R | 15 - CatastRo-0.3.1/CatastRo/R/atom_search.R | 2 CatastRo-0.3.1/CatastRo/R/cache_set.R | 58 ++--- CatastRo-0.3.1/CatastRo/R/data.R | 49 +++- CatastRo-0.3.1/CatastRo/R/ovc_cpmrc.R | 63 +++-- CatastRo-0.3.1/CatastRo/R/ovc_munic.R | 15 - CatastRo-0.3.1/CatastRo/R/ovc_provinces.R | 7 CatastRo-0.3.1/CatastRo/R/ovc_rccoor.R | 51 +--- CatastRo-0.3.1/CatastRo/R/ovc_rccoor_distancia.R | 61 ++--- CatastRo-0.3.1/CatastRo/R/search_coords.R | 12 - CatastRo-0.3.1/CatastRo/R/wfs_ad.R | 21 - CatastRo-0.3.1/CatastRo/R/wfs_bu.R | 12 - CatastRo-0.3.1/CatastRo/R/wfs_cp.R | 20 - CatastRo-0.3.1/CatastRo/R/wms_all.R | 68 ++---- CatastRo-0.3.1/CatastRo/README.md | 36 +-- CatastRo-0.3.1/CatastRo/build/vignette.rds |binary CatastRo-0.3.1/CatastRo/data/catr_srs_values.rda |binary CatastRo-0.3.1/CatastRo/inst/WORDLIST | 9 CatastRo-0.3.1/CatastRo/inst/doc/CatastRo.Rmd | 32 +- CatastRo-0.3.1/CatastRo/inst/doc/CatastRo.html | 55 ++-- CatastRo-0.3.1/CatastRo/inst/doc/ovcservice.Rmd | 46 ++-- CatastRo-0.3.1/CatastRo/inst/doc/ovcservice.html | 42 ++- CatastRo-0.3.1/CatastRo/inst/schemaorg.json | 4 CatastRo-0.3.1/CatastRo/man/catr_atom_get_address.Rd | 28 +- CatastRo-0.3.1/CatastRo/man/catr_atom_get_address_db.Rd | 17 - CatastRo-0.3.1/CatastRo/man/catr_atom_get_buildings.Rd | 32 +- CatastRo-0.3.1/CatastRo/man/catr_atom_get_buildings_db.Rd | 17 - CatastRo-0.3.1/CatastRo/man/catr_atom_get_parcels.Rd | 21 - CatastRo-0.3.1/CatastRo/man/catr_atom_get_parcels_db.Rd | 19 - CatastRo-0.3.1/CatastRo/man/catr_atom_search_munic.Rd | 15 - CatastRo-0.3.1/CatastRo/man/catr_clear_cache.Rd | 1 CatastRo-0.3.1/CatastRo/man/catr_get_code_from_coords.Rd | 17 - CatastRo-0.3.1/CatastRo/man/catr_ovc_get_cod_munic.Rd | 14 - CatastRo-0.3.1/CatastRo/man/catr_ovc_get_cod_provinces.Rd | 7 CatastRo-0.3.1/CatastRo/man/catr_ovc_get_cpmrc.Rd | 22 - CatastRo-0.3.1/CatastRo/man/catr_ovc_get_rccoor.Rd | 16 - CatastRo-0.3.1/CatastRo/man/catr_ovc_get_rccoor_distancia.Rd | 26 +- CatastRo-0.3.1/CatastRo/man/catr_set_cache_dir.Rd | 33 ++ CatastRo-0.3.1/CatastRo/man/catr_srs_values.Rd | 73 ++++-- CatastRo-0.3.1/CatastRo/man/catr_wfs_get_address.Rd | 28 +- CatastRo-0.3.1/CatastRo/man/catr_wfs_get_buildings.Rd | 29 +- CatastRo-0.3.1/CatastRo/man/catr_wfs_get_parcels.Rd | 27 +- CatastRo-0.3.1/CatastRo/man/catr_wms_get_layer.Rd | 62 ++--- CatastRo-0.3.1/CatastRo/man/chunks |only CatastRo-0.3.1/CatastRo/man/figures/README-atom-1.png |binary CatastRo-0.3.1/CatastRo/man/figures/README-wfs-1.png |binary CatastRo-0.3.1/CatastRo/man/figures/README-wms-1.png |binary CatastRo-0.3.1/CatastRo/tests/testthat/test-ovc_cpmrc.R | 120 +++++----- CatastRo-0.3.1/CatastRo/vignettes/CatastRo.Rmd | 32 +- CatastRo-0.3.1/CatastRo/vignettes/dviz-1.png |only CatastRo-0.3.1/CatastRo/vignettes/minimal-1.png |binary CatastRo-0.3.1/CatastRo/vignettes/ovcservice.Rmd | 46 ++-- CatastRo-0.3.1/CatastRo/vignettes/santbernabeu-1.png |binary 63 files changed, 881 insertions(+), 841 deletions(-)
Title: Designing Multi-Arm Multi-Stage Studies
Description: Designing multi-arm multi-stage studies with (asymptotically) normal endpoints and known variance.
Author: Thomas Jaki [aut, cre] ,
Dominique-Laurent Couturier [aut]
,
Dominic Magirr [aut],
Nikita Mozgunov [aut] ,
Philip Pallmann [aut]
Maintainer: Thomas Jaki <thomas.jaki@pm.me>
Diff between MAMS versions 2.0.1 dated 2023-04-18 and 2.0.2 dated 2024-04-12
DESCRIPTION | 25 ++++++++++-- MD5 | 15 ++++--- NAMESPACE | 1 R/mams.R | 108 +++++++++++++++++++++++++++--------------------------- build/partial.rdb |binary inst/NEWS | 7 +++ man/figures |only src/init.c | 4 +- src/prodsum123.c | 14 ++++--- 9 files changed, 100 insertions(+), 74 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-01-27 0.0.8
2019-05-29 0.0.7
2018-03-16 0.0.6
2017-09-09 0.0.5
2017-03-12 0.0.4
2016-11-20 0.0.3
2016-08-05 0.0.2
2016-04-29 0.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-03-15 0.1-0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-05-06 0.2.2
2016-03-08 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-03-12 0.0.7
2019-12-23 0.0.6
2017-09-10 0.0.5
2017-04-28 0.0.4
2017-03-12 0.0.3
2016-11-23 0.0.2
2016-08-11 0.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-03-07 0.8.1
2021-09-02 0.7.4
2021-08-22 0.7.3
2021-07-17 0.7.0
2021-02-17 0.6.0
2018-06-27 0.5.0
2018-04-16 0.4.1
2018-04-14 0.4.0
2017-06-27 0.3.0
2017-04-20 0.2.6
2017-04-06 0.2.5
2016-11-14 0.2.3
2016-07-13 0.2.2
2016-07-11 0.2.1
2016-03-04 0.2.0.5
2016-02-15 0.2.0.4
2016-01-04 0.2.0.3
2015-12-23 0.2.0.2
2015-10-06 0.2.0.1
2015-08-30 0.2.0.0
2015-07-28 0.1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-03-24 0.3.26.1
2021-01-22 0.3.26
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-03-30 0.0-1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-06-17 0.3.14
2019-01-31 0.3.6.2
2018-12-04 0.3.6.1
2018-05-22 0.3.6
2018-04-12 0.3.2
2017-04-19 0.2.0
2017-03-22 0.1.11
2017-03-01 0.1.10
2016-10-30 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-03-18 0.5.0
2021-06-01 0.4.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-12-30 0.0-3
2016-03-02 0.0-2
2015-10-06 0.0-1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-12-10 1.3-0
2018-09-18 1.1-8
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-04-21 1.1
2014-11-18 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-05-10 0.0-2
2015-10-06 0.0-1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-07-31 1.0-24
2014-12-18 1.0-23
2013-11-05 1.0-22
2013-03-14 1.0-21
2012-03-13 1.0-20
2011-11-15 1.0-19
2010-12-10 1.0-18
2010-08-05 1.0-17
2010-03-22 1.0-16
2009-10-04 1.0-15
2009-06-14 1.0-14
2009-05-27 1.0-13
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-05-09 0.0-2
2015-10-06 0.0-1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-10-21 0.0-2
2015-10-06 0.0-1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-02-08 0.0-9
2021-01-24 0.0-8
2016-12-29 0.0-7
2016-05-08 0.0-6
2016-03-08 0.0-5
2016-03-06 0.0-4
2015-10-08 0.0-3
2015-10-06 0.0-2
2015-07-14 0.0-1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-11-20 0.0-2
2015-10-06 0.0-1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-09-09 5.0.2
2019-06-20 5.0.1
2019-06-19 5.0
2017-04-19 4.1.1
2017-03-23 4.1
2016-12-14 4.0
2016-09-27 3.0.1
2016-09-20 3.0
2015-10-30 2.0
2015-03-09 1.0.1
2014-10-04 1.0
Title: Access to Teaching Materials from a ZIP File or GitHub
Description: Provides access to teaching materials for various statistics courses, including R and Python programs,
Shiny apps, data, and PDF/HTML documents. These materials are stored on the Internet as a ZIP file
(e.g., in a GitHub repository) and can be downloaded and displayed or run locally. The content of the ZIP file
is temporarily or permanently stored. By default, the package uses the GitHub repository
'sigbertklinke/mmstat4.data.' Additionally, the package includes 'association_measures.R'
from the archived package 'ryouready' by Mark Heckman and some auxiliary functions.
Author: Sigbert Klinke [aut, cre] ,
Jekaterina Zukovska [ctb]
Maintainer: Sigbert Klinke <sigbert@hu-berlin.de>
Diff between mmstat4 versions 0.1.6 dated 2023-09-29 and 0.2.0 dated 2024-04-12
mmstat4-0.1.6/mmstat4/man/Rdups.Rd |only mmstat4-0.1.6/mmstat4/man/Rlibs.Rd |only mmstat4-0.1.6/mmstat4/man/Rsolo.Rd |only mmstat4-0.2.0/mmstat4/DESCRIPTION | 13 - mmstat4-0.2.0/mmstat4/MD5 | 56 ++-- mmstat4-0.2.0/mmstat4/NAMESPACE | 23 ++ mmstat4-0.2.0/mmstat4/R/Rdups.R | 16 - mmstat4-0.2.0/mmstat4/R/Rlibs.R | 64 ++++- mmstat4-0.2.0/mmstat4/R/Rsolo.R | 114 +++++++--- mmstat4-0.2.0/mmstat4/R/askUser.R |only mmstat4-0.2.0/mmstat4/R/association_measures.R | 18 - mmstat4-0.2.0/mmstat4/R/gh.R | 44 ++- mmstat4-0.2.0/mmstat4/R/ghc.R |only mmstat4-0.2.0/mmstat4/R/ghfile.R | 125 +++++++--- mmstat4-0.2.0/mmstat4/R/ghget.R | 25 +- mmstat4-0.2.0/mmstat4/R/ghinstall.R |only mmstat4-0.2.0/mmstat4/R/ghrepos.R | 22 + mmstat4-0.2.0/mmstat4/R/ghzip.R |only mmstat4-0.2.0/mmstat4/R/install.R |only mmstat4-0.2.0/mmstat4/R/zzz.R | 11 mmstat4-0.2.0/mmstat4/build/vignette.rds |binary mmstat4-0.2.0/mmstat4/inst/doc/mmstat4.R | 11 mmstat4-0.2.0/mmstat4/inst/doc/mmstat4.Rmd | 71 ++++-- mmstat4-0.2.0/mmstat4/inst/doc/mmstat4.html | 285 ++++++++++++++++--------- mmstat4-0.2.0/mmstat4/man/askUser.Rd |only mmstat4-0.2.0/mmstat4/man/association.Rd | 18 - mmstat4-0.2.0/mmstat4/man/checkFiles.Rd |only mmstat4-0.2.0/mmstat4/man/dupFiles.Rd |only mmstat4-0.2.0/mmstat4/man/gh.Rd | 15 - mmstat4-0.2.0/mmstat4/man/ghc.Rd |only mmstat4-0.2.0/mmstat4/man/ghfile.Rd | 10 mmstat4-0.2.0/mmstat4/man/ghinstall.Rd |only mmstat4-0.2.0/mmstat4/man/ghrepos.Rd | 8 mmstat4-0.2.0/mmstat4/man/ghzip.Rd |only mmstat4-0.2.0/mmstat4/man/install.Rd |only mmstat4-0.2.0/mmstat4/man/packages.Rd |only mmstat4-0.2.0/mmstat4/vignettes/mmstat4.Rmd | 71 ++++-- 37 files changed, 710 insertions(+), 310 deletions(-)
Title: Mendelian Randomization Package
Description: Encodes several methods for performing Mendelian randomization
analyses with summarized data. Summarized data on genetic associations with the
exposure and with the outcome can be obtained from large consortia. These data
can be used for obtaining causal estimates using instrumental variable methods.
Author: Stephen Burgess [aut, cre] ,
Olena Yavorska [aut],
James Staley [ctb] ,
Fernando Hartwig [ctb] ,
Jim Broadbent [ctb] ,
Christopher Foley [ctb] ,
Andrew Grant [ctb],
Amy Mason [ctb] ,
Ting Ye [ctb] ,
Haoran Xue [ctb] ,
Zhaotong Lin [ctb] ,
Siqi Xu [ct [...truncated...]
Maintainer: Stephen Burgess <sb452@medschl.cam.ac.uk>
Diff between MendelianRandomization versions 0.9.0 dated 2023-08-08 and 0.10.0 dated 2024-04-12
MendelianRandomization-0.10.0/MendelianRandomization/DESCRIPTION | 89 MendelianRandomization-0.10.0/MendelianRandomization/MD5 | 61 MendelianRandomization-0.10.0/MendelianRandomization/NAMESPACE | 5 MendelianRandomization-0.10.0/MendelianRandomization/NEWS | 7 MendelianRandomization-0.10.0/MendelianRandomization/R/AllClasses.R | 79 MendelianRandomization-0.10.0/MendelianRandomization/R/AllGenerics.R | 113 + MendelianRandomization-0.10.0/MendelianRandomization/R/RcppExports.R | 146 - MendelianRandomization-0.10.0/MendelianRandomization/R/getter-methods.R | 10 MendelianRandomization-0.10.0/MendelianRandomization/R/mr_clr-methods.R |only MendelianRandomization-0.10.0/MendelianRandomization/R/mr_mvivwme-methods.R |only MendelianRandomization-0.10.0/MendelianRandomization/R/mr_mvpcgmm-methods.R | 424 ++-- MendelianRandomization-0.10.0/MendelianRandomization/R/mr_pcgmm-methods.R | 304 +-- MendelianRandomization-0.10.0/MendelianRandomization/R/new-methods.R | 1 MendelianRandomization-0.10.0/MendelianRandomization/R/pheno_input-function.R | 2 MendelianRandomization-0.10.0/MendelianRandomization/R/show-methods.R | 74 MendelianRandomization-0.10.0/MendelianRandomization/build/vignette.rds |binary MendelianRandomization-0.10.0/MendelianRandomization/inst/doc/Vignette_MR.R | 245 +- MendelianRandomization-0.10.0/MendelianRandomization/inst/doc/Vignette_MR.Rmd | 431 +++- MendelianRandomization-0.10.0/MendelianRandomization/inst/doc/Vignette_MR.pdf |binary MendelianRandomization-0.10.0/MendelianRandomization/man/CLR-class.Rd |only MendelianRandomization-0.10.0/MendelianRandomization/man/MRInput-class.Rd | 3 MendelianRandomization-0.10.0/MendelianRandomization/man/MVIVWME-class.Rd |only MendelianRandomization-0.10.0/MendelianRandomization/man/getter.Rd | 6 MendelianRandomization-0.10.0/MendelianRandomization/man/mr_clr.Rd |only MendelianRandomization-0.10.0/MendelianRandomization/man/mr_input.Rd | 3 MendelianRandomization-0.10.0/MendelianRandomization/man/mr_mvcML.Rd | 2 MendelianRandomization-0.10.0/MendelianRandomization/man/mr_mvivwme.Rd |only MendelianRandomization-0.10.0/MendelianRandomization/man/mr_mvpcgmm.Rd | 6 MendelianRandomization-0.10.0/MendelianRandomization/man/mr_pcgmm.Rd | 6 MendelianRandomization-0.10.0/MendelianRandomization/man/mv_norm.Rd |only MendelianRandomization-0.10.0/MendelianRandomization/man/pheno_input.Rd | 2 MendelianRandomization-0.10.0/MendelianRandomization/vignettes/Vignette_MR.Rmd | 431 +++- MendelianRandomization-0.10.0/MendelianRandomization/vignettes/Vignette_MR.html | 975 ++++++---- MendelianRandomization-0.9.0/MendelianRandomization/R/extract.pheno.csv-function.R |only MendelianRandomization-0.9.0/MendelianRandomization/inst/extdata |only MendelianRandomization-0.9.0/MendelianRandomization/man/extract.pheno.csv.Rd |only 36 files changed, 2294 insertions(+), 1131 deletions(-)
More information about MendelianRandomization at CRAN
Permanent link
Title: Data Management and Analysis of Tests
Description: A system for the management, assessment, and psychometric analysis of data from educational and psychological tests.
Author: Gunter Maris [aut],
Timo Bechger [aut],
Jesse Koops [aut, cre],
Ivailo Partchev [aut]
Maintainer: Jesse Koops <jesse.koops@cito.nl>
Diff between dexter versions 1.4.0 dated 2024-01-19 and 1.4.2 dated 2024-04-12
DESCRIPTION | 6 - MD5 | 40 ++++----- NAMESPACE | 1 NEWS.md | 6 + R/RcppExports.R | 4 R/anon_calibration.R | 15 +++ R/dexter.R | 7 - R/latent_cor.R | 45 ++++++++--- R/plausible_values.R | 6 - R/reparam.R | 13 +-- R/resp_data.R | 19 ++++ inst/doc/DIF_vignette.html | 4 inst/doc/Equating.html | 10 +- inst/doc/Plausible_Values.html | 16 +-- inst/doc/Test_Individual_differences.html | 12 +- inst/doc/dexter.html | 56 ++++++------- inst/doc/profile-plots.html | 4 man/latent_cor.Rd | 87 +++++++++++---------- man/plausible_values.Rd | 6 - src/RcppExports.cpp | 32 ------- src/elsym.cpp | 122 ------------------------------ 21 files changed, 210 insertions(+), 301 deletions(-)
Title: Generalized Supervised Principal Component Regression
Description: Generalization of supervised principal component regression (SPCR;
Bair et al., 2006, <doi:10.1198/016214505000000628>) to support continuous,
binary, and discrete variables as outcomes and predictors
(inspired by the 'superpc' R package <https://cran.r-project.org/package=superpc>).
Author: Edoardo Costantini [aut, cre]
Maintainer: Edoardo Costantini <costantini.edoardo@yahoo.com>
Diff between gspcr versions 0.9.4.1 dated 2023-11-21 and 0.9.5 dated 2024-04-12
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- R/check.R | 4 ++-- R/cv_gspcr.R | 6 +++--- README.md | 18 ++++++++++++++++++ build/partial.rdb |binary build/vignette.rds |binary inst/doc/vignette-1-example-analysis.html | 4 ++-- inst/doc/vignette-2-gspcr-arguments.html | 10 +++++----- inst/doc/vignette-3-alternatives.html | 14 +++++++------- tests/testthat/test-checks.R | 22 +++++++++++++++------- tests/testthat/test-cv_gspcr.R | 16 +++++++++------- 12 files changed, 75 insertions(+), 47 deletions(-)
Title: Funnel Plots for Comparing Institutional Performance
Description: An implementation of methods presented by Spiegelhalter (2005) <doi:10.1002/sim.1970> Funnel plots for comparing institutional performance, for standardised ratios, ratios of counts and proportions with additive overdispersion adjustment.
Author: Chris Mainey [aut, cre] ,
Andrew Johnson [ctb],
Matthew Bass [ctb],
NHS-R Community [cph]
Maintainer: Chris Mainey <c.mainey1@nhs.net>
Diff between FunnelPlotR versions 0.4.2 dated 2023-06-01 and 0.5.0 dated 2024-04-12
DESCRIPTION | 13 +- MD5 | 76 ++++++------ NAMESPACE | 1 NEWS.md | 12 ++ R/build_limits_lookup.R | 15 +- R/draw_plot.R | 43 ++++--- R/funnel_plot.R | 129 +++++++++++---------- R/outliers_func.R | 64 ++++++---- README.md | 8 - build/vignette.rds |binary inst/doc/changing_funnel_plot_options.R | 41 +++--- inst/doc/changing_funnel_plot_options.Rmd | 47 ++++--- inst/doc/changing_funnel_plot_options.html | 171 ++++++++++++++--------------- inst/doc/funnel_plots.R | 14 +- inst/doc/funnel_plots.Rmd | 4 inst/doc/funnel_plots.html | 168 ++++++++++++++-------------- man/aggregate_func.Rd | 36 +++--- man/build_limits_lookup.Rd | 18 +-- man/draw_plot.Rd | 3 man/figures/README-funnel1-1.png |binary man/figures/README-funnel2-1.png |binary man/funnel_clean.Rd | 40 +++--- man/funnel_grey.Rd | 40 +++--- man/funnel_plot.Rd | 28 ++-- man/limits.Rd | 28 ++-- man/outliers.Rd | 28 ++-- man/phi.Rd | 28 ++-- man/phi_func.Rd | 40 +++--- man/source_data.Rd | 28 ++-- man/tau2.Rd | 28 ++-- man/tau_func.Rd | 44 +++---- man/transformed_zscore.Rd | 52 ++++---- man/truncation.Rd | 40 +++--- man/winsorisation.Rd | 40 +++--- tests/testthat/test-classes_methods.R | 7 - tests/testthat/test-funnel_plot.R | 18 +-- tests/testthat/test-outliers_func.R | 10 - vignettes/changing_funnel_plot_options.Rmd | 47 ++++--- vignettes/funnel_plots.Rmd | 4 39 files changed, 737 insertions(+), 676 deletions(-)
Title: Generic PK/PD Simulation Platform CAMPSIS
Description: A generic, easy-to-use and intuitive
pharmacokinetic/pharmacodynamic (PK/PD) simulation platform based on R
packages 'rxode2', 'RxODE' and 'mrgsolve'. CAMPSIS provides an
abstraction layer over the underlying processes of writing a PK/PD
model, assembling a custom dataset and running a simulation. CAMPSIS
has a strong dependency to the R package 'campsismod', which allows to
read/write a model from/to files and adapt it further on the fly in
the R environment. Package 'campsis' allows the user to assemble a
dataset in an intuitive manner. Once the user’s dataset is ready, the
package is in charge of preparing the simulation, calling 'rxode2',
'RxODE' or 'mrgsolve' (at the user's choice) and returning the
results, for the given model, dataset and desired simulation settings.
Author: Nicolas Luyckx [aut, cre]
Maintainer: Nicolas Luyckx <nicolas.luyckx@calvagone.com>
Diff between campsis versions 1.5.1 dated 2024-02-16 and 1.5.2 dated 2024-04-12
campsis-1.5.1/campsis/man/processTSLDAndTDOSColumn.Rd |only campsis-1.5.2/campsis/DESCRIPTION | 21 +-- campsis-1.5.2/campsis/MD5 | 60 ++++++---- campsis-1.5.2/campsis/NAMESPACE | 10 + campsis-1.5.2/campsis/NEWS.md | 5 campsis-1.5.2/campsis/R/data.R | 2 campsis-1.5.2/campsis/R/dataset.R | 38 +++++- campsis-1.5.2/campsis/R/dataset_config.R | 21 ++- campsis-1.5.2/campsis/R/plan_setup.R | 2 campsis-1.5.2/campsis/R/time_utilities.R |only campsis-1.5.2/campsis/build/vignette.rds |binary campsis-1.5.2/campsis/data/nhanes.rda |binary campsis-1.5.2/campsis/inst/doc/campsis.html | 2 campsis-1.5.2/campsis/man/BinomialDistribution.Rd | 38 +++--- campsis-1.5.2/campsis/man/DatasetConfig.Rd | 8 + campsis-1.5.2/campsis/man/Progress.Rd | 38 +++--- campsis-1.5.2/campsis/man/convertTime.Rd |only campsis-1.5.2/campsis/man/dataset_config-class.Rd | 4 campsis-1.5.2/campsis/man/days.Rd |only campsis-1.5.2/campsis/man/getAvailableTimeUnits.Rd |only campsis-1.5.2/campsis/man/getColumn.Rd | 40 +++--- campsis-1.5.2/campsis/man/hours.Rd |only campsis-1.5.2/campsis/man/minutes.Rd |only campsis-1.5.2/campsis/man/months.Rd |only campsis-1.5.2/campsis/man/nhanes.Rd | 58 ++++----- campsis-1.5.2/campsis/man/processAllTimeColumns.Rd |only campsis-1.5.2/campsis/man/progress_settings-class.Rd | 34 ++--- campsis-1.5.2/campsis/man/seconds.Rd |only campsis-1.5.2/campsis/man/setupPlanDefault.Rd | 4 campsis-1.5.2/campsis/man/standardiseTime.Rd |only campsis-1.5.2/campsis/man/uniteColumns.Rd | 48 ++++---- campsis-1.5.2/campsis/man/weeks.Rd |only campsis-1.5.2/campsis/man/years.Rd |only campsis-1.5.2/campsis/tests/testthat/_snaps/testDefaultPlots/shadedplot-colour-arm-strat-wt.svg | 2 campsis-1.5.2/campsis/tests/testthat/_snaps/testDefaultPlots/spaghettiplot-colour-arm-strat-wt.svg | 2 campsis-1.5.2/campsis/tests/testthat/testShowMethod.R | 4 campsis-1.5.2/campsis/tests/testthat/testTimeUtilities.R |only campsis-1.5.2/campsis/tests/testthat/testUtils.R | 2 38 files changed, 257 insertions(+), 186 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-04-01 0.13.1
2024-03-19 0.12.2
2024-03-12 0.12.1
2024-01-24 0.10.3
2024-01-09 0.10.1
2023-12-21 0.10.0
2023-12-11 0.9.9
2023-10-19 0.9.0
2023-09-23 0.7.2
2023-09-21 0.7.0
2023-09-14 0.6.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-02-15 0.1.5
2024-01-12 0.1.4
2023-09-06 0.1.3
2022-11-09 0.1.2
2022-02-09 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-04-05 2.0.10
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-07-19 2.0.2
2023-05-09 2.0.1
2023-02-03 2.0.0
2022-11-04 1.0.1
2022-09-26 1.0.0
2022-09-07 0.0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-03-28 0.7.3
2023-11-01 0.7.2
2023-08-31 0.7.1
2023-08-16 0.7.0
2023-03-11 0.6.1
2023-03-03 0.6.0
2022-12-21 0.5.2
2022-12-08 0.5.1
2022-11-16 0.5.0
2022-07-13 0.4.0
2022-05-23 0.3.2
2022-04-13 0.3.1
2022-03-29 0.3.0
2022-01-07 0.2.1
2021-12-19 0.2.0
2021-11-25 0.1.3
2021-11-11 0.1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-11-10 2.0.3
2023-07-06 2.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-03-30 2.0.11
2023-11-21 2.0.10
2023-11-09 2.0.9
2023-08-23 2.0.8
2023-08-07 2.0.7
2023-07-03 2.0.5
2023-05-31 2.0.4
2023-05-07 2.0.2
2022-12-22 1.2.16
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-11-26 0.0.4
2023-10-27 0.0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-11-10 2.0.5
2023-09-01 2.0.4
2023-05-23 2.0.0
2023-01-05 1.0.1
Title: Interactive Exploratory Data Analysis Tool
Description: Simplify your R data analysis and data visualization workflow by turning your data frame into an interactive 'Tableau'-like interface, leveraging the 'graphic-walker' JavaScript library and the 'htmlwidgets' package.
Author: Yue Yu [aut, cre] ,
Kanaries Data Inc. [cph, fnd]
Maintainer: Yue Yu <yue.yu@connect.ust.hk>
Diff between GWalkR versions 0.1.3 dated 2023-10-03 and 0.1.4 dated 2024-04-12
DESCRIPTION | 6 MD5 | 6 README.md | 36 - inst/htmlwidgets/lib/gwalkr/gwalkr-app.iife.js | 794 +++++++++---------------- 4 files changed, 328 insertions(+), 514 deletions(-)
Title: Urban Water and Sanitation Survey Dataset
Description: Urban water and sanitation survey dataset collected by Water and
Sanitation for the Urban Poor (WSUP) with technical support from
Valid International. These citywide surveys have been collecting data
allowing water and sanitation service levels across the entire city to be
characterised, while also allowing more detailed data to be collected in
areas of the city of particular interest. These surveys are intended to
generate useful information for others working in the water and sanitation
sector. Current release version includes datasets collected from a survey
conducted in Dhaka, Bangladesh in March 2017. This survey in Dhaka is one of
a series of surveys to be conducted by WSUP in various
cities in which they operate including Accra, Ghana; Nakuru, Kenya;
Antananarivo, Madagascar; Maputo, Mozambique; and, Lusaka, Zambia. This
package will be updated once the surveys in other cities are completed and
datasets have been made available.
Author: Ernest Guevarra [aut, cre],
Valid International [cph],
Water and Sanitation for the Urban Poor [cph]
Maintainer: Ernest Guevarra <ernestgmd@gmail.com>
Diff between washdata versions 0.1.3 dated 2020-09-29 and 0.1.4 dated 2024-04-12
washdata-0.1.3/washdata/inst/_pkgdown.yml |only washdata-0.1.3/washdata/inst/createHexSticker.R |only washdata-0.1.3/washdata/inst/figures |only washdata-0.1.3/washdata/man/figures/wash_pos.png |only washdata-0.1.3/washdata/man/figures/washdata.png |only washdata-0.1.4/washdata/DESCRIPTION | 11 washdata-0.1.4/washdata/MD5 | 25 washdata-0.1.4/washdata/NEWS.md | 3 washdata-0.1.4/washdata/README.md | 110 ++- washdata-0.1.4/washdata/build/vignette.rds |binary washdata-0.1.4/washdata/inst/CITATION |only washdata-0.1.4/washdata/inst/WORDLIST | 49 - washdata-0.1.4/washdata/inst/doc/washdata.Rmd | 30 washdata-0.1.4/washdata/inst/doc/washdata.html | 719 +++++++++++++++++++---- washdata-0.1.4/washdata/man/figures/logo.png |only washdata-0.1.4/washdata/man/washdata.Rd | 2 washdata-0.1.4/washdata/vignettes/washdata.Rmd | 30 17 files changed, 765 insertions(+), 214 deletions(-)
Title: Cluster Gauss-Newton Method
Description: Find multiple solutions of a nonlinear least squares problem. Cluster Gauss-Newton method does not assume uniqueness of the solution of the nonlinear least squares problem and compute multiple minimizers. Please cite the following paper when this software is used in your research: Aoki et al. (2020) <doi:10.1007/s11081-020-09571-2>. Cluster Gauss–Newton method. Optimization and Engineering, 1-31. Please cite the following paper when profile likelihood plot is drawn with this software and used in your research: Aoki and Sugiyama (2024) <doi:10.1002/psp4.13055>. Cluster Gauss-Newton method for a quick approximation of profile likelihood: With application to physiologically-based pharmacokinetic models. CPT Pharmacometrics Syst Pharmacol.13(1):54-67.
Author: Yasunori Aoki
Maintainer: Yasunori Aoki <yaoki@uwaterloo.ca>
Diff between CGNM versions 0.6.7 dated 2024-01-18 and 0.8.0 dated 2024-04-12
DESCRIPTION | 11 LICENSE | 4 MD5 | 66 NAMESPACE | 59 R/Cluster_Gauss_Newton_method.R | 3570 +++++++------- R/PostProcess.R | 5661 +++++++++++------------ build/vignette.rds |binary inst/doc/CGNM-vignette.R | 319 - inst/doc/CGNM-vignette.Rmd | 491 - inst/doc/CGNM-vignette.html | 1885 +++---- inst/shinyCGNM |only inst/shinyCGNM.R |only man/Cluster_Gauss_Newton_Bootstrap_method.Rd | 139 man/Cluster_Gauss_Newton_method.Rd | 299 - man/acceptedApproximateMinimizers.Rd | 130 man/acceptedIndices.Rd | 118 man/acceptedIndices_binary.Rd | 118 man/acceptedMaxSSR.Rd | 118 man/bestApproximateMinimizers.Rd | 112 man/col_quantile.Rd |only man/plot_2DprofileLikelihood.Rd | 171 man/plot_Rank_SSR.Rd | 94 man/plot_SSR_parameterValue.Rd | 118 man/plot_SSRsurface.Rd | 141 man/plot_goodnessOfFit.Rd | 140 man/plot_paraDistribution_byHistogram.Rd | 132 man/plot_paraDistribution_byViolinPlots.Rd | 126 man/plot_parameterValue_scatterPlots.Rd | 94 man/plot_profileLikelihood.Rd | 129 man/plot_simulationWithCI.Rd | 146 man/shinyCGNM.Rd |only man/table_parameterSummary.Rd | 124 man/table_profileLikelihoodConfidenceInterval.Rd | 129 man/topIndices.Rd | 100 vignettes/CGNM-vignette.Rmd | 491 - 35 files changed, 7669 insertions(+), 7566 deletions(-)
Title: Multiple Empirical Likelihood Tests
Description: Performs multiple empirical likelihood tests. It offers an
easy-to-use interface and flexibility in specifying hypotheses and
calibration methods, extending the framework to simultaneous
inferences. The core computational routines are implemented using the
'Eigen' 'C++' library and 'RcppEigen' interface, with 'OpenMP' for
parallel computation. Details of the testing procedures are provided
in Kim, MacEachern, and Peruggia (2023)
<doi:10.1080/10485252.2023.2206919>. A companion paper by Kim,
MacEachern, and Peruggia (2024) <doi:10.18637/jss.v108.i05> is
available for further information. This work was supported by the U.S.
National Science Foundation under Grants No. SES-1921523 and
DMS-2015552.
Author: Eunseop Kim [aut, cph, cre],
Steven MacEachern [ctb, ths],
Mario Peruggia [ctb, ths],
Pierre Chausse [rev],
Alex Stringer [rev]
Maintainer: Eunseop Kim <markean@pm.me>
Diff between melt versions 1.11.2 dated 2024-03-20 and 1.11.3 dated 2024-04-12
DESCRIPTION | 6 +-- MD5 | 52 +++++++++++++++--------------- NAMESPACE | 1 NEWS.md | 8 ++++ R/AllClasses.R | 4 +- R/AllGenerics.R | 34 +++++++++++++------- R/calibrate.R | 8 ++++ R/el_control.R | 9 ++++- R/elt-methods.R | 66 +++++++++++++++++++++++++++++++-------- R/melt-package.R | 1 R/print-methods.R | 10 +++-- R/validate.R | 20 ----------- README.md | 59 ++++++++++++++++++++++++++++++---- inst/WORDLIST | 28 ---------------- inst/doc/article.Rnw | 18 +++++----- inst/doc/article.pdf |binary inst/doc/performance.html | 34 ++++++++++---------- man/ControlEL-class.Rd | 3 + man/el_control.Rd | 5 ++ man/elt.Rd | 34 +++++++++++++------- src/EL.cpp | 28 ++++++++-------- src/EL.h | 25 ++++++++------ src/compute_EL.cpp | 1 tests/testthat/test-el_control.R | 1 tests/testthat/test-elt.R | 14 ++++++-- vignettes/article.Rnw | 18 +++++----- vignettes/references.bib | 13 +++++++ 27 files changed, 313 insertions(+), 187 deletions(-)
Title: Biodiversity Data from the GBIF Node Network
Description: The Global Biodiversity Information Facility
('GBIF', <https://www.gbif.org>) sources data from an international network
of data providers, known as 'nodes'. Several of these nodes - the "living
atlases" (<https://living-atlases.gbif.org>) - maintain their own web
services using software originally developed by the Atlas of Living
Australia ('ALA', <https://www.ala.org.au>). 'galah' enables the R community
to directly access data and resources hosted by 'GBIF' and its partner nodes.
Author: Martin Westgate [aut, cre],
Matilda Stevenson [aut],
Dax Kellie [aut],
Peggy Newman [aut]
Maintainer: Martin Westgate <martin.westgate@csiro.au>
Diff between galah versions 2.0.1 dated 2024-02-05 and 2.0.2 dated 2024-04-12
galah-2.0.1/galah/inst/doc/piping.Rmd |only galah-2.0.1/galah/inst/doc/piping.html |only galah-2.0.1/galah/vignettes/piping.Rmd |only galah-2.0.2/galah/DESCRIPTION | 10 galah-2.0.2/galah/MD5 | 201 galah-2.0.2/galah/NAMESPACE | 8 galah-2.0.2/galah/NEWS.md | 22 galah-2.0.2/galah/R/atlas_distributions.R |only galah-2.0.2/galah/R/build.R | 50 galah-2.0.2/galah/R/build_checks.R | 4 galah-2.0.2/galah/R/build_predicates.R | 55 galah-2.0.2/galah/R/build_query_set.R | 61 galah-2.0.2/galah/R/check.R | 75 galah-2.0.2/galah/R/collapse.R | 14 galah-2.0.2/galah/R/collapse_distributions.R |only galah-2.0.2/galah/R/collapse_media.R | 7 galah-2.0.2/galah/R/collapse_metadata.R | 12 galah-2.0.2/galah/R/collapse_occurrences.R | 18 galah-2.0.2/galah/R/collapse_occurrences_count.R | 24 galah-2.0.2/galah/R/collapse_species.R | 50 galah-2.0.2/galah/R/collapse_species_count.R | 2 galah-2.0.2/galah/R/collapse_unnest.R | 13 galah-2.0.2/galah/R/collect.R | 4 galah-2.0.2/galah/R/collect_distributions.R |only galah-2.0.2/galah/R/collect_media.R | 12 galah-2.0.2/galah/R/collect_metadata.R | 56 galah-2.0.2/galah/R/collect_occurrences.R | 35 galah-2.0.2/galah/R/collect_occurrences_count.R | 42 galah-2.0.2/galah/R/collect_species.R | 8 galah-2.0.2/galah/R/collect_taxa.R | 55 galah-2.0.2/galah/R/collect_unnest.R | 13 galah-2.0.2/galah/R/galah_apply_profile.R | 13 galah-2.0.2/galah/R/galah_bbox.R | 1 galah-2.0.2/galah/R/galah_call.R | 7 galah-2.0.2/galah/R/galah_config.R | 4 galah-2.0.2/galah/R/galah_filter.R | 5 galah-2.0.2/galah/R/galah_geolocate.R | 61 galah-2.0.2/galah/R/galah_polygon.R | 2 galah-2.0.2/galah/R/galah_radius.R |only galah-2.0.2/galah/R/galah_select.R | 28 galah-2.0.2/galah/R/onload.R | 18 galah-2.0.2/galah/R/parse_checks.R | 8 galah-2.0.2/galah/R/quosure_handling.R | 250 - galah-2.0.2/galah/R/show_all.R | 32 galah-2.0.2/galah/R/sysdata.rda |binary galah-2.0.2/galah/R/utilities_internal.R | 93 galah-2.0.2/galah/build/vignette.rds |binary galah-2.0.2/galah/inst/doc/choosing_an_atlas.R |only galah-2.0.2/galah/inst/doc/choosing_an_atlas.Rmd | 708 -- galah-2.0.2/galah/inst/doc/choosing_an_atlas.html | 2488 +++++++--- galah-2.0.2/galah/inst/doc/download_data.Rmd | 215 galah-2.0.2/galah/inst/doc/download_data.html | 251 - galah-2.0.2/galah/inst/doc/look_up_information.Rmd | 196 galah-2.0.2/galah/inst/doc/look_up_information.html | 215 galah-2.0.2/galah/inst/doc/narrow_your_results.Rmd | 217 galah-2.0.2/galah/inst/doc/narrow_your_results.html | 241 galah-2.0.2/galah/inst/doc/object_oriented_programming.Rmd | 59 galah-2.0.2/galah/inst/doc/object_oriented_programming.html | 88 galah-2.0.2/galah/inst/doc/quick_start_guide.Rmd | 177 galah-2.0.2/galah/inst/doc/quick_start_guide.html | 200 galah-2.0.2/galah/inst/doc/spatial_filtering.Rmd | 703 +- galah-2.0.2/galah/inst/doc/spatial_filtering.html | 684 +- galah-2.0.2/galah/inst/doc/taxonomic_filtering.Rmd | 1475 +++-- galah-2.0.2/galah/inst/doc/taxonomic_filtering.html | 1501 +++--- galah-2.0.2/galah/inst/doc/temporal_filtering.Rmd | 181 galah-2.0.2/galah/inst/doc/temporal_filtering.html | 152 galah-2.0.2/galah/man/collect_galah.Rd | 2 galah-2.0.2/galah/man/galah_call.Rd | 2 galah-2.0.2/galah/man/galah_filter.Rd | 5 galah-2.0.2/galah/man/galah_geolocate.Rd | 61 galah-2.0.2/galah/man/galah_select.Rd | 19 galah-2.0.2/galah/man/show_all.Rd | 16 galah-2.0.2/galah/tests/testthat/test-atlas_counts.R | 12 galah-2.0.2/galah/tests/testthat/test-atlas_distributions.R |only galah-2.0.2/galah/tests/testthat/test-atlas_occurrences.R | 42 galah-2.0.2/galah/tests/testthat/test-atlas_species.R | 18 galah-2.0.2/galah/tests/testthat/test-galah_apply_profile.R | 38 galah-2.0.2/galah/tests/testthat/test-galah_filter.R | 133 galah-2.0.2/galah/tests/testthat/test-galah_geolocate.R | 16 galah-2.0.2/galah/tests/testthat/test-galah_group_by.R | 23 galah-2.0.2/galah/tests/testthat/test-galah_radius.R |only galah-2.0.2/galah/tests/testthat/test-galah_select.R | 73 galah-2.0.2/galah/tests/testthat/test-international-Austria.R | 80 galah-2.0.2/galah/tests/testthat/test-international-Brazil.R | 17 galah-2.0.2/galah/tests/testthat/test-international-Estonia.R | 7 galah-2.0.2/galah/tests/testthat/test-international-France.R | 3 galah-2.0.2/galah/tests/testthat/test-international-GBIF.R | 93 galah-2.0.2/galah/tests/testthat/test-international-Guatemala.R | 11 galah-2.0.2/galah/tests/testthat/test-international-Portugal.R | 9 galah-2.0.2/galah/tests/testthat/test-international-Spain.R | 16 galah-2.0.2/galah/tests/testthat/test-international-Sweden.R | 87 galah-2.0.2/galah/tests/testthat/test-international-UK.R | 16 galah-2.0.2/galah/tests/testthat/test-request_metadata_unnest.R | 2 galah-2.0.2/galah/tests/testthat/test-search_all.R | 32 galah-2.0.2/galah/tests/testthat/test-show_values.R | 11 galah-2.0.2/galah/tests/testthat/testdata/SECRETS.txt |only galah-2.0.2/galah/vignettes/atlas_stats.csv |only galah-2.0.2/galah/vignettes/atlases_plot.R | 6 galah-2.0.2/galah/vignettes/atlases_plot.png |only galah-2.0.2/galah/vignettes/choosing_an_atlas.Rmd | 708 -- galah-2.0.2/galah/vignettes/download_data.Rmd | 215 galah-2.0.2/galah/vignettes/look_up_information.Rmd | 196 galah-2.0.2/galah/vignettes/narrow_your_results.Rmd | 217 galah-2.0.2/galah/vignettes/object_oriented_programming.Rmd | 59 galah-2.0.2/galah/vignettes/quick_start_guide.Rmd | 177 galah-2.0.2/galah/vignettes/spatial_filtering.Rmd | 703 +- galah-2.0.2/galah/vignettes/taxonomic_filtering.Rmd | 1475 +++-- galah-2.0.2/galah/vignettes/temporal_filtering.Rmd | 181 108 files changed, 8594 insertions(+), 7311 deletions(-)