Title: Functions to Analyze Single System Data
Description: Functions to visually and statistically analyze single system data.
Author: Charles Auerbach [aut, cre],
Wendy Zeitlin [aut]
Maintainer: Charles Auerbach <auerbach@yu.edu>
Diff between SSDforR versions 1.5.25 dated 2022-08-06 and 1.5.26 dated 2022-09-16
DESCRIPTION | 11 ++++++----- MD5 | 8 ++++---- NAMESPACE | 3 ++- R/TauUabove.R | 10 +++++++--- R/TauUbelow.R | 10 +++++++++- 5 files changed, 28 insertions(+), 14 deletions(-)
Title: Rational Approximations of Fractional Stochastic Partial
Differential Equations
Description: Functions that compute rational approximations of fractional elliptic stochastic partial differential equations. The package also contains functions for common statistical usage of these approximations. The main reference for the methods is Bolin and Kirchner (2020) <doi:10.1080/10618600.2019.1665537>, which can be generated by the citation function in R.
Author: David Bolin [cre, aut],
Alexandre Simas [aut],
Finn Lindgren [ctb]
Maintainer: David Bolin <davidbolin@gmail.com>
Diff between rSPDE versions 1.1.1 dated 2022-01-14 and 1.2.0 dated 2022-09-16
rSPDE-1.1.1/rSPDE/man/folded.matern.covariance.Rd |only rSPDE-1.2.0/rSPDE/DESCRIPTION | 18 rSPDE-1.2.0/rSPDE/MD5 | 140 rSPDE-1.2.0/rSPDE/NAMESPACE | 20 rSPDE-1.2.0/rSPDE/NEWS.md | 10 rSPDE-1.2.0/rSPDE/R/fractional.computations.R | 2375 ++++---- rSPDE-1.2.0/rSPDE/R/fractional.operators.R | 887 ++- rSPDE-1.2.0/rSPDE/R/inla_rspde.R | 3041 ++++++----- rSPDE-1.2.0/rSPDE/R/inlabru_rspde.R |only rSPDE-1.2.0/rSPDE/R/operator.operations.R | 109 rSPDE-1.2.0/rSPDE/R/rSPDE.R | 34 rSPDE-1.2.0/rSPDE/R/sysdata.rda |binary rSPDE-1.2.0/rSPDE/R/util.R | 1488 +++-- rSPDE-1.2.0/rSPDE/R/zzz.R |only rSPDE-1.2.0/rSPDE/build/vignette.rds |binary rSPDE-1.2.0/rSPDE/inst/CITATION | 33 rSPDE-1.2.0/rSPDE/inst/doc/rSPDE.html | 871 +-- rSPDE-1.2.0/rSPDE/inst/doc/rSPDE.html.asis | 21 rSPDE-1.2.0/rSPDE/inst/doc/rspde_base.html | 683 +- rSPDE-1.2.0/rSPDE/inst/doc/rspde_base.html.asis | 21 rSPDE-1.2.0/rSPDE/inst/doc/rspde_cov.html | 935 +-- rSPDE-1.2.0/rSPDE/inst/doc/rspde_cov.html.asis | 21 rSPDE-1.2.0/rSPDE/inst/doc/rspde_inla.html | 1775 +++--- rSPDE-1.2.0/rSPDE/inst/doc/rspde_inla.html.asis | 21 rSPDE-1.2.0/rSPDE/inst/doc/rspde_inlabru.html |only rSPDE-1.2.0/rSPDE/inst/doc/rspde_inlabru.html.asis |only rSPDE-1.2.0/rSPDE/man/bru_mapper.inla_rspde.Rd |only rSPDE-1.2.0/rSPDE/man/folded.matern.covariance.1d.Rd |only rSPDE-1.2.0/rSPDE/man/folded.matern.covariance.2d.Rd |only rSPDE-1.2.0/rSPDE/man/fractional.operators.Rd | 86 rSPDE-1.2.0/rSPDE/man/get.sparsity.graph.rspde.Rd | 10 rSPDE-1.2.0/rSPDE/man/matern.covariance.Rd | 11 rSPDE-1.2.0/rSPDE/man/matern.loglike.Rd | 199 rSPDE-1.2.0/rSPDE/man/matern.operators.Rd | 192 rSPDE-1.2.0/rSPDE/man/operator.operations.Rd | 22 rSPDE-1.2.0/rSPDE/man/plot.rspde.result.Rd | 76 rSPDE-1.2.0/rSPDE/man/precision.CBrSPDEobj.Rd | 40 rSPDE-1.2.0/rSPDE/man/predict.CBrSPDEobj.Rd | 73 rSPDE-1.2.0/rSPDE/man/predict.rSPDEobj.Rd | 68 rSPDE-1.2.0/rSPDE/man/rSPDE.A1d.Rd | 14 rSPDE-1.2.0/rSPDE/man/rSPDE.Rd | 28 rSPDE-1.2.0/rSPDE/man/rSPDE.construct.matern.loglike.Rd |only rSPDE-1.2.0/rSPDE/man/rSPDE.fem1d.Rd | 12 rSPDE-1.2.0/rSPDE/man/rSPDE.loglike.Rd | 62 rSPDE-1.2.0/rSPDE/man/rSPDE.matern.loglike.Rd | 129 rSPDE-1.2.0/rSPDE/man/rational.order-set.Rd |only rSPDE-1.2.0/rSPDE/man/rational.order.Rd |only rSPDE-1.2.0/rSPDE/man/rational.type-set.Rd |only rSPDE-1.2.0/rSPDE/man/rational.type.Rd |only rSPDE-1.2.0/rSPDE/man/require.nowarnings.Rd | 6 rSPDE-1.2.0/rSPDE/man/rspde.make.A.Rd | 28 rSPDE-1.2.0/rSPDE/man/rspde.make.index.Rd | 66 rSPDE-1.2.0/rSPDE/man/rspde.matern.Rd | 181 rSPDE-1.2.0/rSPDE/man/rspde.matern.precision.Rd | 67 rSPDE-1.2.0/rSPDE/man/rspde.matern.precision.integer.Rd | 51 rSPDE-1.2.0/rSPDE/man/rspde.matern.precision.integer.opt.Rd | 20 rSPDE-1.2.0/rSPDE/man/rspde.matern.precision.opt.Rd | 22 rSPDE-1.2.0/rSPDE/man/rspde.mesh.project.Rd | 30 rSPDE-1.2.0/rSPDE/man/rspde.precision.Rd | 25 rSPDE-1.2.0/rSPDE/man/rspde.result.Rd | 81 rSPDE-1.2.0/rSPDE/man/simulate.CBrSPDEobj.Rd | 45 rSPDE-1.2.0/rSPDE/man/simulate.rSPDEobj.Rd | 34 rSPDE-1.2.0/rSPDE/man/spde.matern.loglike.Rd | 110 rSPDE-1.2.0/rSPDE/man/spde.matern.operators.Rd | 82 rSPDE-1.2.0/rSPDE/man/summary.CBrSPDEobj.Rd | 21 rSPDE-1.2.0/rSPDE/man/summary.rSPDEobj.Rd | 6 rSPDE-1.2.0/rSPDE/man/summary.rspde.result.Rd | 66 rSPDE-1.2.0/rSPDE/man/update.CBrSPDEobj.Rd | 53 rSPDE-1.2.0/rSPDE/man/update.rSPDEobj.Rd | 39 rSPDE-1.2.0/rSPDE/tests/testthat/test.CBrSPDE.R | 143 rSPDE-1.2.0/rSPDE/tests/testthat/test.fractional.operators.R | 193 rSPDE-1.2.0/rSPDE/tests/testthat/test.inla_rspde.R | 226 rSPDE-1.2.0/rSPDE/tests/testthat/test.operator.operations.R | 78 rSPDE-1.2.0/rSPDE/vignettes/rSPDE.html.asis | 21 rSPDE-1.2.0/rSPDE/vignettes/rspde_base.html.asis | 21 rSPDE-1.2.0/rSPDE/vignettes/rspde_cov.html.asis | 21 rSPDE-1.2.0/rSPDE/vignettes/rspde_inla.html.asis | 21 rSPDE-1.2.0/rSPDE/vignettes/rspde_inlabru.html.asis |only 78 files changed, 8968 insertions(+), 6314 deletions(-)
Title: Inhomogeneous Self-Exciting Process
Description: Simulate an inhomogeneous self-exciting process (IHSEP), or Hawkes process, with a given (possibly time-varying) baseline intensity and an excitation function. Calculate the likelihood of an IHSEP with given baseline intensity and excitation functions for an (increasing) sequence of event times. Calculate the point process residuals (integral transforms of the original event times). Calculate the mean intensity process.
Author: Feng Chen <feng.chen@unsw.edu.au>
Maintainer: Feng Chen <feng.chen@unsw.edu.au>
Diff between IHSEP versions 0.3 dated 2022-05-01 and 0.3.1 dated 2022-09-16
DESCRIPTION | 11 ++++++----- MD5 | 12 ++++++------ R/mint.R | 4 ++-- data/asep.rda |binary inst/CITATION | 4 ++-- man/h.fn.Rd | 14 ++++++++------ man/h.fn.exp.Rd | 14 ++++++++------ 7 files changed, 32 insertions(+), 27 deletions(-)
Title: Calibrating Parameters for the Samejima's Continuous IRT Model
Description: Estimates item and person parameters for the Continuous Response Model (CRM; Samejima, 1973, <doi:10.1007/BF02291114>), computes item fit residual statistics, draws empirical 3D item category response curves, draws theoretical 3D item category response curves, and generates data under the CRM for simulation studies.
Author: Cengiz Zopluoglu
Maintainer: Cengiz Zopluoglu <cen.zop@gmail.com>
Diff between EstCRM versions 1.5 dated 2022-06-13 and 1.6 dated 2022-09-16
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NEWS | 4 ++++ R/print.CRM.R | 6 +++--- man/EstCRMitem.Rd | 2 +- 5 files changed, 17 insertions(+), 13 deletions(-)
Title: Raster Time Series Analysis
Description: This framework aims to provide classes and methods for manipulating and processing of raster time series data (e.g. a time series of satellite images).
Author: Babak Naimi
Maintainer: Babak Naimi <naimi.b@gmail.com>
Diff between rts versions 1.1-7 dated 2022-07-08 and 1.1-8 dated 2022-09-16
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/show.R | 10 +++++----- 3 files changed, 11 insertions(+), 11 deletions(-)
Title: A Nested Menu Widget for 'Shiny' Applications
Description: Provides a nested menu widget for usage in 'Shiny'
applications. This is useful for hierarchical choices (e.g. continent,
country, city).
Author: Stephane Laurent [aut, cre],
Bjoern Brala [cph]
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Diff between NestedMenu versions 0.1.0 dated 2022-08-14 and 0.2.0 dated 2022-09-16
DESCRIPTION | 14 - MD5 | 18 - NAMESPACE | 28 +- NEWS.md | 11 - R/NestedMenu.R | 424 +++++++++++++++++++-------------------- README.md | 14 - inst/htmlwidgets/NestedMenu.js | 71 +++--- inst/htmlwidgets/NestedMenu.yaml | 22 +- man/NestedMenu-shiny.Rd | 284 +++++++++++++------------- man/NestedMenu.Rd | 78 +++---- 10 files changed, 487 insertions(+), 477 deletions(-)
Title: Bayesian Variable Selection for SNP Data using Normal-Gamma
Description: Posterior distribution of case-control fine-mapping. Specifically, Bayesian variable selection for single-nucleotide polymorphism (SNP) data using the normal-gamma prior. Alenazi A.A., Cox A., Juarez M,. Lin W-Y. and Walters, K. (2019) Bayesian variable selection using partially observed categorical prior information in fine-mapping association studies, Genetic Epidemiology. <doi:10.1002/gepi.22213>.
Author: Abdulaziz Alenazi [aut, cre]
Maintainer: Abdulaziz Alenazi <a.alenazi@nbu.edu.sa>
Diff between NGBVS versions 0.2.0 dated 2020-01-16 and 0.3.0 dated 2022-09-16
DESCRIPTION | 8 +- MD5 | 14 ++-- man/NG-package.Rd | 4 - man/asym_m_ng.Rd | 149 +++++++++++++++++++++++++-------------------------- man/asym_s_ng.Rd | 132 ++++++++++++++++++++++----------------------- man/m_ng.Rd | 155 +++++++++++++++++++++++++++--------------------------- man/rgig.Rd | 99 ++++++++++++++++++---------------- man/s_ng.Rd | 138 ++++++++++++++++++++++++------------------------ 8 files changed, 352 insertions(+), 347 deletions(-)
Title: Comprehensive Science Mapping Analysis
Description: Tool for quantitative research in scientometrics and bibliometrics.
It provides various routines for importing bibliographic data from 'SCOPUS',
'Clarivate Analytics Web of Science' (<https://www.webofknowledge.com/>), 'Digital Science Dimensions'
(<https://www.dimensions.ai/>), 'Cochrane Library' (<https://www.cochranelibrary.com/>), 'Lens' (<https://lens.org>),
and 'PubMed' (<https://pubmed.ncbi.nlm.nih.gov/>) databases, performing bibliometric analysis
and building networks for co-citation, coupling, scientific collaboration and co-word analysis.
Author: Massimo Aria [cre, aut, cph] ,
Corrado Cuccurullo [aut]
Maintainer: Massimo Aria <aria@unina.it>
Diff between bibliometrix versions 4.0.0 dated 2022-06-15 and 4.0.1 dated 2022-09-16
DESCRIPTION | 30 ++- MD5 | 56 +++---- NEWS | 9 + R/Hindex.R | 2 R/biblioAnalysis.R | 4 R/cocMatrix.R | 248 +++++++++++++++----------------- R/couplingMap.R | 12 + R/dimensions2df.R | 11 + R/histNetwork.R | 8 - R/histPlot.R | 74 ++++++++- R/metaTagExtraction.R | 18 +- R/plotThematicEvolution.R | 4 R/thematicEvolution.R | 2 R/thematicMap.R | 49 +++++- R/zzz.R | 76 +++++----- build/partial.rdb |binary data/bibtag.rda |binary data/countries.rda |binary data/logo.rda |binary data/stopwords.rda |binary inst/biblioshiny/server.R | 326 +++++++++++++++++++++++++++++-------------- inst/biblioshiny/ui.R | 9 - inst/biblioshiny/utils.R | 158 ++++++++++++++++++-- man/couplingMap.Rd | 8 - man/histNetwork.Rd | 4 man/histPlot.Rd | 9 - man/plotThematicEvolution.Rd | 4 man/thematicEvolution.Rd | 2 man/thematicMap.Rd | 7 29 files changed, 762 insertions(+), 368 deletions(-)
Title: Applied Statistical Hypothesis Tests
Description: Gives some hypothesis test functions (sign test, median and other quantile tests, Wilcoxon signed rank test, coefficient of variation test, test of normal variance, test on weighted sums of Poisson [see Fay and Kim <doi:10.1002/bimj.201600111>], sample size for t-tests with different variances and non-equal n per arm, Behrens-Fisher test, nonparametric ABC intervals, Wilcoxon-Mann-Whitney test [with effect estimates and confidence intervals, see Fay and Malinovsky <doi:10.1002/sim.7890>], two-sample melding tests [see Fay, Proschan, and Brittain <doi:10.1111/biom.12231>], one-way ANOVA allowing var.equal=FALSE [see Brown and Forsythe, 1974, Biometrics]), prevalence confidence intervals that adjust for sensitivity and specificity [see Lang and Reiczigel, 2014 <doi:10.1016/j.prevetmed.2013.09.015>]). The focus is on hypothesis tests that have compatible confidence intervals, but some functions only have confidence intervals (e.g., prevSeSp).
Author: Michael P. Fay
Maintainer: Michael P. Fay <mfay@niaid.nih.gov>
Diff between asht versions 0.9.7 dated 2022-01-25 and 0.9.8 dated 2022-09-16
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/simulateSS.R | 8 +++++++- R/tukeyWelsch.R | 5 ++++- R/wmwTest.R | 9 ++++++--- inst/NEWS.Rd | 19 +++++++++++++++++++ man/asht-package.Rd | 4 ++-- 7 files changed, 48 insertions(+), 17 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 1.2.2 dated 2022-06-03 and 1.2.3 dated 2022-09-16
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS.md | 4 ++++ R/census.R | 43 +++++++++++++++++++++++++++++++++---------- R/estimates.R | 16 +++++++++++++--- R/helpers.R | 9 ++++++++- R/utils.R | 17 +++++++++++++++-- man/get_decennial.Rd | 6 +++--- man/get_estimates.Rd | 13 ++++++++++--- 9 files changed, 98 insertions(+), 34 deletions(-)
Title: Methods for Missing Data
Description: Supply functions for the creation and handling of missing
data as well as tools to evaluate missing data methods. Nearly all
possibilities of generating missing data discussed by Santos et al.
(2019) <doi:10.1109/ACCESS.2019.2891360> and some additional are
implemented. Functions are supplied to compare parameter estimates
and imputed values to true values to evaluate missing data methods.
Evaluations of these types are done, for example, by Cetin-Berber et
al. (2019) <doi:10.1177/0013164418805532> and Kim et al. (2005)
<doi:10.1093/bioinformatics/bth499>.
Author: Tobias Rockel [aut, cre]
Maintainer: Tobias Rockel <Rockel.To@gmail.com>
Diff between missMethods versions 0.3.0 dated 2022-02-10 and 0.4.0 dated 2022-09-16
DESCRIPTION | 14 - MD5 | 59 +++--- NAMESPACE | 1 NEWS.md | 245 +++++++++++++++------------ R/apply_imputation.R | 33 +-- R/count_NA.R |only R/delete_1_to_x.R | 28 +-- R/delete_MCAR.R | 2 R/delete_censoring.R | 4 R/delete_one_group.R | 4 R/delete_rank.R | 4 R/delete_values.R | 24 +- R/impute_expected_values.R | 3 R/impute_location_parameter.R | 18 +- R/impute_sRHD.R | 2 R/simulate_data.R |only R/utils-delete.R | 6 R/utils.R | 9 + build/vignette.rds |binary inst/doc/Generating-missing-values.html | 285 ++++++++++++++++++++++++++++++-- man/apply_imputation.Rd | 28 ++- man/count_NA.Rd |only man/impute_mean.Rd | 21 +- man/impute_median.Rd | 26 +- man/impute_mode.Rd | 9 - man/impute_sRHD.Rd | 2 tests/testthat/helper-datasets.R | 18 +- tests/testthat/test-apply_imputation.R | 85 ++++++--- tests/testthat/test-count_NA.R |only tests/testthat/test-delete_1_to_x.R | 37 ++-- tests/testthat/test-delete_values.R | 16 + tests/testthat/test-simulate_data.R |only tests/testthat/test-utils-delete.R | 11 + 33 files changed, 690 insertions(+), 304 deletions(-)
Title: Simulating Differential Equations with Data
Description: Designed to support the visualization, numerical computation,
qualitative analysis, model-data fusion, and stochastic simulation for
autonomous systems of differential equations. Euler and Runge-Kutta methods
are implemented, along with tools to visualize the two-dimensional
phaseplane. Likelihood surfaces and a simple Markov Chain Monte Carlo
parameter estimator can be used for model-data fusion of differential
equations and empirical models. The Euler-Maruyama method is provided for
simulation of stochastic differential equations. The package was originally
written for internal use to support teaching by Zobitz, and refined to
support the text "Exploring modeling with data and differential equations
using R" by John Zobitz (2021) <https://jmzobitz.github.io/ModelingWithR/index.html>.
Author: John Zobitz [aut, cre]
Maintainer: John Zobitz <zobitz@augsburg.edu>
Diff between demodelr versions 1.0.0 dated 2022-06-23 and 1.0.1 dated 2022-09-16
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 3 +++ README.md | 9 ++++++++- data/global_temperature.rda |binary 5 files changed, 18 insertions(+), 8 deletions(-)
Title: Covariate Dependent Graph Estimation
Description: A covariate-dependent approach to Gaussian graphical modeling as described in Dasgupta et al. (2022). Employs a novel weighted pseudo-likelihood approach to model the conditional dependence structure of data as a continuous function of an extraneous covariate. The main function, covdepGE::covdepGE(), estimates a graphical representation of the conditional dependence structure via a block mean-field variational approximation, while several auxiliary functions (inclusionCurve(), matViz(), and plot.covdepGE()) are included for visualizing the resulting estimates.
Author: Jacob Helwig [cre, aut],
Sutanoy Dasgupta [aut],
Peng Zhao [aut],
Bani Mallick [aut],
Debdeep Pati [aut]
Maintainer: Jacob Helwig <jacob.a.helwig@tamu.edu>
Diff between covdepGE versions 1.0.0 dated 2022-08-24 and 1.0.1 dated 2022-09-16
DESCRIPTION | 8 - MD5 | 26 ++--- R/covdepGE_package.R | 29 ------ R/data.R | 6 + R/main.R | 192 +---------------------------------------- R/plots.R | 18 +++ README.md | 30 ++++-- man/covdepGE-package.Rd | 30 ------ man/covdepGE.Rd | 187 +-------------------------------------- man/generateData.Rd | 4 man/inclusionCurve.Rd | 4 man/matViz.Rd | 4 man/plot.covdepGE.Rd | 4 tests/testthat/test-covdepGE.R | 9 + 14 files changed, 91 insertions(+), 460 deletions(-)
Title: Shiny App. Idiograms with Marks and Karyotype Indices
Description: Plot idiograms of karyotypes, plasmids, circular chr. having a set of data.frames for chromosome data and optionally mark data. Two styles of chromosomes can be used: without or with visible chromatids. Supports micrometers, cM and Mb or any unit. Three styles of centromeres are available: triangle, rounded and inProtein; and six styles of marks are available: square (squareLeft), dots, cM (cMLeft), cenStyle, upArrow (downArrow), exProtein (inProtein); its legend (label) can be drawn inline or to the right of karyotypes. Idiograms can also be plotted in concentric circles. It is possible to calculate chromosome indices by Levan et al. (1964) <https:onlinelibrary.wiley.com/doi/abs/10.1111/j.1601-5223.1964.tb01953.x>, karyotype indices of Watanabe et al. (1999) <doi:10.1007/PL00013869> and Romero-Zarco (1986) <doi:10.2307/1221906> and classify chromosomes by morphology Guerra (1986) and Levan et al. (1964).
Author: Fernando Roa [aut, cre],
Mariana PC Telles [ctb]
Maintainer: Fernando Roa <froao@unal.edu.co>
Diff between idiogramFISH versions 2.0.8 dated 2022-01-10 and 2.0.9 dated 2022-09-16
DESCRIPTION | 12 MD5 | 89 NEWS.md | 6 R/addAttributesDfChrSize.R | 5 R/checkNameChrDfMarks.R | 2 R/fixChrNameDupDF.R | 2 R/namesToColumns.R | 2 R/newOrderColumn.R | 4 R/plotIdiograms.R | 22 R/runBoard.R | 41 README.md | 732 --- build/partial.rdb |only build/vignette.rds |binary inst/doc/AVignette.html | 18 inst/doc/index.R | 58 inst/doc/index.Rmd | 73 inst/doc/index.html | 1849 +++++++++- inst/shinyApps/iBoard/obser/obserNuccore.R | 139 inst/shinyApps/iBoard/output/outputNuccore.R | 4 inst/shinyApps/iBoard/ui.R | 9 inst/shinyApps/iBoard/www/DESCRIPTION | 9 inst/shinyApps/iBoard/www/man/figures/cranmanualbookdown.svg | 2 inst/shinyApps/iBoard/www/man/figures/cranversion.svg | 6 inst/shinyApps/iBoard/www/man/figures/develmanualvignette.svg | 2 inst/shinyApps/iBoard/www/man/figures/gitbadge.svg | 2 inst/shinyApps/iBoard/www/man/figures/pkgdownver.svg | 2 inst/shinyApps/iBoard/www/refs/multiple-bibliographies.lua | 26 inst/shinyApps/iBoard/www/refs/normal_noabs.bib | 4 inst/shinyApps/iBoard/www/refs/software.bib | 4 man/citrusSize.Rd | 128 man/figures/NEWS.svg | 2 man/figures/README-unnamed-chunk-17-1.png |binary man/figures/README-unnamed-chunk-18-1.png |binary man/figures/cranmanualbookdown.svg | 2 man/figures/cranversion.svg | 6 man/figures/develmanualvignette.svg | 2 man/figures/gitbadge.svg | 2 man/figures/manual.svg | 2 man/figures/pkgdownver.svg | 2 man/idiogramFISH-package.Rd | 4 man/namesToColumns.Rd | 21 man/plotIdiograms.Rd | 243 - vignettes/index.Rmd | 73 vignettes/refs/multiple-bibliographies.lua | 26 vignettes/refs/normal_noabs.bib | 4 vignettes/refs/software.bib | 4 46 files changed, 2216 insertions(+), 1429 deletions(-)
Title: Robust Change-Point Tests
Description: Provides robust methods to detect change-points in uni- or multivariate time series. They can cope with corrupted data and heavy tails. Focus is on the detection of abrupt changes in location, but changes scale or dependence structure can be detected as well. This package provides tests for change detection in uni- and multivariate time series based on Huberized versions of CUSUM tests proposed in Duerre and Fried (2019) <arXiv:1905.06201>, and tests for change detection in univariate time series based on 2-sample U-statistics or 2-sample U-quantiles as proposed by Dehling et al. (2015) <DOI:10.1007/978-1-4939-3076-0_12> and Dehling, Fried and Wendler (2020) <DOI:10.1093/biomet/asaa004>. Furthermore, the packages provides tests on changes in the scale or the correlation as proposed in Gerstenberger, Vogel and Wendler (2020) <DOI:10.1080/01621459.2019.1629938>, Dehling et al. (2017) <DOI:10.1017/S026646661600044X>, and Wied et al. (2014) <DOI:10.1016/j.c [...truncated...]
Author: Sheila Goerz [aut, cre],
Alexander Duerre [aut]
Maintainer: Sheila Goerz <sheila.goerz@tu-dortmund.de>
Diff between robcp versions 0.3.6 dated 2022-05-03 and 0.3.7 dated 2022-09-16
DESCRIPTION | 6 +-- MD5 | 64 ++++++++++++++++---------------- R/CUSUM.R | 7 ++- R/Hodges_Lehmann.R | 2 - R/bootstrap.R | 2 - R/cor_cusum.R | 13 +++--- R/cpStat-methods.R | 15 ++++++- R/huber_cusum.R | 9 ++-- R/lrv.R | 84 ++++++++++++++++++------------------------- R/pBessel.R | 1 R/psi.R | 14 ++++++- R/scale_cusum.R | 55 +++++++++++++++------------- R/wilcox_stat.R | 2 - R/wmw_test.R | 1 man/CUSUM.Rd | 2 - man/HodgesLehmann.Rd | 2 - man/cor_cusum.Rd | 5 +- man/cor_stat.Rd | 3 + man/lrv.Rd | 6 ++- man/plot.cpStat.Rd | 4 +- man/scale_cusum.Rd | 4 -- man/scale_stat.Rd | 4 -- man/wilcox_stat.Rd | 6 +-- src/CUSUM.c | 29 ++++++++++++++ src/RcppExports.cpp | 2 + src/lrv.c | 2 - src/psi.c | 8 ++-- src/wilcox.c | 3 + tests/testthat/test-Qalpha.R | 2 - tests/testthat/test-Wilcox.R | 2 - tests/testthat/test-cor.R | 4 +- tests/testthat/test-lrv.R | 51 +++++++++++++------------- tests/testthat/test-scale.R | 8 ++-- 33 files changed, 237 insertions(+), 185 deletions(-)
Title: Access Functions for ProPublica's APIs
Description: Provides wrapper functions to access the ProPublica's Congress and Campaign Finance APIs.
The Congress API provides near real-time access to legislative data from the House of
Representatives, the Senate and the Library of Congress.
The Campaign Finance API provides data from United States Federal Election Commission
filings and other sources. The API covers summary information for candidates and
committees, as well as certain types of itemized data.
For more information about these APIs go to: <https://www.propublica.org/datastore/apis>.
Author: Aleksander Dietrichson [aut, cre],
Joselina Davit [aut]
Maintainer: Aleksander Dietrichson <dietrichson@gmail.com>
Diff between ProPublicaR versions 1.1.1 dated 2020-04-16 and 1.1.2 dated 2022-09-16
DESCRIPTION | 8 MD5 | 394 +++++----- NEWS.md | 7 R/a_get_new_members.R | 2 R/bills_legislation_by_keyword.R | 7 R/compare_two_member_bill_sponsorships.R | 2 R/compare_two_member_vote_positions.R | 2 R/get_a_bill.R | 2 R/get_amendments_bill.R | 2 R/get_bills_cosponsored_member.R | 2 R/get_candidate.R | 5 R/get_candidate_by_name.R | 2 R/get_candidates_in_race.R | 2 R/get_committee.R | 2 R/get_committee_by_name.R | 2 R/get_committee_electioneering_communications.R | 2 R/get_committee_filings.R | 2 R/get_committee_leadership.R | 2 R/get_congress_member.R | 2 R/get_congressional_statement_by_bill.R | 4 R/get_congressional_statement_by_member.R | 4 R/get_congressional_statement_by_subjects.R | 4 R/get_cosponsors_specific_bill.R | 2 R/get_current_members_by_statedistrict.R | 2 R/get_electioneering_communications_by_date.R | 2 R/get_electioneering_communications_committee.R | 2 R/get_electronic_filing_byDate.R | 2 R/get_electronic_filing_by_committees.R | 2 R/get_electronic_filing_by_types.R | 2 R/get_electronic_filing_form_types.R | 2 R/get_hearing_specific_committee.R | 4 R/get_house_senate_floor_actions_by_date.R | 4 R/get_independent_expenditure_by_committee.R | 2 R/get_independent_expenditure_by_date.R | 2 R/get_independent_expenditure_office_totals.R | 2 R/get_independent_expenditure_race_totals_committee.R | 2 R/get_independent_expenditure_support_candidate.R | 2 R/get_independent_expenditure_support_presidential_candidate.R | 2 R/get_lobbyist_bundlers.R | 2 R/get_member_vote_position.R | 2 R/get_members_leaving.R | 2 R/get_nominees_by_state.R | 4 R/get_quarter_office_expenses_by_category_house_member.R | 2 R/get_quarter_office_expenses_house_member.R | 2 R/get_races_for_state.R | 2 R/get_recent_amendments.R | 2 R/get_recent_committee_hearing.R | 4 R/get_recent_congressional_statements.R | 4 R/get_recent_congressional_statements_by_date.R | 4 R/get_recent_congressional_statements_by_term.R | 4 R/get_recent_electioneering_communications.R | 2 R/get_recent_house_senate_floor_actions.R | 4 R/get_recent_independent_expend.R | 2 R/get_recent_late_contributions.R | 2 R/get_recent_late_contributions_candidate.R | 2 R/get_recent_late_contributions_committee.R | 2 R/get_recent_late_contributions_date.R | 2 R/get_recent_lobbying_representation_filings.R | 4 R/get_recent_nominations_by_category.R | 4 R/get_recent_official_communications.R | 4 R/get_recent_official_communications_by_category.R | 4 R/get_recent_official_communications_by_chamber.R | 4 R/get_recent_official_communications_by_date.R | 4 R/get_recent_personal_explanations.R | 4 R/get_recent_personal_explanations_specific_member.R | 4 R/get_recent_personal_explanations_votes.R | 4 R/get_recent_personal_explanations_votes_by_category.R | 2 R/get_recent_personal_explanations_votes_specific_member.R | 4 R/get_recent_personal_explanations_votes_specific_member_by_category.R | 4 R/get_recent_votes.R | 4 R/get_recently_added_independent_expenditure_committees.R | 2 R/get_recently_candidates.R | 2 R/get_recently_committees.R | 2 R/get_related_bills.R | 4 R/get_senate_nomination_votes.R | 4 R/get_specific_bill.R | 2 R/get_specific_bill_subject.R | 8 R/get_specific_committee.R | 4 R/get_specific_lobbying_representation_filings.R | 4 R/get_specific_nominations.R | 4 R/get_specific_roll_call_vote.R | 2 R/get_specific_subcommittee.R | 4 R/get_state_party_counts.R | 4 R/get_statement_subjects.R | 4 R/get_subjects_for_bill.R | 4 R/get_top20_candidate_of_FinancialCategory.R | 2 R/get_upcoming_bills.R | 2 R/get_votes_by_date.R | 2 R/get_votes_by_date_range.R | 2 R/get_votes_by_type.R | 2 R/list_members_chamber_congress.R | 2 R/lists_of_committees.R | 4 R/pp_convert_to_data_frame.R | 2 R/pp_query.R | 2 R/recent_bills_by_member.R | 2 R/recent_bills_by_subject.R | 2 R/recent_bills_by_type.R | 2 R/retrieve_key.R | 2 R/search_lobbying_representation_filings.R | 4 R/validate_district.R | 2 R/zzz.R | 4 man/bills_legislation_by_keyword.Rd | 5 man/compare_two_member_bill_sponsorships.Rd | 2 man/compare_two_member_vote_positions.Rd | 2 man/get_a_bill.Rd | 2 man/get_amendments_bill.Rd | 2 man/get_bills_cosponsored_member.Rd | 2 man/get_candidate.Rd | 5 man/get_candidate_by_name.Rd | 2 man/get_candidates_in_race.Rd | 2 man/get_committee.Rd | 2 man/get_committee_by_name.Rd | 2 man/get_committee_electioneering_communications.Rd | 2 man/get_committee_filings.Rd | 2 man/get_committee_leadership.Rd | 2 man/get_congress_member.Rd | 2 man/get_congressional_statement_by_bill.Rd | 2 man/get_congressional_statement_by_member.Rd | 2 man/get_congressional_statement_by_subjects.Rd | 2 man/get_cosponsors_specific_bill.Rd | 2 man/get_current_members_by_statedistrict.Rd | 2 man/get_electioneering_communications_by_date.Rd | 2 man/get_electioneering_communications_committee.Rd | 2 man/get_electronic_filing_byDate.Rd | 2 man/get_electronic_filing_by_committees.Rd | 2 man/get_electronic_filing_by_types.Rd | 2 man/get_electronic_filing_form_types.Rd | 2 man/get_hearing_specific_committee.Rd | 2 man/get_house_senate_floor_actions_by_date.Rd | 2 man/get_independent_expenditure_by_committee.Rd | 2 man/get_independent_expenditure_by_date.Rd | 2 man/get_independent_expenditure_office_totals.Rd | 2 man/get_independent_expenditure_race_totals_committee.Rd | 2 man/get_independent_expenditure_support_candidate.Rd | 2 man/get_independent_expenditure_support_presidential_candidate.Rd | 2 man/get_lobbyist_bundlers.Rd | 2 man/get_member_vote_position.Rd | 2 man/get_members_leaving.Rd | 2 man/get_new_members.Rd | 2 man/get_nominees_by_state.Rd | 2 man/get_quarter_office_expenses_by_category_house_member.Rd | 2 man/get_quarter_office_expenses_house_member.Rd | 2 man/get_races_for_state.Rd | 2 man/get_recent_amendments.Rd | 2 man/get_recent_committee_hearing.Rd | 2 man/get_recent_congressional_statements.Rd | 2 man/get_recent_congressional_statements_by_date.Rd | 2 man/get_recent_congressional_statements_by_term.Rd | 2 man/get_recent_electioneering_communications.Rd | 2 man/get_recent_house_senate_floor_actions.Rd | 2 man/get_recent_independent_expend.Rd | 2 man/get_recent_late_contributions.Rd | 2 man/get_recent_late_contributions_candidate.Rd | 2 man/get_recent_late_contributions_committee.Rd | 2 man/get_recent_late_contributions_date.Rd | 2 man/get_recent_lobbying_representation_filings.Rd | 2 man/get_recent_nominations_by_category.Rd | 2 man/get_recent_official_communications.Rd | 2 man/get_recent_official_communications_by_category.Rd | 2 man/get_recent_official_communications_by_chamber.Rd | 2 man/get_recent_official_communications_by_date.Rd | 2 man/get_recent_personal_explanations.Rd | 2 man/get_recent_personal_explanations_specific_member.Rd | 2 man/get_recent_personal_explanations_votes.Rd | 2 man/get_recent_personal_explanations_votes_by_category.Rd | 2 man/get_recent_personal_explanations_votes_specific_member.Rd | 2 man/get_recent_personal_explanations_votes_specific_member_by_category.Rd | 2 man/get_recent_votes.Rd | 2 man/get_recently_added_independent_expenditure_committees.Rd | 2 man/get_recently_candidates.Rd | 2 man/get_recently_committees.Rd | 2 man/get_related_bills.Rd | 2 man/get_senate_nomination_votes.Rd | 2 man/get_specific_bill.Rd | 2 man/get_specific_bill_subject.Rd | 2 man/get_specific_committee.Rd | 2 man/get_specific_lobbying_representation_filings.Rd | 2 man/get_specific_nominations.Rd | 2 man/get_specific_roll_call_vote.Rd | 2 man/get_specific_subcommittee.Rd | 2 man/get_state_party_counts.Rd | 2 man/get_statement_subjects.Rd | 2 man/get_subjects_for_bill.Rd | 2 man/get_top20_candidate_of_FinancialCategory.Rd | 2 man/get_upcoming_bills.Rd | 2 man/get_votes_by_date.Rd | 2 man/get_votes_by_date_range.Rd | 2 man/get_votes_by_type.Rd | 2 man/list_members_chamber_congress.Rd | 2 man/lists_of_committees.Rd | 2 man/pp_convert_to_data_frame.Rd | 2 man/pp_query.Rd | 2 man/recent_bills_by_member.Rd | 2 man/recent_bills_by_subject.Rd | 2 man/recent_bills_by_type.Rd | 2 man/retrieve_key.Rd | 2 man/search_lobbying_representation_filings.Rd | 2 man/validate_district.Rd | 2 198 files changed, 451 insertions(+), 438 deletions(-)
Title: NHDPlus Tools
Description: Tools for traversing and working with National Hydrography Dataset Plus (NHDPlus) data. All methods implemented in 'nhdplusTools' are available in the NHDPlus documentation available from the US Environmental Protection Agency <https://www.epa.gov/waterdata/basic-information>.
Author: David Blodgett [aut, cre] ,
Mike Johnson [aut] ,
Marc Weber [ctb] ,
Josh Erickson [ctb]
Maintainer: David Blodgett <dblodgett@usgs.gov>
Diff between nhdplusTools versions 0.5.6 dated 2022-08-08 and 0.5.7 dated 2022-09-16
DESCRIPTION | 8 +-- MD5 | 49 +++++++++++---------- NEWS.md | 6 ++ R/get_nldi.R | 7 +++ R/get_oaproc.R | 16 +++++-- R/get_vaa.R | 2 README.md | 1 build/partial.rdb |only inst/CITATION | 2 inst/doc/US_data.html | 86 ++++++++++++++++++++------------------ inst/doc/advanced_network.html | 15 ++++-- inst/doc/indexing.html | 13 ++++- inst/doc/nhdplusTools.html | 13 ++++- inst/doc/nhdplushr.html | 57 ++++++++++++++----------- inst/doc/plot_nhdplus.html | 17 +++++-- man/download_vaa.Rd | 2 man/get_elev_along_path.Rd | 3 - man/get_nldi_basin.Rd | 3 + man/get_nldi_index.Rd | 4 + man/get_raindrop_trace.Rd | 2 man/get_split_catchment.Rd | 3 + man/get_vaa.Rd | 2 man/get_vaa_names.Rd | 2 man/get_xs_point.Rd | 4 + man/get_xs_points.Rd | 4 + tests/testthat/test_01_get_nldi.R | 2 26 files changed, 204 insertions(+), 119 deletions(-)
Title: Univariate Kernel Density Estimation
Description: Provides an efficient implementation of univariate local polynomial
kernel density estimators that can handle bounded and discrete data. See
Geenens (2014) <arXiv:1303.4121>,
Geenens and Wang (2018) <arXiv:1602.04862>,
Nagler (2018a) <arXiv:1704.07457>,
Nagler (2018b) <arXiv:1705.05431>.
Author: Thomas Nagler [aut, cre],
Thibault Vatter [aut]
Maintainer: Thomas Nagler <mail@tnagler.com>
Diff between kde1d versions 1.0.4 dated 2022-03-16 and 1.0.5 dated 2022-09-16
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS.md | 7 +++++++ README.md | 4 ++-- inst/include/kde1d/kde1d.hpp | 7 +++++-- inst/include/kde1d/tools.hpp | 4 +++- tests/testthat/Rplots.pdf |binary tests/testthat/test_kde1d.R | 12 ++++++------ 8 files changed, 34 insertions(+), 22 deletions(-)
Title: FAIR Data - Workflow Management
Description: Tools, methods and processes for the management
of analysis workflows. These lightweight solutions facilitate
structuring R&D activities. These solutions were developed to comply with FAIR
principles as discussed by Jacobsen et al. (2017) <doi:10.1162/dint_r_00024>,
and with ALCOA+ principles as proposed by the U.S. FDA.
Author: Gregoire Thomas [aut, cre]
Maintainer: Gregoire Thomas <gregoire.thomas@SQU4RE.com>
Diff between D4TAlink.light versions 2.1.8 dated 2022-09-15 and 2.1.9 dated 2022-09-16
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NEWS | 7 ++++++- R/initTask.R | 2 +- R/listTasks.R | 28 ++++++++++++++++++---------- inst/doc/D4TAlink_basics.R | 2 ++ inst/doc/D4TAlink_basics.Rmd | 2 ++ inst/doc/D4TAlink_basics.html | 4 +++- man/listTasks.Rd | 9 ++++++++- tests/testthat/test01.R | 8 ++++++-- vignettes/D4TAlink_basics.Rmd | 2 ++ 11 files changed, 62 insertions(+), 30 deletions(-)
More information about D4TAlink.light at CRAN
Permanent link
Title: Analysis of Doubly Truncated Data
Description: Package performs Cox regression and survival distribution function estimation when the survival times are subject to double truncation. In case that the survival and truncation times are quasi-independent, the estimation procedure for each method involves inverse probability weighting, where the weights correspond to the inverse of the selection probabilities and are estimated using the survival times and truncation times only. A test for checking this independence assumption is also included in this package. The functions available in this package for Cox regression, survival distribution function estimation, and testing independence under double truncation are based on the following methods, respectively: Rennert and Xie (2018) <doi:10.1111/biom.12809>, Shen (2010) <doi:10.1007/s10463-008-0192-2>, Martin and Betensky (2005) <doi:10.1198/016214504000001538>. When the survival times are dependent on at least one of the truncation times, an EM algorithm is employed to [...truncated...]
Author: Lior Rennert <liorr@clemson.edu> and Yidan Shi <yidan.shi@pennmedicine.upenn.edu>
Maintainer: Lior Rennert <liorr@clemson.edu>
Diff between SurvTrunc versions 0.1.0 dated 2018-07-28 and 0.2.0 dated 2022-09-16
SurvTrunc-0.1.0/SurvTrunc/README.md |only SurvTrunc-0.2.0/SurvTrunc/DESCRIPTION | 14 SurvTrunc-0.2.0/SurvTrunc/MD5 | 16 SurvTrunc-0.2.0/SurvTrunc/NAMESPACE | 45 - SurvTrunc-0.2.0/SurvTrunc/R/coxDT.R | 611 ++++++++++++------------ SurvTrunc-0.2.0/SurvTrunc/R/coxDTdep.R |only SurvTrunc-0.2.0/SurvTrunc/R/coxDTdep_internal.R |only SurvTrunc-0.2.0/SurvTrunc/man/AIDS.Rd | 6 SurvTrunc-0.2.0/SurvTrunc/man/cdfDT.Rd | 16 SurvTrunc-0.2.0/SurvTrunc/man/coxDT.Rd | 243 +++++---- SurvTrunc-0.2.0/SurvTrunc/man/coxDTdep.Rd |only 11 files changed, 494 insertions(+), 457 deletions(-)
Title: The Matrix Normal Distribution
Description: Computes densities, probabilities, and random deviates of the Matrix Normal (Pocuca et al. (2019) <doi:10.48550/arXiv.1910.02859>). Also includes simple but useful matrix functions. See the vignette for more information.
Author: Paul M. Hargarten [aut, cre]
Maintainer: Paul M. Hargarten <hargartenp@alumni.vcu.edu>
Diff between matrixNormal versions 0.1.0 dated 2022-01-03 and 0.1.1 dated 2022-09-16
DESCRIPTION | 17 MD5 | 30 - NEWS.md | 78 +-- R/is_symmetric_matrix.R | 4 R/matrixNormal_Distribution.R | 20 R/vec.R | 10 R/vech.R | 2 build/vignette.rds |binary inst/WORDLIST | 3 inst/doc/introduction-to-matrixnormal-package.Rmd | 4 inst/doc/introduction-to-matrixnormal-package.html | 538 +++++++++++++-------- man/is.symmetric.matrix.Rd | 2 man/matrixNormal_Distribution.Rd | 2 man/vec.Rd | 10 man/vech.Rd | 2 vignettes/introduction-to-matrixnormal-package.Rmd | 4 16 files changed, 454 insertions(+), 272 deletions(-)
Title: R Interface to 'IGN' Web Services
Description: Interface to easily access the National Institute of
Geographic and Forestry Information open-source data from Geoservice
website for any area of interest in France via WFS (shapefile) and WMS
(raster) web services
<https://geoservices.ign.fr/services-web-experts>.
Author: Paul Carteron [aut, cre]
Maintainer: Paul Carteron <carteronpaul@gmail.com>
Diff between happign versions 0.1.5 dated 2022-07-18 and 0.1.6 dated 2022-09-16
happign-0.1.5/happign/data/code_insee.rda |only happign-0.1.5/happign/man/code_insee.Rd |only happign-0.1.6/happign/DESCRIPTION | 18 happign-0.1.6/happign/MD5 | 52 +- happign-0.1.6/happign/NAMESPACE | 25 - happign-0.1.6/happign/NEWS.md | 14 happign-0.1.6/happign/R/data.R | 7 happign-0.1.6/happign/R/get_apicarto_cadastre.R | 6 happign-0.1.6/happign/R/get_apicarto_commune.R |only happign-0.1.6/happign/R/get_layers_metadata.R | 129 +---- happign-0.1.6/happign/R/get_raw_lidar.R |only happign-0.1.6/happign/R/get_wfs.R | 9 happign-0.1.6/happign/R/get_wms_info.R | 3 happign-0.1.6/happign/R/get_wms_raster.R | 225 +++++----- happign-0.1.6/happign/R/init.R | 14 happign-0.1.6/happign/data/cog_2022.rda |only happign-0.1.6/happign/inst/doc/Getting_started.R | 41 - happign-0.1.6/happign/inst/doc/Getting_started.Rmd | 41 - happign-0.1.6/happign/inst/doc/Getting_started.html | 48 +- happign-0.1.6/happign/man/cog_2022.Rd |only happign-0.1.6/happign/man/get_apicarto_commune.Rd |only happign-0.1.6/happign/man/get_layers_metadata.Rd | 16 happign-0.1.6/happign/man/get_raw_lidar.Rd |only happign-0.1.6/happign/man/get_wms_raster.Rd | 21 happign-0.1.6/happign/tests/testthat/setup.R | 1 happign-0.1.6/happign/tests/testthat/test-get_layers_metadata.R | 75 +-- happign-0.1.6/happign/tests/testthat/test-get_wfs.R | 7 happign-0.1.6/happign/tests/testthat/test-get_wms_info.R | 2 happign-0.1.6/happign/tests/testthat/test-get_wms_raster.R | 116 ++--- happign-0.1.6/happign/vignettes/Getting_started.Rmd | 41 - happign-0.1.6/happign/vignettes/web_only/happign_for_foresters.Rmd | 81 +-- 31 files changed, 463 insertions(+), 529 deletions(-)
Title: Improved Text Rendering Support for 'Grid' Graphics
Description: Provides support for rendering of formatted text using 'grid' graphics. Text can be
formatted via a minimal subset of 'Markdown', 'HTML', and inline 'CSS' directives, and it can be
rendered both with and without word wrap.
Author: Claus O. Wilke [aut] ,
Brenton M. Wiernik [aut, cre]
Maintainer: Brenton M. Wiernik <brenton@wiernik.org>
Diff between gridtext versions 0.1.4 dated 2020-12-10 and 0.1.5 dated 2022-09-16
gridtext-0.1.4/gridtext/tests/testthat/Rplots.pdf |only gridtext-0.1.5/gridtext/DESCRIPTION | 36 + gridtext-0.1.5/gridtext/MD5 | 29 - gridtext-0.1.5/gridtext/NEWS.md | 7 gridtext-0.1.5/gridtext/R/drawing-context.R | 10 gridtext-0.1.5/gridtext/R/read-image.R | 2 gridtext-0.1.5/gridtext/R/text-details.R | 22 - gridtext-0.1.5/gridtext/README.md | 206 +++++----- gridtext-0.1.5/gridtext/man/figures/README-unnamed-chunk-4-1.png |binary gridtext-0.1.5/gridtext/man/figures/README-unnamed-chunk-5-1.png |binary gridtext-0.1.5/gridtext/man/figures/README-unnamed-chunk-6-1.png |binary gridtext-0.1.5/gridtext/man/figures/README-unnamed-chunk-7-1.png |binary gridtext-0.1.5/gridtext/man/figures/README-unnamed-chunk-8-1.png |binary gridtext-0.1.5/gridtext/src/RcppExports.cpp | 5 gridtext-0.1.5/gridtext/src/raster-box.h | 2 gridtext-0.1.5/gridtext/tests/figs/test_image.png |only gridtext-0.1.5/gridtext/tests/testthat/test-get_file.R |only 17 files changed, 176 insertions(+), 143 deletions(-)
Title: Improved Text Rendering Support for 'ggplot2'
Description: A 'ggplot2' extension that enables the rendering of
complex formatted plot labels (titles, subtitles, facet labels,
axis labels, etc.). Text boxes with automatic word wrap are also
supported.
Author: Claus O. Wilke [aut] ,
Brenton M. Wiernik [aut, cre]
Maintainer: Brenton M. Wiernik <brenton@wiernik.org>
Diff between ggtext versions 0.1.1 dated 2020-12-17 and 0.1.2 dated 2022-09-16
DESCRIPTION | 34 +- MD5 | 26 - NEWS.md | 5 README.md | 367 ++++++++++++----------- build/vignette.rds |binary inst/doc/plotting_text.html | 381 ++++++++++++++---------- inst/doc/theme_elements.html | 461 +++++++++++++++++------------- man/figures/README-unnamed-chunk-10-1.png |binary man/figures/README-unnamed-chunk-4-1.png |binary man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-6-1.png |binary man/figures/README-unnamed-chunk-7-1.png |binary man/figures/README-unnamed-chunk-8-1.png |binary man/figures/README-unnamed-chunk-9-1.png |binary 14 files changed, 721 insertions(+), 553 deletions(-)
Title: Functions for Wayne W. Daniel's Biostatistics, Tenth Edition
Description: Functions to accompany Wayne W. Daniel's
Biostatistics: A Foundation for Analysis in the Health
Sciences, Tenth Edition.
Author: Tingting Zhan [aut, cre, cph]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>
Diff between DanielBiostatistics10th versions 0.1.7 dated 2022-08-08 and 0.1.8 dated 2022-09-16
DESCRIPTION | 24 +- MD5 | 371 ++++++++++++++++++++++++++++++++++++++---- NEWS.md | 3 R/0S4_Boolean.R | 8 R/chp5.6.7.R | 9 - R/chp7.power.R | 19 +- R/data_doc.R |only data |only inst/developer |only inst/example/Chapter1.R | 17 - inst/example/Chapter10.R | 16 - inst/example/Chapter11.R | 47 ++--- inst/example/Chapter12.R | 2 inst/example/Chapter13.R | 51 ++--- inst/example/Chapter14.R | 22 +- inst/example/Chapter2.R | 16 - inst/example/Chapter4.R | 2 inst/example/Chapter5.6.7.R | 26 +- inst/example/Chapter7.power.R | 2 inst/example/Chapter8.R | 41 ++-- inst/example/Chapter9.R | 19 +- man/BooleanRisk-class.Rd | 4 man/BooleanTest-class.Rd | 4 man/Chapter01.Rd | 17 - man/Chapter02.Rd | 16 - man/Chapter04.Rd | 2 man/Chapter05to07.Rd | 26 +- man/Chapter07_power.Rd | 2 man/Chapter09.Rd | 19 +- man/Chapter11.Rd | 47 ++--- man/Chapter12.Rd | 2 man/EXA_C01_S04_01.Rd |only man/EXA_C02_S05_05.Rd |only man/EXA_C06_S02_04.Rd |only man/EXA_C07_S02_03.Rd |only man/EXA_C07_S03_02.Rd |only 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Title: Minimalist Async Evaluation Framework for R
Description: Extremely simple and lightweight method for concurrent /
parallel code execution, built on 'nanonext' and 'NNG' (Nanomsg Next Gen)
technology.
Author: Charlie Gao [aut, cre] ,
Hibiki AI Limited [cph]
Maintainer: Charlie Gao <charlie.gao@shikokuchuo.net>
Diff between mirai versions 0.5.3 dated 2022-08-16 and 0.6.0 dated 2022-09-16
DESCRIPTION | 6 +- MD5 | 24 ++++---- NAMESPACE | 1 NEWS.md | 5 + R/mirai-package.R | 12 ++-- R/mirai.R | 67 ++++++++++++++----------- R/pipe.R | 8 +- README.md | 4 - man/call_mirai.Rd | 9 ++- man/eval_mirai.Rd | 7 ++ man/grapes-greater-than-greater-than-grapes.Rd | 2 man/stop_mirai.Rd | 2 tests/tests.R | 1 13 files changed, 91 insertions(+), 57 deletions(-)
Title: A Method to Estimate the Accuracy and Biogeographical Status of
Georeferenced Biological Data
Description: Automated assessment of accuracy and geographical status of georeferenced biological data. The methods rely on reference regions, namely checklists and range maps. Includes functions to obtain data from the Global Biodiversity Information Facility <https://www.gbif.org/> and from the Global Inventory of Floras and Traits <https://gift.uni-goettingen.de/home>. Alternatively, the user can input their own data. Furthermore, provides easy visualisation of the data and the results through the plotting functions. Especially suited for large datasets. The reference for the methodology is: Arlé et al. (under review).
Author: Eduardo Arle [aut, cre],
Alexander Zizka [aut],
Patrick Weigelt [ctb],
Sam Levin [ctb],
Carsten Meyer [ths]
Maintainer: Eduardo Arle <eduardo.arle@idiv.de>
Diff between bRacatus versions 1.0.8 dated 2022-08-10 and 1.0.9 dated 2022-09-16
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 7 +++++++ R/giftRegions.R | 2 +- R/glonafRegions.R | 2 +- inst/doc/Using_bRacatus.html | 42 ++++++++++++++++++++---------------------- man/giftRegions.Rd | 2 +- man/glonafRegions.Rd | 2 +- 8 files changed, 41 insertions(+), 36 deletions(-)
Title: Calculating Bilateral and Multilateral Price Indexes
Description: Preparing a scanner data set for price dynamics calculations (data selecting, data classification, data matching, data filtering). Computing bilateral and multilateral indexes. For details on these methods see: Diewert and Fox (2020)
<doi:10.1080/07350015.2020.1816176>, Białek (2019) <doi:10.2478/jos-2019-0014> or Białek (2020) <doi:10.2478/jos-2020-0037>.
Author: Jacek Bialek [aut, cre]
Maintainer: Jacek Bialek <jacek.bialek@uni.lodz.pl>
Diff between PriceIndices versions 0.0.9 dated 2022-08-05 and 0.1.1 dated 2022-09-16
DESCRIPTION | 6 MD5 | 41 NAMESPACE | 1 NEWS.md | 11 R/PriceIndices.R | 2 R/f_bilateral_indices.R | 120 - R/f_data_processing.R | 115 + R/f_full_multilateral_indices.R | 264 +-- R/f_general.R | 47 R/f_internal.R | 2045 +++++++++++++++++++++++++++++- README.md | 103 - inst/doc/PriceIndices.Rmd | 8 inst/doc/PriceIndices.html | 8 man/PriceIndices.Rd | 2 man/expenditures.Rd |only man/figures/README-unnamed-chunk-16-1.png |binary man/figures/README-unnamed-chunk-17-1.png |binary man/figures/README-unnamed-chunk-60-1.png |binary man/prices.Rd | 4 man/quantities.Rd | 4 man/sales.Rd | 2 vignettes/PriceIndices.Rmd | 8 22 files changed, 2368 insertions(+), 423 deletions(-)
Title: Regression Models for Bounded and Binomial Responses
Description: Functions to fit regression models for bounded (e.g., proportions and rates) and binomial responses. In case of bounded responses, available models are the flexible beta (Migliorati, S., Di Brisco, A. M., Ongaro, A. (2018) <doi:10.1214/17-BA1079>), the variance-inflated beta (Di Brisco, A. M., Migliorati, S., Ongaro, A. (2020) <doi:10.1177/1471082X18821213>), the beta (Ferrari, S.L.P., Cribari-Neto, F. (2004) <doi:10.1080/0266476042000214501>), and their augmented versions to handle the presence of zero/one values (Di Brisco, A. M., Migliorati, S. (2020) <doi:10.1002/sim.8406>). In case of binomial responses, available models are the flexible beta-binomial (Ascari, R., Migliorati, S. (2021) <doi:10.1002/sim.9005>), the beta-binomial, and the binomial. Inference is dealt with a Bayesian approach based on the Hamiltonian Monte Carlo (HMC) algorithm (Gelman, A., Carlin, J. B., Stern, H. S., Rubin, D. B. (2014) <doi:10.1201/b16018>). Besides, functions t [...truncated...]
Author: Agnese M. Di Brisco [aut, cre], Roberto Ascari [aut, cre], Sonia Migliorati [aut], Andrea Ongaro [aut]
Maintainer: Roberto Ascari <roberto.ascari@unimib.it>
Diff between FlexReg versions 1.1 dated 2022-01-17 and 1.2 dated 2022-09-16
FlexReg-1.1/FlexReg/R/flexreg.R |only FlexReg-1.1/FlexReg/inst/stan/Beta.stan |only FlexReg-1.1/FlexReg/inst/stan/Beta_phi.stan |only FlexReg-1.1/FlexReg/inst/stan/FB.stan |only FlexReg-1.1/FlexReg/inst/stan/FB_phi.stan |only FlexReg-1.1/FlexReg/inst/stan/VIB.stan |only FlexReg-1.1/FlexReg/inst/stan/VIB_phi.stan |only FlexReg-1.1/FlexReg/src/stanExports_Beta.cc |only FlexReg-1.1/FlexReg/src/stanExports_Beta.h |only FlexReg-1.1/FlexReg/src/stanExports_Beta_phi.cc |only FlexReg-1.1/FlexReg/src/stanExports_Beta_phi.h |only FlexReg-1.1/FlexReg/src/stanExports_FB.cc |only FlexReg-1.1/FlexReg/src/stanExports_FB.h |only FlexReg-1.1/FlexReg/src/stanExports_FB_phi.cc |only FlexReg-1.1/FlexReg/src/stanExports_FB_phi.h |only FlexReg-1.1/FlexReg/src/stanExports_VIB.cc |only FlexReg-1.1/FlexReg/src/stanExports_VIB.h |only FlexReg-1.1/FlexReg/src/stanExports_VIB_phi.cc |only FlexReg-1.1/FlexReg/src/stanExports_VIB_phi.h |only FlexReg-1.2/FlexReg/DESCRIPTION | 10 FlexReg-1.2/FlexReg/MD5 | 194 ++++-- FlexReg-1.2/FlexReg/NAMESPACE | 4 FlexReg-1.2/FlexReg/R/DATA.R | 30 FlexReg-1.2/FlexReg/R/FlexReg-package.R | 12 FlexReg-1.2/FlexReg/R/Internal_functions.R | 78 ++ FlexReg-1.2/FlexReg/R/R2_Bayes.R | 6 FlexReg-1.2/FlexReg/R/Summaries.R | 577 ++++++++++--------- FlexReg-1.2/FlexReg/R/WAIC.R | 10 FlexReg-1.2/FlexReg/R/coefficients.R | 56 + FlexReg-1.2/FlexReg/R/convergence.plot.R | 31 - FlexReg-1.2/FlexReg/R/densities.R | 213 +++++-- FlexReg-1.2/FlexReg/R/flexreg_Augmentation.R |only FlexReg-1.2/FlexReg/R/flexreg_binom.R | 34 - FlexReg-1.2/FlexReg/R/posterior_predictive.R | 133 ++-- FlexReg-1.2/FlexReg/R/predicted_residuals.R | 171 +++-- FlexReg-1.2/FlexReg/R/rgen.R | 128 ++-- FlexReg-1.2/FlexReg/R/stanmodels.R | 32 - FlexReg-1.2/FlexReg/data/Reading.RData |binary FlexReg-1.2/FlexReg/inst/extdata/Reading.RData |binary FlexReg-1.2/FlexReg/inst/stan/Beta0.stan |only FlexReg-1.2/FlexReg/inst/stan/Beta01.stan |only FlexReg-1.2/FlexReg/inst/stan/Beta01_phi.stan |only FlexReg-1.2/FlexReg/inst/stan/Beta0_phi.stan |only FlexReg-1.2/FlexReg/inst/stan/Beta1.stan |only FlexReg-1.2/FlexReg/inst/stan/Beta1_phi.stan |only FlexReg-1.2/FlexReg/inst/stan/BetaNo.stan |only FlexReg-1.2/FlexReg/inst/stan/BetaNo_phi.stan |only FlexReg-1.2/FlexReg/inst/stan/FB0.stan |only FlexReg-1.2/FlexReg/inst/stan/FB01.stan |only FlexReg-1.2/FlexReg/inst/stan/FB01_phi.stan |only FlexReg-1.2/FlexReg/inst/stan/FB0_phi.stan |only FlexReg-1.2/FlexReg/inst/stan/FB1.stan |only FlexReg-1.2/FlexReg/inst/stan/FB1_phi.stan |only FlexReg-1.2/FlexReg/inst/stan/FBNo.stan |only FlexReg-1.2/FlexReg/inst/stan/FBNo_phi.stan |only FlexReg-1.2/FlexReg/inst/stan/VIB0.stan |only FlexReg-1.2/FlexReg/inst/stan/VIB01.stan |only FlexReg-1.2/FlexReg/inst/stan/VIB01_phi.stan |only FlexReg-1.2/FlexReg/inst/stan/VIB0_phi.stan |only FlexReg-1.2/FlexReg/inst/stan/VIB1.stan |only FlexReg-1.2/FlexReg/inst/stan/VIB1_phi.stan |only FlexReg-1.2/FlexReg/inst/stan/VIBNo.stan |only FlexReg-1.2/FlexReg/inst/stan/VIBNo_phi.stan |only FlexReg-1.2/FlexReg/man/Atomic.Rd | 6 FlexReg-1.2/FlexReg/man/Bacteria.Rd | 8 FlexReg-1.2/FlexReg/man/Election.Rd | 2 FlexReg-1.2/FlexReg/man/FlexReg-package.Rd | 12 FlexReg-1.2/FlexReg/man/R2_bayes.Rd | 6 FlexReg-1.2/FlexReg/man/Reading.Rd | 9 FlexReg-1.2/FlexReg/man/Stress.Rd | 5 FlexReg-1.2/FlexReg/man/WAIC.Rd | 4 FlexReg-1.2/FlexReg/man/convergence.diag.Rd | 20 FlexReg-1.2/FlexReg/man/convergence.plot.Rd | 11 FlexReg-1.2/FlexReg/man/curve.density.Rd | 26 FlexReg-1.2/FlexReg/man/dBetaBin.Rd | 2 FlexReg-1.2/FlexReg/man/dBeta_mu.Rd | 28 FlexReg-1.2/FlexReg/man/dFB.Rd | 39 - FlexReg-1.2/FlexReg/man/dFBB.Rd | 6 FlexReg-1.2/FlexReg/man/dVIB.Rd | 31 - FlexReg-1.2/FlexReg/man/flexreg.Rd | 86 ++ FlexReg-1.2/FlexReg/man/flexreg_binom.Rd | 29 FlexReg-1.2/FlexReg/man/plot.flexreg.Rd | 10 FlexReg-1.2/FlexReg/man/plot.flexreg_postpred.Rd | 7 FlexReg-1.2/FlexReg/man/posterior_predict.flexreg.Rd | 16 FlexReg-1.2/FlexReg/man/predict.flexreg.Rd | 31 - FlexReg-1.2/FlexReg/man/q.chain.nd.Rd |only FlexReg-1.2/FlexReg/man/q0.chain.nd.Rd |only FlexReg-1.2/FlexReg/man/q01.chain.nd.Rd |only FlexReg-1.2/FlexReg/man/q1.chain.nd.Rd |only FlexReg-1.2/FlexReg/man/rBetaBin.Rd | 8 FlexReg-1.2/FlexReg/man/rBeta_mu.Rd | 19 FlexReg-1.2/FlexReg/man/rFB.Rd | 20 FlexReg-1.2/FlexReg/man/rFBB.Rd | 8 FlexReg-1.2/FlexReg/man/rVIB.Rd | 19 FlexReg-1.2/FlexReg/man/residuals.flexreg.Rd | 36 - FlexReg-1.2/FlexReg/man/summary.flexreg.Rd | 5 FlexReg-1.2/FlexReg/man/var.fun.Rd | 2 FlexReg-1.2/FlexReg/src/RcppExports.cpp | 60 + FlexReg-1.2/FlexReg/src/stanExports_Beta0.cc |only FlexReg-1.2/FlexReg/src/stanExports_Beta0.h |only FlexReg-1.2/FlexReg/src/stanExports_Beta01.cc |only FlexReg-1.2/FlexReg/src/stanExports_Beta01.h |only FlexReg-1.2/FlexReg/src/stanExports_Beta01_phi.cc |only FlexReg-1.2/FlexReg/src/stanExports_Beta01_phi.h |only FlexReg-1.2/FlexReg/src/stanExports_Beta0_phi.cc |only FlexReg-1.2/FlexReg/src/stanExports_Beta0_phi.h |only FlexReg-1.2/FlexReg/src/stanExports_Beta1.cc |only FlexReg-1.2/FlexReg/src/stanExports_Beta1.h |only FlexReg-1.2/FlexReg/src/stanExports_Beta1_phi.cc |only FlexReg-1.2/FlexReg/src/stanExports_Beta1_phi.h |only FlexReg-1.2/FlexReg/src/stanExports_BetaNo.cc |only FlexReg-1.2/FlexReg/src/stanExports_BetaNo.h |only FlexReg-1.2/FlexReg/src/stanExports_BetaNo_phi.cc |only FlexReg-1.2/FlexReg/src/stanExports_BetaNo_phi.h |only FlexReg-1.2/FlexReg/src/stanExports_FB0.cc |only FlexReg-1.2/FlexReg/src/stanExports_FB0.h |only FlexReg-1.2/FlexReg/src/stanExports_FB01.cc |only FlexReg-1.2/FlexReg/src/stanExports_FB01.h |only FlexReg-1.2/FlexReg/src/stanExports_FB01_phi.cc |only FlexReg-1.2/FlexReg/src/stanExports_FB01_phi.h |only FlexReg-1.2/FlexReg/src/stanExports_FB0_phi.cc |only FlexReg-1.2/FlexReg/src/stanExports_FB0_phi.h |only FlexReg-1.2/FlexReg/src/stanExports_FB1.cc |only FlexReg-1.2/FlexReg/src/stanExports_FB1.h |only FlexReg-1.2/FlexReg/src/stanExports_FB1_phi.cc |only FlexReg-1.2/FlexReg/src/stanExports_FB1_phi.h |only FlexReg-1.2/FlexReg/src/stanExports_FBNo.cc |only FlexReg-1.2/FlexReg/src/stanExports_FBNo.h |only FlexReg-1.2/FlexReg/src/stanExports_FBNo_phi.cc |only FlexReg-1.2/FlexReg/src/stanExports_FBNo_phi.h |only FlexReg-1.2/FlexReg/src/stanExports_VIB0.cc |only FlexReg-1.2/FlexReg/src/stanExports_VIB0.h |only FlexReg-1.2/FlexReg/src/stanExports_VIB01.cc |only FlexReg-1.2/FlexReg/src/stanExports_VIB01.h |only FlexReg-1.2/FlexReg/src/stanExports_VIB01_phi.cc |only FlexReg-1.2/FlexReg/src/stanExports_VIB01_phi.h |only FlexReg-1.2/FlexReg/src/stanExports_VIB0_phi.cc |only FlexReg-1.2/FlexReg/src/stanExports_VIB0_phi.h |only FlexReg-1.2/FlexReg/src/stanExports_VIB1.cc |only FlexReg-1.2/FlexReg/src/stanExports_VIB1.h |only FlexReg-1.2/FlexReg/src/stanExports_VIB1_phi.cc |only FlexReg-1.2/FlexReg/src/stanExports_VIB1_phi.h |only FlexReg-1.2/FlexReg/src/stanExports_VIBNo.cc |only FlexReg-1.2/FlexReg/src/stanExports_VIBNo.h |only FlexReg-1.2/FlexReg/src/stanExports_VIBNo_phi.cc |only FlexReg-1.2/FlexReg/src/stanExports_VIBNo_phi.h |only 146 files changed, 1440 insertions(+), 850 deletions(-)
Title: Debugging Tools to Inspect the Intermediate Steps of a Call
Description: Provides debugging tools that let you inspect the
intermediate results of a call. The output looks as if we explode a call
into its parts hence the package name.
Author: Antoine Fabri [aut, cre]
Maintainer: Antoine Fabri <antoine.fabri@gmail.com>
Diff between boomer versions 0.1.0 dated 2021-07-20 and 0.1.1 dated 2022-09-16
DESCRIPTION | 12 MD5 | 44 + NAMESPACE | 35 - NEWS.md | 10 R/boom_on.R |only R/boomer-package.R | 4 R/exported.R | 16 R/globals.R | 1 R/shiny.R |only R/wrap.R | 25 - R/zzz.R | 5 README.md | 388 ++++++++------- build |only inst/doc |only man/boom.Rd | 162 +++--- man/boom_on.Rd |only man/boom_shinyApp.Rd |only man/boomer-package.Rd | 8 man/figures/README-10.gif |only man/figures/README-11.gif |only tests/testthat/_snaps/boom.md | 1030 +++++++++++++++++++++--------------------- tests/testthat/_snaps/rig.md | 214 ++++---- vignettes |only 23 files changed, 1029 insertions(+), 925 deletions(-)