Title: Time-to-Event Data Analysis with Missing Survival Times
Description: Fits a pseudo Cox proprotional hazards model when survival times are missing for control groups.
Author: Yunro Chung [aut, cre]
Maintainer: Yunro Chung <yunro.chung@asu.edu>
Diff between coxphm versions 0.1.0 dated 2024-09-23 and 0.2.0 dated 2025-04-11
coxphm-0.1.0/coxphm/R/01.n_ps_pll.R.R |only coxphm-0.2.0/coxphm/DESCRIPTION | 10 ++--- coxphm-0.2.0/coxphm/MD5 | 10 ++--- coxphm-0.2.0/coxphm/NAMESPACE | 2 - coxphm-0.2.0/coxphm/R/01.n_ps_pll.R |only coxphm-0.2.0/coxphm/R/coxphm.R | 61 ++++++++++++++++++++-------------- coxphm-0.2.0/coxphm/man/coxphm.Rd | 40 +++++++++++----------- 7 files changed, 67 insertions(+), 56 deletions(-)
Title: Extra Analysis Results Data Utilities
Description: Create extra Analysis Results Data (ARD) summary objects.
The package supplements the simple ARD functions from the 'cards'
package, exporting functions to put statistical results in the ARD
format. These objects are used and re-used to construct summary
tables, visualizations, and written reports.
Author: Daniel D. Sjoberg [aut, cre] ,
Abinaya Yogasekaram [aut],
Emily de la Rua [aut],
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Daniel D. Sjoberg <danield.sjoberg@gmail.com>
Diff between cardx versions 0.2.3 dated 2025-02-18 and 0.2.4 dated 2025-04-11
DESCRIPTION | 16 MD5 | 55 +- NAMESPACE | 4 NEWS.md | 18 R/ard_emmeans_mean_difference.R | 143 +++-- R/ard_regression.R | 35 + R/ard_regression_basic.R | 61 ++ R/ard_stats_mantelhaen_test.R |only R/ard_stats_prop_test.R | 2 R/ard_survival_survfit.R | 78 ++- R/construction_helpers.R | 4 R/import-standalone-check_pkg_installed.R | 14 R/import-standalone-forcats.R | 20 README.md | 3 inst/WORDLIST | 3 man/ard_emmeans_mean_difference.Rd | 2 man/ard_regression.Rd | 40 + man/ard_regression_basic.Rd | 49 +- man/ard_stats_anova.Rd | 2 man/ard_stats_mantelhaen_test.Rd |only man/ard_survival_survfit.Rd | 8 man/construction_helpers.Rd | 2 tests/testthat/_snaps/ard_emmeans_mean_difference.md |only tests/testthat/_snaps/ard_regression.md | 3 tests/testthat/_snaps/ard_stats_mantelhaen_test.md |only tests/testthat/_snaps/ard_survival_survfit.md | 459 +++++++++---------- tests/testthat/test-ard_emmeans_mean_difference.R | 23 tests/testthat/test-ard_regression.R | 18 tests/testthat/test-ard_regression_basic.R | 9 tests/testthat/test-ard_stats_mantelhaen_test.R |only tests/testthat/test-ard_survival_survfit.R | 50 ++ 31 files changed, 763 insertions(+), 358 deletions(-)
Title: Statistical Reporting with 'Quarto'
Description: Provides statistical components, tables, and graphs
that are useful in 'Quarto' and 'RMarkdown' reports and that produce 'Quarto'
elements for special formatting such as tabs and marginal notes and graphs.
Some of the functions produce entire report sections with tabs, e.g.,
the missing data report created by missChk(). Functions for inserting
variables and tables inside 'graphviz' and 'mermaid' diagrams are included,
and so are special clinical trial graphics for adverse event reporting.
Author: Frank Harrell [aut, cre]
Maintainer: Frank Harrell <fh@fharrell.com>
Diff between qreport versions 1.0-1 dated 2024-05-26 and 1.0-2 dated 2025-04-11
DESCRIPTION | 17 +++++++++++------ MD5 | 10 ++++++---- NEWS | 4 ++++ R/makegvflow.r |only R/reptools.r | 23 +++++++++++++++++++++-- man/makegvflow.Rd |only man/missChk.Rd | 2 +- 7 files changed, 43 insertions(+), 13 deletions(-)
Title: Mixed Effect Model with the Box-Cox Transformation
Description: Inference on the marginal model of the mixed effect model with
the Box-Cox transformation and on the model median differences between
treatment groups for longitudinal randomized clinical trials. These
statistical methods are proposed by Maruo et al. (2017)
<doi:10.1002/sim.7279>.
Author: Kazushi Maruo [aut, cre],
Ryota Ishii [aut],
Yusuke Yamaguchi [ctb],
Masahiko Gosho [ctb]
Maintainer: Kazushi Maruo <kazushi.maruo@gmail.com>
Diff between bcmixed versions 0.1.4 dated 2020-03-31 and 0.1.5 dated 2025-04-11
bcmixed-0.1.4/bcmixed/R/bcmixed.R |only bcmixed-0.1.4/bcmixed/man/bcmixed.Rd |only bcmixed-0.1.5/bcmixed/DESCRIPTION | 8 +-- bcmixed-0.1.5/bcmixed/MD5 | 44 ++++++++--------- bcmixed-0.1.5/bcmixed/NAMESPACE | 4 + bcmixed-0.1.5/bcmixed/NEWS.md | 4 + bcmixed-0.1.5/bcmixed/R/aidscd4.R | 6 +- bcmixed-0.1.5/bcmixed/R/bcmarg.R | 34 +++++++++++-- bcmixed-0.1.5/bcmixed/R/bcmixed-package.R |only bcmixed-0.1.5/bcmixed/R/bcmmrm.R | 4 - bcmixed-0.1.5/bcmixed/R/bcreg.R | 2 bcmixed-0.1.5/bcmixed/R/bct.R | 2 bcmixed-0.1.5/bcmixed/R/bct.v.R | 6 +- bcmixed-0.1.5/bcmixed/R/summary.bcmmrm.R | 6 +- bcmixed-0.1.5/bcmixed/README.md | 6 -- bcmixed-0.1.5/bcmixed/build |only bcmixed-0.1.5/bcmixed/inst |only bcmixed-0.1.5/bcmixed/man/aidscd4.Rd | 12 ++-- bcmixed-0.1.5/bcmixed/man/bcmarg.Rd | 6 +- bcmixed-0.1.5/bcmixed/man/bcmixed-package.Rd |only bcmixed-0.1.5/bcmixed/man/bcmmrm.Rd | 4 - bcmixed-0.1.5/bcmixed/man/bcreg.Rd | 2 bcmixed-0.1.5/bcmixed/man/bct.Rd | 2 bcmixed-0.1.5/bcmixed/man/bct.v.Rd | 2 bcmixed-0.1.5/bcmixed/man/figures/README-example-1.png |binary bcmixed-0.1.5/bcmixed/man/summary.bcmmrm.Rd | 6 +- 26 files changed, 97 insertions(+), 63 deletions(-)
Title: Testing for Shiny Applications
Description: Automated unit testing of Shiny applications through a headless 'Chromium' browser.
Author: Barret Schloerke [cre, aut] ,
Posit Software, PBC [cph, fnd],
Winston Chang [ctb] ,
Gabor Csardi [ctb] ,
Hadley Wickham [ctb] ,
Mango Solutions [cph, ccp]
Maintainer: Barret Schloerke <barret@posit.co>
Diff between shinytest2 versions 0.4.0 dated 2025-04-10 and 0.4.1 dated 2025-04-11
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 9 +++++++-- R/app-driver.R | 2 +- man/AppDriver.Rd | 2 +- 5 files changed, 16 insertions(+), 11 deletions(-)
Title: Export Domain Logic from Shiny using Meta-Programming
Description: Provides tools for capturing logic in a Shiny app and exposing it as code that can be run outside of Shiny (e.g., from an R console). It also provides tools for bundling both the code and results to the end user.
Author: Joe Cheng [aut],
Carson Sievert [cre, aut] ,
RStudio [cph]
Maintainer: Carson Sievert <carson@rstudio.com>
Diff between shinymeta versions 0.2.0.3 dated 2021-11-17 and 0.2.1 dated 2025-04-11
DESCRIPTION | 8 ++--- MD5 | 32 +++++++++++------------ NAMESPACE | 2 - NEWS.md | 10 ++++++- R/archive.R | 1 R/display.R | 4 +- R/imports.R | 1 R/metareactive.R | 17 ++++++------ R/observe.R | 16 +++++------ R/render.R | 2 - README.md | 17 +++++------- man/displayCodeModal.Rd | 11 +++++--- man/expandChain.Rd | 66 ++++++++++++++++++++++++++++++++---------------- man/metaObserve.Rd | 16 +++++------ man/metaReactive.Rd | 13 +++++---- man/metaRender.Rd | 2 - man/outputCodeButton.Rd | 2 - 17 files changed, 127 insertions(+), 93 deletions(-)
Title: Managing and Building of Quarterly Life Tables
Description: Manages, builds and computes statistics and datasets for the
construction of quarterly (sub-annual) life tables by exploiting micro-data from
either a general or an insured population.
References:
Pavía and Lledó (2022) <doi:10.1111/rssa.12769>.
Pavía and Lledó (2023) <doi:10.1017/asb.2023.16>.
Pavía and Lledó (2025) <doi:10.1371/journal.pone.0315937>.
Acknowledgements:
The authors wish to thank Conselleria de Educación, Universidades y Empleo, Generalitat Valenciana (grants AICO/2021/257; CIAICO/2024/031), Ministerio de Ciencia e Innovación (grant PID2021-128228NB-I00) and Fundación Mapfre (grant 'Modelización espacial e intra-anual de la mortalidad en España. Una herramienta automática para el calculo de productos de vida') for supporting this research.
Author: Jose M. Pavia [aut, cre] ,
Josep Lledo [aut]
Maintainer: Jose M. Pavia <jose.m.pavia@uv.es>
Diff between qlifetable versions 0.0.2-5 dated 2024-06-28 and 0.0.2-6 dated 2025-04-11
DESCRIPTION | 9 +++++---- MD5 | 24 ++++++++++++------------ NEWS.md | 5 +++++ R/annual2quarterly.R | 1 + R/compute_SAI.R | 1 + R/coord_age.R | 1 + R/coord_time.R | 1 + R/exact_age.R | 1 + man/annual2quarterly.Rd | 2 ++ man/compute_SAI.Rd | 2 ++ man/coord_age.Rd | 2 ++ man/coord_time.Rd | 2 ++ man/exact_age.Rd | 2 ++ 13 files changed, 37 insertions(+), 16 deletions(-)
More information about clinDataReview at CRAN
Permanent link
Title: Simulation of Populations by Sampling Waiting-Time Distributions
Description: Constructs a virtual population from fertility and mortality rates for any country,
calendar year and birth cohort in the Human Mortality Database <https://www.mortality.org> and the Human Fertility Database <https://www.humanfertility.org>. Fertility histories are simulated for every individual and their offspring, producing a multi-generation virtual population.
Author: Frans Willekens [aut, cre] ,
Tim Riffe [ctb]
Maintainer: Frans Willekens <willekens@nidi.nl>
Diff between VirtualPop versions 2.0.2 dated 2024-03-18 and 2.1.0 dated 2025-04-11
DESCRIPTION | 10 MD5 | 46 NAMESPACE | 2 NEWS.md | 2 R/BuildViP.R | 12 R/Children.R | 1 R/GetGenerations.R | 6 R/PartnerSearch.R | 112 + R/VirtualPop-package.R | 2 build/vignette.rds |binary data/dLH.rda |binary data/rates.rda |binary data/ratesC.rda |binary inst/doc/MultistateLH.R | 16 inst/doc/MultistateLH.Rmd | 18 inst/doc/MultistateLH.html | 2069 +++++++++++++++++++++++++++++++++++- inst/doc/Piecewise_exponential.html | 56 inst/doc/Tutorial.R | 31 inst/doc/Tutorial.Rmd | 35 inst/doc/Tutorial.html | 125 +- man/PartnerSearch.Rd | 15 vignettes/MultistateLH.Rmd | 18 vignettes/References.bib | 4 vignettes/Tutorial.Rmd | 35 24 files changed, 2343 insertions(+), 272 deletions(-)
Title: Efficient Bayesian Inference for Dynamic Survival Models with
Shrinkage
Description: Efficient Markov chain Monte Carlo (MCMC) algorithms for fully
Bayesian estimation of dynamic survival models with shrinkage priors.
Details on the algorithms used are provided in Wagner (2011) <doi:10.1007/s11222-009-9164-5>,
Bitto and Frühwirth-Schnatter (2019) <doi:10.1016/j.jeconom.2018.11.006> and
Cadonna et al. (2020) <doi:10.3390/econometrics8020020>.
Author: Daniel Winkler [aut, cre],
Peter Knaus [aut]
Maintainer: Daniel Winkler <daniel.winkler@wu.ac.at>
Diff between shrinkDSM versions 0.2.0 dated 2022-11-15 and 1.0.0 dated 2025-04-11
DESCRIPTION | 11 MD5 | 24 NAMESPACE | 2 R/Imports.R | 2 R/RcppExports.R | 22 R/shrinkDSM.R | 1498 ++++++++++++++++++++-------------------- R/utilities_shrinkDSM.R | 827 +++++++++++----------- man/plot.mcmc.dsm.tvp.Rd | 4 man/reexports.Rd |only man/shrinkDSM.Rd | 30 src/Makevars | 2 src/Makevars.win | 2 tests/testthat/Rplots.pdf |only tests/testthat/test_shrinkDSM.R | 52 - 14 files changed, 1274 insertions(+), 1202 deletions(-)
Title: Ecological Inference by Linear Programming under Homogeneity
Description: Provides a bunch of algorithms based on linear programming for estimating, under
the homogeneity hypothesis, RxC ecological contingency tables (or vote transition matrices)
using mainly aggregate data (from voting units).
References:
Pavía and Romero (2024) <doi:10.1177/00491241221092725>.
Pavía and Romero (2024) <doi:10.1093/jrsssa/qnae013>.
Pavía (2023) <doi:10.1007/s43545-023-00658-y>.
Pavía (2024) <doi:10.1080/0022250X.2024.2423943>.
Pavía (2024) <doi:10.1177/07591063241277064>.
Pavía and Penadés (2024). A bottom-up approach for ecological inference.
Romero, Pavía, Martín and Romero (2020) <doi:10.1080/02664763.2020.1804842>.
Acknowledgements:
The authors wish to thank Consellería de Educación, Universidades y Empleo, Generalitat Valenciana (grants AICO/2021/257, CIAICO/2023/031) and Ministerio de Economía e Innovación (grant PID2021-128228NB-I00) for supporting this research.
Author: Jose M. Pavia [aut, cre] ,
Rafael Romero [aut]
Maintainer: Jose M. Pavia <jose.m.pavia@uv.es>
Diff between lphom versions 0.3.5-5 dated 2024-03-03 and 0.3.5-6 dated 2025-04-11
DESCRIPTION | 15 +++++++------- MD5 | 52 ++++++++++++++++++++++++------------------------- NEWS.md | 4 +++ R/adjust2integers.R | 2 - R/lclphom.R | 5 ++-- R/lphom.R | 1 R/lphom_dual.R | 2 - R/lphom_joint.R | 2 - R/nslphom.R | 3 +- R/nslphom_dual.R | 2 - R/nslphom_joint.R | 2 - R/rslphom.R | 2 - R/tslphom.R | 5 ++-- R/tslphom_dual.R | 2 - R/tslphom_joint.R | 2 - man/adjust2integers.Rd | 2 - man/lclphom.Rd | 6 +++-- man/lphom.Rd | 2 + man/lphom_dual.Rd | 2 - man/lphom_joint.Rd | 2 - man/nslphom.Rd | 4 ++- man/nslphom_dual.Rd | 2 - man/nslphom_joint.Rd | 2 - man/rslphom.Rd | 2 - man/tslphom.Rd | 4 ++- man/tslphom_dual.Rd | 2 - man/tslphom_joint.Rd | 2 - 27 files changed, 75 insertions(+), 58 deletions(-)
Title: Analysis Results Data
Description: Construct CDISC (Clinical Data Interchange Standards
Consortium) compliant Analysis Results Data objects. These objects are
used and re-used to construct summary tables, visualizations, and
written reports. The package also exports utilities for working with
these objects and creating new Analysis Results Data objects.
Author: Daniel D. Sjoberg [aut, cre] ,
Becca Krouse [aut],
Emily de la Rua [aut],
F. Hoffmann-La Roche AG [cph, fnd],
GlaxoSmithKline Research & Development Limited [cph]
Maintainer: Daniel D. Sjoberg <danield.sjoberg@gmail.com>
Diff between cards versions 0.5.1 dated 2025-03-01 and 0.6.0 dated 2025-04-11
cards-0.5.1/cards/R/shift_ard_columns.R |only cards-0.5.1/cards/man/dot-is_list_column_of_scalars.Rd |only cards-0.5.1/cards/man/dot-pair_columns.Rd |only cards-0.5.1/cards/man/dot-shift_column_pair.Rd |only cards-0.5.1/cards/tests/testthat/_snaps/shift_ard_columns.md |only cards-0.5.1/cards/tests/testthat/test-shift_ard_columns.R |only cards-0.6.0/cards/DESCRIPTION | 6 cards-0.6.0/cards/MD5 | 70 - cards-0.6.0/cards/NAMESPACE | 4 cards-0.6.0/cards/NEWS.md | 30 cards-0.6.0/cards/R/ard_formals.R |only cards-0.6.0/cards/R/ard_stack_hierarchical.R | 10 cards-0.6.0/cards/R/cards-package.R | 4 cards-0.6.0/cards/R/deprecated.R | 9 cards-0.6.0/cards/R/filter_ard_hierarchical.R |only cards-0.6.0/cards/R/import-standalone-check_pkg_installed.R | 14 cards-0.6.0/cards/R/import-standalone-forcats.R | 22 cards-0.6.0/cards/R/rename_ard_columns.R |only cards-0.6.0/cards/R/shuffle_ard.R | 64 - cards-0.6.0/cards/R/sort_ard_hierarchical.R |only cards-0.6.0/cards/R/tidy_as_ard.R | 4 cards-0.6.0/cards/R/unlist_ard_columns.R |only cards-0.6.0/cards/R/utils.R | 4 cards-0.6.0/cards/README.md | 425 -------- cards-0.6.0/cards/inst/WORDLIST | 3 cards-0.6.0/cards/man/ard_formals.Rd |only cards-0.6.0/cards/man/dot-detect_msgs.Rd | 3 cards-0.6.0/cards/man/filter_ard_hierarchical.Rd |only cards-0.6.0/cards/man/rename_ard_columns.Rd | 41 cards-0.6.0/cards/man/sort_ard_hierarchical.Rd |only cards-0.6.0/cards/man/tidy_as_ard.Rd | 4 cards-0.6.0/cards/man/unlist_ard_columns.Rd |only cards-0.6.0/cards/tests/testthat/_snaps/ard_formals.md |only cards-0.6.0/cards/tests/testthat/_snaps/ard_stack_hierarchical.md | 30 cards-0.6.0/cards/tests/testthat/_snaps/filter_ard_hierarchical.md |only cards-0.6.0/cards/tests/testthat/_snaps/rename_ard_columns.md | 62 - cards-0.6.0/cards/tests/testthat/_snaps/shuffle_ard.md | 531 +--------- cards-0.6.0/cards/tests/testthat/_snaps/sort_ard_hierarchical.md |only cards-0.6.0/cards/tests/testthat/test-ard_formals.R |only cards-0.6.0/cards/tests/testthat/test-ard_stack.R | 3 cards-0.6.0/cards/tests/testthat/test-ard_stack_hierarchical.R | 141 +- cards-0.6.0/cards/tests/testthat/test-filter_ard_hierarchical.R |only cards-0.6.0/cards/tests/testthat/test-nest_for_ard.R | 10 cards-0.6.0/cards/tests/testthat/test-rename_ard_columns.R | 47 cards-0.6.0/cards/tests/testthat/test-shuffle_ard.R | 60 - cards-0.6.0/cards/tests/testthat/test-sort_ard_hierarchical.R |only cards-0.6.0/cards/tests/testthat/test-unlist_ard_columns.R |only 47 files changed, 420 insertions(+), 1181 deletions(-)
Title: Bayesian Longitudinal Regularized Quantile Mixed Model
Description: In longitudinal studies, the same subjects are measured repeatedly over time, leading to correlations among the repeated measurements. Properly accounting for the intra-cluster correlations in the presence of data heterogeneity and long tailed distributions of the disease phenotype is challenging, especially in the context of high dimensional regressions. In this package, we developed a Bayesian quantile mixed effects model with spike- and -slab priors to dissect important gene - environment interactions under longitudinal genomics studies. An efficient Gibbs sampler has been developed to facilitate fast computation. The Markov chain Monte Carlo algorithms of the proposed and alternative methods are efficiently implemented in 'C++'. The development of this software package and the associated statistical methods have been partially supported by an Innovative Research Award from Johnson Cancer Research Center, Kansas State University.
Author: Kun Fan [aut, cre],
Cen Wu [aut]
Maintainer: Kun Fan <kfan@ksu.edu>
Diff between mixedBayes versions 0.1.5 dated 2025-02-11 and 0.1.6 dated 2025-04-11
DESCRIPTION | 8 ++++---- MD5 | 15 ++++++++------- NEWS.md |only R/mixedBayes-package.R | 3 ++- R/mixedBayes.R | 2 +- README.md | 29 +++++------------------------ build/partial.rdb |binary man/mixedBayes-package.Rd | 3 ++- man/mixedBayes.Rd | 2 +- 9 files changed, 23 insertions(+), 39 deletions(-)
Title: Cyclic Coordinate Descent for Logistic, Poisson and Survival
Analysis
Description: This model fitting tool incorporates cyclic coordinate descent and
majorization-minimization approaches to fit a variety of regression models
found in large-scale observational healthcare data. Implementations focus
on computational optimization and fine-scale parallelization to yield
efficient inference in massive datasets. Please see:
Suchard, Simpson, Zorych, Ryan and Madigan (2013) <doi:10.1145/2414416.2414791>.
Author: Marc A. Suchard [aut, cre],
Martijn J. Schuemie [aut],
Trevor R. Shaddox [aut],
Yuxi Tian [aut],
Jianxiao Yang [aut],
Eric Kawaguchi [aut],
Sushil Mittal [ctb],
Observational Health Data Sciences and Informatics [cph],
Marcus Geelnard [cph, ctb] ,
Ru [...truncated...]
Maintainer: Marc A. Suchard <msuchard@ucla.edu>
Diff between Cyclops versions 3.5.0 dated 2024-12-01 and 3.5.1 dated 2025-04-11
Cyclops-3.5.0/Cyclops/build |only Cyclops-3.5.0/Cyclops/man/Cyclops-package.Rd |only Cyclops-3.5.0/Cyclops/tests/testthat/save.R |only Cyclops-3.5.0/Cyclops/tests/testthat/test-recenter.R |only Cyclops-3.5.1/Cyclops/DESCRIPTION | 6 Cyclops-3.5.1/Cyclops/MD5 | 52 +- Cyclops-3.5.1/Cyclops/NAMESPACE | 5 Cyclops-3.5.1/Cyclops/NEWS.md | 9 Cyclops-3.5.1/Cyclops/R/Cyclops-package.R | 2 Cyclops-3.5.1/Cyclops/R/ModelFit.R | 51 +- Cyclops-3.5.1/Cyclops/R/Predict.R | 25 - Cyclops-3.5.1/Cyclops/R/RcppExports.R | 24 + Cyclops-3.5.1/Cyclops/R/Residuals.R |only Cyclops-3.5.1/Cyclops/inst/CITATION | 2 Cyclops-3.5.1/Cyclops/man/confint.cyclopsFit.Rd | 3 Cyclops-3.5.1/Cyclops/man/cyclops.Rd | 2 Cyclops-3.5.1/Cyclops/man/getCyclopsProfileLogLikelihood.Rd | 2 Cyclops-3.5.1/Cyclops/man/residuals.cyclopsFit.Rd |only Cyclops-3.5.1/Cyclops/man/testProportionality.Rd |only Cyclops-3.5.1/Cyclops/src/RcppCyclopsInterface.cpp | 156 ++++++ Cyclops-3.5.1/Cyclops/src/RcppCyclopsInterface.h | 3 Cyclops-3.5.1/Cyclops/src/RcppExports.cpp | 75 +++ Cyclops-3.5.1/Cyclops/src/cyclops/CyclicCoordinateDescent.cpp | 29 + Cyclops-3.5.1/Cyclops/src/cyclops/CyclicCoordinateDescent.h | 9 Cyclops-3.5.1/Cyclops/src/cyclops/engine/AbstractModelSpecifics.h | 11 Cyclops-3.5.1/Cyclops/src/cyclops/engine/ModelSpecifics.h | 18 Cyclops-3.5.1/Cyclops/src/cyclops/engine/ModelSpecifics.hpp | 240 ++++++++++ Cyclops-3.5.1/Cyclops/tests/testthat/test-profileLikelihood.R | 2 Cyclops-3.5.1/Cyclops/tests/testthat/test-residuals.R |only Cyclops-3.5.1/Cyclops/tests/testthat/test-smallCLR.R | 19 Cyclops-3.5.1/Cyclops/tests/testthat/test-smallCox.R | 19 31 files changed, 710 insertions(+), 54 deletions(-)
Title: Analysis of Coarsely Observed Data
Description: Functions to analyze coarse data.
Specifically, it contains functions to (1) fit parametric accelerated
failure time models to interval-censored survival time data, and (2)
estimate the case-fatality ratio in scenarios with under-reporting.
This package's development was motivated by applications to infectious
disease: in particular, problems with estimating the incubation period and
the case fatality ratio of a given disease. Sample data files are included
in the package. See Reich et al. (2009) <doi:10.1002/sim.3659>,
Reich et al. (2012) <doi:10.1111/j.1541-0420.2011.01709.x>, and
Lessler et al. (2009) <doi:10.1016/S1473-3099(09)70069-6>.
Author: Nicholas G. Reich [aut, cre],
Justin Lessler [aut],
Andrew Azman [aut],
Zhian N. Kamvar [ctb],
Hugo Gruson [ctb]
Maintainer: Nicholas G. Reich <nick@umass.edu>
Diff between coarseDataTools versions 0.6-6 dated 2021-12-09 and 0.7.2 dated 2025-04-11
coarseDataTools-0.6-6/coarseDataTools/vignettes/CFR_vignette_cache/html/runAnalysis_99f06cae14587f14b5c5ebde7e5454ea.RData |only coarseDataTools-0.6-6/coarseDataTools/vignettes/CFR_vignette_cache/html/runAnalysis_99f06cae14587f14b5c5ebde7e5454ea.rdb |only coarseDataTools-0.6-6/coarseDataTools/vignettes/CFR_vignette_cache/html/runAnalysis_99f06cae14587f14b5c5ebde7e5454ea.rdx |only coarseDataTools-0.7.2/coarseDataTools/ChangeLog | 10 coarseDataTools-0.7.2/coarseDataTools/DESCRIPTION | 20 coarseDataTools-0.7.2/coarseDataTools/MD5 | 54 coarseDataTools-0.7.2/coarseDataTools/NEWS.md |only coarseDataTools-0.7.2/coarseDataTools/R/CFR_estimation.R | 642 ++--- coarseDataTools-0.7.2/coarseDataTools/R/S4stuff.R | 81 coarseDataTools-0.7.2/coarseDataTools/R/coarseDataTools-package.R | 20 coarseDataTools-0.7.2/coarseDataTools/R/dic.fit.R | 1189 +++++----- coarseDataTools-0.7.2/coarseDataTools/R/dic.fit.mcmc.R | 559 ++-- coarseDataTools-0.7.2/coarseDataTools/R/get.obs.type.R | 16 coarseDataTools-0.7.2/coarseDataTools/R/sampleSizeSimulation.R | 263 +- coarseDataTools-0.7.2/coarseDataTools/README.md | 3 coarseDataTools-0.7.2/coarseDataTools/build/partial.rdb |only coarseDataTools-0.7.2/coarseDataTools/build/vignette.rds |binary coarseDataTools-0.7.2/coarseDataTools/inst/CITATION | 32 coarseDataTools-0.7.2/coarseDataTools/inst/doc/CFR_vignette.R | 28 coarseDataTools-0.7.2/coarseDataTools/inst/doc/CFR_vignette.Rmd | 28 coarseDataTools-0.7.2/coarseDataTools/inst/doc/CFR_vignette.html | 436 +-- coarseDataTools-0.7.2/coarseDataTools/man/EMforCFR.Rd | 51 coarseDataTools-0.7.2/coarseDataTools/man/dic.fit.Rd | 6 coarseDataTools-0.7.2/coarseDataTools/man/dic.fit.mcmc.Rd | 4 coarseDataTools-0.7.2/coarseDataTools/man/exp.win.lengths.Rd | 2 coarseDataTools-0.7.2/coarseDataTools/man/fluA.inc.per.Rd | 2 coarseDataTools-0.7.2/coarseDataTools/man/nycH1N1.Rd | 2 coarseDataTools-0.7.2/coarseDataTools/vignettes/CFR_vignette.Rmd | 28 coarseDataTools-0.7.2/coarseDataTools/vignettes/CFR_vignette_cache/html/__packages | 6 coarseDataTools-0.7.2/coarseDataTools/vignettes/CFR_vignette_cache/html/runAnalysis_6f65817ffbd024efda42a802d57ff206.RData |only coarseDataTools-0.7.2/coarseDataTools/vignettes/CFR_vignette_cache/html/runAnalysis_6f65817ffbd024efda42a802d57ff206.rdb |only coarseDataTools-0.7.2/coarseDataTools/vignettes/CFR_vignette_cache/html/runAnalysis_6f65817ffbd024efda42a802d57ff206.rdx |only 32 files changed, 1725 insertions(+), 1757 deletions(-)
More information about coarseDataTools at CRAN
Permanent link
Title: Spatial Dynamic Panel Data Modeling
Description: Spatial model calculation for static and dynamic panel data models, weights matrix creation and Bayesian model comparison.
Bayesian model comparison methods were described by 'LeSage' (2014) <doi:10.1016/j.spasta.2014.02.002>.
The 'Lee'-'Yu' transformation approach is described in 'Yu', 'De Jong' and 'Lee' (2008) <doi:10.1016/j.jeconom.2008.08.002>, 'Lee' and 'Yu' (2010) <doi:10.1016/j.jeconom.2009.08.001> and 'Lee' and 'Yu' (2010) <doi:10.1017/S0266466609100099>.
Author: Rozeta Simonovska [aut, cre]
Maintainer: Rozeta Simonovska <simonovska.r@gmail.com>
Diff between SDPDmod versions 0.0.5 dated 2024-04-13 and 0.0.6 dated 2025-04-11
DESCRIPTION | 8 +-- MD5 | 34 ++++++------- NEWS.md | 4 + R/SDPDm.R | 56 +++++++++++++++------- R/SharedBMat.R | 3 - R/logdet.R | 10 +++- R/mOrdNbr.R | 3 - R/rownor.R | 3 - build/vignette.rds |binary inst/doc/spatial_matrices.html | 4 - inst/doc/spatial_model.R | 4 + inst/doc/spatial_model.Rmd | 4 + inst/doc/spatial_model.html | 101 +++++++++++++++++++++-------------------- man/SDPDm.Rd | 56 +++++++++++++++------- man/SharedBMat.Rd | 3 - man/mOrdNbr.Rd | 3 - man/rownor.Rd | 3 - vignettes/spatial_model.Rmd | 4 + 18 files changed, 184 insertions(+), 119 deletions(-)
Title: Syntactically Awesome Style Sheets ('Sass')
Description: An 'SCSS' compiler, powered by the 'LibSass' library. With this,
R developers can use variables, inheritance, and functions to generate
dynamic style sheets. The package uses the 'Sass CSS' extension language,
which is stable, powerful, and CSS compatible.
Author: Joe Cheng [aut],
Timothy Mastny [aut],
Richard Iannone [aut] ,
Barret Schloerke [aut] ,
Carson Sievert [aut, cre] ,
Christophe Dervieux [ctb] ,
RStudio [cph, fnd],
Sass Open Source Foundation [ctb, cph] ,
Greter Marcel [ctb, cph] ,
Mifsud Michael [ct [...truncated...]
Maintainer: Carson Sievert <carson@rstudio.com>
Diff between sass versions 0.4.9 dated 2024-03-15 and 0.4.10 dated 2025-04-11
sass-0.4.10/sass/DESCRIPTION | 8 +-- sass-0.4.10/sass/MD5 | 29 +++++------ sass-0.4.10/sass/NEWS.md | 6 ++ sass-0.4.10/sass/R/file_cache.R | 14 ++--- sass-0.4.10/sass/R/fonts.R | 24 +++++++-- sass-0.4.10/sass/README.md | 4 - sass-0.4.10/sass/build/vignette.rds |binary sass-0.4.10/sass/inst/doc/sass.R | 2 sass-0.4.10/sass/inst/doc/sass.html | 13 ++-- sass-0.4.10/sass/man/FileCache.Rd | 11 ---- sass-0.4.10/sass/src/Makevars | 18 ++++-- sass-0.4.10/sass/src/compile.c | 4 - sass-0.4.10/sass/tests/testthat/_snaps/font-objects.md | 12 ++++ sass-0.4.10/sass/tests/testthat/_snaps/font-objects/font-css | 6 +- sass-0.4.10/sass/tests/testthat/test-font-objects.R | 7 +- sass-0.4.9/sass/src/Makevars.win |only 16 files changed, 93 insertions(+), 65 deletions(-)
Title: An Automatic Suite for Estimation of Various Effect Size
Measures
Description: Automatically estimate 11 effect size measures from a well-formatted dataset. Various other functions can help, for example, removing dependency between several effect sizes, or identifying differences between two datasets.
This package is mainly designed to assist in conducting a systematic review with a meta-analysis but can be useful to any researcher interested in estimating an effect size.
Author: Corentin J. Gosling [aut, cre],
Samuele Cortese [aut],
Marco Solmi [aut],
Belen Haza [aut],
Eduard Vieta [aut],
Richard Delorme [aut],
Paolo Fusar-Poli [aut],
Joaquim Radua [aut]
Maintainer: Corentin J. Gosling <corentin.gosling@parisnanterre.fr>
Diff between metaConvert versions 1.0.2 dated 2024-11-17 and 1.0.3 dated 2025-04-11
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- NEWS.md | 4 ++++ R/es_from_PAIRED_MC.R | 1 - R/es_from_PAIRED_MEANS.R | 8 ++++---- R/es_from_stand_RR.R | 1 - R/functions_summary.R | 4 ++-- R/internal_generate_df.R | 7 +++++-- R/main_convert_df.R | 6 +++--- R/zzz.R | 9 +++------ inst/CITATION | 2 +- inst/doc/Tutorial.html | 16 ++++++++-------- 12 files changed, 44 insertions(+), 42 deletions(-)
Title: Tools for Outbreak Investigation/Infectious Disease Surveillance
Description: Create epicurves or epigantt charts in 'ggplot2'. Prepare
data for visualisation or other reporting for infectious disease
surveillance and outbreak investigation. Includes tidy functions to solve
date based transformations for common reporting tasks, like
(A) seasonal date alignment for respiratory disease surveillance,
(B) date-based case binning based on specified time intervals like
isoweek, epiweek, month and more, (C) automated detection and marking
of the new year based on the date/datetime axis of the 'ggplot2'.
An introduction on how to use epicurves can be found on the US CDC website
(2012, <https://www.cdc.gov/training/quicklearns/epimode/index.html>).
Author: Alexander Bartel [aut, cre]
Maintainer: Alexander Bartel <alexander.bartel@fu-berlin.de>
Diff between ggsurveillance versions 0.2.0 dated 2025-03-02 and 0.3.0 dated 2025-04-11
ggsurveillance-0.2.0/ggsurveillance/man/figures/ggepicurve_plot_readme.png |only ggsurveillance-0.3.0/ggsurveillance/DESCRIPTION | 16 ggsurveillance-0.3.0/ggsurveillance/MD5 | 67 ++- ggsurveillance-0.3.0/ggsurveillance/NAMESPACE | 18 - ggsurveillance-0.3.0/ggsurveillance/NEWS.md | 20 - ggsurveillance-0.3.0/ggsurveillance/R/align_dates_seasonal.R | 39 +- ggsurveillance-0.3.0/ggsurveillance/R/geom_epicurve.R | 6 ggsurveillance-0.3.0/ggsurveillance/R/geom_epigantt.R | 13 ggsurveillance-0.3.0/ggsurveillance/R/geom_vline_year.R | 131 ++++++- ggsurveillance-0.3.0/ggsurveillance/R/ggplot_theme_helpers.R |only ggsurveillance-0.3.0/ggsurveillance/R/reexport-tidyr.R | 10 ggsurveillance-0.3.0/ggsurveillance/R/scale_cases_5er.R | 44 +- ggsurveillance-0.3.0/ggsurveillance/R/utils.R | 25 + ggsurveillance-0.3.0/ggsurveillance/README.md | 46 +- ggsurveillance-0.3.0/ggsurveillance/inst/WORDLIST | 2 ggsurveillance-0.3.0/ggsurveillance/inst/doc/Epigantt_with_ggsurveillance.R | 7 ggsurveillance-0.3.0/ggsurveillance/inst/doc/Epigantt_with_ggsurveillance.Rmd | 7 ggsurveillance-0.3.0/ggsurveillance/inst/doc/Epigantt_with_ggsurveillance.html | 9 ggsurveillance-0.3.0/ggsurveillance/inst/doc/align_dates_seasonal.R | 5 ggsurveillance-0.3.0/ggsurveillance/inst/doc/align_dates_seasonal.Rmd | 9 ggsurveillance-0.3.0/ggsurveillance/inst/doc/align_dates_seasonal.html | 15 ggsurveillance-0.3.0/ggsurveillance/man/align_dates_seasonal.Rd | 6 ggsurveillance-0.3.0/ggsurveillance/man/figures/epigantt_plot_readme.png |only ggsurveillance-0.3.0/ggsurveillance/man/figures/logo_github_social_media.png |only ggsurveillance-0.3.0/ggsurveillance/man/geom_epicurve.Rd | 4 ggsurveillance-0.3.0/ggsurveillance/man/geom_epigantt.Rd | 5 ggsurveillance-0.3.0/ggsurveillance/man/geom_vline_year.Rd | 37 +- ggsurveillance-0.3.0/ggsurveillance/man/scale_y_cases_5er.Rd | 12 ggsurveillance-0.3.0/ggsurveillance/man/theme_mod_disable_legend.Rd |only ggsurveillance-0.3.0/ggsurveillance/man/theme_mod_remove_minor_grid.Rd |only ggsurveillance-0.3.0/ggsurveillance/man/theme_mod_rotate_axis_labels.Rd |only ggsurveillance-0.3.0/ggsurveillance/man/uncount.Rd | 5 ggsurveillance-0.3.0/ggsurveillance/tests/testthat/test-align_and_bin_dates_seasonal.R | 61 +++ ggsurveillance-0.3.0/ggsurveillance/tests/testthat/test-geom_epicurve.R | 18 - ggsurveillance-0.3.0/ggsurveillance/tests/testthat/test-geom_epigantt.R | 25 + ggsurveillance-0.3.0/ggsurveillance/tests/testthat/test-geom_vline_year.R | 177 +++++++++- ggsurveillance-0.3.0/ggsurveillance/vignettes/Epigantt_with_ggsurveillance.Rmd | 7 ggsurveillance-0.3.0/ggsurveillance/vignettes/align_dates_seasonal.Rmd | 9 38 files changed, 644 insertions(+), 211 deletions(-)
More information about ggsurveillance at CRAN
Permanent link
Title: Translate English Sentence into Chinese, or Translate Chinese
Sentence into English
Description: If translate English or Chinese sentence, there is a faster
way for R user. You can pass in an English or Chinese sentence, ecce
package support both English and Chinese translation. It also support
browse translation results in website. In addition, also support obtain
the pinyin of the Chinese character, you can more easily understand
the pronunciation of the Chinese character.
Author: Xinyuan Chu [aut, cre]
Maintainer: Xinyuan Chu <chuxinyuan@outlook.com>
Diff between ecce versions 3.0.2 dated 2024-06-27 and 3.0.3 dated 2025-04-11
DESCRIPTION | 14 LICENSE | 4 MD5 | 18 - R/pinyin.R | 334 ++++++++++---------- README.md | 122 +++---- build/vignette.rds |binary inst/doc/ecce.R | 92 ++--- inst/doc/ecce.Rmd | 168 +++++----- inst/doc/ecce.html | 883 ++++++++++++++++++++++++++--------------------------- vignettes/ecce.Rmd | 168 +++++----- 10 files changed, 902 insertions(+), 901 deletions(-)
Title: Install R Packages or Download File from GitHub via the Proxy
Site
Description: When you want to install R package or download file from GitHub,
but you can't access GitHub, this package helps you install R packages or
download file from GitHub via the proxy website <https://gh-proxy.com/>
or <https://ghfast.top/>, which is in real-time sync with GitHub.
Author: Xinyuan Chu [aut, cre]
Maintainer: Xinyuan Chu <chuxinyuan@outlook.com>
Diff between ipkg versions 1.1.2 dated 2025-02-27 and 1.1.3 dated 2025-04-11
DESCRIPTION | 12 +-- LICENSE | 4 - MD5 | 10 +- R/download_file.R | 190 ++++++++++++++++++++++++++--------------------------- R/install_github.R | 140 +++++++++++++++++++-------------------- README.md | 82 +++++++++++----------- 6 files changed, 219 insertions(+), 219 deletions(-)
Title: Get Basic Information from Chinese ID Number
Description: The Chinese ID number contains a lot of information,
this package helps you get the region, date of birth, age,
age based on year, gender, zodiac, constellation information from
the Chinese ID number.
Author: Xinyuan Chu [aut, cre]
Maintainer: Xinyuan Chu <chuxinyuan@outlook.com>
Diff between CNID versions 2.1.0 dated 2025-03-17 and 2.1.1 dated 2025-04-11
DESCRIPTION | 12 - MD5 | 22 +- R/age.R | 56 +++--- R/age_by_year.R | 56 +++--- R/birth_date.R | 56 +++--- R/check_id.R | 56 +++--- R/cnid_info.R | 468 ++++++++++++++++++++++++++++---------------------------- R/cstl.R | 56 +++--- R/gender.R | 56 +++--- R/region.R | 56 +++--- R/zodiac.R | 56 +++--- README.md | 4 12 files changed, 477 insertions(+), 477 deletions(-)
Title: Style Your Code Fast
Description: Provides a set of functions
that allow users for styling their R code according to
the 'tidyverse' style guide. The package uses a native
Rust implementation to ensure the highest performance.
Learn more about 'tergo' at <https://rtergo.pagacz.io>.
Author: Konrad Pagacz [aut, cre],
Maciej Nasinski [ctb],
The authors of the dependency Rust crates [ctb]
Maintainer: Konrad Pagacz <konrad.pagacz@gmail.com>
Diff between tergo versions 0.1.8 dated 2025-02-05 and 0.1.9 dated 2025-04-11
tergo-0.1.8/tergo/src/Makevars.ucrt |only tergo-0.1.9/tergo/DESCRIPTION | 13 tergo-0.1.9/tergo/LICENSE.note | 198 ------------ tergo-0.1.9/tergo/MD5 | 53 +-- tergo-0.1.9/tergo/R/extendr-wrappers.R | 7 tergo-0.1.9/tergo/R/styling.R | 109 +++++- tergo-0.1.9/tergo/build/vignette.rds |binary tergo-0.1.9/tergo/configure | 86 ----- tergo-0.1.9/tergo/configure.win | 67 ---- tergo-0.1.9/tergo/inst/AUTHORS | 125 +------ tergo-0.1.9/tergo/inst/doc/styling_with_tergo.Rmd | 1 tergo-0.1.9/tergo/inst/doc/styling_with_tergo.html | 6 tergo-0.1.9/tergo/man/get_default_config.Rd | 7 tergo-0.1.9/tergo/man/is_in_ignored_paths.Rd |only tergo-0.1.9/tergo/man/style.Rd | 1 tergo-0.1.9/tergo/man/style_file.Rd | 6 tergo-0.1.9/tergo/man/style_file_internal.Rd |only tergo-0.1.9/tergo/man/style_pkg.Rd | 1 tergo-0.1.9/tergo/man/style_text.Rd | 10 tergo-0.1.9/tergo/man/truncate_error.Rd |only tergo-0.1.9/tergo/src/Makevars.in | 55 ++- tergo-0.1.9/tergo/src/Makevars.win.in | 53 +-- tergo-0.1.9/tergo/src/rust/Cargo.lock | 331 +++------------------ tergo-0.1.9/tergo/src/rust/Cargo.toml | 11 tergo-0.1.9/tergo/src/rust/src/lib.rs | 271 ++++++++++------- tergo-0.1.9/tergo/src/rust/vendor-config.toml |only tergo-0.1.9/tergo/src/rust/vendor.tar.xz |binary tergo-0.1.9/tergo/tests |only tergo-0.1.9/tergo/tools/config.R |only tergo-0.1.9/tergo/tools/msrv.R |only tergo-0.1.9/tergo/vignettes/styling_with_tergo.Rmd | 1 31 files changed, 471 insertions(+), 941 deletions(-)
Title: DBI/RJDBC Interface to H2 Database
Description: DBI/RJDBC interface to h2 database. h2 version 2.3.232 is included.
Author: G. Grothendieck [aut],
"David M. Kaplan" [cre]
Maintainer: "David M. Kaplan" <dmkaplan2000@gmail.com>
Diff between RH2 versions 0.2.4 dated 2018-03-14 and 0.2.5 dated 2025-04-11
RH2-0.2.4/RH2/inst/java/h2-1.3.175.jar |only RH2-0.2.5/RH2/DESCRIPTION | 25 +++++++++++++++++-------- RH2-0.2.5/RH2/MD5 | 14 +++++++------- RH2-0.2.5/RH2/NAMESPACE | 16 +++++++++++++--- RH2-0.2.5/RH2/NEWS | 6 ++++++ RH2-0.2.5/RH2/README.md | 2 +- RH2-0.2.5/RH2/inst/java/h2-2.3.232.jar |only RH2-0.2.5/RH2/java/README | 6 +++++- RH2-0.2.5/RH2/man/H2Connection-class.Rd | 4 ++-- 9 files changed, 51 insertions(+), 22 deletions(-)
Title: International Geomagnetic Reference Field
Description: The 14th generation International Geomagnetic Reference Field (IGRF).
A standard spherical harmonic representation of the Earth's main field.
Author: Koen Hufkens [aut, cre] ,
BlueGreen Labs [cph, fnd]
Maintainer: Koen Hufkens <koen.hufkens@gmail.com>
Diff between igrf versions 1.0 dated 2022-01-07 and 2.0 dated 2025-04-11
igrf-1.0/igrf/src/igrf13.f |only igrf-2.0/igrf/DESCRIPTION | 17 - igrf-2.0/igrf/MD5 | 21 - igrf-2.0/igrf/R/igrf.R | 8 igrf-2.0/igrf/build/vignette.rds |binary igrf-2.0/igrf/inst/CITATION |only igrf-2.0/igrf/inst/doc/igrf.R | 4 igrf-2.0/igrf/inst/doc/igrf.Rmd | 4 igrf-2.0/igrf/inst/doc/igrf.html | 462 ++++++++++++++++++++++++++++----------- igrf-2.0/igrf/src/Makevars | 6 igrf-2.0/igrf/src/igrf14.f |only igrf-2.0/igrf/src/wrapper.c | 10 igrf-2.0/igrf/vignettes/igrf.Rmd | 4 13 files changed, 373 insertions(+), 163 deletions(-)
Title: Easy Study of Patient DICOM Data in Oncology
Description: Exploitation, processing and 2D-3D visualization of DICOM-RT files (structures, dosimetry, imagery) for medical physics and clinical research, in a patient-oriented perspective.
Author: Cathy Fontbonne [aut, cre] ,
Jean-Marc Fontbonne [aut] ,
Nathan Azemar [ctb]
Maintainer: Cathy Fontbonne <contact.espadon@lpccaen.in2p3.fr>
Diff between espadon versions 1.10.0 dated 2025-02-05 and 1.11.0 dated 2025-04-11
DESCRIPTION | 6 MD5 | 66 ++-- NAMESPACE | 2 R/bin_from_roi.R | 6 R/dicom_browser.R | 23 - R/dicom_parser.R | 44 -- R/dicom_patient_anonymiser.R | 16 - R/dicom_raw_data_anonymizer.R | 411 +++++++++++++++++++------- R/dicom_viewer.R | 2 R/err_metrics_from_roi.R | 112 +++++-- R/espadon_hidden.R | 4 R/export.R | 72 ---- R/load_Rdcm_raw_data.R | 4 R/struct_update_roiinfo.R |only R/study_deployment.R | 2 build/partial.rdb |binary build/stage23.rdb |binary build/vignette.rds |binary inst/doc/espadon_overview.Rmd | 2 inst/doc/espadon_overview.html | 42 +- man/dicom.patient.anonymiser.Rd | 12 man/dicom.raw.data.anonymizer.Rd | 12 man/err.metrics.from.roi.Rd | 30 + man/struct.update_roiinfo.Rd |only src/RcppExports.cpp | 2 src/dicombrowser.cpp | 601 +++++++++++++++++++++++++++++++++------ src/fantovoxelC.cpp | 2 src/gammaindex.cpp | 2 src/labelbrowser.cpp | 2 src/mdcC.cpp | 2 src/meshinfront.cpp | 2 src/ouline2voxC.cpp | 2 src/ptinpolygonC.cpp | 2 src/ptnearestC.cpp | 2 vignettes/espadon_overview.Rmd | 2 35 files changed, 1076 insertions(+), 413 deletions(-)
Title: Visualizing the Elements Within Bio-Sequences
Description: Visualizing the types and distribution of elements within
bio-sequences. At the same time, We have developed a geom layer,
geom_rrect(), that can generate rounded rectangles. No external references
are used in the development of this package.
Author: Shiqi Zhao [aut, cre, cph]
Maintainer: Shiqi Zhao <zhaosq89@163.com>
Diff between BioVizSeq versions 1.0.2 dated 2025-03-20 and 1.0.3 dated 2025-04-11
BioVizSeq-1.0.2/BioVizSeq/inst/extdata/meme.xml |only BioVizSeq-1.0.3/BioVizSeq/DESCRIPTION | 8 BioVizSeq-1.0.3/BioVizSeq/MD5 | 51 ++- BioVizSeq-1.0.3/BioVizSeq/NAMESPACE | 4 BioVizSeq-1.0.3/BioVizSeq/NEWS.md | 7 BioVizSeq-1.0.3/BioVizSeq/R/combi_plot.R | 60 ++- BioVizSeq-1.0.3/BioVizSeq/R/globalvariables.R | 3 BioVizSeq-1.0.3/BioVizSeq/R/meme_plot.R | 14 BioVizSeq-1.0.3/BioVizSeq/R/plantcare_plot.R | 167 +++++++++- BioVizSeq-1.0.3/BioVizSeq/README.md | 17 - BioVizSeq-1.0.3/BioVizSeq/inst/extdata/group_class.csv |only BioVizSeq-1.0.3/BioVizSeq/inst/shinyapp/app.R | 9 BioVizSeq-1.0.3/BioVizSeq/inst/shinyapp/global.R | 2 BioVizSeq-1.0.3/BioVizSeq/inst/shinyapp/script/mod_advplot2.R |only BioVizSeq-1.0.3/BioVizSeq/inst/shinyapp/script/mod_plantcareplot.R | 2 BioVizSeq-1.0.3/BioVizSeq/inst/shinyapp/script/mod_plantcareplot2.R |only BioVizSeq-1.0.3/BioVizSeq/inst/shinyapp/www/html/README.html | 23 - BioVizSeq-1.0.3/BioVizSeq/man/figures |only BioVizSeq-1.0.3/BioVizSeq/man/meme_plot.Rd | 7 BioVizSeq-1.0.3/BioVizSeq/man/meme_seq.Rd | 4 BioVizSeq-1.0.3/BioVizSeq/man/meme_to_loc.Rd | 3 BioVizSeq-1.0.3/BioVizSeq/man/plantcare_plot1.Rd |only BioVizSeq-1.0.3/BioVizSeq/man/plantcare_plot2.Rd |only BioVizSeq-1.0.3/BioVizSeq/man/plantcare_plot3.Rd |only 24 files changed, 299 insertions(+), 82 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-03-18 0.1.6
2022-03-01 0.1.5
2022-01-24 0.1.4
Title: Acoustic Template Detection in R
Description: Acoustic template detection and monitoring database interface. Create, modify, save, and use templates for detection of animal vocalizations. View, verify, and extract results. Upload a MySQL schema to a existing instance, manage survey metadata, write and read templates and detections locally or to the database.
Author: Sasha D. Hafner [aut, cre] ,
Jon Katz [aut],
Jerome Sueur [aut] ),
Thierry Aubin [aut] ),
Caroline Simonis [aut] ),
Uwe Ligges [aut] used in
monitoR)),
Therese Donovan [ctb]
Maintainer: Sasha D. Hafner <sasha.hafner@bce.au.dk>
Diff between monitoR versions 1.0.7 dated 2018-02-14 and 1.2 dated 2025-04-11
monitoR-1.0.7/monitoR/NEWS |only monitoR-1.0.7/monitoR/README |only monitoR-1.2/monitoR/ChangeLog | 17 + monitoR-1.2/monitoR/DESCRIPTION | 54 +++ monitoR-1.2/monitoR/MD5 | 153 ++++----- monitoR-1.2/monitoR/NAMESPACE | 2 monitoR-1.2/monitoR/NEWS.md |only monitoR-1.2/monitoR/R/Classes.R | 56 +-- monitoR-1.2/monitoR/R/Methods-index.R | 6 monitoR-1.2/monitoR/R/Methods-plot.R | 114 +++---- monitoR-1.2/monitoR/R/Methods-show.R | 28 - monitoR-1.2/monitoR/R/batchBinMatch.R | 28 - monitoR-1.2/monitoR/R/batchCorMatch.R | 30 - monitoR-1.2/monitoR/R/binMatch.R | 11 monitoR-1.2/monitoR/R/bindEvents.R | 22 - monitoR-1.2/monitoR/R/changeSampRate.R | 16 - monitoR-1.2/monitoR/R/collapseClips.R | 10 monitoR-1.2/monitoR/R/combineBinTemplates.R | 9 monitoR-1.2/monitoR/R/combineCorTemplates.R | 11 monitoR-1.2/monitoR/R/compareTemplates.R | 18 - monitoR-1.2/monitoR/R/corMatch.R | 61 +-- monitoR-1.2/monitoR/R/cutWave.R | 30 + monitoR-1.2/monitoR/R/dbDownloadCardRecorderID.R | 8 monitoR-1.2/monitoR/R/dbDownloadResult.R | 32 +- monitoR-1.2/monitoR/R/dbDownloadSurvey.R | 18 - monitoR-1.2/monitoR/R/dbDownloadTemplate.R | 33 +- monitoR-1.2/monitoR/R/dbSchema.R | 22 - monitoR-1.2/monitoR/R/dbUploadAnno.R | 16 - monitoR-1.2/monitoR/R/dbUploadResult.R | 26 - monitoR-1.2/monitoR/R/dbUploadSurvey.R | 32 +- monitoR-1.2/monitoR/R/dbUploadTemplate.R | 20 - monitoR-1.2/monitoR/R/eventEval.R | 27 - monitoR-1.2/monitoR/R/fileCopyRename.R | 54 +-- monitoR-1.2/monitoR/R/findDetections.R | 10 monitoR-1.2/monitoR/R/findPeaks.R | 20 - monitoR-1.2/monitoR/R/getClip.R | 37 +- monitoR-1.2/monitoR/R/getDetections.R | 6 monitoR-1.2/monitoR/R/getPeaks.R | 6 monitoR-1.2/monitoR/R/getTemplates.R | 6 monitoR-1.2/monitoR/R/makeBinTemplate.R | 312 ++++++++++---------- monitoR-1.2/monitoR/R/makeCorTemplate.R | 107 +++--- monitoR-1.2/monitoR/R/mp3Subsamp.R | 46 +- monitoR-1.2/monitoR/R/readBinTemplates.R | 20 - monitoR-1.2/monitoR/R/readCorTemplates.R | 20 - monitoR-1.2/monitoR/R/readMP3.R | 14 monitoR-1.2/monitoR/R/readOneBinTemplate.R | 2 monitoR-1.2/monitoR/R/readOneCorTemplate.R | 2 monitoR-1.2/monitoR/R/showPeaks.R | 98 +++--- monitoR-1.2/monitoR/R/specCols.R | 10 monitoR-1.2/monitoR/R/spectro.R | 2 monitoR-1.2/monitoR/R/templateComment.R | 2 monitoR-1.2/monitoR/R/templateCutoff.R | 4 monitoR-1.2/monitoR/R/templateNames.R | 2 monitoR-1.2/monitoR/R/templatePath.R | 2 monitoR-1.2/monitoR/R/timeAlign.R | 17 - monitoR-1.2/monitoR/R/viewSpec.R | 218 ++++++------- monitoR-1.2/monitoR/R/writeBinTemplates.R | 10 monitoR-1.2/monitoR/R/writeCorTemplates.R | 10 monitoR-1.2/monitoR/R/writeOneBinTemplate.R | 66 ++-- monitoR-1.2/monitoR/R/writeOneCorTemplate.R | 64 ++-- monitoR-1.2/monitoR/build/vignette.rds |binary monitoR-1.2/monitoR/data/btnw.rda |binary monitoR-1.2/monitoR/data/oven.rda |binary monitoR-1.2/monitoR/data/survey.rda |binary monitoR-1.2/monitoR/data/survey_anno.rda |binary monitoR-1.2/monitoR/inst/CITATION | 8 monitoR-1.2/monitoR/inst/doc/monitoR_QuickStart.R | 8 monitoR-1.2/monitoR/inst/doc/monitoR_QuickStart.pdf |binary monitoR-1.2/monitoR/man/TemplateList-class.Rd | 2 monitoR-1.2/monitoR/man/bindEvents.Rd | 2 monitoR-1.2/monitoR/man/combineTemplates.Rd | 2 monitoR-1.2/monitoR/man/dbSchema.Rd | 2 monitoR-1.2/monitoR/man/fileCopyRename.Rd | 4 monitoR-1.2/monitoR/man/makeTemplate.Rd | 5 monitoR-1.2/monitoR/man/monitoR-package.Rd | 2 monitoR-1.2/monitoR/man/mp3Subsamp.Rd | 2 monitoR-1.2/monitoR/man/readMP3.Rd | 4 monitoR-1.2/monitoR/man/templateMatching.Rd | 2 monitoR-1.2/monitoR/man/viewSpec.Rd | 2 79 files changed, 1101 insertions(+), 1021 deletions(-)
Title: Censored Regression with Smooth Terms
Description: Implementation of Tobit type I and type II families for censored regression using the 'mgcv' package, based on methods detailed in Woods (2016) <doi:10.1080/01621459.2016.1180986>.
Author: Zhou Fang [aut, cre]
Maintainer: Zhou Fang <zhou.fang@bioss.ac.uk>
Diff between cenGAM versions 0.5.3 dated 2017-08-30 and 0.5.4 dated 2025-04-11
DESCRIPTION | 16 ++++++++++------ MD5 | 6 +++--- man/tobit1.Rd | 4 ++-- man/tobit2.Rd | 2 +- 4 files changed, 16 insertions(+), 12 deletions(-)
Title: Clinical Trial Style Data Readout Listings
Description: Listings are often part of the submission of clinical trial
data in regulatory settings. We provide a framework for the specific
formatting features often used when displaying large datasets in that
context.
Author: Gabriel Becker [aut] ,
Adrian Waddell [aut],
Joe Zhu [aut, cre] ,
Davide Garolini [aut] ,
Emily de la Rua [aut] ,
Abinaya Yogasekaram [ctb] ,
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Joe Zhu <joe.zhu@roche.com>
Diff between rlistings versions 0.2.10 dated 2025-01-08 and 0.2.11 dated 2025-04-11
DESCRIPTION | 25 +- MD5 | 49 ++-- NEWS.md | 5 R/rlistings.R | 161 ++++++++++++- R/rlistings_methods.R | 42 ++- build/vignette.rds |binary inst/WORDLIST | 4 inst/doc/col_formatting.html | 90 +++---- inst/doc/large_list.R |only inst/doc/large_list.Rmd |only inst/doc/large_list.html |only inst/doc/pagination.html | 6 inst/doc/ref_footnotes.html | 6 inst/doc/rlistings.html | 32 +- man/listing_methods.Rd | 14 + man/listings.Rd | 13 + man/make_row_df-listing_df-method.Rd | 7 man/matrix_form-listing_df-method.Rd | 7 man/rlistings-package.Rd | 6 man/vec_nlines.Rd | 16 + tests/testthat/_snaps/paginate_listing.md | 360 ++++++++++++++++++++++++++++-- tests/testthat/_snaps/print.md | 13 + tests/testthat/setup.R | 8 tests/testthat/test-listings.R | 69 +++++ tests/testthat/test-paginate_listing.R | 83 ++++++ tests/testthat/test-print.R | 106 ++++++++ vignettes/large_list.Rmd |only vignettes/rlisting_time.png |only 28 files changed, 959 insertions(+), 163 deletions(-)
Title: The Residual-Based Predictiveness Curve
Description: The RBP curve is a visual tool to assess the
performance of prediction models.
Author: Giuseppe Casalicchio [cre, aut]
,
Bernd Bischl [ctb]
Maintainer: Giuseppe Casalicchio <giuseppe.casalicchio@stat.uni-muenchen.de>
Diff between RBPcurve versions 1.2 dated 2017-05-15 and 1.3 dated 2025-04-11
DESCRIPTION | 22 +++-- MD5 | 16 +-- R/addWellCalib.R | 228 ++++++++++++++++++++++++++-------------------------- README.md | 19 ++-- man/addGoodCalib.Rd | 10 +- man/addPEV.Rd | 9 +- man/addRates.Rd | 10 +- man/addWellCalib.Rd | 11 +- man/plotRBPCurve.Rd | 18 +++- 9 files changed, 191 insertions(+), 152 deletions(-)
Title: Vegetation Phenological Cycle and Anomaly Detection using Remote
Sensing Data
Description: Calculates phenological cycle and anomalies using a non-parametric
approach applied to time series of vegetation indices derived from remote sensing data
or field measurements. The package implements basic and high-level functions for
manipulating vector data (numerical series) and raster data (satellite derived products).
Processing of very large raster files is supported. For more information, please check
the following paper:
Chávez et al. (2023) <doi:10.3390/rs15010073>.
Author: Roberto O. Chavez [aut] ,
Sergio A. Estay [aut] ,
Jose A. Lastra [cre, ctb] ,
Carlos G. Riquelme [ctb]
Maintainer: Jose A. Lastra <jose.lastra@pucv.cl>
Diff between npphen versions 2.0.0 dated 2023-10-12 and 2.0.1 dated 2025-04-11
DESCRIPTION | 22 ++++++++++++++++------ MD5 | 18 +++++++++--------- R/ExtremeAnoMap.R | 4 ++-- R/ExtremeAnom.R | 4 ++-- R/PhenKplot.R | 4 ++-- man/ExtremeAnoMap.Rd | 12 ++++++------ man/ExtremeAnom.Rd | 4 ++-- man/Phen.Rd | 2 +- man/PhenKplot.Rd | 10 +++++----- man/npphen.Rd | 4 ++-- 10 files changed, 47 insertions(+), 37 deletions(-)
Title: Visualisations for Generalized Additive Models
Description: Extension of the 'mgcv' package, providing visual tools for Generalized Additive Models that exploit the additive structure of such models, scale to large data sets and can be used in conjunction with a wide range of response distributions. The focus is providing visual methods for better understanding the model output and for aiding model checking and development beyond simple exponential family regression. The graphical framework is based on the layering system provided by 'ggplot2'.
Author: Matteo Fasiolo [aut, cre],
Raphael Nedellec [aut],
Yannig Goude [ctb],
Christian Capezza [ctb],
Simon N. Wood [ctb]
Maintainer: Matteo Fasiolo <matteo.fasiolo@gmail.com>
Diff between mgcViz versions 0.1.11 dated 2023-10-06 and 0.2.0 dated 2025-04-11
mgcViz-0.1.11/mgcViz/R/I_prepareInnerSI.R |only mgcViz-0.1.11/mgcViz/R/I_prepareNested.R |only mgcViz-0.2.0/mgcViz/DESCRIPTION | 12 +-- mgcViz-0.2.0/mgcViz/MD5 | 86 ++++++++++++------------- mgcViz-0.2.0/mgcViz/NAMESPACE | 2 mgcViz-0.2.0/mgcViz/R/I_getDataTypeY.R | 2 mgcViz-0.2.0/mgcViz/R/I_getResTypeAndMethod.R | 16 ++-- mgcViz-0.2.0/mgcViz/R/I_prepareInnerNested.R |only mgcViz-0.2.0/mgcViz/R/I_prepareOuterNested.R |only mgcViz-0.2.0/mgcViz/R/L_ciBar.R | 2 mgcViz-0.2.0/mgcViz/R/L_ciLine.R | 2 mgcViz-0.2.0/mgcViz/R/L_ciPoly.R | 3 mgcViz-0.2.0/mgcViz/R/L_dens1D.R | 4 - mgcViz-0.2.0/mgcViz/R/L_dens2D.R | 3 mgcViz-0.2.0/mgcViz/R/L_fitBar.R | 2 mgcViz-0.2.0/mgcViz/R/L_fitContour.R | 2 mgcViz-0.2.0/mgcViz/R/L_fitLine.R | 2 mgcViz-0.2.0/mgcViz/R/L_fitPoints.R | 2 mgcViz-0.2.0/mgcViz/R/L_fitRaster.R | 2 mgcViz-0.2.0/mgcViz/R/L_glyphs2D.R | 2 mgcViz-0.2.0/mgcViz/R/L_hist.R | 4 - mgcViz-0.2.0/mgcViz/R/L_points.R | 5 - mgcViz-0.2.0/mgcViz/R/L_rug.R | 4 - mgcViz-0.2.0/mgcViz/R/check2D.R | 2 mgcViz-0.2.0/mgcViz/R/check_gamViz.R | 6 + mgcViz-0.2.0/mgcViz/R/getViz.R | 2 mgcViz-0.2.0/mgcViz/R/listLayers.R | 2 mgcViz-0.2.0/mgcViz/R/plotRGL_mgcv_smooth_2D.R | 2 mgcViz-0.2.0/mgcViz/R/plotRGL_mgcv_smooth_MD.R | 2 mgcViz-0.2.0/mgcViz/R/plot_gamViz.R | 2 mgcViz-0.2.0/mgcViz/R/plot_mgamViz.R | 2 mgcViz-0.2.0/mgcViz/R/plot_mgcv_smooth_2D.R | 14 +++- mgcViz-0.2.0/mgcViz/R/plot_nested1D.R |only mgcViz-0.2.0/mgcViz/R/plot_sos_smooth.R | 2 mgcViz-0.2.0/mgcViz/R/postSim.R | 6 - mgcViz-0.2.0/mgcViz/R/print_plotGam.R | 5 - mgcViz-0.2.0/mgcViz/R/qq_gamViz.R | 2 mgcViz-0.2.0/mgcViz/R/simulate_gam.R | 4 - mgcViz-0.2.0/mgcViz/R/sm.R | 4 - mgcViz-0.2.0/mgcViz/inst/doc/mgcviz.html | 30 ++++---- mgcViz-0.2.0/mgcViz/man/getViz.Rd | 2 mgcViz-0.2.0/mgcViz/man/l_glyphs2D.Rd | 4 - mgcViz-0.2.0/mgcViz/man/plot.gamViz.Rd | 2 mgcViz-0.2.0/mgcViz/man/plot.mgamViz.Rd | 2 mgcViz-0.2.0/mgcViz/man/plot.nested1D.Rd |only mgcViz-0.2.0/mgcViz/man/postSim.Rd | 6 - mgcViz-0.2.0/mgcViz/man/simulate.gam.Rd | 4 - 47 files changed, 143 insertions(+), 121 deletions(-)
Title: Easily Downloads a Gene Expression Dataset from a GEO Code and
Retrieves the Gene Symbols of Its Probesets
Description: A function that reads in the GEO code of a gene expression dataset, retrieves its data from GEO, (optionally) retrieves the gene symbols of the dataset, and returns a simple dataframe table containing all the data. Platforms available: GPL11532, GPL23126, GPL6244, GPL8300, GPL80, GPL96, GPL570, GPL571, GPL20115, GPL1293, GPL6102, GPL6104, GPL6883, GPL6884, GPL13497, GPL14550, GPL17077, GPL6480. GEO: Gene Expression Omnibus. ID: identifier code. The GEO datasets are downloaded from the URL <https://ftp.ncbi.nlm.nih.gov/geo/series/>. More information can be found in the following manuscript: Davide Chicco, "geneExpressionFromGEO: an R package to facilitate data reading from Gene Expression Omnibus (GEO)". Microarray Data Analysis, Methods in Molecular Biology, volume 2401, chapter 12, pages 187-194, Springer Protocols, 2021, <doi:10.1007/978-1-0716-1839-4_12>.
Author: Davide Chicco [aut, cre]
Maintainer: Davide Chicco <davidechicco@davidechicco.it>
Diff between geneExpressionFromGEO versions 0.9 dated 2021-12-16 and 1.2 dated 2025-04-11
DESCRIPTION | 11 +- MD5 | 12 +- R/geneExpressionFromGEO.r | 18 +++- build/vignette.rds |binary inst/doc/geneExpressionFromGEOvignette.R | 2 inst/doc/geneExpressionFromGEOvignette.html | 117 ++++++++++++++++++---------- man/getGeneExpressionFromGEO.Rd | 2 7 files changed, 104 insertions(+), 58 deletions(-)
More information about geneExpressionFromGEO at CRAN
Permanent link
Title: Ecological Inference of RxC Tables by Overdispersed-Multinomial
Models
Description: Estimates RxC (R by C) vote transfer matrices (ecological contingency tables) from aggregate data using the model described in Forcina et al. (2012), as extension of the model proposed in Brown and Payne (1986). Allows incorporation of covariates.
References:
Brown, P. and Payne, C. (1986). ''Aggregate data, ecological regression and voting transitions''. Journal of the American Statistical Association, 81, 453–460. <DOI:10.1080/01621459.1986.10478290>.
Forcina, A., Gnaldi, M. and Bracalente, B. (2012). ''A revised Brown and Payne model of voting behaviour applied to the 2009 elections in Italy''. Statistical Methods & Applications, 21, 109–119. <DOI:10.1007/s10260-011-0184-x>.
Author: Antonio Forcina [aut] ,
Jose M. Pavia [aut, cre]
Maintainer: Jose M. Pavia <jose.m.pavia@uv.es>
Diff between eiCircles versions 0.0.1-7 dated 2024-03-24 and 0.0.1-12 dated 2025-04-11
DESCRIPTION | 8 - MD5 | 18 ++- NAMESPACE | 5 + NEWS.md | 11 +- R/BPF.R | 79 ++++++++++++----- R/auxiliary_functions.R | 174 ++++++++++++++++++++++++++++++++++++-- R/simula_BPF.R |only R/simula_BPF_with_deviations.R |only build/partial.rdb |binary man/BPF.Rd | 39 +++++--- man/simula_BPF.Rd |only man/simula_BPF_with_deviations.Rd |only 12 files changed, 278 insertions(+), 56 deletions(-)
Title: A Copula-Based Clustering Algorithm
Description: A copula based clustering algorithm that finds clusters according to the complex multivariate dependence structure of the data generating process. The updated version of the algorithm is described in Di Lascio, F.M.L. and Giannerini, S. (2019). "Clustering dependent observations with copula functions". Statistical Papers, 60, p.35-51. <doi:10.1007/s00362-016-0822-3>.
Author: Francesca Marta Lilja Di Lascio [aut, cre],
Simone Giannerini [aut]
Maintainer: Francesca Marta Lilja Di Lascio <marta.dilascio@unibz.it>
Diff between CoClust versions 0.3-2 dated 2017-12-17 and 1.0-0 dated 2025-04-11
ChangeLog | 5 +++ DESCRIPTION | 22 +++++++++++----- MD5 | 14 +++++----- R/CoClust.R | 17 +++++++------ R/Internal_functions.R | 3 +- inst/CITATION | 64 +++++++++++++++++++++++-------------------------- man/CoClust-class.Rd | 29 ++++++++++------------ man/CoClust.Rd | 19 +++++++------- 8 files changed, 94 insertions(+), 79 deletions(-)
Title: Course-Dependent Skill Structures
Description: Deriving skill structures from skill assignment
data for courses (sets of learning objects).
Author: Cord Hockemeyer [aut, cre]
Maintainer: Cord Hockemeyer <cord.hockemeyer@uni-graz.at>
Diff between CDSS versions 0.2-0 dated 2023-10-08 and 0.3-0 dated 2025-04-11
CDSS-0.2-0/CDSS/R/binary_matrix_product.R |only CDSS-0.2-0/CDSS/R/close_ar.R |only CDSS-0.2-0/CDSS/R/read_skll_assignments_csv.R |only CDSS-0.2-0/CDSS/R/read_skll_assignments_ods.R |only CDSS-0.2-0/CDSS/R/read_skll_assignments_xlsx.R |only CDSS-0.2-0/CDSS/R/reduce_sf.R |only CDSS-0.2-0/CDSS/man/binary_matrix_product.Rd |only CDSS-0.2-0/CDSS/man/close_ar.Rd |only CDSS-0.2-0/CDSS/man/read_skill_assignment_csv.Rd |only CDSS-0.2-0/CDSS/man/read_skill_assignment_ods.Rd |only CDSS-0.2-0/CDSS/man/read_skill_assignment_xlsx.Rd |only CDSS-0.2-0/CDSS/man/reduce_sf.Rd |only CDSS-0.3-0/CDSS/Changelog | 4 CDSS-0.3-0/CDSS/DESCRIPTION | 10 +- CDSS-0.3-0/CDSS/MD5 | 56 ++++++----- CDSS-0.3-0/CDSS/NAMESPACE | 17 ++- CDSS-0.3-0/CDSS/R/CDSS-package.R | 4 CDSS-0.3-0/CDSS/R/cdss_binary_matrix_product.R |only CDSS-0.3-0/CDSS/R/cdss_close_ar.R |only CDSS-0.3-0/CDSS/R/cdss_lo_csma2sf.R |only CDSS-0.3-0/CDSS/R/cdss_lo_sa2af.R |only CDSS-0.3-0/CDSS/R/cdss_lo_sa2ar.R |only CDSS-0.3-0/CDSS/R/cdss_read_skll_assignments_csv.R |only CDSS-0.3-0/CDSS/R/cdss_read_skll_assignments_ods.R |only CDSS-0.3-0/CDSS/R/cdss_read_skll_assignments_xlsx.R |only CDSS-0.3-0/CDSS/R/cdss_reduce_sf.R |only CDSS-0.3-0/CDSS/R/cdss_sa2ar_skill.R | 84 ++++++++--------- CDSS-0.3-0/CDSS/R/cdss_wf_read_skill_assignment.R |only CDSS-0.3-0/CDSS/inst/extdata/KST-Intro.ods |binary CDSS-0.3-0/CDSS/inst/extdata/KST.ods |binary CDSS-0.3-0/CDSS/man/CDSS.Rd | 4 CDSS-0.3-0/CDSS/man/cdss_binary_matrix_product.Rd |only CDSS-0.3-0/CDSS/man/cdss_close_ar.Rd |only CDSS-0.3-0/CDSS/man/cdss_lo_csma2sf.Rd |only CDSS-0.3-0/CDSS/man/cdss_lo_sa2af.Rd |only CDSS-0.3-0/CDSS/man/cdss_lo_sa2ar.Rd |only CDSS-0.3-0/CDSS/man/cdss_read_skill_assignment_csv.Rd |only CDSS-0.3-0/CDSS/man/cdss_read_skill_assignment_ods.Rd |only CDSS-0.3-0/CDSS/man/cdss_read_skill_assignment_xlsx.Rd |only CDSS-0.3-0/CDSS/man/cdss_reduce_sf.Rd |only CDSS-0.3-0/CDSS/man/cdss_sa2ar_skill.Rd | 3 CDSS-0.3-0/CDSS/man/cdss_sa2sma.Rd | 2 CDSS-0.3-0/CDSS/man/cdss_sa_describes_sr.Rd | 1 CDSS-0.3-0/CDSS/man/cdss_tables2sa.Rd | 2 CDSS-0.3-0/CDSS/man/cdss_wf_read_skill_assignment.Rd |only 45 files changed, 105 insertions(+), 82 deletions(-)
Title: 'Rcpp' Bindings for the 'Corpus Workbench' ('CWB')
Description: 'Rcpp' Bindings for the C code of the 'Corpus Workbench' ('CWB'), an indexing and query
engine to efficiently analyze large corpora (<https://cwb.sourceforge.io>). 'RcppCWB' is licensed
under the GNU GPL-3, in line with the GPL-3 license of the 'CWB' (<https://www.r-project.org/Licenses/GPL-3>).
The 'CWB' relies on 'pcre2' (BSD license, see <https://github.com/PCRE2Project/pcre2/blob/master/LICENCE.md>)
and 'GLib' (LGPL license, see <https://www.gnu.org/licenses/lgpl-3.0.en.html>).
See the file LICENSE.note for further information. The package includes modified code of the
'rcqp' package (GPL-2, see <https://cran.r-project.org/package=rcqp>). The original work of the authors
of the 'rcqp' package is acknowledged with great respect, and they are listed as authors of this
package. To achieve cross-platform portability (including Windows), using 'Rcpp' for wrapper code
is the approach used by 'RcppCWB'.
Author: Andreas Blaette [aut, cre],
Bernard Desgraupes [aut],
Sylvain Loiseau [aut],
Oliver Christ [ctb],
Bruno Maximilian Schulze [ctb],
Stephanie Evert [ctb],
Arne Fitschen [ctb],
Jeroen Ooms [ctb],
Marius Bertram [ctb],
Tomas Kalibera [ctb]
Maintainer: Andreas Blaette <andreas.blaette@uni-due.de>
Diff between RcppCWB versions 0.6.6 dated 2025-03-30 and 0.6.7 dated 2025-04-11
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- inst/doc/vignette.html | 4 ++-- src/cwb/cl/makecomps.c | 9 ++++++++- src/cwb/definitions.mk | 2 +- src/cwb/utils/cwb-huffcode.c | 7 +++++++ 6 files changed, 27 insertions(+), 13 deletions(-)
Title: Demographic Modelling Using Projection Matrices
Description: Tools for modelling populations and demography using matrix projection models,
with deterministic and stochastic model implementations. Includes population projection,
indices of short- and long-term population size and growth, perturbation analysis,
convergence to stability or stationarity, and diagnostic and manipulation tools.
Author: Iain Stott [aut, cre],
Dave Hodgson [aut],
Stuart Townley [aut],
Stephen Ellner [ctb]
Maintainer: Iain Stott <iainmstott@gmail.com>
Diff between popdemo versions 1.3-1 dated 2021-11-16 and 1.3-2 dated 2025-04-11
popdemo-1.3-1/popdemo/data/Pbear.R |only popdemo-1.3-1/popdemo/data/Tort.R |only popdemo-1.3-2/popdemo/ChangeLog | 1 popdemo-1.3-2/popdemo/DESCRIPTION | 8 popdemo-1.3-2/popdemo/MD5 | 42 ++-- popdemo-1.3-2/popdemo/NAMESPACE | 1 popdemo-1.3-2/popdemo/R/S3-plot.tfam.R | 2 popdemo-1.3-2/popdemo/R/popdemo-deprecated.R | 1 popdemo-1.3-2/popdemo/R/popdemo-onAttach.R | 2 popdemo-1.3-2/popdemo/R/popdemo-package.R | 2 popdemo-1.3-2/popdemo/R/tfa_inertia.R | 2 popdemo-1.3-2/popdemo/R/tfs_inertia&tfsm_inertia.R | 6 popdemo-1.3-2/popdemo/build/vignette.rds |binary popdemo-1.3-2/popdemo/data/Pbear.rda |only popdemo-1.3-2/popdemo/data/Tort.rda |only popdemo-1.3-2/popdemo/inst/doc/popdemo.R | 22 +- popdemo-1.3-2/popdemo/inst/doc/popdemo.Rmd | 4 popdemo-1.3-2/popdemo/inst/doc/popdemo.html | 185 ++++++++++----------- popdemo-1.3-2/popdemo/man/plot.tfam.Rd | 2 popdemo-1.3-2/popdemo/man/popdemo-deprecated.Rd | 1 popdemo-1.3-2/popdemo/man/popdemo-package.Rd | 2 popdemo-1.3-2/popdemo/man/tfa_inertia.Rd | 2 popdemo-1.3-2/popdemo/man/tfs_inertia.Rd | 6 popdemo-1.3-2/popdemo/vignettes/popdemo.Rmd | 4 24 files changed, 141 insertions(+), 154 deletions(-)
Title: Double Machine Learning in R
Description: Implementation of the double/debiased machine learning framework of
Chernozhukov et al. (2018) <doi:10.1111/ectj.12097> for partially linear
regression models, partially linear instrumental variable regression models,
interactive regression models and interactive instrumental variable
regression models. 'DoubleML' allows estimation of the nuisance parts in
these models by machine learning methods and computation of the Neyman
orthogonal score functions. 'DoubleML' is built on top of 'mlr3' and the
'mlr3' ecosystem. The object-oriented implementation of 'DoubleML' based on
the 'R6' package is very flexible. More information available in the
publication in the Journal of Statistical Software: <doi:10.18637/jss.v108.i03>.
Author: Philipp Bach [aut, cre],
Victor Chernozhukov [aut],
Malte S. Kurz [aut],
Martin Spindler [aut],
Klaassen Sven [aut]
Maintainer: Philipp Bach <philipp.bach@uni-hamburg.de>
Diff between DoubleML versions 1.0.1 dated 2024-06-05 and 1.0.2 dated 2025-04-11
DESCRIPTION | 14 - MD5 | 104 ++++++----- NAMESPACE | 4 R/datasets.R | 114 ++++++++++++ R/double_ml.R | 14 - R/double_ml_data.R | 125 +++++++++++-- R/double_ml_iivm.R | 3 R/double_ml_irm.R | 5 R/double_ml_pliv.R | 11 - R/double_ml_plr.R | 2 R/double_ml_ssm.R |only R/helper.R | 43 ++++ R/zzz.R | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/Introduction_to_DoubleML.html | 4 inst/doc/getstarted.R | 22 +- inst/doc/getstarted.Rmd | 20 +- inst/doc/getstarted.html | 24 +- inst/doc/install.R | 8 man/DoubleML.Rd | 5 man/DoubleMLClusterData.Rd | 4 man/DoubleMLData.Rd | 7 man/DoubleMLIIVM.Rd | 3 man/DoubleMLIRM.Rd | 5 man/DoubleMLPLIV.Rd | 5 man/DoubleMLPLR.Rd | 5 man/DoubleMLSSM.Rd |only man/double_ml_data_from_data_frame.Rd | 4 man/double_ml_data_from_matrix.Rd | 4 man/make_ssm_data.Rd |only tests/testthat/helper-03-dgp.R | 35 +++ tests/testthat/helper-04-simdata.R | 33 +++ tests/testthat/helper-05-ml-learner.R | 50 +++++ tests/testthat/helper-17-dml_ssm.R |only tests/testthat/print_outputs/dml_cluster_data.txt | 1 tests/testthat/print_outputs/dml_data.txt | 1 tests/testthat/print_outputs/dml_pliv.txt | 1 tests/testthat/print_outputs/dml_plr.txt | 1 tests/testthat/test-double_ml_active_bindings.R | 3 tests/testthat/test-double_ml_cluster_not_implemented.R | 3 tests/testthat/test-double_ml_data.R | 145 ++++++++++++---- tests/testthat/test-double_ml_data_active_bindings.R | 69 +++++-- tests/testthat/test-double_ml_data_cluster.R |only tests/testthat/test-double_ml_datasets.R | 29 +++ tests/testthat/test-double_ml_pliv_exception_handling.R | 6 tests/testthat/test-double_ml_pliv_partial_x.R | 8 tests/testthat/test-double_ml_pliv_partial_xz.R | 8 tests/testthat/test-double_ml_pliv_partial_z.R | 8 tests/testthat/test-double_ml_plr_classifier.R | 3 tests/testthat/test-double_ml_plr_exception_handling.R | 3 tests/testthat/test-double_ml_set_sample_splitting.R | 9 tests/testthat/test-double_ml_ssm_mar.R |only tests/testthat/test-double_ml_ssm_nonignorable.R |only tests/testthat/test-double_ml_ssm_tuning.R |only tests/testthat_regression_tests.R | 1 vignettes/getstarted.Rmd | 20 +- 57 files changed, 765 insertions(+), 233 deletions(-)
Title: Stability-enHanced Approaches using Resampling Procedures
Description: In stability selection (N Meinshausen, P Bühlmann (2010) <doi:10.1111/j.1467-9868.2010.00740.x>) and consensus clustering (S Monti et al (2003) <doi:10.1023/A:1023949509487>), resampling techniques are used to enhance the reliability of the results. In this package (B Bodinier et al (2025) <doi:10.18637/jss.v112.i05>), hyper-parameters are calibrated by maximising model stability, which is measured under the null hypothesis that all selection (or co-membership) probabilities are identical (B Bodinier et al (2023a) <doi:10.1093/jrsssc/qlad058> and B Bodinier et al (2023b) <doi:10.1093/bioinformatics/btad635>). Functions are readily implemented for the use of LASSO regression, sparse PCA, sparse (group) PLS or graphical LASSO in stability selection, and hierarchical clustering, partitioning around medoids, K means or Gaussian mixture models in consensus clustering.
Author: Barbara Bodinier [aut, cre]
Maintainer: Barbara Bodinier <barbara.bodinier@gmail.com>
Diff between sharp versions 1.4.6 dated 2024-02-03 and 1.4.7 dated 2025-04-11
sharp-1.4.6/sharp/build/vignette.rds |only sharp-1.4.6/sharp/inst/doc |only sharp-1.4.6/sharp/vignettes |only sharp-1.4.7/sharp/DESCRIPTION | 16 +++-- sharp-1.4.7/sharp/MD5 | 54 ++++++++---------- sharp-1.4.7/sharp/NEWS.md | 4 + sharp-1.4.7/sharp/R/clustering.R | 4 + sharp-1.4.7/sharp/R/graphical_model.R | 4 + sharp-1.4.7/sharp/R/s3_plot.R | 8 +- sharp-1.4.7/sharp/R/selection_performance.R | 16 ++--- sharp-1.4.7/sharp/R/sharp-package.R | 6 +- sharp-1.4.7/sharp/R/structural_equation_modelling.R | 4 + sharp-1.4.7/sharp/R/variable_selection.R | 4 + sharp-1.4.7/sharp/README.md | 45 ++++++++------- sharp-1.4.7/sharp/build/partial.rdb |binary sharp-1.4.7/sharp/inst/CITATION |only sharp-1.4.7/sharp/inst/REFERENCES.bib | 60 ++++++++++++-------- sharp-1.4.7/sharp/inst/WORDLIST | 3 + sharp-1.4.7/sharp/man/Clustering.Rd | 4 + sharp-1.4.7/sharp/man/ClusteringPerformance.Rd | 2 sharp-1.4.7/sharp/man/GraphComparison.Rd | 4 - sharp-1.4.7/sharp/man/GraphicalModel.Rd | 4 + sharp-1.4.7/sharp/man/SelectionPerformance.Rd | 6 +- sharp-1.4.7/sharp/man/SelectionPerformanceGraph.Rd | 4 - sharp-1.4.7/sharp/man/StructuralModel.Rd | 4 + sharp-1.4.7/sharp/man/VariableSelection.Rd | 4 + sharp-1.4.7/sharp/man/plot.clustering.Rd | 2 sharp-1.4.7/sharp/man/plot.roc_band.Rd | 6 +- sharp-1.4.7/sharp/man/sharp-package.Rd | 6 +- 29 files changed, 157 insertions(+), 117 deletions(-)
Title: Reporting Tables
Description: Reporting tables often have structure that goes beyond simple
rectangular data. The 'rtables' package provides a framework for
declaring complex multi-level tabulations and then applying them to
data. This framework models both tabulation and the resulting tables
as hierarchical, tree-like objects which support sibling sub-tables,
arbitrary splitting or grouping of data in row and column dimensions,
cells containing multiple values, and the concept of contextual
summary computations. A convenient pipe-able interface is provided for
declaring table layouts and the corresponding computations, and then
applying them to data.
Author: Gabriel Becker [aut] ,
Adrian Waddell [aut],
Daniel Sabanes Bove [ctb],
Maximilian Mordig [ctb],
Davide Garolini [aut] ,
Emily de la Rua [aut] ,
Abinaya Yogasekaram [ctb] ,
Joe Zhu [aut, cre] ,
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Joe Zhu <joe.zhu@roche.com>
Diff between rtables versions 0.6.11 dated 2025-01-09 and 0.6.12 dated 2025-04-11
rtables-0.6.11/rtables/tests/testthat/Rplots.pdf |only rtables-0.6.12/rtables/DESCRIPTION | 32 rtables-0.6.12/rtables/MD5 | 111 +- rtables-0.6.12/rtables/NEWS.md | 27 rtables-0.6.12/rtables/R/as_html.R | 5 rtables-0.6.12/rtables/R/colby_constructors.R | 14 rtables-0.6.12/rtables/R/default_split_funs.R | 5 rtables-0.6.12/rtables/R/format_rcell.R | 5 rtables-0.6.12/rtables/R/tree_accessors.R | 11 rtables-0.6.12/rtables/R/tt_as_df.R | 226 +++- rtables-0.6.12/rtables/R/tt_compare_tables.R | 11 rtables-0.6.12/rtables/R/tt_dotabulation.R | 32 rtables-0.6.12/rtables/R/tt_pos_and_access.R | 78 + rtables-0.6.12/rtables/R/tt_sort.R | 50 rtables-0.6.12/rtables/R/tt_toString.R | 42 rtables-0.6.12/rtables/build/vignette.rds |binary rtables-0.6.12/rtables/inst/WORDLIST | 4 rtables-0.6.12/rtables/inst/doc/advanced_usage.html | 6 rtables-0.6.12/rtables/inst/doc/ard_how_to.html | 524 ++++------ rtables-0.6.12/rtables/inst/doc/baseline.html | 6 rtables-0.6.12/rtables/inst/doc/clinical_trials.html | 6 rtables-0.6.12/rtables/inst/doc/col_counts.html | 6 rtables-0.6.12/rtables/inst/doc/custom_appearance.html | 6 rtables-0.6.12/rtables/inst/doc/example_analysis_coxreg.html | 6 rtables-0.6.12/rtables/inst/doc/exploratory_analysis.html | 8 rtables-0.6.12/rtables/inst/doc/format_precedence.html | 6 rtables-0.6.12/rtables/inst/doc/introspecting_tables.html | 6 rtables-0.6.12/rtables/inst/doc/manual_table_construction.html | 6 rtables-0.6.12/rtables/inst/doc/rtables.html | 8 rtables-0.6.12/rtables/inst/doc/sorting_pruning.html | 10 rtables-0.6.12/rtables/inst/doc/split_functions.html | 6 rtables-0.6.12/rtables/inst/doc/subsetting_tables.html | 6 rtables-0.6.12/rtables/inst/doc/tabulation_concepts.html | 2 rtables-0.6.12/rtables/inst/doc/tabulation_dplyr.html | 6 rtables-0.6.12/rtables/inst/doc/title_footer.html | 6 rtables-0.6.12/rtables/man/additional_fun_params.Rd | 7 rtables-0.6.12/rtables/man/analyze.Rd | 9 rtables-0.6.12/rtables/man/brackets.Rd | 2 rtables-0.6.12/rtables/man/data.frame_export.Rd | 13 rtables-0.6.12/rtables/man/format_rcell.Rd | 5 rtables-0.6.12/rtables/man/formatters_methods.Rd | 4 rtables-0.6.12/rtables/man/gfc.Rd | 14 rtables-0.6.12/rtables/man/matrix_form-VTableTree-method.Rd | 7 rtables-0.6.12/rtables/man/prune_table.Rd | 6 rtables-0.6.12/rtables/man/rtables-package.Rd | 6 rtables-0.6.12/rtables/man/sort_at_path.Rd | 28 rtables-0.6.12/rtables/man/tostring.Rd | 7 rtables-0.6.12/rtables/tests/testthat/test-accessors.R | 8 rtables-0.6.12/rtables/tests/testthat/test-as_html.R | 10 rtables-0.6.12/rtables/tests/testthat/test-default_split_funs.R | 38 rtables-0.6.12/rtables/tests/testthat/test-exporters.R | 39 rtables-0.6.12/rtables/tests/testthat/test-formatting.R | 13 rtables-0.6.12/rtables/tests/testthat/test-printing.R | 58 - rtables-0.6.12/rtables/tests/testthat/test-result_data_frame.R | 122 ++ rtables-0.6.12/rtables/tests/testthat/test-sort-prune.R | 65 + rtables-0.6.12/rtables/tests/testthat/test-subset-access.R | 101 + rtables-0.6.12/rtables/tests/testthat/test-tab_afun_cfun.R | 22 57 files changed, 1321 insertions(+), 546 deletions(-)
Title: Functions for Base Types and Core R and 'Tidyverse' Features
Description: A toolbox for working with base types, core R features
like the condition system, and core 'Tidyverse' features like tidy
evaluation.
Author: Lionel Henry [aut, cre],
Hadley Wickham [aut],
mikefc [cph] ,
Yann Collet [cph] ,
Posit, PBC [cph, fnd]
Maintainer: Lionel Henry <lionel@posit.co>
Diff between rlang versions 1.1.5 dated 2025-01-17 and 1.1.6 dated 2025-04-11
rlang-1.1.5/rlang/src/internal/init.c |only rlang-1.1.6/rlang/DESCRIPTION | 19 rlang-1.1.6/rlang/MD5 | 435 ++++----- rlang-1.1.6/rlang/NEWS.md | 19 rlang-1.1.6/rlang/R/aaa-topics.R | 60 - rlang-1.1.6/rlang/R/aaa.R | 2 rlang-1.1.6/rlang/R/arg.R | 38 rlang-1.1.6/rlang/R/attr.R | 6 rlang-1.1.6/rlang/R/bytes.R | 16 rlang-1.1.6/rlang/R/c-lib.R | 6 rlang-1.1.6/rlang/R/call.R | 64 - rlang-1.1.6/rlang/R/cnd-abort.R | 112 +- rlang-1.1.6/rlang/R/cnd-entrace.R | 10 rlang-1.1.6/rlang/R/cnd-handlers.R | 12 rlang-1.1.6/rlang/R/cnd-last.R | 5 rlang-1.1.6/rlang/R/cnd-message.R | 22 rlang-1.1.6/rlang/R/cnd-signal.R | 104 +- rlang-1.1.6/rlang/R/cnd.R | 118 +- rlang-1.1.6/rlang/R/deparse.R | 70 - rlang-1.1.6/rlang/R/doc-data-masking.R | 2 rlang-1.1.6/rlang/R/dots-ellipsis.R | 58 - rlang-1.1.6/rlang/R/dots.R | 48 - rlang-1.1.6/rlang/R/env-binding.R | 41 rlang-1.1.6/rlang/R/env-special.R | 19 rlang-1.1.6/rlang/R/env.R | 45 rlang-1.1.6/rlang/R/eval-tidy.R | 21 rlang-1.1.6/rlang/R/expr.R | 7 rlang-1.1.6/rlang/R/fn.R | 81 + rlang-1.1.6/rlang/R/lifecycle-deprecated.R | 131 +- rlang-1.1.6/rlang/R/node.R | 2 rlang-1.1.6/rlang/R/nse-defuse.R | 108 +- rlang-1.1.6/rlang/R/nse-inject.R | 14 rlang-1.1.6/rlang/R/obj.R | 15 rlang-1.1.6/rlang/R/quo.R | 31 rlang-1.1.6/rlang/R/session.R | 113 +- rlang-1.1.6/rlang/R/stack.R | 14 rlang-1.1.6/rlang/R/standalone-cli.R | 265 +++-- rlang-1.1.6/rlang/R/standalone-downstream-deps.R | 46 rlang-1.1.6/rlang/R/standalone-lazyeval.R | 28 rlang-1.1.6/rlang/R/standalone-lifecycle.R | 72 - 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rlang-1.1.6/rlang/man/topic-error-chaining.Rd | 7 rlang-1.1.6/rlang/src/Makevars | 1 rlang-1.1.6/rlang/src/internal/arg.c | 1 rlang-1.1.6/rlang/src/internal/call.c | 2 rlang-1.1.6/rlang/src/internal/decl/vec-decl.h | 6 rlang-1.1.6/rlang/src/internal/dots-ellipsis.c | 11 rlang-1.1.6/rlang/src/internal/dots.c | 1 rlang-1.1.6/rlang/src/internal/dots.h | 4 rlang-1.1.6/rlang/src/internal/encoding.c | 14 rlang-1.1.6/rlang/src/internal/env-binding.c | 76 - rlang-1.1.6/rlang/src/internal/env.c | 11 rlang-1.1.6/rlang/src/internal/eval-tidy.c | 3 rlang-1.1.6/rlang/src/internal/eval.c | 1 rlang-1.1.6/rlang/src/internal/exported.c | 61 - rlang-1.1.6/rlang/src/internal/fn.c | 1 rlang-1.1.6/rlang/src/internal/internal.c | 327 ++++++ rlang-1.1.6/rlang/src/internal/internal.h | 6 rlang-1.1.6/rlang/src/internal/names.c | 3 rlang-1.1.6/rlang/src/internal/nse-defuse.c | 1 rlang-1.1.6/rlang/src/internal/squash.c | 4 rlang-1.1.6/rlang/src/internal/utils.c | 2 rlang-1.1.6/rlang/src/internal/vec.c | 1 rlang-1.1.6/rlang/src/internal/weakref.c | 3 rlang-1.1.6/rlang/src/rlang/altrep.h | 3 rlang-1.1.6/rlang/src/rlang/arg.h | 3 rlang-1.1.6/rlang/src/rlang/attrib.h | 5 rlang-1.1.6/rlang/src/rlang/c-utils.h | 5 rlang-1.1.6/rlang/src/rlang/call.h | 4 rlang-1.1.6/rlang/src/rlang/cnd.h | 5 rlang-1.1.6/rlang/src/rlang/debug.h | 3 rlang-1.1.6/rlang/src/rlang/decl/env-decl.h | 3 rlang-1.1.6/rlang/src/rlang/df.h | 4 rlang-1.1.6/rlang/src/rlang/dict.h | 4 rlang-1.1.6/rlang/src/rlang/dyn-array.h | 5 rlang-1.1.6/rlang/src/rlang/dyn-list-of.h | 4 rlang-1.1.6/rlang/src/rlang/env-binding.h | 3 rlang-1.1.6/rlang/src/rlang/env.c | 72 - rlang-1.1.6/rlang/src/rlang/env.h | 69 + rlang-1.1.6/rlang/src/rlang/eval.h | 5 rlang-1.1.6/rlang/src/rlang/export.h | 6 rlang-1.1.6/rlang/src/rlang/fn.h | 4 rlang-1.1.6/rlang/src/rlang/formula.h | 3 rlang-1.1.6/rlang/src/rlang/globals.h | 3 rlang-1.1.6/rlang/src/rlang/node.h | 3 rlang-1.1.6/rlang/src/rlang/obj.h | 5 rlang-1.1.6/rlang/src/rlang/parse.h | 3 rlang-1.1.6/rlang/src/rlang/quo.h | 3 rlang-1.1.6/rlang/src/rlang/rlang-types.h | 10 rlang-1.1.6/rlang/src/rlang/rlang.c | 28 rlang-1.1.6/rlang/src/rlang/rlang.h | 13 rlang-1.1.6/rlang/src/rlang/session.h | 3 rlang-1.1.6/rlang/src/rlang/stack.h | 3 rlang-1.1.6/rlang/src/rlang/state.h | 8 rlang-1.1.6/rlang/src/rlang/sym.h | 3 rlang-1.1.6/rlang/src/rlang/vec-chr.h | 5 rlang-1.1.6/rlang/src/rlang/vec-lgl.h | 4 rlang-1.1.6/rlang/src/rlang/vec.h | 10 rlang-1.1.6/rlang/src/rlang/vendor.h | 2 rlang-1.1.6/rlang/src/rlang/walk.h | 5 rlang-1.1.6/rlang/src/version.c | 2 rlang-1.1.6/rlang/tests/sink.R | 1 rlang-1.1.6/rlang/tests/testthat/_snaps/4.5_and_older |only rlang-1.1.6/rlang/tests/testthat/_snaps/arg.md | 170 +-- rlang-1.1.6/rlang/tests/testthat/_snaps/attr.md | 10 rlang-1.1.6/rlang/tests/testthat/_snaps/c-api.md | 14 rlang-1.1.6/rlang/tests/testthat/_snaps/cnd-abort.md | 82 - rlang-1.1.6/rlang/tests/testthat/_snaps/cnd-handlers.md | 17 rlang-1.1.6/rlang/tests/testthat/_snaps/cnd-message.md | 10 rlang-1.1.6/rlang/tests/testthat/_snaps/cnd-signal.md | 20 rlang-1.1.6/rlang/tests/testthat/_snaps/cnd.md | 29 rlang-1.1.6/rlang/tests/testthat/_snaps/current/cnd-abort.md | 10 rlang-1.1.6/rlang/tests/testthat/_snaps/dots-ellipsis.md | 25 rlang-1.1.6/rlang/tests/testthat/_snaps/dots.md | 10 rlang-1.1.6/rlang/tests/testthat/_snaps/env-binding.md | 10 rlang-1.1.6/rlang/tests/testthat/_snaps/eval-tidy.md | 10 rlang-1.1.6/rlang/tests/testthat/_snaps/fn.md | 40 rlang-1.1.6/rlang/tests/testthat/_snaps/friendly-type.md | 5 rlang-1.1.6/rlang/tests/testthat/_snaps/nse-inject.md | 50 - rlang-1.1.6/rlang/tests/testthat/_snaps/s3.md | 10 rlang-1.1.6/rlang/tests/testthat/_snaps/session.md | 131 +- rlang-1.1.6/rlang/tests/testthat/_snaps/standalone-types-check.md | 6 rlang-1.1.6/rlang/tests/testthat/_snaps/trace.md | 96 -- rlang-1.1.6/rlang/tests/testthat/_snaps/types.md | 15 rlang-1.1.6/rlang/tests/testthat/fixtures/error-backtrace-conditionMessage.R | 1 rlang-1.1.6/rlang/tests/testthat/fixtures/error-backtrace-empty.R | 1 rlang-1.1.6/rlang/tests/testthat/fixtures/error-backtrace-parent.R | 1 rlang-1.1.6/rlang/tests/testthat/fixtures/error-backtrace-rethrown.R | 1 rlang-1.1.6/rlang/tests/testthat/fixtures/error-entrace.R | 4 rlang-1.1.6/rlang/tests/testthat/fixtures/rlanglibtest/tests/testthat/test-quo-accessors.R | 5 rlang-1.1.6/rlang/tests/testthat/helper-c-api.R | 13 rlang-1.1.6/rlang/tests/testthat/helper-cli.R | 8 rlang-1.1.6/rlang/tests/testthat/helper-cnd.R | 81 + rlang-1.1.6/rlang/tests/testthat/helper-locale.R | 8 rlang-1.1.6/rlang/tests/testthat/helper-package.R |only rlang-1.1.6/rlang/tests/testthat/helper-print.R | 1 rlang-1.1.6/rlang/tests/testthat/helper-rlang.R | 7 rlang-1.1.6/rlang/tests/testthat/helper-trace.R | 11 rlang-1.1.6/rlang/tests/testthat/setup-tests.R | 1 rlang-1.1.6/rlang/tests/testthat/teardown-tests.R | 1 rlang-1.1.6/rlang/tests/testthat/test-arg.R | 98 +- rlang-1.1.6/rlang/tests/testthat/test-attr.R | 31 rlang-1.1.6/rlang/tests/testthat/test-bytes.R | 2 rlang-1.1.6/rlang/tests/testthat/test-c-api.R | 91 + rlang-1.1.6/rlang/tests/testthat/test-call.R | 157 ++- rlang-1.1.6/rlang/tests/testthat/test-cnd-abort.R | 108 +- rlang-1.1.6/rlang/tests/testthat/test-cnd-entrace.R | 156 ++- rlang-1.1.6/rlang/tests/testthat/test-cnd-handlers.R | 4 rlang-1.1.6/rlang/tests/testthat/test-cnd-message.R | 117 +- rlang-1.1.6/rlang/tests/testthat/test-cnd-signal.R | 112 +- rlang-1.1.6/rlang/tests/testthat/test-cnd.R | 28 rlang-1.1.6/rlang/tests/testthat/test-deparse.R | 479 ++++++++-- rlang-1.1.6/rlang/tests/testthat/test-deprecated-vec-squash.R | 51 - rlang-1.1.6/rlang/tests/testthat/test-deprecated.R | 83 + rlang-1.1.6/rlang/tests/testthat/test-dots-ellipsis.R | 90 + rlang-1.1.6/rlang/tests/testthat/test-dots.R | 89 + rlang-1.1.6/rlang/tests/testthat/test-encoding.R | 2 rlang-1.1.6/rlang/tests/testthat/test-env-binding.R | 124 +- rlang-1.1.6/rlang/tests/testthat/test-env.R | 81 - rlang-1.1.6/rlang/tests/testthat/test-eval-tidy.R | 125 +- rlang-1.1.6/rlang/tests/testthat/test-eval.R | 1 rlang-1.1.6/rlang/tests/testthat/test-expr.R | 42 rlang-1.1.6/rlang/tests/testthat/test-fn.R | 90 + rlang-1.1.6/rlang/tests/testthat/test-formula.R | 10 rlang-1.1.6/rlang/tests/testthat/test-friendly-type.R | 413 +++++--- rlang-1.1.6/rlang/tests/testthat/test-lifecycle.R | 7 rlang-1.1.6/rlang/tests/testthat/test-names.R | 25 rlang-1.1.6/rlang/tests/testthat/test-node.R | 19 rlang-1.1.6/rlang/tests/testthat/test-nse-defuse.R | 155 ++- rlang-1.1.6/rlang/tests/testthat/test-nse-inject.R | 382 +++++-- rlang-1.1.6/rlang/tests/testthat/test-obj.R | 5 rlang-1.1.6/rlang/tests/testthat/test-operators.R | 5 rlang-1.1.6/rlang/tests/testthat/test-parse.R | 26 rlang-1.1.6/rlang/tests/testthat/test-quo.R | 33 rlang-1.1.6/rlang/tests/testthat/test-raw.R | 5 rlang-1.1.6/rlang/tests/testthat/test-s3.R | 11 rlang-1.1.6/rlang/tests/testthat/test-session.R | 152 +-- rlang-1.1.6/rlang/tests/testthat/test-stack.R | 4 rlang-1.1.6/rlang/tests/testthat/test-standalone-cli.R | 180 ++- rlang-1.1.6/rlang/tests/testthat/test-standalone-downstream-deps.R | 20 rlang-1.1.6/rlang/tests/testthat/test-standalone-obj-type.R | 13 rlang-1.1.6/rlang/tests/testthat/test-standalone-purrr.R | 36 rlang-1.1.6/rlang/tests/testthat/test-standalone-s3-register.R | 6 rlang-1.1.6/rlang/tests/testthat/test-standalone-types-check.R | 15 rlang-1.1.6/rlang/tests/testthat/test-standalone-vctrs.R | 2 rlang-1.1.6/rlang/tests/testthat/test-standalone-zeallot.R | 1 rlang-1.1.6/rlang/tests/testthat/test-standalone.R | 72 + rlang-1.1.6/rlang/tests/testthat/test-trace.R | 108 +- rlang-1.1.6/rlang/tests/testthat/test-types.R | 37 rlang-1.1.6/rlang/tests/testthat/test-utils.R | 4 rlang-1.1.6/rlang/tests/testthat/test-vec-new.R | 51 - rlang-1.1.6/rlang/tests/testthat/test-vec.R | 2 rlang-1.1.6/rlang/tests/testthat/test-weakref.R | 14 220 files changed, 5561 insertions(+), 3361 deletions(-)
Title: Easily Access US Census Bureau Survey and Geographic Data
Description: The key function 'get_vintage_data()' returns a dataframe and is
the window into the Census Bureau API requiring just a dataset name,
vintage(year), and vector of variable names for survey estimates/percentages.
Other functions assist in searching for available datasets, geographies,
group/variable concepts of interest. Also provided are functions to access
and layer (via standard piping) displayable geometries for the US, states,
counties, blocks/tracts, roads, landmarks, places, and bodies of water.
Joining survey data with many of the geometry functions is built-in to
produce choropleth maps.
Author: Rick Dean [aut, cre, cph]
Maintainer: Rick Dean <deanr3@bardstown.com>
Diff between RcensusPkg versions 0.1.4 dated 2025-03-15 and 0.1.5 dated 2025-04-11
RcensusPkg-0.1.4/RcensusPkg/R/check_response.R |only RcensusPkg-0.1.4/RcensusPkg/R/get_dt.R |only RcensusPkg-0.1.4/RcensusPkg/R/parse_response.R |only RcensusPkg-0.1.4/RcensusPkg/man/dot-check_response.Rd |only RcensusPkg-0.1.4/RcensusPkg/man/dot-get_dt.Rd |only RcensusPkg-0.1.4/RcensusPkg/man/dot-parse_response.Rd |only RcensusPkg-0.1.4/RcensusPkg/tests/testthat/Rplots.pdf |only RcensusPkg-0.1.4/RcensusPkg/tests/testthat/_snaps/remove_area_water.md |only RcensusPkg-0.1.4/RcensusPkg/tests/testthat/test-remove_area_water.R |only RcensusPkg-0.1.5/RcensusPkg/DESCRIPTION | 14 RcensusPkg-0.1.5/RcensusPkg/MD5 | 187 ++++------ RcensusPkg-0.1.5/RcensusPkg/NAMESPACE | 10 RcensusPkg-0.1.5/RcensusPkg/NEWS.md | 5 RcensusPkg-0.1.5/RcensusPkg/R/get_dataset_names.R | 87 ++-- RcensusPkg-0.1.5/RcensusPkg/R/get_geography.R | 34 - RcensusPkg-0.1.5/RcensusPkg/R/get_groups.R | 37 - RcensusPkg-0.1.5/RcensusPkg/R/get_idb_data.R | 54 +- RcensusPkg-0.1.5/RcensusPkg/R/get_multi_vintage_data.R | 51 +- RcensusPkg-0.1.5/RcensusPkg/R/get_variable_names.R | 46 +- RcensusPkg-0.1.5/RcensusPkg/R/get_vintage_data.R | 125 ++++-- RcensusPkg-0.1.5/RcensusPkg/R/join_it.R | 2 RcensusPkg-0.1.5/RcensusPkg/R/long_to_wide.R | 2 RcensusPkg-0.1.5/RcensusPkg/R/plot_us_data.R | 10 RcensusPkg-0.1.5/RcensusPkg/R/remove_area_water.R | 11 RcensusPkg-0.1.5/RcensusPkg/R/send_tiger_url.R | 80 +--- RcensusPkg-0.1.5/RcensusPkg/R/tiger_block_groups_sf.R | 37 + RcensusPkg-0.1.5/RcensusPkg/R/tiger_blocks_sf.R | 19 - RcensusPkg-0.1.5/RcensusPkg/R/tiger_cbsa_sf.R | 49 +- RcensusPkg-0.1.5/RcensusPkg/R/tiger_counties_sf.R | 39 +- RcensusPkg-0.1.5/RcensusPkg/R/tiger_county_subsection_sf.R | 38 +- RcensusPkg-0.1.5/RcensusPkg/R/tiger_landmarks_sf.R | 20 - RcensusPkg-0.1.5/RcensusPkg/R/tiger_places_sf.R | 21 - RcensusPkg-0.1.5/RcensusPkg/R/tiger_roads_sf.R | 37 + RcensusPkg-0.1.5/RcensusPkg/R/tiger_states_sf.R | 37 + RcensusPkg-0.1.5/RcensusPkg/R/tiger_tracts_sf.R | 37 + RcensusPkg-0.1.5/RcensusPkg/R/tiger_urban_area_sf.R | 27 - RcensusPkg-0.1.5/RcensusPkg/R/tiger_water_sf.R | 37 + RcensusPkg-0.1.5/RcensusPkg/R/tiger_zctas_sf.R | 31 - RcensusPkg-0.1.5/RcensusPkg/R/wide_to_long.R | 2 RcensusPkg-0.1.5/RcensusPkg/README.md | 2 RcensusPkg-0.1.5/RcensusPkg/man/get_dataset_names.Rd | 5 RcensusPkg-0.1.5/RcensusPkg/man/get_geography.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/man/get_groups.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/man/get_idb_data.Rd | 3 RcensusPkg-0.1.5/RcensusPkg/man/get_multi_vintage_data.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/man/get_variable_names.Rd | 3 RcensusPkg-0.1.5/RcensusPkg/man/get_vintage_data.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/man/join_it.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/man/long_to_wide.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/man/plot_us_data.Rd | 8 RcensusPkg-0.1.5/RcensusPkg/man/remove_area_water.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/man/tiger_block_groups_sf.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/man/tiger_blocks_sf.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/man/tiger_cbsa_sf.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/man/tiger_counties_sf.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/man/tiger_county_subsection_sf.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/man/tiger_landmarks_sf.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/man/tiger_places_sf.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/man/tiger_roads_sf.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/man/tiger_states_sf.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/man/tiger_tracts_sf.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/man/tiger_urban_area_sf.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/man/tiger_water_sf.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/man/tiger_zctas_sf.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/man/wide_to_long.Rd | 2 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/_snaps/get_multi_vintage_data.md | 24 - RcensusPkg-0.1.5/RcensusPkg/tests/testthat/_snaps/get_variable_names.md | 25 + RcensusPkg-0.1.5/RcensusPkg/tests/testthat/_snaps/tiger_block_groups_sf.md | 2 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/_snaps/tiger_cbsa_sf.md | 3 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/_snaps/tiger_counties_sf.md | 2 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/_snaps/tiger_county_subsection_sf.md | 2 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/_snaps/tiger_landmarks_sf.md | 3 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/_snaps/tiger_places_sf.md | 2 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/_snaps/tiger_roads_sf.md | 2 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/_snaps/tiger_states_sf.md | 2 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/_snaps/tiger_tracts_sf.md | 3 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/_snaps/tiger_urban_area_sf.md | 2 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/_snaps/tiger_water_sf.md | 2 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/_snaps/tiger_zctas_sf.md | 3 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/test-get_dataset_names.R | 2 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/test-get_geography.R | 2 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/test-get_groups.R | 2 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/test-get_idb_data.R | 2 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/test-get_multi_vintage_data.R | 2 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/test-get_variable_names.R | 8 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/test-get_vintage_data.R | 2 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/test-plot_us_data.R | 3 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/test-tiger_block_groups_sf.R | 5 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/test-tiger_cbsa_sf.R | 5 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/test-tiger_counties_sf.R | 7 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/test-tiger_county_subsection_sf.R | 5 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/test-tiger_landmarks_sf.R | 5 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/test-tiger_places_sf.R | 5 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/test-tiger_roads_sf.R | 5 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/test-tiger_states_sf.R | 5 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/test-tiger_tracts_sf.R | 5 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/test-tiger_urban_area_sf.R | 5 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/test-tiger_water_sf.R | 5 RcensusPkg-0.1.5/RcensusPkg/tests/testthat/test-tiger_zctas_sf.R | 5 99 files changed, 740 insertions(+), 671 deletions(-)
Title: Parametric Time-Dependent Receiver Operating Characteristic
Description: Producing the time-dependent receiver operating characteristic (ROC) curve through parametric approaches. Tools for
generating random data, fitting, predicting and check goodness of fit are prepared. The methods are
developed from the theoretical framework of proportional hazard model and copula functions.
Using this package, users can now simulate parametric time-dependent ROC and run experiment
to understand the behavior of the curve under different scenario.
Author: Faiz Azhar [aut, cre, cph] ,
Adina Najwa Kamarudin [cph, ths]
,
Universiti Teknologi Malaysia, UTM [cph]
Maintainer: Faiz Azhar <faiz.azhar241@gmail.com>
Diff between parTimeROC versions 0.1.0 dated 2024-06-14 and 0.1.1 dated 2025-04-11
DESCRIPTION | 29 MD5 | 66 - NAMESPACE | 5 NEWS.md | 7 R/get.distributions.R | 86 ++ R/ipcw.R |only R/parTimeROC-package.R | 3 R/preprocessors.R | 2 R/print.R | 16 R/rate_change.R | 3 R/rtimeroc.R | 8 R/timeroc_auc.R | 2 R/timeroc_fit.R | 275 +++++--- R/timeroc_gof.R | 107 ++- R/timeroc_predict.R | 131 +++ R/utils.R | 28 README.md | 1259 ++++++++++++++++++++++++++++++++++++- inst/WORDLIST | 1 inst/stan/ph.stan | 2 man/figures/README-example10-1.png |binary man/figures/README-example11-1.png |binary man/figures/README-example2-1.png |binary man/figures/README-example4-1.png |binary man/figures/README-example5-1.png |binary man/figures/README-example8-1.png |binary man/figures/README-example9-1.png |binary man/figures/parTimeROC.png |only man/get.distributions.Rd | 2 man/rate_change.Rd | 3 man/timeroc_auc.Rd | 2 man/timeroc_fit.Rd | 14 man/timeroc_gof.Rd | 22 man/timeroc_predict.Rd | 3 src/Makevars.win | 2 src/stanExports_ph.h | 6 35 files changed, 1840 insertions(+), 244 deletions(-)
Title: Dynamic (Longitudinal) Network Datasets
Description: A collection of dynamic network data sets from various sources and multiple authors represented as 'networkDynamic'-formatted objects.
Author: Skye Bender-deMoll [cre, aut],
Martina Morris [ctb],
Li Wang [ctb],
Gerhard van de Bunt [ctb],
Goele Bossaert [ctb],
Nadine Meidert [ctb],
SocioPatterns.org [ctb],
Tore Opsahi [ctb],
Radoslaw Michalski, [ctb],
Allison Davis, [ctb],
C.E. Priebe, [c [...truncated...]
Maintainer: Skye Bender-deMoll <skyebend@uw.edu>
Diff between networkDynamicData versions 0.2.1 dated 2016-01-11 and 0.3.0 dated 2025-04-11
ChangeLog | 4 +++- DESCRIPTION | 14 +++++++------- MD5 | 19 ++++++++++--------- build |only man/concurrencyComparisonNets.Rd | 6 +++--- man/davisDyn.Rd | 4 ++-- man/harry_potter.Rd | 8 ++++---- man/hospital.Rd | 6 +++--- man/manufacturingEmails.Rd | 2 +- man/onlineNet.Rd | 8 ++++---- man/vanDeBunt_students.Rd | 8 ++++---- 11 files changed, 41 insertions(+), 38 deletions(-)
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Title: Mixed-Effects Modeling for Growth Data
Description: Simple and user-friendly wrappers to the 'saemix' package for
performing linear and non-linear mixed-effects regression modeling for
growth data to account for clustering or longitudinal analysis via repeated
measurements. The package allows users to fit a variety of growth
models, including linear, exponential, logistic, and 'Gompertz'
functions. For non-linear models, starting values are automatically
calculated using initial least-squares estimates. The package includes
functions for summarizing models, visualizing data and results,
calculating doubling time and other key statistics, and generating model
diagnostic plots and residual summary statistics. It also provides
functions for generating publication-ready summary tables for reports.
Additionally, users can fit linear and non-linear least-squares
regression models if clustering is not applicable. The mixed-effects
modeling methods in this package are based on Comets, Lavenu, and
Lavielle (2017) <doi:10.18637/jss.v080.i03&g [...truncated...]
Author: Anand Panigrahy [aut, cre] ,
Sonam Bhatia [ctb] ,
Thomas Quinn [dtc],
Aniket Shetty [rev],
Keith Ligon [fnd] ,
Center for Patient-Derived Models Dana-Farber Cancer Institute [cph]
Maintainer: Anand Panigrahy <anand_panigrahy@dfci.harvard.edu>
Diff between GrowthCurveME versions 0.1.0 dated 2024-12-17 and 0.1.11 dated 2025-04-11
DESCRIPTION | 6 +-- MD5 | 41 +++++++++++++++------------ NEWS.md | 3 + R/growth_curve_model_fit.R | 2 + R/growth_model_residual_plots.R | 2 + R/growth_model_summary_table.R | 2 + R/growth_vs_time_plot.R | 2 + R/linear_mixed_model.R | 2 + R/summarize_growth_model.R | 2 + R/summarize_growth_model_mixed.R | 2 + README.md | 13 +++++--- man/figures/README-diagnostics-1.svg |only man/figures/README-example-data-1.svg |only man/figures/README-plots-1.svg |only man/figures/README-plots-2.svg |only man/figures/README-sim_curve-1.svg |only man/growth_curve_model_fit.Rd | 2 + man/growth_model_residual_plots.Rd | 2 + man/growth_model_summary_table.Rd | 2 + man/growth_vs_time_plot.Rd | 2 + man/linear_mixed_model.Rd | 2 + man/summarize_growth_model.Rd | 2 + man/summarize_growth_model_mixed.Rd | 2 + tests/testthat/test-growth_curve_model_fit.R | 23 +++++---------- 24 files changed, 73 insertions(+), 41 deletions(-)
Title: Global Fishery and Aquaculture Statistics
Description: The Food and Agriculture Organization of the United Nations (FAO)
FishStat database is the leading source of global fishery and aquaculture
statistics and provides unique information for sector analysis and monitoring.
This package provides the global production data from all fisheries and
aquaculture in R format, ready for analysis.
Author: Arni Magnusson [aut, cre],
Rishi Sharma [aut],
FAO [cph]
Maintainer: Arni Magnusson <thisisarni@gmail.com>
Diff between fishstat versions 2024.1.0.1 dated 2025-02-17 and 2025.1.0.0 dated 2025-04-11
DESCRIPTION | 8 ++--- MD5 | 68 ++++++++++++++++++++++++------------------------ NEWS.md | 7 ++++ R/aquaculture.R | 12 ++++---- R/area.R | 19 ++++++------- R/capture.R | 10 +++---- R/country.R | 12 ++++---- R/environment.R | 8 ++--- R/fishstat-package.R | 3 +- R/measure.R | 8 ++--- R/production.R | 9 +++--- R/source.R | 8 ++--- R/species.R | 23 ++++++++-------- R/status.R | 8 ++--- data/aquaculture.RData |binary data/area.RData |binary data/capture.RData |binary data/country.RData |binary data/environment.RData |binary data/measure.RData |binary data/production.RData |binary data/source.RData |binary data/species.RData |binary data/status.RData |binary man/aquaculture.Rd | 12 ++++---- man/area.Rd | 19 ++++++------- man/capture.Rd | 10 +++---- man/country.Rd | 12 ++++---- man/environment.Rd | 8 ++--- man/fishstat-package.Rd | 3 +- man/measure.Rd | 8 ++--- man/production.Rd | 9 +++--- man/source.Rd | 8 ++--- man/species.Rd | 23 ++++++++-------- man/status.Rd | 8 ++--- 35 files changed, 167 insertions(+), 156 deletions(-)
Title: Causally Interpretable Meta-Analysis
Description: Provides robust and efficient methods for estimating causal effects in a target population using a multi-source dataset, including those of Dahabreh et al. (2019) <doi:10.1111/biom.13716>, Robertson et al. (2021) <doi:10.48550/arXiv.2104.05905>, and Wang et al. (2024) <doi:10.48550/arXiv.2402.02684>. The multi-source data can be a collection of trials, observational studies, or a combination of both, which have the same data structure (outcome, treatment, and covariates). The target population can be based on an internal dataset or an external dataset where only covariate information is available. The causal estimands available are average treatment effects and subgroup treatment effects. See Wang et al. (2025) <doi:10.1017/rsm.2025.5> for a detailed guide on using the package.
Author: Yi Lian [aut],
Guanbo Wang [aut],
Sean McGrath [aut, cre] ,
Issa Dahabreh [aut]
Maintainer: Sean McGrath <sean.mcgrath514@gmail.com>
Diff between CausalMetaR versions 0.1.2 dated 2024-06-04 and 0.1.3 dated 2025-04-11
DESCRIPTION | 16 ++-- MD5 | 22 ++--- NEWS.md | 4 + R/ATE_external.R | 2 R/ATE_internal.R | 2 R/STE_external.R | 2 R/STE_internal.R | 2 README.md | 191 ++++++++++++++++++++++++++++++++++++++++++++++++++-- man/ATE_external.Rd | 2 man/ATE_internal.Rd | 2 man/STE_external.Rd | 2 man/STE_internal.Rd | 2 12 files changed, 218 insertions(+), 31 deletions(-)
Title: A Robust Interface to ArcGIS 'Geocoding Services'
Description: A very fast and robust interface to ArcGIS 'Geocoding
Services'. Provides capabilities for reverse geocoding, finding
address candidates, character-by-character search autosuggestion, and
batch geocoding. The public 'ArcGIS World Geocoder' is accessible for
free use via 'arcgisgeocode' for all services except batch geocoding.
'arcgisgeocode' also integrates with 'arcgisutils' to provide access
to custom locators or private 'ArcGIS World Geocoder' hosted on
'ArcGIS Enterprise'. Learn more in the 'Geocode service' API reference
<https://developers.arcgis.com/rest/geocode/api-reference/overview-world-geocoding-service.htm>.
Author: Josiah Parry [aut, cre]
Maintainer: Josiah Parry <josiah.parry@gmail.com>
Diff between arcgisgeocode versions 0.2.2 dated 2024-09-27 and 0.2.3 dated 2025-04-11
arcgisgeocode-0.2.2/arcgisgeocode/src/Makevars |only arcgisgeocode-0.2.2/arcgisgeocode/src/Makevars.win |only arcgisgeocode-0.2.3/arcgisgeocode/DESCRIPTION | 14 arcgisgeocode-0.2.3/arcgisgeocode/MD5 | 27 arcgisgeocode-0.2.3/arcgisgeocode/NEWS.md | 4 arcgisgeocode-0.2.3/arcgisgeocode/R/extendr-wrappers.R | 1 arcgisgeocode-0.2.3/arcgisgeocode/configure | 2 arcgisgeocode-0.2.3/arcgisgeocode/configure.win | 2 arcgisgeocode-0.2.3/arcgisgeocode/man/arcgisgeocode-package.Rd | 12 arcgisgeocode-0.2.3/arcgisgeocode/man/figures |only arcgisgeocode-0.2.3/arcgisgeocode/src/Makevars.in |only arcgisgeocode-0.2.3/arcgisgeocode/src/Makevars.win.in |only arcgisgeocode-0.2.3/arcgisgeocode/src/arcgisgeocode-win.def |only arcgisgeocode-0.2.3/arcgisgeocode/src/rust/Cargo.lock | 312 ++++++---- arcgisgeocode-0.2.3/arcgisgeocode/src/rust/Cargo.toml | 3 arcgisgeocode-0.2.3/arcgisgeocode/src/rust/vendor.tar.xz |binary arcgisgeocode-0.2.3/arcgisgeocode/tools/config.R |only arcgisgeocode-0.2.3/arcgisgeocode/tools/msrv.R | 4 18 files changed, 222 insertions(+), 159 deletions(-)
Title: Constrained Generalized Additive Model
Description: A constrained generalized additive model is fitted by the cgam routine. Given a set of predictors, each of which may have a shape or order restrictions, the maximum likelihood estimator for the constrained generalized additive model is found using an iteratively re-weighted cone projection algorithm. The ShapeSelect routine chooses a subset of predictor variables and describes the component relationships with the response. For each predictor, the user needs only specify a set of possible shape or order restrictions. A model selection method chooses the shapes and orderings of the relationships as well as the variables. The cone information criterion (CIC) is used to select the best combination of variables and shapes. A genetic algorithm may be used when the set of possible models is large. In addition, the cgam routine implements a two-dimensional isotonic regression using warped-plane splines without additivity assumptions. It can also fit a convex or concave regression surface with [...truncated...]
Author: Mary Meyer [aut],
Xiyue Liao [aut, cre]
Maintainer: Xiyue Liao <xliao@sdsu.edu>
Diff between cgam versions 1.23 dated 2025-02-19 and 1.24 dated 2025-04-11
ChangeLog | 5 DESCRIPTION | 18 - MD5 | 15 NAMESPACE | 16 R/cgam.R | 910 ++++++++++++++++++++++++++++++++++++++++++++++++++++---- R/globals.R |only R/testpar.R |only man/best.fit.Rd | 61 ++- man/cgam.Rd | 17 - man/testpar.Rd |only 10 files changed, 920 insertions(+), 122 deletions(-)