Title: Interface Functions for PMML Creation, and Data Recoding
Description: Contains functions to interface with variables and variable details sheets, including recoding variables and converting them to PMML.
Author: Yulric Sequeira [aut, cre],
Luke Bailey [aut],
Rostyslav Vyuha [aut],
The Ottawa Hospital [cph],
Doug Manuel [cph]
Maintainer: Yulric Sequeira <ysequeira@ohri.ca>
Diff between recodeflow versions 0.1.0 dated 2021-06-09 and 0.1.0.1 dated 2026-07-09
DESCRIPTION | 18 +++++++++--------- MD5 | 12 ++++++------ NEWS.md | 7 +++++++ R/recode-with-table.R | 2 +- R/utils.R | 4 ++-- README.md | 2 +- man/rec_with_table.Rd | 2 +- 7 files changed, 27 insertions(+), 20 deletions(-)
Title: Horn's Test of Principal Components/Factors
Description: An implementation of Horn's technique for numerically and graphically evaluating the components or factors retained in a principle components analysis (PCA) or common factor analysis (FA). Horn's method contrasts eigenvalues produced through a PCA or FA on a number of random data sets of uncorrelated variables with the same number of variables and observations as the experimental or observational data set to produce eigenvalues for components or factors that are adjusted for the sample error-induced inflation. Components with adjusted eigenvalues greater than one are retained. paran may also be used to conduct parallel analysis following Glorfeld's (1995) suggestions to reduce the likelihood of over-retention.
Author: Alexis Dinno [aut, cre, cph]
Maintainer: Alexis Dinno <alexis.dinno@pdx.edu>
Diff between paran versions 1.5.5 dated 2026-02-13 and 1.5.6 dated 2026-07-09
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/paran.R | 15 +++++++++++++-- build/partial.rdb |binary 4 files changed, 20 insertions(+), 9 deletions(-)
Title: Multiblock Data Fusion in Statistics and Machine Learning
Description: Functions and datasets to support Smilde, Næs and Liland (2021, ISBN: 978-1-119-60096-1)
"Multiblock Data Fusion in Statistics and Machine Learning - Applications in the Natural and Life Sciences".
This implements and imports a large collection of methods for multiblock data analysis with common interfaces, result- and plotting
functions, several real data sets and six vignettes covering a range different applications.
Author: Kristian Hovde Liland [aut, cre] ,
Solve Saeboe [ctb],
Stefan Schrunner [rev]
Maintainer: Kristian Hovde Liland <kristian.liland@nmbu.no>
Diff between multiblock versions 0.8.10 dated 2025-04-01 and 0.8.11 dated 2026-07-09
DESCRIPTION | 14 +++++----- MD5 | 35 +++++++++++++++----------- NAMESPACE | 3 ++ NEWS | 8 ++++++ R/datasets.R | 22 ++++++++++++++++ R/path_effects.R |only R/sopls.R | 11 ++++---- R/sopls_crossvalidation.R | 25 ++++++++++-------- build/vignette.rds |binary data/datalist |only data/emulsions.rda |only data/mobile.rda |binary inst/doc/vignette_A_data.html | 30 ++++++++++++---------- inst/doc/vignette_B_basic.html | 9 +++--- inst/doc/vignette_C_unsupervised.html | 11 ++++---- inst/doc/vignette_D_asca.html | 11 ++++---- inst/doc/vignette_E_supervised.html | 45 +++++++++++++++++----------------- inst/doc/vignette_F_complex.html | 7 +++-- man/emulsions.Rd |only man/path_effects.Rd |only man/plot.path_effects.Rd |only man/print.path_effects.Rd |only 22 files changed, 142 insertions(+), 89 deletions(-)
Title: Calculate Genetic Interactions for Paired CRISPR Targets
Description: Helps find meaningful patterns in complex genetic experiments. First gimap takes data from paired CRISPR (Clustered regularly interspaced short palindromic repeats) screens that has been pre-processed to counts table of paired gRNA (guide Ribonucleic Acid) reads. The input data will have cell counts for how well cells grow (or don't grow) when different genes or pairs of genes are disabled. The output of the 'gimap' package is genetic interaction scores which are the distance between the observed CRISPR score and the expected CRISPR score. The expected CRISPR scores are what we expect for the CRISPR values to be for two unrelated genes. The further away an observed CRISPR score is from its expected score the more we suspect genetic interaction. The work in this package is based off of original research from the Alice Berger lab at Fred Hutchinson Cancer Center (2021) <doi:10.1016/j.celrep.2021.109597>.
Author: Candace Savonen [aut, cre] ,
Phoebe C.R. Parrish [aut] ,
Kathryn J. Isaac [aut] ,
Daniel Groso [aut],
Marissa Fujimoto [aut],
Siobhan O'Brien [aut] ,
Alice H. Berger [aut]
Maintainer: Candace Savonen <cansav09@gmail.com>
Diff between gimap versions 1.1.2 dated 2026-02-05 and 1.1.3 dated 2026-07-09
DESCRIPTION | 53 ++-- LICENSE |only MD5 | 74 +++-- NEWS.md | 5 R/01-qc.R | 10 R/03-annotate.R | 278 ++++++++++++++-------- R/04-normalize.R | 12 R/utils.R | 164 +++++++++--- README.md | 70 ++++- inst/CITATION |only inst/doc/quick-start.R | 11 inst/doc/quick-start.Rmd | 153 ++++++++++-- inst/doc/quick-start.html | 224 ++++++++++++++--- inst/doc/timepoint-example.R | 1 inst/doc/timepoint-example.Rmd | 1 inst/doc/timepoint-example.html | 46 +-- inst/doc/treatment_example.R | 1 inst/doc/treatment_example.Rmd | 1 inst/doc/treatment_example.html | 46 +-- inst/example_qc_report.Rmd | 1 inst/extdata/depmap_metadata_fixture.csv |only inst/extdata/gimapQCTemplate.Rmd | 1 man/cn_setup.Rd | 5 man/ctrl_genes.Rd | 5 man/delete_example_data.Rd | 20 + man/example_data_folder.Rd | 10 man/figshare_manual_download_message.Rd |only man/get_example_data.Rd | 19 - man/gimap_data_dir.Rd |only man/gimap_normalize.Rd | 3 man/normalize_depmap_metadata.Rd |only man/resolve_example_data_dir.Rd |only man/run_qc.Rd | 5 man/tpm_setup.Rd | 5 tests/testthat/helper-skip.R | 25 + tests/testthat/test-annotate.R | 9 tests/testthat/test-example-data-cache.R |only tests/testthat/test-run_qc.R | 6 vignettes/output_timepoints/example_qc_report.Rmd | 1 vignettes/quick-start.Rmd | 153 ++++++++++-- vignettes/timepoint-example.Rmd | 1 vignettes/treatment_example.Rmd | 1 42 files changed, 1020 insertions(+), 400 deletions(-)
Title: Generalized Boosted Regression Models
Description: An implementation of extensions to Freund and Schapire's AdaBoost
algorithm and Friedman's gradient boosting machine. Includes regression
methods for least squares, absolute loss, t-distribution loss, quantile
regression, logistic, multinomial logistic, Poisson, Cox proportional hazards
partial likelihood, AdaBoost exponential loss, Huberized hinge loss, and
Learning to Rank measures (LambdaMart). Originally developed by Greg Ridgeway.
Newer version available at <https://github.com/gbm-developers/gbm3>.
Author: Greg Ridgeway [aut, cre] ,
Daniel Edwards [ctb],
Brian Kriegler [ctb],
Stefan Schroedl [ctb],
Harry Southworth [ctb],
Brandon Greenwell [ctb] ,
Bradley Boehmke [ctb] ,
Jay Cunningham [ctb],
GBM Developers [aut]
Maintainer: Greg Ridgeway <gridge@upenn.edu>
Diff between gbm versions 2.3.0 dated 2026-07-08 and 2.3.1 dated 2026-07-09
DESCRIPTION | 6 ++-- MD5 | 12 ++++---- NEWS.md | 73 +++++++++++++++++++++++++++++++++++++++++++++------ README.md | 33 +++++++++++------------ src/node.cpp | 1 src/node_factory.cpp | 1 src/tree.cpp | 1 7 files changed, 94 insertions(+), 33 deletions(-)
Title: Extended Dynamic Quantile Linear Models
Description: Bayesian quantile-regression routines for dynamic state-space
models and static regression under the extended asymmetric Laplace
(exAL) error distribution. The dynamic state-space models are extended
dynamic quantile linear models (exDQLMs). The package combines dynamic
exDQLM inference via Laplace-delta variational Bayes (LDVB), Markov
chain Monte Carlo (MCMC), and legacy importance-sampling variational Bayes
(ISVB) with static exAL regression via LDVB and MCMC, reduced asymmetric
Laplace/dynamic quantile linear model (AL/DQLM) paths through fixed
skewness, component builders for trend/seasonality/regression blocks,
static shrinkage priors including ridge, regularized horseshoe, and
'rhs_ns', evidence lower bound (ELBO) diagnostics, optional C++
accelerators, and posterior predictive synthesis across separately fitted
quantiles through 'quantileSynthesis()'. Dynamic exDQLM methods are
described in Barata et al. (2020) <doi:10.1214/21-AOAS1497>.
Author: Raquel Barata [aut, cre],
Raquel Prado [ths],
Bruno Sanso [ths],
Antonio Aguirre [aut]
Maintainer: Raquel Barata <raquel.a.barata@gmail.com>
Diff between exdqlm versions 1.0.0 dated 2026-06-04 and 1.1.0 dated 2026-07-09
DESCRIPTION | 20 MD5 | 190 ++-- NAMESPACE | 13 NEWS.md | 32 R/compPlot.R | 4 R/exalStaticDiagnostic_methods.R |only R/exalStaticDiagnostics.R | 359 ------- R/exalStaticFit_methods.R |only R/exalStaticLDVB.R | 7 R/exalStaticMCMC.R | 7 R/exdqlm-package.R | 55 + R/exdqlmDiagnostic_methods.R |only R/exdqlmDiagnostics.R | 40 R/exdqlmFit_methods.R |only R/exdqlmForecast.R | 26 R/exdqlmForecastDiagnostic_methods.R |only R/exdqlmForecastDiagnostics.R | 59 - R/exdqlmForecast_methods.R |only R/exdqlmISVB.R | 7 R/exdqlmLDVB.R | 7 R/exdqlmMCMC.R | 5 R/exdqlmPlot.R | 9 R/exdqlmSynthesis_methods.R |only R/exdqlmTransferISVB.R | 3 R/exdqlm_methods.R |only R/generics_etc.R | 1227 --------------------------- R/quantileSynthesis.R | 6 README.md | 118 +- man/as.exdqlm.Rd | 2 man/compPlot.Rd | 5 man/diagnostics.Rd |only man/diagnostics.exalStaticFit.Rd |only man/diagnostics.exdqlmFit.Rd |only man/diagnostics.exdqlmForecast.Rd |only man/exalStaticDiagnostics.Rd | 23 man/exalStaticLDVB.Rd | 3 man/exalStaticMCMC.Rd | 3 man/exdqlm-package.Rd | 59 + man/exdqlmDiagnostics.Rd | 30 man/exdqlmForecast.Rd | 19 man/exdqlmForecastDiagnostics.Rd | 3 man/exdqlmISVB.Rd | 3 man/exdqlmLDVB.Rd | 3 man/exdqlmMCMC.Rd | 3 man/exdqlmPlot.Rd | 5 man/exdqlmTransferISVB.Rd | 3 man/exdqlmTransferLDVB.Rd | 3 man/exdqlmTransferMCMC.Rd | 3 man/is.exalStaticDiagnostic.Rd | 2 man/is.exalStaticFit.Rd |only man/is.exalStaticLDVB.Rd | 2 man/is.exalStaticMCMC.Rd | 2 man/is.exdqlm.Rd | 2 man/is.exdqlmDiagnostic.Rd | 2 man/is.exdqlmFit.Rd |only man/is.exdqlmForecast.Rd | 2 man/is.exdqlmForecastDiagnostic.Rd | 2 man/is.exdqlmISVB.Rd | 2 man/is.exdqlmLDVB.Rd | 2 man/is.exdqlmMCMC.Rd | 2 man/is.exdqlmSynthesis.Rd | 2 man/plot.exalStaticDiagnostic.Rd | 9 man/plot.exalStaticFit.Rd |only man/plot.exalStaticLDVB.Rd | 2 man/plot.exalStaticMCMC.Rd | 7 man/plot.exdqlmDiagnostic.Rd | 15 man/plot.exdqlmFit.Rd |only man/plot.exdqlmForecast.Rd | 13 man/plot.exdqlmISVB.Rd | 9 man/plot.exdqlmLDVB.Rd | 9 man/plot.exdqlmMCMC.Rd | 9 man/plot.exdqlmSynthesis.Rd | 2 man/plus-exdqlm.Rd | 2 man/predict.exdqlmFit.Rd |only man/print.exalStaticDiagnostic.Rd | 2 man/print.exalStaticFit.Rd |only man/print.exalStaticLDVB.Rd | 2 man/print.exalStaticMCMC.Rd | 2 man/print.exdqlm.Rd | 2 man/print.exdqlmDiagnostic.Rd | 4 man/print.exdqlmFit.Rd |only man/print.exdqlmForecast.Rd | 4 man/print.exdqlmForecastDiagnostic.Rd | 2 man/print.exdqlmISVB.Rd | 2 man/print.exdqlmLDVB.Rd | 2 man/print.exdqlmMCMC.Rd | 2 man/print.exdqlmSynthesis.Rd | 2 man/quantileSynthesis.Rd | 6 man/summary.exalStaticDiagnostic.Rd | 2 man/summary.exalStaticFit.Rd |only man/summary.exalStaticLDVB.Rd | 2 man/summary.exalStaticMCMC.Rd | 2 man/summary.exdqlm.Rd | 2 man/summary.exdqlmDiagnostic.Rd | 4 man/summary.exdqlmFit.Rd |only man/summary.exdqlmForecast.Rd | 4 man/summary.exdqlmForecastDiagnostic.Rd | 2 man/summary.exdqlmISVB.Rd | 2 man/summary.exdqlmLDVB.Rd | 2 man/summary.exdqlmMCMC.Rd | 2 man/summary.exdqlmSynthesis.Rd | 2 tests/testthat/test-dqlm-reduced-paths.R | 29 tests/testthat/test-exdqlm-transfer-mcmc.R | 2 tests/testthat/test-fit-class-families.R |only tests/testthat/test-forecast-diagnostics.R | 6 tests/testthat/test-print-summary-methods.R |only tests/testthat/test-s3-method-registration.R |only tests/testthat/test-static-class-generics.R | 12 108 files changed, 680 insertions(+), 1890 deletions(-)
Title: A Computational Tool for Aerobiological Data
Description: Different tools for managing databases of airborne particles, elaborating the main calculations and visualization of results. In a first step, data are checked using tools for quality control and all missing gaps are completed. Then, the main parameters of the pollen season are calculated and represented graphically. Multiple graphical tools are available: pollen calendars, phenological plots, time series, tendencies, interactive plots, abundance plots...
Author: Jesus Rojo [aut],
Antonio Picornell [aut],
Jose Oteros [aut, cre]
Maintainer: Jose Oteros <OterosJose@gmail.com>
Diff between AeRobiology versions 2.0.3 dated 2026-07-09 and 2.0.4 dated 2026-07-09
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- NEWS.md | 5 +++++ R/POMO_pollen.R | 6 +++--- R/munich_pollen.R | 4 ++-- inst/doc/my-vignette.Rmd | 2 +- inst/doc/my-vignette.html | 2 +- man/POMO_pollen.Rd | 9 ++++----- man/munich_pollen.Rd | 6 +++--- vignettes/my-vignette.Rmd | 2 +- 10 files changed, 32 insertions(+), 28 deletions(-)
Title: Methods for Analyzing Quality Measure Performance
Description: Quality of care is compared across accountable entities, including hospitals, provider groups, and insurance plans, using standardized quality measures. However, observed variations in quality measure performance might be the result of chance sampling or measurement errors. Contains functions for estimating the reliability of unadjusted and risk-standardized quality measures.
Author: Kenneth Nieser [aut, cre, cph]
Maintainer: Kenneth Nieser <nieser@stanford.edu>
Diff between QualityMeasure versions 2.0.1 dated 2025-10-16 and 2.0.2 dated 2026-07-09
DESCRIPTION | 10 MD5 | 26 - NEWS.md | 12 R/calcPerformance.R | 655 ++++++++++++++------------- R/plotCalibration.R | 7 R/plotEstimates.R | 9 R/plotN.R | 4 R/plotPerformance.R | 18 R/plotReliability.R | 3 README.md | 53 +- build/vignette.rds |binary inst/doc/Colonoscopy_Measure_Example.html | 9 inst/doc/Psych_Readmission_Rate_Example.html | 7 inst/doc/Tutorial.html | 31 - 14 files changed, 475 insertions(+), 369 deletions(-)
More information about QualityMeasure at CRAN
Permanent link
Title: Generate PMML for Various Models
Description: The Predictive Model Markup Language (PMML) is an XML-based language which provides a way for applications to define machine learning, statistical and data mining models and to share models between PMML compliant applications. More information about the PMML industry standard and the Data Mining Group can be found at <https://dmg.org/>. The generated PMML can be imported into any PMML consuming application, such as Zementis Predictive Analytics products.
Author: Michael Hahsler [aut, cre],
Bruno Rodrigues [aut],
Dmitriy Bolotov [aut],
Tridivesh Jena [aut],
Graham Williams [aut],
Wen-Ching Lin [aut],
Hemant Ishwaran [aut],
Udaya B. Kogalur [aut],
Rajarshi Guha [aut],
Software AG [cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between pmml versions 2.6.0 dated 2026-03-26 and 2.6.1 dated 2026-07-09
pmml-2.6.0/pmml/R/pmml.neighbr.R |only pmml-2.6.0/pmml/man/pmml.neighbr.Rd |only pmml-2.6.0/pmml/tests/testthat/test_pmml.neighbr.R |only pmml-2.6.1/pmml/DESCRIPTION | 16 - pmml-2.6.1/pmml/MD5 | 159 +++++++--------- pmml-2.6.1/pmml/NAMESPACE | 2 pmml-2.6.1/pmml/NEWS.md | 8 pmml-2.6.1/pmml/R/add_attributes.R | 4 pmml-2.6.1/pmml/R/add_data_field_attributes.R | 4 pmml-2.6.1/pmml/R/add_data_field_children.R | 4 pmml-2.6.1/pmml/R/add_mining_field_attributes.R | 4 pmml-2.6.1/pmml/R/data-audit.R | 4 pmml-2.6.1/pmml/R/data-houseVotes84.R | 4 pmml-2.6.1/pmml/R/file_to_xml_node.R | 4 pmml-2.6.1/pmml/R/make_intervals.R | 2 pmml-2.6.1/pmml/R/make_output_nodes.R | 8 pmml-2.6.1/pmml/R/make_values.R | 4 pmml-2.6.1/pmml/R/pmml-package.R | 32 +-- pmml-2.6.1/pmml/R/pmml.ARIMA.R | 10 - pmml-2.6.1/pmml/R/pmml.R | 38 +-- pmml-2.6.1/pmml/R/pmml.ada.R | 4 pmml-2.6.1/pmml/R/pmml.coxph.R | 6 pmml-2.6.1/pmml/R/pmml.cv.glmnet.R | 10 - pmml-2.6.1/pmml/R/pmml.gbm.R | 6 pmml-2.6.1/pmml/R/pmml.glm.R | 2 pmml-2.6.1/pmml/R/pmml.hclust.R | 12 - pmml-2.6.1/pmml/R/pmml.iForest.R | 12 - pmml-2.6.1/pmml/R/pmml.kmeans.R | 8 pmml-2.6.1/pmml/R/pmml.ksvm.R | 6 pmml-2.6.1/pmml/R/pmml.lm.R | 4 pmml-2.6.1/pmml/R/pmml.multinom.R | 6 pmml-2.6.1/pmml/R/pmml.naiveBayes.R | 6 pmml-2.6.1/pmml/R/pmml.nnet.R | 4 pmml-2.6.1/pmml/R/pmml.randomForest.R | 4 pmml-2.6.1/pmml/R/pmml.rpart.R | 4 pmml-2.6.1/pmml/R/pmml.rules.R | 3 pmml-2.6.1/pmml/R/pmml.svm.R | 40 ++-- pmml-2.6.1/pmml/R/pmml.xgb.Booster.R | 18 - pmml-2.6.1/pmml/R/rename_wrap_var.R | 12 - pmml-2.6.1/pmml/R/xform_discretize.R | 24 +- pmml-2.6.1/pmml/R/xform_function.R | 20 +- pmml-2.6.1/pmml/R/xform_map.R | 18 - pmml-2.6.1/pmml/R/xform_min_max.R | 26 +- pmml-2.6.1/pmml/R/xform_norm_discrete.R | 26 +- pmml-2.6.1/pmml/R/xform_wrap.R | 4 pmml-2.6.1/pmml/R/xform_z_score.R | 24 +- pmml-2.6.1/pmml/README.md | 61 ++++-- pmml-2.6.1/pmml/build/vignette.rds |binary pmml-2.6.1/pmml/man/add_output_field.Rd | 6 pmml-2.6.1/pmml/man/audit.Rd | 2 pmml-2.6.1/pmml/man/function_to_pmml.Rd | 8 pmml-2.6.1/pmml/man/houseVotes84.Rd | 3 pmml-2.6.1/pmml/man/make_intervals.Rd | 2 pmml-2.6.1/pmml/man/make_values.Rd | 4 pmml-2.6.1/pmml/man/pmml-package.Rd | 10 - pmml-2.6.1/pmml/man/pmml.ARIMA.Rd | 4 pmml-2.6.1/pmml/man/pmml.Rd | 16 - pmml-2.6.1/pmml/man/pmml.ada.Rd | 3 pmml-2.6.1/pmml/man/pmml.coxph.Rd | 3 pmml-2.6.1/pmml/man/pmml.cv.glmnet.Rd | 3 pmml-2.6.1/pmml/man/pmml.gbm.Rd | 3 pmml-2.6.1/pmml/man/pmml.iForest.Rd | 8 pmml-2.6.1/pmml/man/pmml.kmeans.Rd | 3 pmml-2.6.1/pmml/man/pmml.ksvm.Rd | 3 pmml-2.6.1/pmml/man/pmml.multinom.Rd | 3 pmml-2.6.1/pmml/man/pmml.nnet.Rd | 3 pmml-2.6.1/pmml/man/pmml.randomForest.Rd | 3 pmml-2.6.1/pmml/man/pmml.rpart.Rd | 3 pmml-2.6.1/pmml/man/pmml.rules.Rd | 3 pmml-2.6.1/pmml/man/pmml.svm.Rd | 15 - pmml-2.6.1/pmml/man/pmml.xgb.Booster.Rd | 2 pmml-2.6.1/pmml/man/rename_wrap_var.Rd | 12 - pmml-2.6.1/pmml/man/xform_discretize.Rd | 26 +- pmml-2.6.1/pmml/man/xform_function.Rd | 2 pmml-2.6.1/pmml/man/xform_map.Rd | 20 +- pmml-2.6.1/pmml/man/xform_min_max.Rd | 26 +- pmml-2.6.1/pmml/man/xform_norm_discrete.Rd | 28 +- pmml-2.6.1/pmml/man/xform_wrap.Rd | 4 pmml-2.6.1/pmml/man/xform_z_score.Rd | 22 +- pmml-2.6.1/pmml/tests/testthat/test_pmml.cv.glmnet.R | 5 pmml-2.6.1/pmml/tests/testthat/test_pmml.gbm.R | 3 pmml-2.6.1/pmml/tests/testthat/test_schema_validation.R | 6 82 files changed, 484 insertions(+), 460 deletions(-)
Title: Lightweight Toolkit for Messaging, Concurrency and the Web
Description: R binding for NNG (Nanomsg Next Gen), a successor to ZeroMQ.
A toolkit for messaging, concurrency and the web. High-performance
socket messaging over in-process, IPC, TCP, WebSocket and secure TLS
transports implements 'Scalability Protocols', a standard for common
communications patterns including publish/subscribe, request/reply and
survey. A threaded concurrency framework with intuitive 'aio' objects
that resolve automatically upon completion of asynchronous operations,
and synchronisation primitives that allow R to wait on events
signalled by concurrent threads. A unified HTTP server hosting REST
endpoints, WebSocket connections and streaming on a single port, with
a built-in HTTP client.
Author: Charlie Gao [aut, cre] ,
Posit Software, PBC [cph, fnd] ,
Hibiki AI Limited [cph],
Staysail Systems, Inc. [cph] ,
Capitar IT Group BV [cph] ,
The Mbed TLS Contributors [cph] ,
Pierre L'Ecuyer [cph] ,
sakura authors [cph] ,
R Consortium [fnd]
Maintainer: Charlie Gao <charlie.gao@posit.co>
Diff between nanonext versions 1.10.0 dated 2026-07-01 and 1.10.1 dated 2026-07-09
nanonext-1.10.0/nanonext/man/figures/logo.png |only nanonext-1.10.1/nanonext/DESCRIPTION | 6 nanonext-1.10.1/nanonext/MD5 | 39 +++-- nanonext-1.10.1/nanonext/NAMESPACE | 1 nanonext-1.10.1/nanonext/NEWS.md | 6 nanonext-1.10.1/nanonext/R/server.R | 26 +++ nanonext-1.10.1/nanonext/README.md | 4 nanonext-1.10.1/nanonext/build/vignette.rds |binary nanonext-1.10.1/nanonext/inst/doc/nanonext.html | 2 nanonext-1.10.1/nanonext/inst/doc/v01-messaging.html | 2 nanonext-1.10.1/nanonext/inst/doc/v02-protocols.html | 2 nanonext-1.10.1/nanonext/inst/doc/v03-configuration.html | 2 nanonext-1.10.1/nanonext/inst/doc/v04-web.Rmd | 36 ++--- nanonext-1.10.1/nanonext/inst/doc/v04-web.html | 38 ++--- nanonext-1.10.1/nanonext/man/figures/logo.svg |only nanonext-1.10.1/nanonext/man/http_server.Rd | 6 nanonext-1.10.1/nanonext/man/run_event_loop.Rd |only nanonext-1.10.1/nanonext/src/mbedtls/library/cipher.c | 3 nanonext-1.10.1/nanonext/src/mbedtls/library/md.c | 3 nanonext-1.10.1/nanonext/tests/tests.R | 100 +++++++-------- nanonext-1.10.1/nanonext/tools/patch_mbedtls.sh | 23 +++ nanonext-1.10.1/nanonext/vignettes/v04-web.Rmd | 36 ++--- 22 files changed, 192 insertions(+), 143 deletions(-)
Title: Conditional Formatting in Data Frames
Description: Apply and visualize conditional formatting to data frames in R.
It renders a data frame with cells formatted according to
criteria defined by rules, using a tidy evaluation syntax. The table is
printed either opening a web browser or within the 'RStudio' viewer if
available. The conditional formatting rules allow to highlight cells
matching a condition or add a gradient background to a given column. This
package supports both 'HTML' and 'LaTeX' outputs in 'knitr' reports, and
exporting to an 'xlsx' file.
Author: Sergio Oller Moreno [aut, cph, cre]
Maintainer: Sergio Oller Moreno <sergioller@gmail.com>
Diff between condformat versions 0.10.1 dated 2023-10-08 and 0.11.0 dated 2026-07-09
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Title: Optimal Density Estimation via Shimazaki-Shinomoto Method
Description: Implements the Shimazaki-Shinomoto method for optimizing the
bin width of histograms and the bandwidth of kernel density estimators.
The framework minimizes the expected Mean Integrated Squared Error (MISE)
and supports both 1D and 2D distributions, fixed and locally adaptive
estimators, bootstrap confidence intervals, and 'OpenMP'-accelerated 'C++' 'backends'. Ideally suited for time-dependent rate estimation and
identifying intrinsic data structures. For more details see Shimazaki and
Shinomoto (2007) <doi:10.1162/neco.2007.19.6.1503> and Shimazaki and
Shinomoto (2010) <doi:10.1007/s10827-009-0180-4>.
Author: Daniil Popov [aut, cre]
Maintainer: Daniil Popov <popov.daniil@gmail.com>
Diff between sshist versions 0.1.3 dated 2026-03-04 and 0.2.2 dated 2026-07-09
sshist-0.1.3/sshist/man/figures |only sshist-0.2.2/sshist/DESCRIPTION | 32 - sshist-0.2.2/sshist/MD5 | 73 +- sshist-0.2.2/sshist/NAMESPACE | 23 sshist-0.2.2/sshist/NEWS.md | 45 + sshist-0.2.2/sshist/R/RcppExports.R | 20 sshist-0.2.2/sshist/R/common.R |only sshist-0.2.2/sshist/R/imports.R |only sshist-0.2.2/sshist/R/sshist-package.R |only sshist-0.2.2/sshist/R/sshist.R | 509 ++++++++-------- sshist-0.2.2/sshist/R/sskernel.R |only sshist-0.2.2/sshist/R/ssvkernel.R |only sshist-0.2.2/sshist/README.md | 171 +---- sshist-0.2.2/sshist/build/partial.rdb |only sshist-0.2.2/sshist/build/vignette.rds |binary sshist-0.2.2/sshist/inst/WORDLIST |only sshist-0.2.2/sshist/inst/doc/ggplot2_visualization.R |only sshist-0.2.2/sshist/inst/doc/ggplot2_visualization.Rmd |only sshist-0.2.2/sshist/inst/doc/ggplot2_visualization.html |only sshist-0.2.2/sshist/inst/doc/introduction.R | 92 ++ sshist-0.2.2/sshist/inst/doc/introduction.Rmd | 214 +++++- sshist-0.2.2/sshist/inst/doc/introduction.html | 403 ++++++++++-- sshist-0.2.2/sshist/man/plot.sshist.Rd | 10 sshist-0.2.2/sshist/man/plot.sshist_2d.Rd | 11 sshist-0.2.2/sshist/man/plot.sskernel.Rd |only sshist-0.2.2/sshist/man/plot.sskernel2d.Rd |only sshist-0.2.2/sshist/man/plot.ssvkernel.Rd |only sshist-0.2.2/sshist/man/plot.ssvkernel2d.Rd |only sshist-0.2.2/sshist/man/print.sshist.Rd | 9 sshist-0.2.2/sshist/man/print.sskernel.Rd |only sshist-0.2.2/sshist/man/print.sskernel2d.Rd |only sshist-0.2.2/sshist/man/print.ssvkernel.Rd |only sshist-0.2.2/sshist/man/print.ssvkernel2d.Rd |only sshist-0.2.2/sshist/man/sshist-package.Rd |only sshist-0.2.2/sshist/man/sshist.Rd | 56 - sshist-0.2.2/sshist/man/sshist_2d.Rd | 42 - sshist-0.2.2/sshist/man/sskernel.Rd |only sshist-0.2.2/sshist/man/sskernel2d.Rd |only sshist-0.2.2/sshist/man/ssvkernel.Rd |only sshist-0.2.2/sshist/man/ssvkernel2d.Rd |only sshist-0.2.2/sshist/src/RcppExports.cpp | 72 ++ sshist-0.2.2/sshist/src/sshist_algo.cpp | 184 +++++ sshist-0.2.2/sshist/tests/testthat.R |only sshist-0.2.2/sshist/tests/testthat/oldfaithful.txt |only sshist-0.2.2/sshist/tests/testthat/test-sshist.R | 115 ++- sshist-0.2.2/sshist/tests/testthat/test-sshist_2d.R | 130 ++-- sshist-0.2.2/sshist/tests/testthat/test-sskernel.R |only sshist-0.2.2/sshist/tests/testthat/test-sskernel_2d.R |only sshist-0.2.2/sshist/tests/testthat/test-ssvkernel.R |only sshist-0.2.2/sshist/tests/testthat/test-ssvkernel_2d.R |only sshist-0.2.2/sshist/vignettes/ggplot2_visualization.Rmd |only sshist-0.2.2/sshist/vignettes/introduction.Rmd | 214 +++++- 52 files changed, 1684 insertions(+), 741 deletions(-)
Title: Multilevel Analysis of Individual Heterogeneity and
Discriminatory Accuracy
Description: Tools for Multilevel Analysis of Individual Heterogeneity and
Discriminatory Accuracy (MAIHDA) for intersectional inequality research.
Methods are described in Merlo (2018) <doi:10.1016/j.socscimed.2017.12.026>
and Evans et al. (2018) <doi:10.1016/j.socscimed.2017.11.011>. The package
creates intersectional strata, fits multilevel MAIHDA models, estimates
variance partition coefficients, proportional change in variance, stratum
effects, and discriminatory-accuracy summaries, and provides diagnostic and
presentation plots.
Author: Hamid Bulut [aut, cre]
Maintainer: Hamid Bulut <me@hamidbulut.com>
Diff between MAIHDA versions 0.2.0 dated 2026-07-02 and 0.2.1 dated 2026-07-09
MAIHDA-0.2.0/MAIHDA/R/calculate_pvc.R |only MAIHDA-0.2.0/MAIHDA/man/bootstrap_pvc.Rd |only MAIHDA-0.2.0/MAIHDA/man/print.pvc_result.Rd |only MAIHDA-0.2.0/MAIHDA/tests/testthat/test-calculate_pvc.R |only MAIHDA-0.2.1/MAIHDA/DESCRIPTION | 6 MAIHDA-0.2.1/MAIHDA/MD5 | 197 MAIHDA-0.2.1/MAIHDA/NAMESPACE | 2 MAIHDA-0.2.1/MAIHDA/NEWS.md | 79 MAIHDA-0.2.1/MAIHDA/R/app_modules.R | 46 MAIHDA-0.2.1/MAIHDA/R/calculate_pcv.R |only MAIHDA-0.2.1/MAIHDA/R/compare_maihda.R | 220 MAIHDA-0.2.1/MAIHDA/R/decompose_maihda.R | 54 MAIHDA-0.2.1/MAIHDA/R/fit_maihda.R | 72 MAIHDA-0.2.1/MAIHDA/R/information_criteria.R | 2 MAIHDA-0.2.1/MAIHDA/R/interactions.R | 2 MAIHDA-0.2.1/MAIHDA/R/longitudinal.R | 424 - MAIHDA-0.2.1/MAIHDA/R/maihda_table.R | 19 MAIHDA-0.2.1/MAIHDA/R/maihda_workflow.R | 249 MAIHDA-0.2.1/MAIHDA/R/make_strata.R | 23 MAIHDA-0.2.1/MAIHDA/R/plot_maihda.R | 3765 +++++----- MAIHDA-0.2.1/MAIHDA/R/plot_prediction_deviation_panels.R | 2 MAIHDA-0.2.1/MAIHDA/R/predict_maihda.R | 21 MAIHDA-0.2.1/MAIHDA/R/run_app.R | 41 MAIHDA-0.2.1/MAIHDA/R/summary_maihda.R | 23 MAIHDA-0.2.1/MAIHDA/R/tidiers.R | 2 MAIHDA-0.2.1/MAIHDA/R/utils_maihda.R | 325 MAIHDA-0.2.1/MAIHDA/README.md | 10 MAIHDA-0.2.1/MAIHDA/data/maihda_country_data.rda |binary MAIHDA-0.2.1/MAIHDA/inst/doc/bayesian_sparse_maihda.html | 4 MAIHDA-0.2.1/MAIHDA/inst/doc/binary_outcomes.R | 2 MAIHDA-0.2.1/MAIHDA/inst/doc/binary_outcomes.Rmd | 4 MAIHDA-0.2.1/MAIHDA/inst/doc/binary_outcomes.html | 12 MAIHDA-0.2.1/MAIHDA/inst/doc/case_study_brfss.html | 4 MAIHDA-0.2.1/MAIHDA/inst/doc/cross_classified.html | 10 MAIHDA-0.2.1/MAIHDA/inst/doc/finding_interactions.html | 8 MAIHDA-0.2.1/MAIHDA/inst/doc/group_comparison.Rmd | 15 MAIHDA-0.2.1/MAIHDA/inst/doc/group_comparison.html | 21 MAIHDA-0.2.1/MAIHDA/inst/doc/interactive_app.html | 4 MAIHDA-0.2.1/MAIHDA/inst/doc/interpreting_plots.R | 5 MAIHDA-0.2.1/MAIHDA/inst/doc/interpreting_plots.Rmd | 17 MAIHDA-0.2.1/MAIHDA/inst/doc/interpreting_plots.html | 38 MAIHDA-0.2.1/MAIHDA/inst/doc/introduction.R | 4 MAIHDA-0.2.1/MAIHDA/inst/doc/introduction.Rmd | 8 MAIHDA-0.2.1/MAIHDA/inst/doc/introduction.html | 24 MAIHDA-0.2.1/MAIHDA/inst/doc/longitudinal.Rmd | 18 MAIHDA-0.2.1/MAIHDA/inst/doc/longitudinal.html | 31 MAIHDA-0.2.1/MAIHDA/inst/doc/planning_a_study.Rmd | 7 MAIHDA-0.2.1/MAIHDA/inst/doc/planning_a_study.html | 13 MAIHDA-0.2.1/MAIHDA/inst/doc/reporting_results.Rmd | 7 MAIHDA-0.2.1/MAIHDA/inst/doc/reporting_results.html | 14 MAIHDA-0.2.1/MAIHDA/inst/shiny/app.R | 40 MAIHDA-0.2.1/MAIHDA/man/MAIHDA-package.Rd | 2 MAIHDA-0.2.1/MAIHDA/man/bootstrap_pcv.Rd |only MAIHDA-0.2.1/MAIHDA/man/calculate_pcv.Rd |only MAIHDA-0.2.1/MAIHDA/man/calculate_pvc.Rd | 75 MAIHDA-0.2.1/MAIHDA/man/compare_maihda_groups.Rd | 39 MAIHDA-0.2.1/MAIHDA/man/extract_between_variance.Rd | 2 MAIHDA-0.2.1/MAIHDA/man/fit_maihda.Rd | 15 MAIHDA-0.2.1/MAIHDA/man/maihda.Rd | 46 MAIHDA-0.2.1/MAIHDA/man/maihda_ic.Rd | 2 MAIHDA-0.2.1/MAIHDA/man/maihda_interactions.Rd | 2 MAIHDA-0.2.1/MAIHDA/man/maihda_longitudinal_adjusted_formula.Rd | 5 MAIHDA-0.2.1/MAIHDA/man/maihda_longitudinal_formula.Rd | 22 MAIHDA-0.2.1/MAIHDA/man/maihda_longitudinal_pcv.Rd | 22 MAIHDA-0.2.1/MAIHDA/man/maihda_longitudinal_strata_predictions.Rd | 15 MAIHDA-0.2.1/MAIHDA/man/maihda_table.Rd | 4 MAIHDA-0.2.1/MAIHDA/man/maihda_validate_longitudinal.Rd | 7 MAIHDA-0.2.1/MAIHDA/man/maihda_warn_linear_strata_dims.Rd |only MAIHDA-0.2.1/MAIHDA/man/make_strata.Rd | 8 MAIHDA-0.2.1/MAIHDA/man/plot.maihda_analysis.Rd | 33 MAIHDA-0.2.1/MAIHDA/man/plot.maihda_group_comparison.Rd | 3 MAIHDA-0.2.1/MAIHDA/man/plot.maihda_model.Rd | 23 MAIHDA-0.2.1/MAIHDA/man/plot_predicted_strata.Rd | 15 MAIHDA-0.2.1/MAIHDA/man/plot_upset_strata.Rd | 5 MAIHDA-0.2.1/MAIHDA/man/plot_vpc_change.Rd |only MAIHDA-0.2.1/MAIHDA/man/plot_vpc_trajectory_change.Rd |only MAIHDA-0.2.1/MAIHDA/man/print.maihda_stepwise.Rd | 2 MAIHDA-0.2.1/MAIHDA/man/print.pcv_result.Rd |only MAIHDA-0.2.1/MAIHDA/man/stepwise_pcv.Rd | 42 MAIHDA-0.2.1/MAIHDA/man/summary.maihda_model.Rd | 23 MAIHDA-0.2.1/MAIHDA/tests/testthat/setup-seed.R |only MAIHDA-0.2.1/MAIHDA/tests/testthat/test-calculate_pcv.R |only MAIHDA-0.2.1/MAIHDA/tests/testthat/test-compare_maihda_groups.R | 4 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-contextual.R | 277 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-correctness-regressions.R | 223 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-cross-classified.R | 41 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-design-weights.R | 20 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-health_data.R | 4 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-longitudinal.R | 315 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-maihda-workflow.R | 142 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-maihda_table.R | 2 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-make_strata.R | 27 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-negbinomial.R | 33 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-ordinal-engine.R | 36 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-plot_predicted.R | 121 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-run_app.R | 30 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-summary_variance.R | 54 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-tidiers.R | 2 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-weighted-count-vpc.R | 24 MAIHDA-0.2.1/MAIHDA/vignettes/binary_outcomes.Rmd | 4 MAIHDA-0.2.1/MAIHDA/vignettes/group_comparison.Rmd | 15 MAIHDA-0.2.1/MAIHDA/vignettes/interpreting_plots.Rmd | 17 MAIHDA-0.2.1/MAIHDA/vignettes/introduction.Rmd | 8 MAIHDA-0.2.1/MAIHDA/vignettes/longitudinal.Rmd | 18 MAIHDA-0.2.1/MAIHDA/vignettes/planning_a_study.Rmd | 7 MAIHDA-0.2.1/MAIHDA/vignettes/reporting_results.Rmd | 7 106 files changed, 5122 insertions(+), 2615 deletions(-)
Title: Lightweight Tables via JSON Specs and JavaScript
Description: A lightweight grammar of tables. Build a table by declaring a JSON
spec (titles, spanners, row groups, footnotes, formatting functions, etc.); a tiny
vanilla JavaScript runtime builds the HTML table from the spec on page
load. No 'sass', no 'V8', no 'htmlwidgets' — just base R and 'xfun'
('htmltools' is used only for the optional Shiny binding).
Author: Yihui Xie [aut, cre, cph]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between lt versions 0.1 dated 2026-06-30 and 0.2 dated 2026-07-09
lt-0.1/lt/tests/test-ci/run-js.js |only lt-0.2/lt/DESCRIPTION | 14 - lt-0.2/lt/MD5 | 44 ++-- lt-0.2/lt/NAMESPACE | 2 lt-0.2/lt/NEWS.md | 6 lt-0.2/lt/R/lt.R | 21 ++ lt-0.2/lt/R/render.R | 326 +++++++++++++++++++++++++++++++++-- lt-0.2/lt/R/shiny.R | 2 lt-0.2/lt/R/tab.R | 47 ++++- lt-0.2/lt/README.md | 128 ++++++++++++- lt-0.2/lt/inst/js |only lt-0.2/lt/inst/www/lt.css | 24 +- lt-0.2/lt/inst/www/lt.js | 109 +++++++---- lt-0.2/lt/man/format.lt_tbl.Rd | 6 lt-0.2/lt/man/lt.Rd | 29 +++ lt-0.2/lt/man/lt_export.Rd |only lt-0.2/lt/man/lt_footnote.Rd | 3 lt-0.2/lt/man/lt_header.Rd | 6 lt-0.2/lt/man/lt_html.Rd |only lt-0.2/lt/man/lt_label.Rd | 5 lt-0.2/lt/man/lt_note.Rd | 4 lt-0.2/lt/man/lt_spanner.Rd | 2 lt-0.2/lt/tests/test-ci/test-js.R | 248 +++++++++++++++++++++++++- lt-0.2/lt/tests/testit/test-render.R | 24 ++ lt-0.2/lt/tests/testit/test-tab.R | 12 + 25 files changed, 946 insertions(+), 116 deletions(-)
Title: Cohort Analysis Made Easy
Description: Functions to simplify the process of preparing event and transaction for cohort analysis.
Author: Peer Christensen [aut, cre]
Maintainer: Peer Christensen <hr.pchristensen@gmail.com>
Diff between cohorts versions 1.0.1 dated 2022-05-15 and 1.3.0 dated 2026-07-09
DESCRIPTION | 10 ++--- MD5 | 30 +++++++++++----- NAMESPACE | 2 + NEWS.md | 14 +++++++ R/cohort_table_day.R | 21 +++++------ R/cohort_table_month.R | 26 +++++++------- R/cohort_table_pct.R | 24 +++++++------ R/cohort_table_week.R |only R/cohort_table_year.R |only R/cohorts.R |only R/shift_left.R | 17 +-------- R/shift_left_pct.R | 27 +++++---------- R/utils-cohort.R |only README.md | 55 +++++++++++++++---------------- man/cohort_table_week.Rd |only man/cohort_table_year.Rd |only man/figures/README-unnamed-chunk-6-1.png |binary tests |only 18 files changed, 116 insertions(+), 110 deletions(-)
Title: 'Public Trading API'
Description: The 'Public Trading API' <https://public.com/api/docs> allows clients to access their brokerage accounts, request market data, and place stock/etf/option orders.
Author: Jason Guevara [aut, cre]
Maintainer: Jason Guevara <Jason.guevara.yt@gmail.com>
Diff between rPublic versions 1.0.0 dated 2025-08-22 and 1.2.0 dated 2026-07-09
DESCRIPTION | 8 - MD5 | 14 +- NAMESPACE | 3 R/rPublic.R | 247 ++++++++++++++++++++++++++++++++++++- build/vignette.rds |binary man/rp_bars.Rd |only man/rp_fix_bars.Rd |only man/rp_getAcctsPort.Rd | 2 man/rp_hist_bars.Rd |only tests/testthat/test-test-orderID.R |only 10 files changed, 261 insertions(+), 13 deletions(-)
Title: Partial Eta-Squared for Crossed, Nested, and Mixed Linear Mixed
Models
Description: Computes partial eta-squared effect sizes for fixed effects in
linear mixed models fitted with the 'lme4' package. Supports crossed,
nested, and mixed (crossed-and-nested) random effects structures with any
number of grouping factors. Mixed designs handle cases where grouping
factors are simultaneously crossed with some variables and nested within
others (e.g., photos nested within models, but both crossed with
participants). Factor predictors are supported directly, and a single
factor-level (omnibus) effect size can be obtained for a multi-level factor
or multi-df interaction. Random slope variances are translated to the
outcome scale using a variance decomposition approach, correctly accounting
for predictor scaling and interaction terms. Both general and operative
effect sizes are provided, with optional parametric bootstrap confidence
intervals. For correlated predictors, per-predictor effect sizes use unique
(semipartial) variance by default. Methods are based on Correll, Melling [...truncated...]
Author: Brandon Cohen [aut, cre] ,
Joshua Correll [aut, ths]
Maintainer: Brandon Cohen <brandon.cohen-1@colorado.edu>
Diff between pecanr versions 0.3.0 dated 2026-06-23 and 0.3.1 dated 2026-07-09
DESCRIPTION | 6 +- MD5 | 11 ++-- NEWS.md | 58 ++++++++++++++++++---- R/eta2p.R | 100 +++++++++++++++++++++++++++------------ README.md | 23 ++++++-- inst/WORDLIST | 1 tests/testthat/test-double-bar.R |only 7 files changed, 146 insertions(+), 53 deletions(-)
Title: Obtaining Open Data from Instituto Canario De Estadistica
(ISTAC) API
Description: You can access to open data published in Instituto Canario De Estadistica (ISTAC) APIs at <https://datos.canarias.es/api/estadisticas/>.
Author: Alberto Gonzalez [cph],
Elisa Jorge [aut, cre]
Maintainer: Elisa Jorge <ejorgon@gobiernodecanarias.org>
Diff between istacr versions 0.3.0 dated 2025-09-04 and 0.3.1 dated 2026-07-09
istacr-0.3.0/istacr/man/docs/istacr_0.3.0.pdf |only istacr-0.3.1/istacr/DESCRIPTION | 9 + istacr-0.3.1/istacr/MD5 | 14 +-- istacr-0.3.1/istacr/NAMESPACE | 1 istacr-0.3.1/istacr/R/services.R | 46 +++++++--- istacr-0.3.1/istacr/R/statistical-resources-cubes.R | 30 +++--- istacr-0.3.1/istacr/R/sysdata.rda |only istacr-0.3.1/istacr/man/change_api_url.Rd |only istacr-0.3.1/istacr/man/docs/istacr_0.3.1.pdf |only istacr-0.3.1/istacr/man/get_statisticalresources_datasets_agency_resource_version.Rd | 21 +++- 10 files changed, 78 insertions(+), 43 deletions(-)
Title: Forecast Reconciliation with Machine Learning
Description: Nonlinear forecast reconciliation with machine learning in
cross-sectional (Spiliotis et al. 2021 <doi:10.1016/j.asoc.2021.107756>),
temporal, and cross-temporal
(Rombouts et al. 2024 <doi:10.1016/j.ijforecast.2024.05.008>) frameworks.
Author: Daniele Girolimetto [aut, cre] ,
Yangzhuoran Fin Yang [aut] ,
Jeroen Rombouts [aut] ,
Ines Wilms [aut]
Maintainer: Daniele Girolimetto <daniele.girolimetto@unipd.it>
Diff between FoRecoML versions 1.1.0 dated 2026-06-23 and 1.1.1 dated 2026-07-09
DESCRIPTION | 6 - MD5 | 26 ++--- NAMESPACE | 3 NEWS.md | 7 + R/FoRecoML-package.R | 2 R/csrml.R | 62 ++++++++++---- R/ctrml.R | 83 ++++++++++++++---- R/terml.R | 60 ++++++++++--- R/utils.R | 188 +++++++++++++++++++++++++++++++++++++++---- README.md | 8 - man/csrml.Rd | 5 - man/ctrml.Rd | 5 - man/extract_reconciled_ml.Rd | 15 ++- man/terml.Rd | 5 - 14 files changed, 372 insertions(+), 103 deletions(-)
Title: Leveraging Experiment Lines to Data Analytics
Description: The natural increase in the complexity of current research experiments and data demands better tools to enhance productivity in Data Analytics. The package is a framework designed to address the modern challenges in data analytics workflows. The package is inspired by Experiment Line concepts. It aims to provide seamless support for users in developing their data mining workflows by offering a uniform data model and method API. It enables the integration of various data mining activities, including data preprocessing, classification, regression, clustering, and time series prediction. It also offers options for hyper-parameter tuning and supports integration with existing libraries and languages. Overall, the package provides researchers with a comprehensive set of functionalities for data science, promoting ease of use, extensibility, and integration with various tools and libraries. Information on Experiment Line is based on Ogasawara et al. (2009) <doi:10.1007/978-3-642-02279-1_2 [...truncated...]
Author: Eduardo Ogasawara [aut, ths, cre] ,
Ana Carolina Sa [aut],
Antonio Castro [aut],
Caio Santos [aut],
Diego Carvalho [ctb],
Diego Salles [aut],
Eduardo Bezerra [ctb],
Esther Pacitti [ctb],
Fabio Porto [ctb],
Janio Lima [aut],
Lucas Tavares [aut],
Rafae [...truncated...]
Maintainer: Eduardo Ogasawara <eogasawara@ieee.org>
Diff between daltoolbox versions 1.3.747 dated 2026-05-14 and 1.3.767 dated 2026-07-09
DESCRIPTION | 10 ++++----- MD5 | 47 +++++++++++++++++++++---------------------- NAMESPACE | 3 +- R/cla_xgboost.R | 21 ++++++------------- R/dal_predictor.R | 22 ++++++++++++++++---- man/cla_majority.Rd | 24 +++++++++++++++------ man/cla_xgboost.Rd | 21 ++++++------------- man/cluster_cmeans.Rd | 16 ++++++++++++++ man/cluster_dbscan.Rd | 16 ++++++++++++++ man/cluster_gmm.Rd | 15 +++++++++++++ man/cluster_hclust.Rd | 18 ++++++++++++++++ man/cluster_kmeans.Rd | 18 ++++++++++++++++ man/cluster_louvain_graph.Rd | 18 ++++++++++++++++ man/cluster_pam.Rd | 18 ++++++++++++++++ man/clusterer.Rd | 18 ++++++++++++++++ man/dal_graphics.Rd | 28 ++++++++++++++++++------- man/discover.Rd | 6 ++--- man/imputation_predictive.Rd | 4 +-- man/pat_eclat.Rd | 16 +++++++------- man/pattern_miner.Rd | 8 +++++-- man/plot_bar.Rd | 36 ++++++++++++++++++++------------ man/predictor_prepare_fit.Rd |only man/sample_random.Rd | 17 ++++++++++----- man/sample_stratified.Rd | 20 ++++++++++++------ man/train_test_from_folds.Rd | 25 +++++++++++++--------- 25 files changed, 319 insertions(+), 126 deletions(-)
Title: (Robust) Canonical Correlation Analysis via Projection Pursuit
Description: Canonical correlation analysis and maximum correlation via
projection pursuit, as well as fast implementations of correlation
estimators, with a focus on robust and nonparametric methods.
Author: Andreas Alfons [aut, cre] ,
David Simcha [ctb] ) implementation of Kendall correlation)
Maintainer: Andreas Alfons <alfons@ese.eur.nl>
Diff between ccaPP versions 0.3.5 dated 2025-10-02 and 0.3.6 dated 2026-07-09
DESCRIPTION | 8 MD5 | 30 +- NEWS | 5 build/partial.rdb |binary build/vignette.rds |binary data/diabetes.RData |binary inst/doc/ccaPP-intro.Rnw | 488 +++++++++++++++++++++++----------------------- inst/doc/ccaPP-intro.pdf |binary src/Makevars | 2 src/Makevars.win | 2 src/cca.cpp | 13 - src/ccaPP_init.c | 1 src/cor.cpp | 3 src/utils.cpp | 1 vignettes/ccaPP-intro.Rnw | 488 +++++++++++++++++++++++----------------------- vignettes/maxCor.bib | 20 - 16 files changed, 531 insertions(+), 530 deletions(-)
Title: Generator of Main Scientific References
Description: Generates a list, with a size defined by the user, containing the main scientific references and the frequency distribution of authors and journals in the list obtained.
The database is a dataframe with academic production metadata made available by bibliographic collections such as Scopus, Web of Science, etc.
The temporal evolution of scientific production on a given topic is presented and ordered lists of articles are constructed by number of citations and of authors and journals by level of productivity.
Massimo Aria, Corrado Cuccurullo. (2017) <doi:10.1016/j.joi.2017.08.007>.
Caibo Zhou, Wenyan Song. (2021) <doi:10.1016/j.jclepro.2021.126943>.
Author: Marcio Eustaquio [aut, cre]
Maintainer: Marcio Eustaquio <marcioeustaquio@id.uff.br>
Diff between bibliorefer versions 0.1.3 dated 2026-02-07 and 0.1.4 dated 2026-07-09
DESCRIPTION | 8 ++++---- MD5 | 2 +- 2 files changed, 5 insertions(+), 5 deletions(-)
Title: Read Paradox Database Files
Description: Provides a simple and efficient way to read data from Paradox
database files (.db) directly into R as modern 'tibble' data frames.
It uses the underlying 'pxlib' C library to handle the low-level file format
details and provides a clean, user-friendly R interface.
Author: Daniil Popov [aut, cre]
Maintainer: Daniil Popov <popov.daniil@gmail.com>
Diff between Rparadox versions 0.2.2 dated 2026-02-16 and 0.3.0 dated 2026-07-09
Rparadox-0.2.2/Rparadox/man/figures |only Rparadox-0.2.2/Rparadox/src/paradox-gsf.h |only Rparadox-0.2.2/Rparadox/src/paradox-mp.h |only Rparadox-0.2.2/Rparadox/src/px_encode.c |only Rparadox-0.2.2/Rparadox/src/px_encode.h |only Rparadox-0.2.2/Rparadox/src/px_memprof.c |only Rparadox-0.3.0/Rparadox/DESCRIPTION | 17 Rparadox-0.3.0/Rparadox/MD5 | 59 Rparadox-0.3.0/Rparadox/NEWS.md | 40 Rparadox-0.3.0/Rparadox/R/utils.R | 2 Rparadox-0.3.0/Rparadox/README.md | 128 Rparadox-0.3.0/Rparadox/build/vignette.rds |binary Rparadox-0.3.0/Rparadox/inst/doc/Rparadox.R | 56 Rparadox-0.3.0/Rparadox/inst/doc/Rparadox.Rmd | 122 Rparadox-0.3.0/Rparadox/inst/doc/Rparadox.html | 228 - Rparadox-0.3.0/Rparadox/man/Rparadox-package.Rd | 9 Rparadox-0.3.0/Rparadox/src/paradox.c | 1905 ---------- Rparadox-0.3.0/Rparadox/src/paradox.h | 109 Rparadox-0.3.0/Rparadox/src/px_crypt.c | 39 Rparadox-0.3.0/Rparadox/src/px_crypt.h | 7 Rparadox-0.3.0/Rparadox/src/px_head.c | 902 ---- Rparadox-0.3.0/Rparadox/src/px_head.h | 6 Rparadox-0.3.0/Rparadox/src/px_io.c | 119 Rparadox-0.3.0/Rparadox/src/px_io.h | 5 Rparadox-0.3.0/Rparadox/src/px_memory.c | 2 Rparadox-0.3.0/Rparadox/src/px_misc.c | 103 Rparadox-0.3.0/Rparadox/src/px_misc.h | 8 Rparadox-0.3.0/Rparadox/tests/testthat/test-corrupted_file.R |only Rparadox-0.3.0/Rparadox/tests/testthat/test-encoding_edge_cases.R |only Rparadox-0.3.0/Rparadox/tests/testthat/test-find_blob_file.R |only Rparadox-0.3.0/Rparadox/tests/testthat/test-metadata.R | 51 Rparadox-0.3.0/Rparadox/tests/testthat/test-missing_blob.R |only Rparadox-0.3.0/Rparadox/tests/testthat/test-password_edge_cases.R |only Rparadox-0.3.0/Rparadox/tests/testthat/test-path_edge_cases.R |only Rparadox-0.3.0/Rparadox/tests/testthat/test-px_close_file.R | 27 Rparadox-0.3.0/Rparadox/tests/testthat/test-recode_if_needed.R |only Rparadox-0.3.0/Rparadox/vignettes/Rparadox.Rmd | 122 37 files changed, 537 insertions(+), 3529 deletions(-)
Title: Multivariate Network Meta-Analysis using Bayesian Methods
Description: Tools to conduct Bayesian multivariate network meta-analysis providing
- the single correlation coefficient model by Efthimiou et al. (2015) <doi:10.1093/biostatistics/kxu030>;
- per-outcome treatment hierarchies using the surface under the cumulative ranking curve (SUCRA), the probability of best value, or median (or mean) ranks (Salanti et al., 2011) <doi:10.1016/j.jclinepi.2010.03.016>;
- across-outcomes benefit-risk assessment using the VišeKriterijumska Optimizacija I Kompromisno Rešenje (VIKOR) method (Opricovic & Tzeng, 2004) <doi:10.1016/S0377-2217(03)00020-1>;
- convergence checks using trace plots, density plots, or the R-hat statistic;
- forest plots of treatment estimates, scatter plots of per-outcome rankings, Hasse diagrams (Carlsen & Bruggemann, 2014) <doi:10.1002/cem.2569> to visualize the partial order of the treatments across all outcomes.
Author: Theodoros Evrenoglou [aut, cre] ,
Guido Schwarzer [aut]
Maintainer: Theodoros Evrenoglou <theodoros.evrenoglou@uniklinik-freiburg.de>
Diff between mvnma versions 0.1-0 dated 2026-05-19 and 0.2-0 dated 2026-07-09
DESCRIPTION | 8 ++-- MD5 | 12 +++--- NEWS.md | 22 +++++++++++ R/mvnma-internal.R | 103 ++++++++++++++++++++++++--------------------------- R/mvnma.R | 87 ++++++++++++++++++++++++++++++------------- R/mvnma_code.R | 106 +++++++++++++---------------------------------------- man/mvnma.Rd | 7 +++ 7 files changed, 176 insertions(+), 169 deletions(-)
Title: Create Simple and Elegant Modal Dialogs in 'shiny'
Description: Enables you to create accessible modal dialogs, with confidence and with minimal configuration.
Author: Kennedy Mwavu [aut, cre, cph]
Maintainer: Kennedy Mwavu <mwavukennedy@gmail.com>
Diff between micromodal versions 1.0.0 dated 2023-08-17 and 1.0.1 dated 2026-07-09
DESCRIPTION | 13 +-- MD5 | 26 +++--- R/get_dependencies.R | 2 R/micromodal.R | 23 +++--- R/use_micromodal.R | 2 README.md | 10 +- build/vignette.rds |binary inst/doc/micromodal.R | 2 inst/doc/micromodal.Rmd | 33 ++++---- inst/doc/micromodal.html | 140 +++++++++++++++++++------------------ inst/examples/basic-usage/server.R | 4 - inst/examples/basic-usage/ui.R | 17 ++-- man/micromodal.Rd | 21 +++-- vignettes/micromodal.Rmd | 33 ++++---- 14 files changed, 172 insertions(+), 154 deletions(-)
Title: Isotope Origin Clustering and Assignment Tools
Description: This resource provides tools to create, compare, and post-process
spatial isotope assignment models of animal origin. It generates
probability-of-origin maps for individuals based on user-provided tissue and
environment isotope values (e.g., as generated by IsoMAP, Bowen et al. [2013]
<doi:10.1111/2041-210X.12147>) using the framework established in Bowen et al.
(2010) <doi:10.1146/annurev-earth-040809-152429>). The package 'isocat' can then
quantitatively compare and cluster these maps to group individuals by
similar origin. It also includes techniques for applying four approaches
(cumulative sum, odds ratio, quantile only, and quantile simulation) with
which users can summarize geographic origins and probable distance traveled
by individuals. Campbell et al. [2020] establishes several of the functions
included in this package <doi:10.1515/ami-2020-0004>.
Author: Caitlin Campbell [aut, cre]
Maintainer: Caitlin Campbell <caitjcampbell@gmail.com>
Diff between isocat versions 0.3.0 dated 2024-02-15 and 1.0.0 dated 2026-07-09
isocat-0.3.0/isocat/man/dot-compareMyRasters.Rd |only isocat-0.3.0/isocat/man/dot-findProductThenNormalize.Rd |only isocat-0.3.0/isocat/vignettes/isocat_cache |only isocat-0.3.0/isocat/vignettes/isocat_files |only isocat-1.0.0/isocat/DESCRIPTION | 22 isocat-1.0.0/isocat/MD5 | 162 ++--- isocat-1.0.0/isocat/NAMESPACE | 13 isocat-1.0.0/isocat/NEWS.md | 11 isocat-1.0.0/isocat/R/CumSumSuite.R | 63 -- isocat-1.0.0/isocat/R/clusterSimmatrix.R | 18 isocat-1.0.0/isocat/R/exampleIsoMonthly.R |only isocat-1.0.0/isocat/R/exampleIsoscape.R | 4 isocat-1.0.0/isocat/R/exampleIsoscape_sd.R | 4 isocat-1.0.0/isocat/R/getPrecisionPar.R | 60 +- isocat-1.0.0/isocat/R/isotopeAssignmentModel.R | 225 ++----- isocat-1.0.0/isocat/R/makeMultiMonthIsoscape.R | 115 ++- isocat-1.0.0/isocat/R/makeOddsSurface.R | 16 isocat-1.0.0/isocat/R/makeQuantileSimulationSurface.R | 19 isocat-1.0.0/isocat/R/makeQuantileSurface.R | 11 isocat-1.0.0/isocat/R/meanAggregateClusterProbability.R | 48 - isocat-1.0.0/isocat/R/oddsAtCoordinates.R | 18 isocat-1.0.0/isocat/R/projectSummaryMaxSurface.R | 34 - isocat-1.0.0/isocat/R/quantileAtCoordinates.R | 15 isocat-1.0.0/isocat/R/schoenersD.R | 33 - isocat-1.0.0/isocat/R/simmatrixMaker.R | 109 ++- isocat-1.0.0/isocat/build/vignette.rds |binary isocat-1.0.0/isocat/data/iso_monthly.rda |only isocat-1.0.0/isocat/data/iso_monthly_se.rda |only isocat-1.0.0/isocat/data/isoscape.rda |binary isocat-1.0.0/isocat/data/isoscape_sd.rda |binary isocat-1.0.0/isocat/inst/CITATION | 14 isocat-1.0.0/isocat/inst/doc/isocat.R | 36 - isocat-1.0.0/isocat/inst/doc/isocat.Rmd | 42 - isocat-1.0.0/isocat/inst/doc/isocat.html | 377 ++++--------- isocat-1.0.0/isocat/man/clusterSimmatrix.Rd | 12 isocat-1.0.0/isocat/man/cumsumAtSamplingLocation.Rd | 10 isocat-1.0.0/isocat/man/dot-assignmentMaker.Rd | 4 isocat-1.0.0/isocat/man/dot-normprodrast.Rd |only isocat-1.0.0/isocat/man/getPrecisionPar.Rd | 21 isocat-1.0.0/isocat/man/iso_monthly.Rd |only isocat-1.0.0/isocat/man/iso_monthly_se.Rd |only isocat-1.0.0/isocat/man/isoscape.Rd | 4 isocat-1.0.0/isocat/man/isoscape_sd.Rd | 4 isocat-1.0.0/isocat/man/isotopeAssignmentModel.Rd | 26 isocat-1.0.0/isocat/man/makeMultiMonthIsoscape.Rd | 30 - isocat-1.0.0/isocat/man/makeOddsSurfaces.Rd | 12 isocat-1.0.0/isocat/man/makeQuantileSimulationSurface.Rd | 12 isocat-1.0.0/isocat/man/makeQuantileSurfaces.Rd | 10 isocat-1.0.0/isocat/man/makecumsumSurface.Rd | 15 isocat-1.0.0/isocat/man/meanAggregateClusterProbability.Rd | 10 isocat-1.0.0/isocat/man/oddsAtSamplingLocation.Rd | 8 isocat-1.0.0/isocat/man/projectSummaryMaxSurface.Rd | 12 isocat-1.0.0/isocat/man/quantileAtSamplingLocation.Rd | 8 isocat-1.0.0/isocat/man/schoenersD.Rd | 8 isocat-1.0.0/isocat/man/simmatrixMaker.Rd | 43 - isocat-1.0.0/isocat/man/surfaceSimilarityMatrix.Rd |only isocat-1.0.0/isocat/tests |only isocat-1.0.0/isocat/vignettes/isocat.Rmd | 42 - 58 files changed, 823 insertions(+), 937 deletions(-)
Title: 'DT' Extension for CRUD (Create, Read, Update, Delete)
Applications in 'shiny'
Description: The core of this package is a function eDT() which enhances DT::datatable() such that it can be used to interactively modify data in 'shiny'. By the use of generic 'dplyr' methods it supports many types of data storage, with relational databases ('dbplyr') being the main use case.
Author: Jasper Schelfhout [aut, cre],
Maxim Nazarov [rev],
Daan Seynaeve [rev],
Lennart Tuijnder [rev],
Saar Junius [aut]
Maintainer: Jasper Schelfhout <jasper.schelfhout@openanalytics.eu>
Diff between editbl versions 1.3.0 dated 2025-04-24 and 1.3.2 dated 2026-07-09
DESCRIPTION | 8 - MD5 | 152 ++++++++++++++++++----------------- NAMESPACE | 2 R/demoApp.R | 9 ++ R/devApp.R | 3 R/eDT.R | 106 ++++++++++++++++++------ R/eDT_app.R | 3 R/foreignTbl.R | 4 R/shinyInput.R | 1 R/tbl.R | 43 +++++++++ R/tbl_dbi.R | 4 R/utils.R | 15 +++ README.md | 9 +- build/vignette.rds |binary inst/NEWS | 6 + inst/doc/howto_custom_logic.R |only inst/doc/howto_custom_logic.html |only inst/doc/howto_custom_logic.rmd |only inst/doc/howto_relational_db.html | 6 - inst/doc/howto_relational_db_dm.html | 6 - inst/doc/howto_row_level_access.html | 6 - inst/doc/howto_switch_from_DT.html | 4 man/addButtons.Rd | 7 - man/beginTransaction.Rd | 1 man/canXXXRowTemplate.Rd | 7 - man/castForDisplay.Rd | 1 man/castFromTbl.Rd | 1 man/castToFactor.Rd | 1 man/castToSQLSupportedType.Rd | 1 man/castToTbl.Rd | 1 man/castToTemplate.Rd | 1 man/checkForeignTbls.Rd | 1 man/coalesce.Rd | 1 man/coerceColumns.Rd | 1 man/coerceValue.Rd | 1 man/commitTransaction.Rd | 1 man/createButtons.Rd | 7 - man/createCloneButtonHTML.Rd | 1 man/createCloneButtonHTML_shiny.Rd | 1 man/createDeleteButtonHTML.Rd | 1 man/createDeleteButtonHTML_shiny.Rd | 1 man/createEditButtonHTML.Rd | 1 man/createEditButtonHTML_shiny.Rd | 1 man/demoServer_DB.Rd | 1 man/demoServer_custom.Rd | 1 man/demoServer_mtcars.Rd | 1 man/demoUI_DB.Rd | 1 man/demoUI_custom.Rd | 1 man/demoUI_mtcars.Rd | 1 man/devServer.Rd | 1 man/devUI.Rd | 1 man/disableDoubleClickButtonCss.Rd | 1 man/eDT.Rd | 13 ++ man/eDT_app.Rd | 1 man/eDT_app_server.Rd | 1 man/eDT_app_ui.Rd | 1 man/e_rows_delete.Rd |only man/e_rows_delete.default.Rd |only man/evalCanCloneRow.Rd | 1 man/evalCanDeleteRow.Rd | 1 man/evalCanEditRow.Rd | 1 man/fillDeductedColumns.Rd | 1 man/fixInteger64.Rd | 1 man/getColumnTypeSums.Rd | 1 man/getNonNaturalKeyCols.Rd | 1 man/initData.Rd | 7 - man/overwriteDefaults.Rd | 1 man/rollbackTransaction.Rd | 1 man/rowInsert.Rd | 1 man/rowUpdate.Rd | 1 man/runDemoApp_DB.Rd | 1 man/runDemoApp_custom.Rd | 1 man/runDemoApp_mtcars.Rd | 1 man/runDevApp.Rd | 1 man/shinyInput.Rd | 1 man/standardizeArgument_colnames.Rd | 5 - man/standardizeArgument_editable.Rd | 5 - man/whereSQL.Rd | 1 tests/testthat/test-eDT.R | 17 +++ vignettes/howto_custom_logic.rmd |only 80 files changed, 363 insertions(+), 139 deletions(-)
Title: Dynamical Systems Approach to Immune Response Modeling
Description: Simulation models (apps) of various within-host immune response scenarios.
The purpose of the package is to help individuals learn
about within-host infection and immune response modeling from a dynamical systems perspective.
All apps include explanations of the underlying models and instructions on what to do with the models.
Author: Andreas Handel [aut, cre] ,
Cody Dailey [ctb],
Yang Ge [ctb],
Spencer Hall [ctb],
Brian McKay [ctb],
Sina Solaimanpour [ctb],
Alexis Vittengl [ctb],
Henok Woldu [ctb]
Maintainer: Andreas Handel <andreas.handel@gmail.com>
Diff between DSAIRM versions 0.9.6 dated 2023-08-23 and 1.0.0 dated 2026-07-09
DESCRIPTION | 13 MD5 | 56 NEWS.md | 11 R/generate_ggplot.R | 10 R/simulate_basicbacteria_ode.R | 6 build/vignette.rds |binary inst/DSAIRM/app.R | 886 ++++----- inst/DSAIRM/google-analytics.html | 16 inst/DSAIRM/rsconnect/shinyapps.io/epibiouga/dsairm.dcf | 20 inst/appinformation/dsairm_references.bib | 1456 ++++++++-------- inst/doc/DSAIRM.R | 36 inst/doc/DSAIRM.Rmd | 4 inst/doc/DSAIRM.html | 58 man/DSAIRM-package.Rd | 5 man/generate_documentation.Rd | 52 man/generate_ggplot.Rd | 100 - man/generate_modelsettings.Rd | 86 man/generate_plotly.Rd | 98 - man/generate_shinyinput.Rd | 102 - man/hayden96flu.Rd | 58 man/simulate_basicbacteria_discrete.Rd | 142 - man/simulate_basicbacteria_modelexploration.Rd | 216 +- man/simulate_basicbacteria_ode.Rd | 164 - man/simulate_basicvirus_modelexploration.Rd | 230 +- man/simulate_modelvariants_ode.Rd | 294 +-- man/simulate_pkpdmodel_ode.Rd | 222 +- man/simulate_usanalysis.Rd | 238 +- man/simulate_virusandir_ode.Rd | 270 +- vignettes/DSAIRM.Rmd | 4 29 files changed, 2433 insertions(+), 2420 deletions(-)
Title: Provides a Link Between the 'LSEG Datastream' System and R
Description: Provides a set of functions and a class to connect, extract and
upload information from the 'LSEG Datastream' database. This
package uses the 'DSWS' API.
Details of this API are available at <https://www.lseg.com/en/data-analytics>.
Please report issues at <https://github.com/CharlesCara/DatastreamDSWS2R/issues>.
Author: Charles Cara [aut, cre, cph]
Maintainer: Charles Cara <charles.cara@absolute-strategy.com>
Diff between DatastreamDSWS2R versions 1.9.12 dated 2025-03-30 and 1.11.0 dated 2026-07-09
DESCRIPTION | 26 +- MD5 | 37 +-- NAMESPACE | 19 - NEWS.md | 3 R/DatastreamDSWS2R.R | 4 R/UCTSUpload.R | 285 ++++++++++++--------------- R/classConstructor.R | 212 ++++++++++++++------ R/common.R | 56 +++++ README.md | 37 +++ man/DatastreamDSWS2R.Rd | 7 man/UCTSAppend.Rd | 8 man/UCTSUpload.Rd | 20 + man/classconstructor.Rd | 81 +++++++ man/currencyDS2ISO.Rd | 2 tests/testthat/test-UCTSAppend.R | 53 +---- tests/testthat/test-UCTSUpload.R | 140 +++++++------ tests/testthat/test-dsws-timeSeriesRequest.R | 3 tests/testthat/testData/f.RDS |only tests/testthat/testData/f.RData |binary tools/createTestJSONFiles.R | 2 20 files changed, 629 insertions(+), 366 deletions(-)
More information about DatastreamDSWS2R at CRAN
Permanent link
Title: Functions Useful in the Design and ANOVA of Experiments
Description: The content falls into the following groupings: (i) Data, (ii)
Factor manipulation functions, (iii) Design functions, (iv) ANOVA functions, (v)
Matrix functions, (vi) Projector and canonical efficiency functions, and (vii)
Miscellaneous functions. There is a vignette describing how to use the
design functions for randomizing and assessing designs available as a
vignette called 'DesignNotes'. The ANOVA functions facilitate the extraction of
information when the 'Error' function has been used in the call to 'aov'.
The package 'dae' can also be installed from
<http://chris.brien.name/rpackages/>.
Author: Chris Brien [aut, cre]
Maintainer: Chris Brien <chris.brien@adelaide.edu.au>
Diff between dae versions 3.2.32 dated 2025-08-20 and 3.2.35 dated 2026-07-09
dae-3.2.32/dae/tests/vdiffr.Rout.fail |only dae-3.2.35/dae/DESCRIPTION | 8 dae-3.2.35/dae/MD5 | 38 dae-3.2.35/dae/NAMESPACE | 3 dae-3.2.35/dae/R/fac.functions.r | 22 dae-3.2.35/dae/build/partial.rdb |binary dae-3.2.35/dae/build/vignette.rds |binary dae-3.2.35/dae/inst/NEWS.Rd | 12 dae-3.2.35/dae/inst/doc/DesignNotes.pdf |binary dae-3.2.35/dae/inst/doc/dae-manual.pdf |binary dae-3.2.35/dae/man/dae-package.Rd | 3 dae-3.2.35/dae/man/makeLevsPadNums.Rd |only dae-3.2.35/dae/tests/testthat/_problems |only dae-3.2.35/dae/tests/testthat/_snaps/testDesignGGPlot/colfacets-bottom-switch-placement.svg | 168 +-- dae-3.2.35/dae/tests/testthat/_snaps/testDesignGGPlot/colfacets-placement.svg | 168 +-- dae-3.2.35/dae/tests/testthat/_snaps/testDesignGGPlot/rowfacets-switch-placement.svg | 176 +-- dae-3.2.35/dae/tests/testthat/_snaps/testDesignGGPlot/rows-and-columns-indexed-by-2-factors.svg | 464 ++++----- dae-3.2.35/dae/tests/testthat/_snaps/testDesignGGPlot/using-facetstrips-place-from-designblocksggplot.svg | 482 +++++----- dae-3.2.35/dae/tests/testthat/testFac.r | 20 dae-3.2.35/dae/tests/testthat/testNestedFacs.r | 4 dae-3.2.35/dae/tests/testthat/testthat-problems.rds |only 21 files changed, 814 insertions(+), 754 deletions(-)
Title: Teaching Hydrological Modelling with the GR Rainfall-Runoff
Models ('Shiny' Interface Included)
Description: Add-on package to the 'airGR' package that simplifies its use and is aimed at being used for teaching hydrology. The package provides 1) three functions that allow to complete very simply a hydrological modelling exercise 2) plotting functions to help students to explore observed data and to interpret the results of calibration and simulation of the GR ('Génie rural') models 3) a 'Shiny' graphical interface that allows for displaying the impact of model parameters on hydrographs and models internal variables.
Author: Olivier Delaigue [aut, cre] ,
Laurent Coron [aut] ,
Pierre Brigode [aut] ,
Guillaume Thirel [aut]
Maintainer: Olivier Delaigue <airGR@inrae.fr>
Diff between airGRteaching versions 0.3.5 dated 2025-03-27 and 0.3.7 dated 2026-07-09
DESCRIPTION | 19 MD5 | 28 - NEWS.md | 111 ++-- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 1 inst/ShinyGR/server.R | 49 +- inst/doc/get_started.html | 5 inst/doc/v00_teaching_hydrology.html | 707 ++++++++++++++++--------------- inst/doc/v01_EN_flow_reconstruction.html | 164 ++++--- inst/doc/v01_FR_flow_reconstruction.html | 164 ++++--- inst/doc/v02_EN_flow_forecasting.html | 237 +++++----- inst/doc/v02_FR_flow_forecasting.html | 237 +++++----- inst/doc/v03_EN_impact_CC_flow.html | 61 +- inst/doc/v03_FR_impact_CC_flow.html | 61 +- 15 files changed, 976 insertions(+), 868 deletions(-)
Title: Radiocarbon Equations
Description: Provides functions for the calibration of radiocarbon dates, as well as options to calculate different radiocarbon-related timescales (cal BP, cal BC/AD, C14 age, F14C, pMC, D14C) and estimating the effects of contamination or local reservoir offsets (Reimer and Reimer 2001 <doi:10.1017/S0033822200038339>). Supporting publication: Blaauw, M., Reimer, P.J., 2026. An open-source toolkit for radiocarbon dating and calibration. Radiocarbon <doi:10.1017/RDC.2026.10221>. The methods follow long-established recommendations such as Stuiver and Polach (1977) <doi:10.1017/S0033822200003672> and Reimer et al. (2004) <doi:10.1017/S0033822200033154>. This package uses the calibration curves from the data package 'rintcal'.
Author: Maarten Blaauw [aut, cre] ,
Paula Reimer [ctb] ,
Vegard Martinsen [ctb]
Maintainer: Maarten Blaauw <maarten.blaauw@qub.ac.uk>
Diff between rice versions 2.2.0 dated 2026-06-15 and 2.2.1 dated 2026-07-09
DESCRIPTION | 10 - MD5 | 49 ++--- NAMESPACE | 2 NEWS.md | 13 + R/calibrate.R | 28 ++- R/marine.R | 2 R/plots.R | 52 +++-- R/rice-package.R | 2 R/rice.R | 123 ++++++++++++- R/sets.R | 8 build/partial.rdb |binary build/vignette.rds |binary data/shells.rda |binary inst/CITATION | 4 inst/doc/rice.R | 7 inst/doc/rice.Rmd | 14 + inst/doc/rice.html | 416 +++++++++++++++++++++++---------------------- man/C14.cycle.Rd |only man/age.range.Rd | 2 man/draw.dates.Rd | 9 man/hpd.Rd | 2 man/point.estimates.Rd | 2 man/rice-package.Rd | 2 man/rice.Rd | 2 tests/testthat/test-rice.R | 2 vignettes/rice.Rmd | 14 + 26 files changed, 485 insertions(+), 280 deletions(-)
Title: Shared Utilities to Extend the 'teal' Modules
Description: Provides decorators, transformators, and utility functions
to extend the 'teal' framework for interactive data analysis
applications. Implements methods for data visualization enhancement,
statistical data transformations, and workflow integration tools.
Designed to support clinical and pharmaceutical research workflows
within the 'teal' ecosystem through modular and reusable components.
Author: Nadia Abraham [aut],
Chanchal Bhalla [aut],
Peyman Eshghi [aut, cre],
Pranith Gourisetty [aut],
Sohan Lal [aut],
Przemyslaw Posiadala [aut],
Alina Tselinina [aut],
Konrad Pagacz [aut],
PHUSE [cph]
Maintainer: Peyman Eshghi <peymaan.es@gmail.com>
Diff between uteals versions 0.0.3 dated 2026-04-13 and 0.0.5 dated 2026-07-09
DESCRIPTION | 20 ++- MD5 | 53 ++++++---- NAMESPACE | 14 ++ NEWS.md | 19 ++- R/BlockConditions.R | 15 ++ R/ReportManager.R |only R/create_rel_risk_transformator.R | 2 R/ggplot_decorator.R | 3 R/merge_levels_transformator.R | 2 R/or_filtering_transformator.R | 78 ++++++++++----- R/or_filtering_transformator_view_model.R | 3 R/patchwork_plot_decorator.R | 4 R/title_footer_decorator.R | 27 +++-- R/tm_report_manager.R |only R/uteals.R | 3 R/watermark_decorator.R | 2 README.md | 3 build/vignette.rds |binary inst/WORDLIST | 2 inst/doc/report-manager.R |only inst/doc/report-manager.Rmd |only inst/doc/report-manager.html |only man/ReportManager.Rd |only man/add_condition.Rd | 2 man/filtering_transformator_model.Rd | 151 ++++++++++++++---------------- man/or_filtering_transformator.Rd | 3 man/report_manager_server.Rd |only man/report_manager_ui.Rd |only man/tm_report_manager.Rd |only man/uteals-package.Rd | 1 tests |only vignettes/report-manager.Rmd |only 32 files changed, 250 insertions(+), 157 deletions(-)
Title: Add Ipea Editorial Standards to 'ggplot2' Graphics
Description: Convenient functions to create 'ggplot2' graphics following the
editorial guidelines of the Institute for Applied Economic
Research (Ipea).
Author: Pedro Ferreira [aut, cre],
Pedro Jorge [aut],
Daniel Lima [aut],
Gustavo Coelho [aut],
Rafael H. M. Pereira [aut],
Lucas Mation [aut],
Fabio Vaz [ctb],
Ipea - Institue for Applied Economic Research [cph, fnd]
Maintainer: Pedro Ferreira <pedro.ferreira2@ipea.gov.br>
Diff between ipeaplot versions 0.5.3 dated 2026-07-06 and 0.5.4 dated 2026-07-09
DESCRIPTION | 11 +++++------ MD5 | 14 +++++++------- NEWS.md | 3 +++ inst/doc/cookbook.html | 4 ++-- inst/doc/intro_ipeaplot.R | 25 ------------------------- inst/doc/intro_ipeaplot.Rmd | 38 -------------------------------------- inst/doc/intro_ipeaplot.html | 37 ++----------------------------------- vignettes/intro_ipeaplot.Rmd | 38 -------------------------------------- 8 files changed, 19 insertions(+), 151 deletions(-)
Title: Forecast Reconciliation
Description: Classical (bottom-up and top-down), optimal combination and heuristic
point (Di Fonzo and Girolimetto, 2023 <doi:10.1016/j.ijforecast.2021.08.004>) and
probabilistic (Girolimetto et al. 2024 <doi:10.1016/j.ijforecast.2023.10.003>)
forecast reconciliation procedures for linearly constrained time series
(e.g., hierarchical or grouped time series) in cross-sectional, temporal,
or cross-temporal frameworks.
Author: Daniele Girolimetto [aut, cre] ,
Tommaso Di Fonzo [aut] ,
Yangzhuoran Fin Yang [ctb]
Maintainer: Daniele Girolimetto <daniele.girolimetto@unipd.it>
Diff between FoReco versions 1.3.0 dated 2026-06-22 and 1.3.1 dated 2026-07-09
DESCRIPTION | 6 - MD5 | 48 ++++++------ NEWS.md | 7 + R/bottomup.R | 15 +++ R/cov_cs.R | 41 ++++++++-- R/cov_ct.R | 185 +++++++++++++++++++++++++++++++++++++----------- R/cov_te.R | 103 ++++++++++++++++++++------ R/foreco-class.R | 7 + R/fun.R | 54 +++++++++----- R/fun_export.R | 22 ++++- R/fun_residuals.R | 1 R/matrix_layout.R | 5 + R/middleout.R | 15 +++ R/reco_gauss.R | 20 ++++- R/reco_heu.R | 60 ++++++++++++--- R/reco_lcc.R | 20 ++++- R/reco_opt.R | 20 ++++- README.md | 2 man/commat.Rd | 1 man/cscov.Rd | 6 - man/ctcov.Rd | 20 ----- man/ctmatrix_layouts.Rd | 1 man/residuals.Rd | 1 man/tecov.Rd | 11 -- man/tematrix_layouts.Rd | 1 25 files changed, 482 insertions(+), 190 deletions(-)
Title: Access the 'Finna' API
Description: Provides functions to access and retrieve metadata from the 'Finna' API <https://api.finna.fi/>, which aggregates content from Finnish archives, libraries, and museums.
Author: Akewak Jeba [aut, cre] ,
Leo Lahti [aut]
Maintainer: Akewak Jeba <akewak84@gmail.com>
This is a re-admission after prior archival of version 0.1.2 dated 2026-06-18
Diff between finna versions 0.1.2 dated 2026-06-18 and 0.1.3 dated 2026-07-09
DESCRIPTION | 12 +- MD5 | 6 - inst/doc/vignette.html | 228 +++++++++++++++++++------------------- tests/testthat/test-fetch_finna.R | 3 4 files changed, 126 insertions(+), 123 deletions(-)
Title: A Computational Tool for Aerobiological Data
Description: Different tools for managing databases of airborne particles, elaborating the main calculations and visualization of results. In a first step, data are checked using tools for quality control and all missing gaps are completed. Then, the main parameters of the pollen season are calculated and represented graphically. Multiple graphical tools are available: pollen calendars, phenological plots, time series, tendencies, interactive plots, abundance plots...
Author: Jesus Rojo [aut],
Antonio Picornell [aut],
Jose Oteros [aut, cre]
Maintainer: Jose Oteros <OterosJose@gmail.com>
Diff between AeRobiology versions 2.0.2 dated 2026-02-24 and 2.0.3 dated 2026-07-09
AeRobiology-2.0.2/AeRobiology/tests/testthat/test-aerobiology.R |only AeRobiology-2.0.3/AeRobiology/DESCRIPTION | 6 AeRobiology-2.0.3/AeRobiology/MD5 | 25 AeRobiology-2.0.3/AeRobiology/NAMESPACE | 9 AeRobiology-2.0.3/AeRobiology/NEWS.md | 15 AeRobiology-2.0.3/AeRobiology/R/AeRobiology.R | 2 AeRobiology-2.0.3/AeRobiology/R/calculate_ps.R | 30 AeRobiology-2.0.3/AeRobiology/R/plot_monthly_heatmap.R |only AeRobiology-2.0.3/AeRobiology/build/vignette.rds |binary AeRobiology-2.0.3/AeRobiology/inst/doc/my-vignette.R | 6 AeRobiology-2.0.3/AeRobiology/inst/doc/my-vignette.Rmd | 30 AeRobiology-2.0.3/AeRobiology/inst/doc/my-vignette.html | 464 +++++----- AeRobiology-2.0.3/AeRobiology/man/plot_monthly_heatmap.Rd |only AeRobiology-2.0.3/AeRobiology/tests/testthat/test-calculate-ps.R |only AeRobiology-2.0.3/AeRobiology/tests/testthat/test-plot-monthly-heatmap.R |only AeRobiology-2.0.3/AeRobiology/vignettes/my-vignette.Rmd | 30 16 files changed, 355 insertions(+), 262 deletions(-)
Title: A Multivariate Meta-Analysis Model for High-Dimensional Data
Description: Performs multivariate meta-analysis for high-dimensional data
to integrate and collectively analyse individual-level data from multiple
studies, as well as to combine summary estimates. This approach accounts
for correlation between outcomes, incorporates within- and between-study
variability, handles missing values, and uses shrinkage estimation to
accommodate high dimensionality. The 'MetaHD' R package provides access
to our multivariate meta-analysis approach, along with a comprehensive
suite of existing meta-analysis methods, including fixed-effects and
random-effects models, Fisher's method, Stouffer's method, the weighted
Z method, Lancaster's method, the weighted Fisher's method, and vote-counting
approach. Visualisation tools are provided for interpreting and comparing
results across methods, including Venn diagrams, UpSet plots, and ROC curves,
heatmaps of pooled effect sizes and correlations among outcomes. A detailed
vignette with example datasets and code for data preparati [...truncated...]
Author: Jayamini Liyanage [aut, cre],
Alysha De Livera [aut],
Luke Prendergast [aut]
Maintainer: Jayamini Liyanage <j.liyanage@latrobe.edu.au>
Diff between MetaHD versions 0.1.5 dated 2026-07-08 and 0.1.6 dated 2026-07-09
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/plot_MetaHDResult.R | 4 +++- man/plot.MetaHDResult.Rd | 4 +++- 4 files changed, 13 insertions(+), 9 deletions(-)
Title: Supporting Functions for Packages Maintained by 'Yihui Xie'
Description: Miscellaneous functions commonly used in other packages maintained by 'Yihui Xie'.
Author: Yihui Xie [aut, cre, cph] ,
Wush Wu [ctb],
Daijiang Li [ctb],
Xianying Tan [ctb],
Salim Brueggemann [ctb] ,
Christophe Dervieux [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between xfun versions 0.59 dated 2026-06-19 and 0.60 dated 2026-07-09
DESCRIPTION | 6 +-- MD5 | 45 +++++++++++++++-------------- NAMESPACE | 1 R/app.R | 28 ++++++++++++++++-- R/browser.R | 62 ++++++++++++++++++++++++++++++++++------ R/command.R | 10 +++--- R/cran.R | 3 + R/github.R | 58 +++++++++++++++++++++++-------------- R/io.R | 18 ++++++++++- R/json.R | 2 + R/revcheck.R | 6 +-- R/string.R | 11 +++++++ R/utils.R | 4 ++ R/zzz.R | 3 + inst/doc/xfun.html | 14 ++++----- man/browser_dom.Rd |only man/browser_print.Rd | 2 - man/post_release.Rd | 9 +++-- man/read_utf8.Rd | 11 ++++++- tests/test-ci/test-browser.R |only tests/test-ci/test-httpd.R | 9 ++++- tests/test-cran/test-github.R | 33 +++++++++++++++++++++ tests/test-cran/test-io.R | 13 ++++++++ tests/test-cran/test-json.R | 3 + tests/test-cran/test-revcheck.R |only 25 files changed, 269 insertions(+), 82 deletions(-)
Title: Solving Mixed Model Equations in R
Description: Structural multivariate-univariate linear mixed model solver for estimation of multiple random effects with unknown variance-covariance structures (e.g., heterogeneous and unstructured) and known covariance among levels of random effects (e.g., pedigree and genomic relationship matrices) (Covarrubias-Pazaran, 2016 <doi:10.1371/journal.pone.0156744>; Maier et al., 2015 <doi:10.1016/j.ajhg.2014.12.006>; Jensen et al., 1997). REML estimates can be obtained using the Direct-Inversion Newton-Raphson and Direct-Inversion Average Information algorithms for the problems r x r (r being the number of records) or using the Henderson-based average information algorithm for the problem c x c (c being the number of coefficients to estimate). Spatial models can also be fitted using the two-dimensional spline functionality available.
Author: Giovanny Covarrubias-Pazaran [aut, cre]
Maintainer: Giovanny Covarrubias-Pazaran <cova_ruber@live.com.mx>
Diff between sommer versions 4.4.5 dated 2026-03-25 and 4.4.6 dated 2026-07-09
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- R/DEPRECATED_mmer.R | 4 +++- R/FUN_methods_mmes.R | 3 ++- R/mmes.R | 3 ++- inst/doc/sommer.gxe.html | 2 +- inst/doc/sommer.qg.html | 2 +- inst/doc/sommer.spatial.html | 2 +- inst/doc/sommer.vs.lme4.html | 2 +- src/MNR.cpp | 2 +- 10 files changed, 25 insertions(+), 21 deletions(-)
Title: High-Level Plotting Built Upon 'ggplot2' and Other Plotting
Packages
Description: Provides high-level API and a wide range of options to create stunning, publication-quality plots effortlessly.
It is built upon 'ggplot2' and other plotting packages, and is designed to be easy to use and to work seamlessly with 'ggplot2' objects.
It is particularly useful for creating complex plots with multiple layers, facets, and annotations.
It also provides a set of functions to create plots for specific types of data, such as Venn diagrams, alluvial diagrams, and phylogenetic trees.
The package is designed to be flexible and customizable, and to work well with the 'ggplot2' ecosystem.
The API can be found at <https://pwwang.github.io/plotthis/reference/index.html>.
Author: Panwen Wang [aut, cre]
Maintainer: Panwen Wang <pwwang@pwwang.com>
Diff between plotthis versions 0.12.1 dated 2026-06-10 and 0.13.1 dated 2026-07-09
DESCRIPTION | 6 MD5 | 252 +- NAMESPACE | 17 NEWS.md | 112 + R/areaplot.R | 543 +++++- R/barplot.R | 2174 ++++++++++++++++++++----- R/boxviolinplot.R | 2844 ++++++++++++++++++++++++--------- R/chordplot.R | 448 ++++- R/clustreeplot.R | 515 +++++- R/common_args.R | 15 R/corplot.R | 1368 +++++++++++++--- R/densityplot.R | 1381 +++++++++++++--- R/dimplot.R | 2838 +++++++++++++++++++++++++-------- R/dotplot.R | 1309 +++++++++++++-- R/enrich.R | 1074 ++++++++++-- R/gsea.R | 851 ++++++++-- R/heatmap-utils.R | 2210 ++++++++++++++++++++++---- R/heatmap.R | 2871 +++++++++++++++++++++++----------- R/jitterplot.R | 1041 +++++++++--- R/lineplot.R | 1375 ++++++++++++---- R/linkedheatmap.R |only R/manhattanplot.R | 794 ++++++--- R/network.R | 1166 ++++++++++--- R/piechart.R | 465 ++++- R/qqplot.R | 526 +++++- R/radarplot.R | 990 +++++++++-- R/rarefractionplot.R | 542 +++++- R/ringplot.R | 523 +++++- R/roccurve.R | 1109 ++++++++++--- R/sankeyplot.R | 1121 ++++++++++--- R/scatterplot.R | 845 ++++++++-- R/spatialplot.R | 1949 +++++++++++++++++------ R/theming.R | 354 +++- R/trendplot.R | 533 +++++- R/upsetplot.R | 693 ++++++-- R/utils.R | 574 +++++- R/velocityplot.R | 599 +++++-- R/venndiagram.R | 624 +++++-- R/volcanoplot.R | 822 +++++++-- R/wordcloudplot.R | 518 +++++- man/AreaPlot.Rd | 166 + man/AreaPlotAtomic.Rd | 114 + man/BarPlotAtomic.Rd | 138 + man/BarPlotGrouped.Rd | 134 + man/BarPlotSingle.Rd | 134 + man/BoxViolinPlot-internal.Rd | 305 +-- man/BoxViolinPlotAtomic.Rd | 373 ++-- man/ChordPlotAtomic.Rd | 104 + man/ClustreePlot.Rd | 183 +- man/ClustreePlotAtomic.Rd | 155 + man/CorPairsPlot.Rd | 215 +- man/CorPairsPlotAtomic.Rd | 193 +- man/CorPlot.Rd | 200 +- man/CorPlotAtomic.Rd | 189 +- man/DensityHistoPlotAtomic.Rd | 191 +- man/DimPlotAtomic.Rd | 437 +++-- man/DimPlotAtomic3D.Rd | 204 ++ man/DotPlotAtomic.Rd | 344 +++- man/EnrichMapAtomic.Rd | 205 +- man/EnrichNetworkAtomic.Rd | 136 + man/GSEAPlotAtomic.Rd | 132 + man/Heatmap.Rd | 693 +++----- man/HeatmapAtomic.Rd | 664 ++++--- man/JitterPlotAtomic.Rd | 372 +++- man/LinePlot.Rd | 241 +- man/LinePlotAtomic.Rd | 146 + man/LinePlotGrouped.Rd | 171 +- man/LinePlotSingle.Rd | 177 +- man/LinkedHeatmap.Rd |only man/LinkedHeatmapAtomic.Rd |only man/ManhattanPlot.Rd | 361 ++-- man/ManhattanPlotAtomic.Rd | 275 ++- man/Network.Rd | 427 +++-- man/NetworkAtomic.Rd | 472 ++++- man/PieChart.Rd | 159 + man/PieChartAtomic.Rd | 96 - man/QQPlot.Rd | 165 + man/QQPlotAtomic.Rd | 180 +- man/ROCCurve.Rd | 358 ++-- man/ROCCurveAtomic.Rd | 316 ++- man/RadarPlotAtomic.Rd | 196 +- man/RarefactionPlot.Rd | 182 +- man/RarefactionPlotAtomic.Rd | 146 + man/RidgePlot.Rd | 124 + man/RidgePlotAtomic.Rd | 187 +- man/RingPlot.Rd | 132 - man/RingPlotAtomic.Rd | 121 + man/SankeyPlotAtomic.Rd | 296 ++- man/ScatterPlot.Rd | 245 ++ man/ScatterPlotAtomic.Rd | 229 ++ man/SplitBarPlotAtomic.Rd | 140 + man/TrendPlot.Rd | 125 - man/TrendPlotAtomic.Rd | 126 + man/UpsetPlot.Rd | 209 +- man/UpsetPlotAtomic.Rd | 160 + man/VelocityPlot.Rd | 109 - man/VennDiagram.Rd | 216 +- man/VennDiagramAtomic.Rd | 169 +- man/VolcanoPlot.Rd | 309 ++- man/VolcanoPlotAtomic.Rd | 319 ++- man/WordCloudPlot.Rd | 154 + man/WordCloudPlotAtomic.Rd | 189 +- man/barplot.Rd | 449 +++-- man/boxviolinplot.Rd | 479 ++--- man/chordplot.Rd | 130 - man/combine_plots.Rd | 4 man/common_args.Rd | 9 man/densityhistoplot.Rd | 191 +- man/detect_upset_datatype.Rd | 30 man/detect_venn_datatype.Rd | 34 man/dimplot.Rd | 464 +++-- man/do_call.Rd |only man/dot-apply_orderby.Rd |only man/dot-compute_velocity_on_grid.Rd | 28 man/dot-prep_annotations.Rd |only man/dot_flip_y.Rd | 41 man/dotplot.Rd | 391 +++- man/enrichmap1.Rd | 201 +- man/get_cutoffs_data.Rd | 50 man/gsea.Rd | 217 +- man/jitterplot.Rd | 343 ++-- man/prepare_continuous_color_scale.Rd |only man/prepare_upset_data.Rd | 98 - man/prepare_venn_data.Rd | 76 man/process_linkedheatmap_data.Rd |only man/radarplot.Rd | 234 +- man/sankeyplot.Rd | 232 +- man/spatialplots.Rd | 347 +++- tests/testthat/test-barplot.R | 23 tests/testthat/test-dotplot.R | 25 tests/testthat/test-scatterplot.R | 18 131 files changed, 42472 insertions(+), 13241 deletions(-)
Title: Mongolian 'NSO' 'PXWeb' Data and Boundaries (Tidy Client)
Description: A 'tidyverse'-friendly client for the National Statistics Office of Mongolia
'PXWeb' API <https://data.1212.mn/> with helpers to discover tables, variables, and fetch
statistical data. Also includes utilities to retrieve Mongolia administrative boundaries
(ADM0-ADM2) as 'sf' objects from open sources for mapping and spatial analysis.
Author: Temuulen Enebish [aut, cre, cph]
Maintainer: Temuulen Enebish <temuulen@gmail.com>
Diff between mongolstats versions 0.1.1 dated 2026-01-26 and 0.2.0 dated 2026-07-09
mongolstats-0.1.1/mongolstats/R/globals.R |only mongolstats-0.1.1/mongolstats/inst/extdata/air_monthly_cached.csv |only mongolstats-0.1.1/mongolstats/man/dot-px_list.Rd |only mongolstats-0.1.1/mongolstats/man/dot-px_meta.Rd |only mongolstats-0.1.1/mongolstats/tests/testthat/test-utils.R |only mongolstats-0.2.0/mongolstats/DESCRIPTION | 20 mongolstats-0.2.0/mongolstats/MD5 | 146 +-- mongolstats-0.2.0/mongolstats/NAMESPACE | 81 - mongolstats-0.2.0/mongolstats/NEWS.md | 55 + mongolstats-0.2.0/mongolstats/R/aaa_px_helpers.R | 166 +++ mongolstats-0.2.0/mongolstats/R/cache.R | 283 +++--- mongolstats-0.2.0/mongolstats/R/data.R | 431 +++++----- mongolstats-0.2.0/mongolstats/R/geography.R | 121 +- mongolstats-0.2.0/mongolstats/R/http.R | 274 ++---- mongolstats-0.2.0/mongolstats/R/itms.R | 185 ++-- mongolstats-0.2.0/mongolstats/R/mongolstats-package.R | 4 mongolstats-0.2.0/mongolstats/R/names.R | 70 + mongolstats-0.2.0/mongolstats/R/options.R | 96 +- mongolstats-0.2.0/mongolstats/R/periods.R | 179 ++-- mongolstats-0.2.0/mongolstats/R/px_data.R | 213 ++-- mongolstats-0.2.0/mongolstats/R/px_index.R | 6 mongolstats-0.2.0/mongolstats/R/px_meta.R | 104 -- mongolstats-0.2.0/mongolstats/R/pxweb.R | 11 mongolstats-0.2.0/mongolstats/R/query.R | 310 +++---- mongolstats-0.2.0/mongolstats/R/search.R | 46 - mongolstats-0.2.0/mongolstats/R/sector.R | 21 mongolstats-0.2.0/mongolstats/R/utils.R | 31 mongolstats-0.2.0/mongolstats/R/validate.R |only mongolstats-0.2.0/mongolstats/R/zzz.R | 46 - mongolstats-0.2.0/mongolstats/build/vignette.rds |binary mongolstats-0.2.0/mongolstats/inst/doc/discovery.Rmd | 22 mongolstats-0.2.0/mongolstats/inst/doc/discovery.html | 8 mongolstats-0.2.0/mongolstats/inst/doc/environmental-surveillance.Rmd | 56 - mongolstats-0.2.0/mongolstats/inst/doc/environmental-surveillance.html | 200 ++-- mongolstats-0.2.0/mongolstats/inst/doc/mapping.Rmd | 26 mongolstats-0.2.0/mongolstats/inst/doc/mapping.html | 70 - mongolstats-0.2.0/mongolstats/inst/extdata/air_monthly_cached.csv.gz |only mongolstats-0.2.0/mongolstats/inst/extdata/px_index.json | 2 mongolstats-0.2.0/mongolstats/man/as_px_query.Rd | 2 mongolstats-0.2.0/mongolstats/man/mn_boundaries.Rd | 9 mongolstats-0.2.0/mongolstats/man/mn_boundaries_normalize.Rd | 10 mongolstats-0.2.0/mongolstats/man/mn_boundary_keys.Rd | 8 mongolstats-0.2.0/mongolstats/man/mn_fuzzy_join_by_name.Rd | 10 mongolstats-0.2.0/mongolstats/man/mn_join_by_name.Rd | 8 mongolstats-0.2.0/mongolstats/man/mongolstats-package.Rd | 5 mongolstats-0.2.0/mongolstats/man/nso_cache_enable.Rd | 64 - mongolstats-0.2.0/mongolstats/man/nso_data.Rd | 5 mongolstats-0.2.0/mongolstats/man/nso_dim_values.Rd | 5 mongolstats-0.2.0/mongolstats/man/nso_dims.Rd | 2 mongolstats-0.2.0/mongolstats/man/nso_fetch.Rd | 76 - mongolstats-0.2.0/mongolstats/man/nso_itms.Rd | 6 mongolstats-0.2.0/mongolstats/man/nso_itms_by_sector.Rd | 5 mongolstats-0.2.0/mongolstats/man/nso_itms_detail.Rd | 5 mongolstats-0.2.0/mongolstats/man/nso_itms_search.Rd | 55 - mongolstats-0.2.0/mongolstats/man/nso_package.Rd | 81 + mongolstats-0.2.0/mongolstats/man/nso_rebuild_px_index.Rd | 6 mongolstats-0.2.0/mongolstats/man/nso_search.Rd | 55 - mongolstats-0.2.0/mongolstats/man/nso_sectors.Rd | 8 mongolstats-0.2.0/mongolstats/man/nso_subsectors.Rd | 8 mongolstats-0.2.0/mongolstats/man/nso_table_meta.Rd | 2 mongolstats-0.2.0/mongolstats/man/nso_table_periods.Rd | 5 mongolstats-0.2.0/mongolstats/man/print.nso_query.Rd |only mongolstats-0.2.0/mongolstats/tests/testthat/_snaps |only mongolstats-0.2.0/mongolstats/tests/testthat/px_sectors |only mongolstats-0.2.0/mongolstats/tests/testthat/test-cache.R |only mongolstats-0.2.0/mongolstats/tests/testthat/test-endpoints.R | 78 + mongolstats-0.2.0/mongolstats/tests/testthat/test-helpers.R | 84 + mongolstats-0.2.0/mongolstats/tests/testthat/test-http.R |only mongolstats-0.2.0/mongolstats/tests/testthat/test-integration.R | 166 ++- mongolstats-0.2.0/mongolstats/tests/testthat/test-joins.R | 46 - mongolstats-0.2.0/mongolstats/tests/testthat/test-labels.R |only mongolstats-0.2.0/mongolstats/tests/testthat/test-map-selections.R |only mongolstats-0.2.0/mongolstats/tests/testthat/test-offline.R | 46 - mongolstats-0.2.0/mongolstats/tests/testthat/test-options.R |only mongolstats-0.2.0/mongolstats/tests/testthat/test-periods.R | 63 + mongolstats-0.2.0/mongolstats/tests/testthat/test-px-helpers.R |only mongolstats-0.2.0/mongolstats/tests/testthat/test-query.R |only mongolstats-0.2.0/mongolstats/tests/testthat/test-recorded-http.R | 88 +- mongolstats-0.2.0/mongolstats/tests/testthat/test-recorded-search.R | 29 mongolstats-0.2.0/mongolstats/tests/testthat/test-validate.R |only mongolstats-0.2.0/mongolstats/vignettes/discovery.Rmd | 22 mongolstats-0.2.0/mongolstats/vignettes/environmental-surveillance.Rmd | 56 - mongolstats-0.2.0/mongolstats/vignettes/mapping.Rmd | 26 83 files changed, 2468 insertions(+), 1959 deletions(-)
Title: Kernel Measure of Multi-Sample Dissimilarity
Description: Implementations of the kernel measure of multi-sample dissimilarity (KMD) between
several samples using K-nearest neighbor graphs and minimum spanning trees. The KMD
measures the dissimilarity between multiple samples, based on the observations from them.
It converges to the population quantity (depending on the kernel) which is between 0 and 1.
A small value indicates the multiple samples are from the same distribution, and a large value
indicates the corresponding distributions are different. The population quantity is 0 if and only
if all distributions are the same, and 1 if and only if all distributions are mutually singular.
The package also implements the tests based on KMD for H0: the M distributions are equal
against H1: not all the distributions are equal. Both permutation test and asymptotic test are
available. These tests are consistent against all alternatives where at least two samples have
different distributions. For more details on KMD and the associated tests, see Huan [...truncated...]
Author: Zhen Huang [aut, cre]
Maintainer: Zhen Huang <zh2395@columbia.edu>
Diff between KMD versions 0.1.0 dated 2022-10-06 and 0.1.1 dated 2026-07-09
DESCRIPTION | 12 ++++++------ MD5 | 5 +++-- NEWS.md |only R/KMD.R | 18 +++++++++++++++--- 4 files changed, 24 insertions(+), 11 deletions(-)
Title: Interpretable Contextual-Accountable and Responsible Machine
Learning
Description: A general-purpose framework for Interpretable Contextual-Accountable
and Responsible Machine Learning (ICARM) that works with any clean tabular
data across any application domain including healthcare, finance, social
science, business, and education. Automatically detects whether a prediction
task is binary classification, multi-class classification, or regression
from the target variable type. Provides a unified entry point icarm_fit()
supporting both interpretable learners (Classification and Regression Trees
(CART), logistic regression, linear regression, Generalized Additive Models
(GAM)) and extended learners (random forest, 'XGBoost', Support Vector
Machines (SVM)) with consistent interfaces for global and local model
explanation including approximate SHapley Additive exPlanations (SHAP)
values and Partial Dependence Profiles (PDPs), learning curve diagnostics,
group-level fairness auditing across protected attributes, probability
calibration, threshold analysis, multi-model comp [...truncated...]
Author: Olushina Olawale Awe [aut, cre],
Ludwigsburg University of Education [fnd]
Maintainer: Olushina Olawale Awe <olawaleawe@gmail.com>
Diff between icarm versions 0.1.0 dated 2026-06-30 and 0.2.0 dated 2026-07-09
DESCRIPTION | 25 + MD5 | 37 +- NAMESPACE | 66 ++--- R/icarm_core.R | 15 - R/icarm_fit.R | 2 R/icarm_learning_curve.R |only R/icarm_pdp.R |only R/icarm_shap.R |only R/plots.R | 502 ++++++++++++++++++++++++++++----------- R/utils_internal.R | 61 ++++ man/icarm_compare.Rd | 10 man/icarm_explain.Rd | 2 man/icarm_fairness.Rd | 8 man/icarm_fit.Rd | 10 man/icarm_learning_curve.Rd |only man/icarm_pdp.Rd |only man/icarm_plot_confusion.Rd | 2 man/icarm_plot_fairness.Rd | 9 man/icarm_plot_importance.Rd | 2 man/icarm_plot_learning_curve.Rd |only man/icarm_plot_pdp.Rd |only man/icarm_plot_shap.Rd |only man/icarm_shap.Rd |only man/icarm_thresholds.Rd | 5 24 files changed, 523 insertions(+), 233 deletions(-)
Title: Interact with 'Condor' from R via SSH
Description: Interact with 'Condor' from R via SSH connection. Files are first
uploaded from user machine to submitter machine, and the job is then submitted
from the submitter machine to 'Condor'. Functions are provided to submit,
list, and download 'Condor' jobs from R. 'Condor' is an open source
high-throughput computing software framework for distributed parallelization
of computationally intensive tasks.
Author: Arni Magnusson [aut, cre],
Nan Yao [aut],
Jemery Day [ctb],
Thomas Teears [ctb]
Maintainer: Arni Magnusson <thisisarni@gmail.com>
Diff between condor versions 3.0.2 dated 2026-03-22 and 3.0.3 dated 2026-07-09
DESCRIPTION | 10 +++++----- MD5 | 20 ++++++++++---------- NEWS.md | 14 +++++++++++++- R/condor_dir.R | 30 ++++++++++++++++++++---------- R/condor_log.R | 2 +- R/ssh_exec_stdout.R | 2 +- R/summary.condor_log.R | 40 +++++++++++++++++++++++++++++++--------- man/condor-internal.Rd | 3 ++- man/condor_dir.Rd | 14 ++++++++------ man/ssh_exec_stdout.Rd | 2 +- man/summary.condor_log.Rd | 11 +++++++++-- 11 files changed, 101 insertions(+), 47 deletions(-)
Title: Bayesian MI-LASSO for Variable Selection on Multiply-Imputed
Datasets
Description: Provides a suite of Bayesian MI-LASSO for variable selection methods for multiply-imputed datasets. The package includes four Bayesian MI-LASSO models using shrinkage (Multi-Laplace, Horseshoe, ARD) and Spike-and-Slab (Spike-and-Laplace) priors, along with tools for model fitting via MCMC, four-step projection predictive variable selection, and hyperparameter calibration. Methods are suitable for both continuous and binary covariates under missing-at-random or missing-completely-at-random assumptions. See Zou, J., Wang, S. and Chen, Q. (2025), Bayesian MI-LASSO for Variable Selection on Multiply-Imputed Data. ArXiv, 2211.00114. <doi:10.48550/arXiv.2211.00114> for more details. We also provide the frequentist MI-LASSO function.
Author: Jungang Zou [aut, cre],
Sijian Wang [aut],
Qixuan Chen [aut]
Maintainer: Jungang Zou <jungang.zou@gmail.com>
Diff between BMIselect versions 1.0.3 dated 2025-08-25 and 1.0.4 dated 2026-07-09
DESCRIPTION | 23 - MD5 | 43 +-- NAMESPACE | 2 R/ARD.R | 192 ------------- R/BMIselect-package.R |only R/Horseshoe.R | 224 ---------------- R/Multi_Laplace.R | 180 ------------- R/RcppExports.R |only R/Spike_Laplace.R | 496 +----------------------------------- R/bmiselect.R | 110 +++++++ build/partial.rdb |only build/vignette.rds |binary inst/doc/Introduction.R | 8 inst/doc/Introduction.Rmd | 32 +- inst/doc/Introduction.html | 276 ++++++++++---------- man/ARD_mcmc.Rd | 10 man/BMIselect-package.Rd |only man/horseshoe_mcmc.Rd | 5 man/multi_laplace_mcmc.Rd | 3 man/spike_laplace_partially_mcmc.Rd | 16 - src |only vignettes/Introduction.Rmd | 32 +- 22 files changed, 404 insertions(+), 1248 deletions(-)
Title: Signature Analyzer for Targeted Sequencing
Description: SATS stands for Signature Analyzer for Targeted Sequencing and performs mutational signature analysis for targeted sequenced tumors. Unlike the canonical analysis of mutational signatures, SATS factorizes the mutation counts matrix into a panel context matrix (measuring the size of the targeted sequenced genome for each tumor in the unit of million base pairs (Mb)), a signature profile matrix, and a signature activity matrix. SATS also calculates the expected number of mutations attributed by a signature, namely signature burden, for each targeted sequenced tumor. For more details see Lee et al. (2024) <doi:10.1101/2023.05.18.23290188>.
Author: DongHyuk Lee [aut],
Bin Zhu [aut],
Bill Wheeler [cre]
Maintainer: Bill Wheeler <wheelerb@imsweb.com>
This is a re-admission after prior archival of version 1.0.6 dated 2025-08-18
Diff between SATS versions 1.0.6 dated 2025-08-18 and 1.0.10 dated 2026-07-09
DESCRIPTION | 16 ++++++++-------- MD5 | 10 +++++----- R/L_matrix_Generation.R | 41 +++++++++++++++++++++++++++++------------ data/RefTMB.rda |binary data/SimData.rda |binary man/GeneratePanelSize.Rd | 33 +++++++++++++++++++-------------- 6 files changed, 61 insertions(+), 39 deletions(-)
Title: Landscape Utility Toolbox
Description: Provides utility functions for some of the less-glamorous tasks involved
in landscape analysis. It includes functions to coerce raster data to the
common 'tibble' format and vice versa, it helps with flexible reclassification
tasks of raster data and it provides a function to merge multiple raster.
Furthermore, 'landscapetools' helps landscape scientists to visualize their
data by providing optional themes and utility functions to plot single
landscapes, 'rasterstacks', '-bricks' and lists of raster.
Author: Marco Sciaini [aut] ,
Matthias Fritsch [aut],
Maximilian H.K. Hesselbarth [aut] ,
Jakub Nowosad [aut] ,
Anatoly Tsyplenkov [aut, cre] ,
Laura Graham [rev] ,
Jeffrey Hollister [rev]
Maintainer: Anatoly Tsyplenkov <s2@sent.com>
This is a re-admission after prior archival of version 0.5.0 dated 2019-02-25
Diff between landscapetools versions 0.5.0 dated 2019-02-25 and 0.6.3 dated 2026-07-09
DESCRIPTION | 44 - MD5 | 98 +- NAMESPACE | 3 NEWS.md | 23 R/landscapetools.R | 4 R/show_landscape.R | 196 +++-- R/show_shareplot.R |only R/theme_nlm.R | 1161 +++++++++++++++++-------------- R/util_as_integer.R | 6 R/util_binarize.R | 9 R/util_calcboundaries.R | 8 R/util_classify.R | 95 +- R/util_extract_multibuffer.R |only R/util_merge.R | 30 R/util_raster2tibble.R | 28 R/util_rescale.R | 7 R/util_tibble2raster.R | 1 R/util_w2cp.R | 3 R/util_writeESRI.R | 60 + build/vignette.rds |binary data/classified_landscape.rda |binary data/fractal_landscape.rda |binary data/gradient_landscape.rda |binary data/random_landscape.rda |binary inst/CITATION | 33 inst/doc/overview.R | 22 inst/doc/overview.Rmd | 32 inst/doc/overview.html | 432 ++++++----- man/classified_landscape.Rd | 4 man/figures/README-unnamed-chunk-1-1.png |binary man/figures/README-unnamed-chunk-2-1.png |binary man/fractal_landscape.Rd | 4 man/gradient_landscape.Rd | 4 man/landscapetools-package.Rd | 17 man/random_landscape.Rd | 4 man/show_landscape.Rd | 48 - man/show_shareplot.Rd |only man/theme_nlm.Rd | 279 +++++-- man/util_classify.Rd | 12 man/util_extract_multibuffer.Rd |only man/util_merge.Rd | 3 man/util_raster2tibble.Rd | 9 man/util_writeESRI.Rd | 10 src/get_jenkbreaks.c | 18 tests/testthat/test_showlandscape.R | 24 tests/testthat/test_themenlm.R | 6 tests/testthat/test_utilbinarize.R | 7 tests/testthat/test_utilclassify.R | 17 tests/testthat/test_utilmerge.R | 7 tests/testthat/test_utilrescale.R | 4 tests/testthat/test_writeESRI.R | 32 vignettes/overview.Rmd | 32 52 files changed, 1668 insertions(+), 1168 deletions(-)
More information about landscapetools at CRAN
Permanent link
Title: Zero-Modified Complex 'Tri-Parametric' Pearson Distribution for
Overdispersed Count Data
Description: Implements zero-modified versions of the Complex 'Tri-Parametric'
Pearson distribution for overdispersed count data. The package addresses
limitations of existing implementations when the parameter b approaches
zero. It provides distribution functions, maximum likelihood estimation,
and diagnostic tools for modeling count data with excess zeros. The
methodology is based on 'Rodriguez-Avi' and coauthors (2003)
<doi:10.1007/s00362-002-0134-7>.
Author: Rasheedat Oladoja [aut, cre]
Maintainer: Rasheedat Oladoja <roladoja@ttu.edu>
Diff between zmctp versions 0.1.0 dated 2026-04-03 and 0.1.1 dated 2026-07-09
DESCRIPTION | 7 ++++--- MD5 | 11 ++++++++--- NAMESPACE | 8 ++++++++ R/moments.R |only inst/doc/introduction.html | 6 +++--- man/mean_ctp.Rd |only man/mean_zictp.Rd |only tests/testthat |only tests/testthat.R |only 9 files changed, 23 insertions(+), 9 deletions(-)
Title: Genome Interval Arithmetic
Description: Read and manipulate genome intervals and signals. Provides
functionality similar to command-line tool suites within R, enabling
interactive analysis and visualization of genome-scale data. Riemondy
et al. (2017) <doi:10.12688/f1000research.11997.1>.
Author: Jay Hesselberth [aut, cre] ,
Kent Riemondy [aut] ,
RNA Bioscience Initiative [fnd, cph]
Maintainer: Jay Hesselberth <jay.hesselberth@gmail.com>
Diff between valr versions 0.9.1 dated 2026-01-11 and 0.10.0 dated 2026-07-09
valr-0.10.0/valr/DESCRIPTION | 12 valr-0.10.0/valr/MD5 | 186 +-- valr-0.10.0/valr/NAMESPACE | 7 valr-0.10.0/valr/NEWS.md | 31 valr-0.10.0/valr/R/bed12_to_exons.r | 40 valr-0.10.0/valr/R/bed_absdist.r | 7 valr-0.10.0/valr/R/bed_closest.r | 11 valr-0.10.0/valr/R/bed_cluster.r | 5 valr-0.10.0/valr/R/bed_coverage.r | 41 valr-0.10.0/valr/R/bed_fisher.r | 4 valr-0.10.0/valr/R/bed_genomecov.r | 4 valr-0.10.0/valr/R/bed_glyph.r | 104 + valr-0.10.0/valr/R/bed_intersect.r | 57 - valr-0.10.0/valr/R/bed_jaccard.r | 14 valr-0.10.0/valr/R/bed_map.r | 25 valr-0.10.0/valr/R/bed_merge.r | 23 valr-0.10.0/valr/R/bed_partition.r | 5 valr-0.10.0/valr/R/bed_projection.r | 4 valr-0.10.0/valr/R/bed_reldist.r | 7 valr-0.10.0/valr/R/bed_shift.r | 2 valr-0.10.0/valr/R/bed_shuffle.r | 3 valr-0.10.0/valr/R/bed_subtract.r | 31 valr-0.10.0/valr/R/bed_window.r | 30 valr-0.10.0/valr/R/bigwig.r |only valr-0.10.0/valr/R/db.r | 2 valr-0.10.0/valr/R/features.r | 6 valr-0.10.0/valr/R/read_bed.r | 6 valr-0.10.0/valr/R/reexport-cpp11bigwig.r | 2 valr-0.10.0/valr/R/reexport-tibble.r | 28 valr-0.10.0/valr/R/spacing.r | 4 valr-0.10.0/valr/R/strands.r | 4 valr-0.10.0/valr/R/utils.r | 8 valr-0.10.0/valr/R/valr-package.r | 3 valr-0.10.0/valr/README.md | 7 valr-0.10.0/valr/build/partial.rdb |binary valr-0.10.0/valr/build/vignette.rds |binary valr-0.10.0/valr/inst/doc/valr.R | 14 valr-0.10.0/valr/inst/doc/valr.Rmd | 24 valr-0.10.0/valr/inst/doc/valr.html | 554 +++++----- valr-0.10.0/valr/inst/example/bed_map.r | 10 valr-0.10.0/valr/man/bed12_to_exons.Rd | 22 valr-0.10.0/valr/man/bed_absdist.Rd | 10 valr-0.10.0/valr/man/bed_closest.Rd | 12 valr-0.10.0/valr/man/bed_cluster.Rd | 16 valr-0.10.0/valr/man/bed_complement.Rd | 16 valr-0.10.0/valr/man/bed_coverage.Rd | 35 valr-0.10.0/valr/man/bed_fisher.Rd | 10 valr-0.10.0/valr/man/bed_flank.Rd | 16 valr-0.10.0/valr/man/bed_genomecov.Rd | 16 valr-0.10.0/valr/man/bed_glyph.Rd | 5 valr-0.10.0/valr/man/bed_intersect.Rd | 41 valr-0.10.0/valr/man/bed_jaccard.Rd | 10 valr-0.10.0/valr/man/bed_makewindows.Rd | 10 valr-0.10.0/valr/man/bed_map.Rd | 27 valr-0.10.0/valr/man/bed_merge.Rd | 16 valr-0.10.0/valr/man/bed_partition.Rd | 16 valr-0.10.0/valr/man/bed_projection.Rd | 10 valr-0.10.0/valr/man/bed_random.Rd | 4 valr-0.10.0/valr/man/bed_reldist.Rd | 10 valr-0.10.0/valr/man/bed_shift.Rd | 16 valr-0.10.0/valr/man/bed_shuffle.Rd | 4 valr-0.10.0/valr/man/bed_slop.Rd | 16 valr-0.10.0/valr/man/bed_subtract.Rd | 25 valr-0.10.0/valr/man/bed_window.Rd | 28 valr-0.10.0/valr/man/bound_intervals.Rd | 10 valr-0.10.0/valr/man/create_introns.Rd | 8 valr-0.10.0/valr/man/create_tss.Rd | 8 valr-0.10.0/valr/man/create_utrs3.Rd | 8 valr-0.10.0/valr/man/create_utrs5.Rd | 8 valr-0.10.0/valr/man/db.Rd | 2 valr-0.10.0/valr/man/flip_strands.Rd | 10 valr-0.10.0/valr/man/interval_spacing.Rd | 10 valr-0.10.0/valr/man/read_bed.Rd | 12 valr-0.10.0/valr/man/read_genome.Rd | 6 valr-0.10.0/valr/man/read_vcf.Rd | 6 valr-0.10.0/valr/man/reexports-deprecated.Rd |only valr-0.10.0/valr/man/reexports.Rd | 6 valr-0.10.0/valr/man/valr-package.Rd | 3 valr-0.10.0/valr/src/coverage.cpp | 12 valr-0.10.0/valr/src/intersect.cpp | 8 valr-0.10.0/valr/src/subtract.cpp | 8 valr-0.10.0/valr/tests/testthat/_snaps/glyph.md | 14 valr-0.10.0/valr/tests/testthat/_snaps/glyph/intersect-glyph-is-ok.svg | 8 valr-0.10.0/valr/tests/testthat/_snaps/glyph/merge-glyph-is-ok.svg | 38 valr-0.10.0/valr/tests/testthat/test_bed12_to_exons.r | 65 + valr-0.10.0/valr/tests/testthat/test_bigwig.r |only valr-0.10.0/valr/tests/testthat/test_db.r |only valr-0.10.0/valr/tests/testthat/test_glyph.r | 62 - valr-0.10.0/valr/tests/testthat/test_intersect.r | 29 valr-0.10.0/valr/tests/testthat/test_map.r | 10 valr-0.10.0/valr/tests/testthat/test_read_bed.r | 7 valr-0.10.0/valr/tests/testthat/test_reexports.r |only valr-0.10.0/valr/tests/testthat/test_shuffle.r | 10 valr-0.10.0/valr/tests/testthat/test_stress.r | 37 valr-0.10.0/valr/tests/testthat/test_window.r | 2 valr-0.10.0/valr/vignettes/valr.Rmd | 24 valr-0.9.1/valr/tests/testthat/test-db.r |only 97 files changed, 1300 insertions(+), 847 deletions(-)
Title: Offline Taxonomic Name Matching Against Local Darwin Core
Snapshots
Description: Match taxonomic names against locally stored Darwin Core backbone
databases ('WFO', 'COL', 'GBIF', 'ITIS', 'NCBI Taxonomy', 'Open Tree of Life',
'WoRMS', 'Euro+Med', 'Species Fungorum', 'AlgaeBase', 'FishBase',
'SeaLifeBase', 'Reptile Database'). Provides offline fuzzy and exact
matching with synonym resolution, hybrid name detection, and a unified output
schema across all sources. All heavy computation runs in the 'vectra' C11
columnar engine.
Author: Gilles Colling [aut, cre, cph]
Maintainer: Gilles Colling <gilles.colling051@gmail.com>
Diff between taxify versions 0.2.12 dated 2026-06-30 and 0.3.4 dated 2026-07-09
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Title: Propensity Score Methods for Survival Analysis
Description: Implements propensity score weighting methods for estimating
counterfactual survival functions, marginal hazard ratios, and
weighted Kaplan-Meier and cumulative risk curves in observational
studies with time-to-event outcomes. Supports binary and multiple
treatment groups with inverse probability of treatment weighting (IPW),
overlap weighting (OW), and average treatment effect on the treated
(ATT). Includes symmetric trimming (Crump extension) for extreme
propensity scores. Variance estimation via analytical M-estimation or
bootstrap. Methods based on Li et al. (2018) <doi:10.1080/01621459.2016.1260466>,
Li & Li (2019) <doi:10.1214/19-AOAS1282>, and Cheng et al. (2022)
<doi:10.1093/aje/kwac043>.
Author: Chengxin Yang [aut, cre],
Chao Cheng [aut],
Fan Li [aut],
Fan Li [aut]
Maintainer: Chengxin Yang <chengxin.yang@duke.edu>
Diff between PSsurvival versions 0.2.0 dated 2026-01-10 and 0.2.1 dated 2026-07-09
DESCRIPTION | 12 ++-- MD5 | 29 +++++---- NAMESPACE | 6 ++ NEWS.md | 9 +++ R/A00-surveff.R | 114 ++++++++++++++++++++++++++++++++++++++ R/B00-marCoxph.R | 102 ++++++++++++++++++++++++++++++++++ README.md | 2 inst/doc/PSsurvival-tutorial.R | 24 ++++++++ inst/doc/PSsurvival-tutorial.Rmd | 41 +++++++++++++ inst/doc/PSsurvival-tutorial.html | 55 ++++++++++++++++++ man/df.residual.marCoxph.Rd |only man/df.residual.surveff.Rd |only man/tidy.marCoxph.Rd |only man/tidy.surveff.Rd |only tests/testthat/test-marCoxph.R | 43 ++++++++++++++ tests/testthat/test-mice.R |only tests/testthat/test-surveff.R | 55 ++++++++++++++++++ vignettes/PSsurvival-tutorial.Rmd | 41 +++++++++++++ 18 files changed, 515 insertions(+), 18 deletions(-)
Title: Einstein Summation
Description: The summation notation suggested by Einstein (1916) <doi:10.1002/andp.19163540702> is a
concise mathematical notation that implicitly sums over repeated indices of n-dimensional arrays. Many ordinary
matrix operations (e.g. transpose, matrix multiplication, scalar product, 'diag()', trace etc.)
can be written using Einstein notation. The notation is particularly convenient for
expressing operations on arrays with more than two dimensions because the
respective operators ('tensor products') might not have a standardized name.
Author: Constantin Ahlmann-Eltze [aut, cre] ,
Koki Tsuyuzaki [aut]
Maintainer: Constantin Ahlmann-Eltze <artjom31415@googlemail.com>
Diff between einsum versions 0.1.2 dated 2023-08-28 and 0.2.0 dated 2026-07-09
einsum-0.1.2/einsum/build/einsum.pdf |only einsum-0.2.0/einsum/DESCRIPTION | 19 - einsum-0.2.0/einsum/MD5 | 15 - einsum-0.2.0/einsum/NAMESPACE | 1 einsum-0.2.0/einsum/NEWS.md | 9 einsum-0.2.0/einsum/R/einsum.R | 125 ++++++++-- einsum-0.2.0/einsum/R/einsum_generator.R | 258 ++++++++++++++------- einsum-0.2.0/einsum/R/einsum_parse.R |only einsum-0.2.0/einsum/build/stage23.rdb |binary einsum-0.2.0/einsum/tests/testthat/test-pairwise.R |only 10 files changed, 316 insertions(+), 111 deletions(-)
Title: Search and Retrieve Data from the BC Data Catalogue
Description: Search, query, and download tabular and
'geospatial' data from the British Columbia Data Catalogue
(<https://catalogue.data.gov.bc.ca/>). Search catalogue data records
based on keywords, data licence, sector, data format, and B.C.
government organization. View metadata directly in R, download many
data formats, and query 'geospatial' data available via the B.C.
government Web Feature Service ('WFS') using 'dplyr' syntax.
Author: Andy Teucher [aut, cre] ,
Sam Albers [aut, ctb] ,
Stephanie Hazlitt [aut, ctb] ,
Province of British Columbia [cph]
Maintainer: Andy Teucher <andy.teucher@gmail.com>
Diff between bcdata versions 0.5.2 dated 2026-02-07 and 0.5.3 dated 2026-07-09
DESCRIPTION | 14 - MD5 | 71 +++++----- NEWS.md | 6 R/bcdc_search.R | 32 +++- R/cql-geom-predicates.R | 12 + R/cql-translator.R | 2 R/utils-classes.R | 11 - build/vignette.rds |binary inst/doc/bcdata.Rmd | 28 ++- inst/doc/bcdata.html | 58 ++++---- inst/doc/efficiently-query-spatial-data-in-the-bc-data-catalogue.Rmd | 42 ++--- inst/doc/efficiently-query-spatial-data-in-the-bc-data-catalogue.html | 52 +++---- inst/doc/explore-silviculture-data-using-bcdata.Rmd | 8 - inst/doc/explore-silviculture-data-using-bcdata.html | 18 +- inst/doc/local-filter.Rmd | 22 +-- inst/doc/local-filter.html | 24 +-- man/CQL.Rd | 2 man/bcdata-package.Rd | 5 man/bcdc_list_group_records.Rd | 2 man/bcdc_list_organization_records.Rd | 2 man/cql_geom_predicates.Rd | 2 tests/testthat/_snaps |only tests/testthat/test-query-geodata-filter.R | 32 ++++ vignettes/bcdata.Rmd | 28 ++- vignettes/efficiently-query-spatial-data-in-the-bc-data-catalogue.Rmd | 42 ++--- vignettes/explore-silviculture-data-using-bcdata.Rmd | 8 - vignettes/local-filter.Rmd | 22 +-- vignettes/vignette-fig-air_zones-1.png |binary vignettes/vignette-fig-bbox-1.png |binary vignettes/vignette-fig-district_parks-1.png |binary vignettes/vignette-fig-districts-1.png |binary vignettes/vignette-fig-dp_join-1.png |binary vignettes/vignette-fig-map-larch-plantations-dpg-1.png |binary vignettes/vignette-fig-plot-dpg-1.png |binary vignettes/vignette-fig-regional_districts-1.png |binary vignettes/vignette-fig-unnamed-chunk-1-1.png |binary vignettes/vignette-fig-unnamed-chunk-3-1.png |binary 37 files changed, 303 insertions(+), 242 deletions(-)
Title: Local and Geographically Weighted Spatial Statistics Tools
Description: Provides researchers and educators with easy-to-learn, user friendly
tools for calculating key spatial statistics and for applying simple as well as
advanced methods of spatial analysis on real data. These include: Local Pearson
and Geographically Weighted Pearson Correlation Coefficients; Spatial Inequality
Measures (Gini coefficient, Spatial Gini, Location Quotient (LQ) and Focal
Location Quotient); Spatial Autocorrelation indices (Global and Local Moran's I);
several Geographically Weighted Regression techniques, including the
Geographically Weighted Zero-Inflated Poisson Regression; tools for computing
variables used in Spatial Interaction Models; and other spatial analysis tools
(other geographically weighted statistics). The local correlation tools were
originally developed to test for local multicollinearity among the explanatory
variables of local regression models and can also be used to examine the local
association between pairs of variables. The package also contains functi [...truncated...]
Author: Stamatis Kalogirou [aut, cre]
Maintainer: Stamatis Kalogirou <stamatis.science@gmail.com>
This is a re-admission after prior archival of version 0.2-10 dated 2024-04-01
Diff between lctools versions 0.2-10 dated 2024-04-01 and 0.3 dated 2026-07-09
lctools-0.2-10/lctools/inst/doc/SpatialAutocorrelation.pdf |only lctools-0.2-10/lctools/inst/doc/SpatialInequalities.pdf |only lctools-0.3/lctools/DESCRIPTION | 48 +++-- lctools-0.3/lctools/MD5 | 113 ++++++------- lctools-0.3/lctools/NEWS.md |only lctools-0.3/lctools/R/gw.glm.R | 50 +++-- lctools-0.3/lctools/R/gw.glm.bw.R | 4 lctools-0.3/lctools/R/gw.glm.mc.test.R | 8 lctools-0.3/lctools/R/gw.zi.R | 59 +++--- lctools-0.3/lctools/R/gw.zi.bw.R | 6 lctools-0.3/lctools/R/gw.zi.mc.test.R | 2 lctools-0.3/lctools/R/gwr.R | 42 ++-- lctools-0.3/lctools/R/gwr.bw.R | 4 lctools-0.3/lctools/R/l.moransI.R | 6 lctools-0.3/lctools/R/lat2w.R | 14 - lctools-0.3/lctools/R/lcorrel.R | 4 lctools-0.3/lctools/R/moransI.R | 2 lctools-0.3/lctools/R/moransI.w.R | 16 - lctools-0.3/lctools/R/random.test.data.R | 2 lctools-0.3/lctools/R/spGini.R | 2 lctools-0.3/lctools/R/w.matrix.R | 6 lctools-0.3/lctools/build/vignette.rds |binary lctools-0.3/lctools/data/GR.Municipalities.RData |binary lctools-0.3/lctools/data/VotesGR.RData |binary lctools-0.3/lctools/inst/doc/SpatialAutocorrelation.Rmd | 14 - lctools-0.3/lctools/inst/doc/SpatialAutocorrelation.html |only lctools-0.3/lctools/inst/doc/SpatialInequalities.Rmd | 8 lctools-0.3/lctools/inst/doc/SpatialInequalities.html |only lctools-0.3/lctools/man/FLQ.Rd | 2 lctools-0.3/lctools/man/VotesGR.Rd | 2 lctools-0.3/lctools/man/gw-variable.Rd | 2 lctools-0.3/lctools/man/gw.glm.Rd | 5 lctools-0.3/lctools/man/gw.glm.bw.Rd | 2 lctools-0.3/lctools/man/gw.glm.cv.Rd | 4 lctools-0.3/lctools/man/gw.glm.light.Rd | 2 lctools-0.3/lctools/man/gw.glm.mc.test.Rd | 2 lctools-0.3/lctools/man/gw.zi.Rd | 11 - lctools-0.3/lctools/man/gw.zi.bw.Rd | 4 lctools-0.3/lctools/man/gw.zi.cv.Rd | 8 lctools-0.3/lctools/man/gw.zi.light.Rd | 4 lctools-0.3/lctools/man/gw.zi.mc.test.Rd | 4 lctools-0.3/lctools/man/gwr.Rd | 5 lctools-0.3/lctools/man/gwr.bw.Rd | 2 lctools-0.3/lctools/man/gwr.cv.Rd | 4 lctools-0.3/lctools/man/l.moransI.Rd | 2 lctools-0.3/lctools/man/lat2w.Rd | 2 lctools-0.3/lctools/man/lcorrel.Rd | 2 lctools-0.3/lctools/man/lctools-package.Rd | 28 ++- lctools-0.3/lctools/man/mc_correl.Rd | 2 lctools-0.3/lctools/man/mc_spGini.Rd | 2 lctools-0.3/lctools/man/moransI.Rd | 2 lctools-0.3/lctools/man/moransI.v.Rd | 2 lctools-0.3/lctools/man/moransI.w.Rd | 4 lctools-0.3/lctools/man/spGini.Rd | 2 lctools-0.3/lctools/man/spGini.w.Rd | 4 lctools-0.3/lctools/tests |only lctools-0.3/lctools/vignettes/SpatialAutocorrelation.Rmd | 14 - lctools-0.3/lctools/vignettes/SpatialInequalities.Rmd | 8 58 files changed, 293 insertions(+), 254 deletions(-)
Title: Generalized Linear Latent Variable Models
Description: Analysis of multivariate data using generalized linear latent variable models (gllvm).
Estimation is performed using either the Laplace method, variational approximations, or extended variational approximations, implemented via TMB (Kristensen et al. (2016), <doi:10.18637/jss.v070.i05>).
Author: Jenni Niku [aut, cre],
Wesley Brooks [aut],
Riki Herliansyah [aut],
Francis K.C. Hui [aut],
Pekka Korhonen [aut],
Sara Taskinen [aut],
Bert van der Veen [aut],
David I. Warton [aut]
Maintainer: Jenni Niku <jenni.m.e.niku@jyu.fi>
Diff between gllvm versions 2.0.11 dated 2026-06-22 and 2.0.13 dated 2026-07-09
DESCRIPTION | 8 MD5 | 48 +-- NAMESPACE | 1 NEWS.md | 12 R/TMBtrait.R | 16 - R/getLV.gllvm.R | 2 R/getPredictErr.gllvm.R | 46 ++- R/gllvm.R | 19 - R/gllvm.TMB.R | 16 - R/gllvm.auxiliary.R | 54 +++- R/ordiplot.gllvm.R | 95 ++++--- R/predict.gllvm.R | 2 R/predictSR.gllvm.R | 1 R/se.gllvm.R | 7 build/vignette.rds |binary inst/doc/vignette1.html | 28 +- inst/doc/vignette2.html | 4 inst/doc/vignette3.html | 530 ++++++++++++++++++++--------------------- inst/doc/vignette4.html | 120 ++++----- inst/doc/vignette5.html | 4 inst/doc/vignette6.html | 4 inst/doc/vignette8.html | 270 ++++++++++---------- man/se.gllvm.Rd | 84 +++--- tests/testthat/test-fitgllvm.R | 41 ++- tests/testthat/test-glmmVA.R | 4 25 files changed, 773 insertions(+), 643 deletions(-)
Title: Download and Extract Data from US EPA's ECOTOX Database
Description: The US EPA ECOTOX database is a freely available database
with a treasure of aquatic and terrestrial ecotoxicological data.
As the online search interface doesn't come with an API, this
package provides the means to easily access and search the database
in R. To this end, all raw tables are downloaded from the EPA website
and stored in a local SQLite database <doi:10.1016/j.chemosphere.2024.143078>.
Author: Pepijn de Vries [aut, cre, dtc]
Maintainer: Pepijn de Vries <pepijn.devries@outlook.com>
Diff between ECOTOXr versions 1.2.4 dated 2025-09-24 and 1.2.5 dated 2026-07-09
DESCRIPTION | 26 +- MD5 | 127 +++++++------- NAMESPACE | 1 NEWS.md | 156 +++++++++-------- R/cas_handlers.r | 15 + R/database_access.r | 52 +++-- R/helpers.r | 62 ++++--- R/imports.r | 8 R/init.r | 219 +++++++++++++++++------- R/online.r | 98 +++++++---- R/process_date.r | 6 R/process_numeric.r | 14 - R/process_unit.r | 14 - R/wrappers.r | 4 README.md | 242 +++++++++++++-------------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/ecotox-schema.Rmd | 2 inst/doc/ecotox-schema.html | 2 inst/doc/reproducibility.Rmd | 2 inst/doc/reproducibility.html | 4 inst/doc/sanitising-ecotox.Rmd | 6 inst/doc/sanitising-ecotox.html | 34 +-- inst/doc/searching-ecotox.R | 2 inst/doc/searching-ecotox.Rmd | 2 inst/doc/searching-ecotox.html | 2 inst/openssl.cnf | 20 +- man/ECOTOXr-package.Rd | 7 man/as_date_ecotox.Rd | 14 - man/as_numeric_ecotox.Rd | 14 - man/as_unit_ecotox.Rd | 18 +- man/build_ecotox_sqlite.Rd | 10 - man/check_ecotox_availability.Rd | 17 + man/check_ecotox_build.Rd | 29 +-- man/check_ecotox_version.Rd | 27 +-- man/cite_ecotox.Rd | 17 + man/dbConnectEcotox.Rd | 17 + man/download_ecotox_data.Rd | 20 +- man/figures/graphical-abstract.png |binary man/figures/logo.png |binary man/figures/logo.svg | 325 +++++++++++-------------------------- man/get_ecotox_info.Rd | 17 + man/get_ecotox_url.Rd | 16 - man/get_path.Rd | 19 +- man/list_ecotox_fields.Rd | 17 + man/migrate_ecotox_path.Rd |only man/mixed_to_single_unit.Rd | 94 +++++----- man/process_ecotox_dates.Rd | 14 - man/process_ecotox_numerics.Rd | 14 - man/process_ecotox_units.Rd | 14 - man/search_ecotox.Rd | 6 man/websearch.Rd | 12 - man/websearch_comptox.Rd | 31 +-- tests/testthat.R | 8 tests/testthat/test_build.r | 13 + tests/testthat/test_cas.r | 152 ++++++++--------- tests/testthat/test_dev.r | 48 ++--- tests/testthat/test_exceptions.r | 9 + tests/testthat/test_local.r | 4 tests/testthat/test_online.r | 77 ++++++-- tests/testthat/test_sanitation.r | 270 +++++++++++++++--------------- vignettes/ecotox-schema.Rmd | 2 vignettes/reproducibility.Rmd | 2 vignettes/sanitising-ecotox.Rmd | 6 vignettes/searching-ecotox.Rmd | 2 65 files changed, 1291 insertions(+), 1191 deletions(-)