Title: Automated Reproducibility Checks for R Markdown Documents
Description: Provide reproducible R chunks in R Markdown document that automatically check computational results for reproducibility. This is achieved by creating json files storing metadata about computational results. A comprehensive tutorial to the package is available as preprint by Brandmaier & Peikert (2024, <doi:10.31234/osf.io/3zjvf>).
Author: Andreas M. Brandmaier [aut, cre],
Aaron Peikert [ctb]
Maintainer: Andreas M. Brandmaier <andreas.brandmaier@medicalschool-berlin.de>
Diff between reproducibleRchunks versions 1.2.0 dated 2025-07-23 and 1.2.1 dated 2026-10-22
DESCRIPTION | 10 - MD5 | 65 +++++++----- NAMESPACE | 1 NEWS.md | 80 +++++++++------ R/hash.R | 26 ++++- R/isReproducible.R | 34 +++++- R/load_repro_data.R | 2 R/normalize_for_hash.R |only R/reproducibleR.R | 65 ++++++++++-- R/reset.R | 8 + R/save_repro_data.R | 6 - R/symbols.R | 48 ++++----- R/use_github_action.R | 9 + R/zzz.R | 128 ++++++++++++------------ build/vignette.rds |binary inst/doc/custom_reports.html | 16 +-- inst/doc/html_styling.R |only inst/doc/html_styling.Rmd |only inst/doc/html_styling.html |only inst/doc/minimal_example.html | 10 - inst/doc/object_identity.R |only inst/doc/object_identity.Rmd |only inst/doc/object_identity.html |only inst/doc/plots.html | 12 +- inst/doc/regression_example.html | 20 +-- inst/doc/renv_example.html | 130 ++++++++++++------------- inst/doc/use_case_simulation.Rmd | 2 inst/doc/use_case_simulation.html | 11 +- inst/rmarkdown |only man/hash.Rd |only man/isReproducible.Rd | 2 tests/testthat/test-canonical-representation.R |only tests/testthat/testdata/test2.pdf | 4 tests/testthat/testdata/test3.html | 2 tests/testthat/testdata/test_json.html | 2 tests/testthat/testdata/test_json.knit.md | 2 vignettes/html_styling.Rmd |only vignettes/object_identity.Rmd |only vignettes/use_case_simulation.Rmd | 2 39 files changed, 414 insertions(+), 283 deletions(-)
More information about reproducibleRchunks at CRAN
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Title: Transparent Analysis of Ordered Categorical Sequences
Description: Provides transparent, reproducible, and auditable tools for validating,
preparing, encoding, summarising, comparing, modelling, and diagnosing
ordered categorical sequence data. Supports explicit preprocessing
policies, contiguous motifs and bounded subsequences, consensus and group
comparisons, edit and transition distances, clustering and stability
diagnostics, transition networks, higher-order models, categorical,
mixture, multichannel, and covariate hidden Markov models, longitudinal
panel workflows, time-varying models, design-aware inference, analysis
contracts and provenance audits, and guarded adapters to specialist
sequence-analysis packages.
Author: Stefanos Balaskas [aut, cre]
Maintainer: Stefanos Balaskas <s.balaskas@ac.upatras.gr>
Diff between gp3sequences versions 0.3.0 dated 2026-08-23 and 0.3.2 dated 2026-10-22
DESCRIPTION | 6 MD5 | 81 NEWS.md | 113 README.md | 718 ++-- build/vignette.rds |binary inst/doc/choosing-a-sequence-analysis-method.R | 88 inst/doc/choosing-a-sequence-analysis-method.html | 1088 +++---- inst/doc/consensus-and-group-comparisons.R | 98 inst/doc/consensus-and-group-comparisons.html | 1052 +++---- inst/doc/contiguous-motif-workflow.R | 264 - inst/doc/contiguous-motif-workflow.html | 1362 ++++----- inst/doc/distances-clustering-and-stability.R | 154 - inst/doc/distances-clustering-and-stability.html | 966 +++--- inst/doc/ecosystem-update-2026-09.Rmd |only inst/doc/ecosystem-update-2026-09.html |only inst/doc/estimation-visualization-boundaries.R |only inst/doc/estimation-visualization-boundaries.Rmd |only inst/doc/estimation-visualization-boundaries.html |only inst/doc/extended-sequence-visualisations.R | 72 inst/doc/extended-sequence-visualisations.html | 810 ++--- inst/doc/getting-started-with-gp3sequences.R | 408 +- inst/doc/getting-started-with-gp3sequences.html | 1906 ++++++------ inst/doc/latent-models-and-optional-adapters.R | 166 - inst/doc/latent-models-and-optional-adapters.html | 1106 +++---- inst/doc/longitudinal-panel-sequences.R | 90 inst/doc/longitudinal-panel-sequences.html | 942 +++--- inst/doc/multichannel-and-covariate-hmms.R | 110 inst/doc/multichannel-and-covariate-hmms.html | 954 +++--- inst/doc/noncontiguous-subsequence-mining.R | 112 inst/doc/noncontiguous-subsequence-mining.html | 1172 +++---- inst/doc/reproducible-sequence-analysis-case-study.R | 482 +-- inst/doc/reproducible-sequence-analysis-case-study.html | 2102 +++++++------- inst/doc/sequence-data-validation-and-preparation.R | 180 - inst/doc/sequence-data-validation-and-preparation.html | 1334 ++++---- inst/doc/sequence-inference-and-randomization.R | 94 inst/doc/sequence-inference-and-randomization.html | 898 ++--- inst/doc/time-varying-condition-models.R | 124 inst/doc/time-varying-condition-models.html | 908 +++--- inst/doc/transition-networks-and-higher-order-models.R | 92 inst/doc/transition-networks-and-higher-order-models.html | 958 +++--- inst/doc/transition-unit-audit-october-2026.R |only inst/doc/transition-unit-audit-october-2026.Rmd |only inst/doc/transition-unit-audit-october-2026.html |only inst/research |only tests/testthat/test-october-2026-transition-unit-audit.R |only vignettes/ecosystem-update-2026-09.Rmd |only vignettes/estimation-visualization-boundaries.Rmd |only vignettes/transition-unit-audit-october-2026.Rmd |only 48 files changed, 10522 insertions(+), 10488 deletions(-)
Title: Governance-First Predictive Modelling for 'Gazepoint' Research
Description: Provides governance-first infrastructure for leakage-resistant
predictive modelling and validation using 'Gazepoint'-derived research
data. Supports explicit task and role declarations, feature-provenance
manifests, group-aware holdout splitting and repeated resampling,
repository-aware fold evaluation, explicit governed tuning, nested grouped
resampling, fold-local preprocessing, discrimination and calibration
metrics, target-aligned uncertainty, external-validation and
transportability reports, prediction-to-decision governance, target-aware
conformal prediction, dataset-shift auditing, locked analysis plans,
portable model artifacts, robustness diagnostics, environment provenance,
research-object export, model cards, and reproducibility evidence.
Intended only for explicitly observed, non-sensitive outcomes and declared
scientific purposes. Use is prohibited for person identification,
biometric authentication, health or protected-attribute inference, and
direct or indirect inference [...truncated...]
Author: Stefanos Balaskas [aut, cre]
Maintainer: Stefanos Balaskas <s.balaskas@ac.upatras.gr>
Diff between gp3ml versions 0.3.0 dated 2026-08-23 and 0.3.2 dated 2026-10-22
DESCRIPTION | 6 MD5 | 101 - NEWS.md | 16 build/vignette.rds |binary inst/doc/analysis-plan-governance.R | 60 inst/doc/analysis-plan-governance.html | 784 ++++++------ inst/doc/api-stability-contracts.R | 86 - inst/doc/api-stability-contracts.html | 918 +++++++------- inst/doc/assigned-condition-discrimination.R | 64 - inst/doc/assigned-condition-discrimination.html | 898 +++++++------- inst/doc/contaminated-manifest-leakage.R | 58 inst/doc/contaminated-manifest-leakage.html | 814 ++++++------ inst/doc/cross-package-interoperability.R | 56 inst/doc/cross-package-interoperability.html | 922 +++++++------- inst/doc/dataset-shift-and-robustness.R | 58 inst/doc/dataset-shift-and-robustness.html | 818 ++++++------ inst/doc/decision-governance.R | 54 inst/doc/decision-governance.html | 820 ++++++------ inst/doc/ecosystem-update-2026-09.Rmd |only inst/doc/ecosystem-update-2026-09.html |only inst/doc/external-validation-reporting.R | 112 - inst/doc/external-validation-reporting.html | 988 +++++++-------- inst/doc/governance-standards-profile.R | 34 inst/doc/governance-standards-profile.html | 768 ++++++------ inst/doc/group-aware-conformal-prediction.R | 54 inst/doc/group-aware-conformal-prediction.html | 844 ++++++------- inst/doc/integrated-research-workflow.R | 212 +-- inst/doc/integrated-research-workflow.html | 1082 ++++++++--------- inst/doc/nested-grouped-resampling.R | 84 - inst/doc/nested-grouped-resampling.html | 896 +++++++------- inst/doc/observed-behavioral-endpoint.R | 78 - inst/doc/observed-behavioral-endpoint.html | 834 ++++++------- inst/doc/optional-engine-portability.R | 32 inst/doc/optional-engine-portability.html | 814 ++++++------ inst/doc/participant-generalization.R | 44 inst/doc/participant-generalization.html | 830 ++++++------- inst/doc/participant-identity-leakage-synthetic.R |only inst/doc/participant-identity-leakage-synthetic.Rmd |only inst/doc/participant-identity-leakage-synthetic.html |only inst/doc/participant-stimulus-generalization.R | 50 inst/doc/participant-stimulus-generalization.html | 968 +++++++-------- inst/doc/portable-research-artifacts.R | 20 inst/doc/portable-research-artifacts.html | 752 +++++------ inst/doc/recording-quality-review.R | 84 - inst/doc/recording-quality-review.html | 920 +++++++------- inst/doc/reproducibility-hardening.R | 66 - inst/doc/reproducibility-hardening.html | 802 ++++++------ inst/doc/stimulus-generalization.R | 42 inst/doc/stimulus-generalization.html | 828 ++++++------- inst/governance/GOVERNANCE.md | 84 - inst/governance/PROHIBITED-USE.md | 52 inst/research |only tests/testthat.R | 8 tests/testthat/test-october-2026-participant-leakage.R |only vignettes/ecosystem-update-2026-09.Rmd |only vignettes/participant-identity-leakage-synthetic.Rmd |only 56 files changed, 9470 insertions(+), 9445 deletions(-)
Title: Harmonize Eye-Tracking, Pupillometry, Biometrics, and
Psychometric Process Data
Description: Provides an extensible, vendor-neutral framework for importing, validating, harmonizing, transforming,
visualizing, and modelling eye-tracking, pupillometry, behavioural, and biometric process data. The package uses
explicit timebase and coordinate-space registries, preserves native fields and provenance, and offers first-class
adapters for Gazepoint Analysis and Gazepoint Biometrics exports alongside generic and vendor-specific importers.
Downstream tools support trial and area of interest reconstruction, signal-quality auditing, feature derivation,
scanpath analysis, response-time and item-response workflows, and optional psychometric modelling engines. An
integrated Gazepoint workflow produces quality-control evidence, media-trial reconstruction, plots, analysis-ready
process tables, item response theory (IRT)-ready response structures, and reproducible reports. Brain Imaging Data
Structure (BIDS) interoperability for eye-tracking and validation-release infrastructure support disk-b [...truncated...]
Author: Stefanos Balaskas [aut, cre]
Maintainer: Stefanos Balaskas <s.balaskas@ac.upatras.gr>
Diff between eyeprocess versions 0.11.1 dated 2026-09-28 and 0.12.1 dated 2026-10-22
DESCRIPTION | 11 MD5 | 502 ++-- NAMESPACE | 101 NEWS.md | 68 R/114-aoi-perturbation-geometry.R |only R/114-event-detector-multiverse.R |only R/114-gaze-survival.R |only R/114-spatial-quality-0-11.R |only R/115-aoi-perturbation-operations.R |only R/116-aoi-perturbation-analysis.R |only R/117-aoi-perturbation-plots.R |only R/multilevel-mediation.R |only README.md | 84 build/vignette.rds |binary inst/CITATION | 13 inst/WORDLIST | 20 inst/doc/adaptive-testing-governance.R | 20 inst/doc/adaptive-testing-governance.html | 804 +++--- inst/doc/advanced-model-validation-0-7.R | 250 - inst/doc/advanced-model-validation-0-7.html | 1088 ++++---- inst/doc/advanced-model-validation.R | 128 - inst/doc/advanced-model-validation.html | 894 +++---- inst/doc/advanced-pupillometry-representations.R | 102 inst/doc/advanced-pupillometry-representations.html | 840 +++--- inst/doc/advanced-rasch-mixture-and-imputation-sensitivity.R | 116 inst/doc/advanced-rasch-mixture-and-imputation-sensitivity.html | 866 +++--- inst/doc/aoi-perturbation-uncertainty.R |only inst/doc/aoi-perturbation-uncertainty.Rmd |only inst/doc/aoi-perturbation-uncertainty.html |only inst/doc/aoi-reporting-bundle.R |only inst/doc/aoi-reporting-bundle.Rmd |only inst/doc/aoi-reporting-bundle.html |only inst/doc/aoi-sensitivity-analysis-plan.Rmd |only inst/doc/aoi-sensitivity-analysis-plan.html |only inst/doc/api-lifecycle-and-canonical-interfaces.R | 38 inst/doc/api-lifecycle-and-canonical-interfaces.html | 896 +++---- inst/doc/api-storage-adapters.R | 82 inst/doc/api-storage-adapters.html | 830 +++--- inst/doc/bayesian-and-3pl-process-diagnostics.R | 58 inst/doc/bayesian-and-3pl-process-diagnostics.html | 824 +++--- inst/doc/benchmark-reproduction.R | 44 inst/doc/benchmark-reproduction.html | 862 +++--- inst/doc/benchmarking-and-stress-testing.R | 26 inst/doc/benchmarking-and-stress-testing.html | 756 +++--- inst/doc/calibration-uncertainty-and-data-quality.R | 26 inst/doc/calibration-uncertainty-and-data-quality.html | 758 +++--- inst/doc/cognitive-diagnosis-qmatrix-governance.R | 66 inst/doc/cognitive-diagnosis-qmatrix-governance.html | 838 +++--- inst/doc/data-quality-plot-gallery.R |only inst/doc/data-quality-plot-gallery.Rmd |only inst/doc/data-quality-plot-gallery.html |only inst/doc/deployment-drift-monitoring.R | 70 inst/doc/deployment-drift-monitoring.html | 788 +++--- inst/doc/dynamic-irtree-hardening.R | 108 inst/doc/dynamic-irtree-hardening.html | 866 +++--- inst/doc/ecosystem-update-2026-09.Rmd |only inst/doc/ecosystem-update-2026-09.html |only inst/doc/empirical-validation-programme.R | 22 inst/doc/empirical-validation-programme.html | 758 +++--- inst/doc/estimation-first-eye-tracking-gallery.R |only inst/doc/estimation-first-eye-tracking-gallery.Rmd |only inst/doc/estimation-first-eye-tracking-gallery.html |only inst/doc/event-detector-multiverse-failure-clinic.R |only inst/doc/event-detector-multiverse-failure-clinic.Rmd |only inst/doc/event-detector-multiverse-failure-clinic.html |only inst/doc/event-detector-multiverse-visual-reporting.R |only inst/doc/event-detector-multiverse-visual-reporting.Rmd |only inst/doc/event-detector-multiverse-visual-reporting.html |only inst/doc/event-detector-multiverse.R |only inst/doc/event-detector-multiverse.Rmd |only inst/doc/event-detector-multiverse.html |only inst/doc/evidence-decision-provenance.R | 46 inst/doc/evidence-decision-provenance.html | 766 +++--- inst/doc/experimental-process-irt-0-7.R | 210 - inst/doc/experimental-process-irt-0-7.html | 1024 ++++---- inst/doc/frozen-validation-evidence-programme.R | 92 inst/doc/frozen-validation-evidence-programme.html | 870 +++--- inst/doc/functional-pupil-irt-engine.R | 92 inst/doc/functional-pupil-irt-engine.html | 844 +++--- inst/doc/gaze-diffusion-irt.R | 72 inst/doc/gaze-diffusion-irt.html | 822 +++--- inst/doc/gaze-survival-analysis.R |only inst/doc/gaze-survival-analysis.Rmd |only inst/doc/gaze-survival-analysis.html |only inst/doc/gaze-survival-reproducibility-checklist.Rmd |only inst/doc/gaze-survival-reproducibility-checklist.html |only inst/doc/gaze-survival-verification-example.R |only inst/doc/gaze-survival-verification-example.Rmd |only inst/doc/gaze-survival-verification-example.html |only inst/doc/gazepoint-downstream-workflow.R | 132 - inst/doc/gazepoint-downstream-workflow.html | 986 +++---- inst/doc/gazepoint-workflows.R | 126 - inst/doc/gazepoint-workflows.html | 900 +++---- inst/doc/getting-started.R | 88 inst/doc/getting-started.Rmd | 28 inst/doc/getting-started.html | 827 +++--- inst/doc/governed-end-to-end-pipelines.R | 30 inst/doc/governed-end-to-end-pipelines.html | 760 +++--- inst/doc/importing-and-harmonizing.R | 102 inst/doc/importing-and-harmonizing.html | 842 +++--- inst/doc/independent-vendor-corpus.R | 114 inst/doc/independent-vendor-corpus.html | 868 +++--- inst/doc/interoperability-storage.R | 52 inst/doc/interoperability-storage.html | 784 +++--- inst/doc/irt-engines-and-gating.R | 22 inst/doc/irt-engines-and-gating.html | 788 +++--- inst/doc/irt-information-scoring-diagnostics.R | 108 inst/doc/irt-information-scoring-diagnostics.html | 980 +++---- inst/doc/irt-linking-dif-invariance.R | 24 inst/doc/irt-linking-dif-invariance.html | 782 +++--- inst/doc/irt-recovery-sbc-misspecification.R | 68 inst/doc/irt-recovery-sbc-misspecification.html | 864 +++--- inst/doc/item-bank-fairness-norms.R | 98 inst/doc/item-bank-fairness-norms.html | 816 +++--- inst/doc/item-seeding-accessibility-and-presentation-fairness.R | 52 inst/doc/item-seeding-accessibility-and-presentation-fairness.html | 780 +++--- inst/doc/m2-ppc-negative-controls-0-10.R | 72 inst/doc/m2-ppc-negative-controls-0-10.html | 878 +++---- inst/doc/m2-process-information-ablation-0-10.R | 54 inst/doc/m2-process-information-ablation-0-10.html | 868 +++--- inst/doc/m2-recovery-identifiability-0-10.R | 62 inst/doc/m2-recovery-identifiability-0-10.html | 840 +++--- inst/doc/m2-three-way-reference-model-0-10.R | 76 inst/doc/m2-three-way-reference-model-0-10.html | 968 +++---- inst/doc/m3-device-transport-sensor-value-0-10.R | 64 inst/doc/m3-device-transport-sensor-value-0-10.html | 924 +++---- inst/doc/m3-four-channel-reference-model-0-10.R | 70 inst/doc/m3-four-channel-reference-model-0-10.html | 918 +++---- inst/doc/m3-functional-pupil-bridge-0-10.R | 46 inst/doc/m3-functional-pupil-bridge-0-10.html | 868 +++--- inst/doc/m3-process-information-ablation-0-10.R | 72 inst/doc/m3-process-information-ablation-0-10.html | 886 +++---- inst/doc/m3-pupil-confounds-measurement-0-10.R | 66 inst/doc/m3-pupil-confounds-measurement-0-10.html | 910 +++---- inst/doc/m3-recovery-missingness-identifiability-0-10.R | 80 inst/doc/m3-recovery-missingness-identifiability-0-10.html | 878 +++---- inst/doc/m4-identifiability-state-uncertainty-0-11.R | 20 inst/doc/m4-identifiability-state-uncertainty-0-11.html | 840 +++--- inst/doc/m4-negative-controls-state-count-0-11.R | 22 inst/doc/m4-negative-controls-state-count-0-11.html | 790 +++--- inst/doc/m4-process-information-ablation-0-11.R | 26 inst/doc/m4-process-information-ablation-0-11.html | 776 +++--- inst/doc/m4-recovery-validation-0-11.R | 24 inst/doc/m4-recovery-validation-0-11.html | 768 +++--- inst/doc/m4-reference-model-fitting-0-11.R | 28 inst/doc/m4-reference-model-fitting-0-11.html | 830 +++--- inst/doc/m4-trait-conditioned-process-states-0-11.R | 18 inst/doc/m4-trait-conditioned-process-states-0-11.html | 762 +++--- inst/doc/manual-multimodal-backends-0-10.R | 14 inst/doc/manual-multimodal-backends-0-10.html | 752 ++--- inst/doc/measurement-accountability-0-11.html | 578 ++-- inst/doc/measurement-stress-negative-controls.R | 20 inst/doc/measurement-stress-negative-controls.html | 826 +++--- inst/doc/multi-vendor-validation.R | 36 inst/doc/multi-vendor-validation.html | 762 +++--- inst/doc/multiblock-profiles-and-external-validity.R | 92 inst/doc/multiblock-profiles-and-external-validity.html | 820 +++--- inst/doc/multidimensional-testlet-latent-regression-irt.R | 20 inst/doc/multidimensional-testlet-latent-regression-irt.html | 760 +++--- inst/doc/multimodal-process-irt-0-7.R | 224 - 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inst/stan/four-channel-response-rt-gaze-pupil.stan | 210 - inst/stan/functional_pupil_irt.stan | 218 - inst/stan/gaze_diffusion_irt.stan | 254 +- inst/stan/m0-response-reference-0-10.stan | 134 - inst/stan/m1-response-rt-reference-0-10.stan | 260 +- inst/stan/m2-man2022-response-rt-gaze-0-10.stan | 374 +- inst/stan/m3-ablation-subset-0-10.stan | 288 +- inst/stan/m3-response-rt-gaze-pupil-0-10.stan | 434 +-- inst/stan/m4-trait-conditioned-state-0-11.stan | 834 +++--- inst/stan/theory_strategy_mixture.stan | 140 - inst/stan/three-way-response-rt-gaze.stan | 156 - inst/templates/storage-contract.json | 20 man/aoi_perturbation_uncertainty.Rd |only man/event_detector_multiverse.Rd |only man/gaze-survival.Rd |only man/multilevel-mediation.Rd |only man/standardized_spatial_quality.Rd |only tests/testthat/fixtures |only tests/testthat/helper-package-assets.R |only tests/testthat/test-0-9-api-lifecycle.R | 4 tests/testthat/test-aoi-perturbation-uncertainty.R |only tests/testthat/test-data-quality-site-contract.R |only tests/testthat/test-event-detector-multiverse.R |only tests/testthat/test-gaze-survival-site-contract.R |only tests/testthat/test-gaze-survival.R |only tests/testthat/test-multilevel-mediation.R |only tests/testthat/test-spatial-quality.R |only tools/cran_policy_audit.py | 208 - tools/cran_return_docs.py | 682 ++--- tools/cran_return_docs_v2.py | 1214 ++++----- vignettes/aoi-perturbation-uncertainty.Rmd |only vignettes/aoi-reporting-bundle.Rmd |only vignettes/aoi-sensitivity-analysis-plan.Rmd |only vignettes/data-quality-plot-gallery.Rmd |only vignettes/ecosystem-update-2026-09.Rmd |only vignettes/estimation-first-eye-tracking-gallery.Rmd |only vignettes/event-detector-multiverse-failure-clinic.Rmd |only vignettes/event-detector-multiverse-visual-reporting.Rmd |only vignettes/event-detector-multiverse.Rmd |only vignettes/gaze-survival-analysis.Rmd |only vignettes/gaze-survival-reproducibility-checklist.Rmd |only vignettes/gaze-survival-verification-example.Rmd |only vignettes/getting-started.Rmd | 28 vignettes/october-2026-timestamp-intervals.Rmd |only vignettes/standardized-data-quality.Rmd |only vignettes/trial-level-multilevel-mediation.Rmd |only 293 files changed, 44211 insertions(+), 43695 deletions(-)
Title: Analysis of Antimicrobial Minimum Inhibitory Concentration Data
Description: Analyse, plot, and tabulate antimicrobial minimum inhibitory concentration (MIC) data.
Validate the results of an MIC experiment by comparing observed MIC values to
a gold standard assay, in line with standards from the International Organization for
Standardization (2021) <https://www.iso.org/standard/79377.html>.
Author: Alessandro Gerada [aut, cre, cph]
Maintainer: Alessandro Gerada <alessandro.gerada2@liverpool.ac.uk>
Diff between MIC versions 2.0.1 dated 2026-07-21 and 2.0.2 dated 2026-10-22
MIC-2.0.1/MIC/man/as.sir_vectorised.Rd |only MIC-2.0.2/MIC/DESCRIPTION | 10 +- MIC-2.0.2/MIC/MD5 | 30 +++---- MIC-2.0.2/MIC/NAMESPACE | 2 MIC-2.0.2/MIC/NEWS.md | 6 + MIC-2.0.2/MIC/R/mic_manipulation.R | 65 ++++------------- MIC-2.0.2/MIC/R/plotting.R | 4 - MIC-2.0.2/MIC/R/validation.R | 30 +++++++ MIC-2.0.2/MIC/README.md | 62 ++++------------ MIC-2.0.2/MIC/man/as.sir_fallback_ecoff.Rd |only MIC-2.0.2/MIC/man/figures/README-fig-val-ea-1.png |binary MIC-2.0.2/MIC/man/figures/README-unnamed-chunk-8-1.png |binary MIC-2.0.2/MIC/man/mic_r_breakpoint.Rd | 2 MIC-2.0.2/MIC/man/mic_s_breakpoint.Rd | 2 MIC-2.0.2/MIC/man/summary.mic_validation.Rd | 4 - MIC-2.0.2/MIC/man/table.Rd | 2 MIC-2.0.2/MIC/tests/testthat/test-validation.R | 34 +++++++- 17 files changed, 128 insertions(+), 125 deletions(-)
Title: Nicely Formatted Contingency Tables and Frequency Tables
Description: Nicely formatted frequency tables and contingency tables (1-way, 2-way, 3-way and 4-way tables), that can easily be exported to HTML or 'Office' documents. Designed to work with pipes.
Author: Mans Thulin [aut, cre],
Kajsa Grind [aut],
Stefan Furne [aut]
Maintainer: Mans Thulin <mans@statistikkonsult.com>
Diff between ivo.table versions 0.7.1 dated 2025-11-25 and 0.8.0 dated 2026-10-22
DESCRIPTION | 8 MD5 | 22 +- NEWS.md | 3 R/ivo_tables.R | 108 ++++++---- build/vignette.rds |binary inst/doc/ivo_table.R | 29 ++ inst/doc/ivo_table.Rmd | 43 ++++ inst/doc/ivo_table.html | 83 ++++++-- inst/doc/ivo_table_gt.html | 444 ++++++++++++++++++++++----------------------- man/ivo_flextable_theme.Rd | 10 - man/ivo_table.Rd | 8 vignettes/ivo_table.Rmd | 43 ++++ 12 files changed, 490 insertions(+), 311 deletions(-)
Title: Handling and Analysing 'EQ-5D' Data
Description: The EQ-5D is a widely-used standardised instrument for measuring Health Related Quality Of Life (HRQOL),
developed by the EuroQol group <https://euroqol.org/>. It assesses five dimensions; mobility, self-care,
usual activities, pain/discomfort, and anxiety/depression, using either a three-level (EQ-5D-3L) or five-level (EQ-5D-5L) scale.
Scores from these dimensions are commonly converted into a single utility index using country-specific value sets,
which are critical in clinical and economic evaluations of healthcare and in population health surveys.
The eq5dsuite package enables users to calculate utility index values for the EQ-5D instruments,
including crosswalk utilities using the original crosswalk developed by van Hout et al. (2012) <doi:10.1016/j.jval.2012.02.008>
(mapping EQ-5D-5L responses to EQ-5D-3L index values), or the recently developed reverse crosswalk
by van Hout et al. (2021) <doi:10.1016/j.jval.2021.03.009> (mapping EQ-5D-3L responses
to EQ-5D-5L i [...truncated...]
Author: Kim Rand [aut, cre] ,
Oliver Rivero-Arias [aut] ,
Iryna Schlackow [aut] ,
Anabel Estevez-Carrillo [aut]
Maintainer: Kim Rand <krand@mathsinhealth.com>
Diff between eq5dsuite versions 2.0.0 dated 2026-05-14 and 2.1.0 dated 2026-10-22
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eq5dsuite-2.1.0/eq5dsuite/man/eq5d_online_notice.Rd |only eq5dsuite-2.1.0/eq5dsuite/man/eq5d_profile_better_dimensions_by_group_plot.Rd | 15 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_profile_change_summary.Rd | 15 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_profile_density_curve.Rd | 74 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_profile_dimension_change_table.Rd | 11 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_profile_health_profile_grid.Rd | 47 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_profile_lfs_mean_utility.Rd | 20 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_profile_lfs_utility_plot.Rd | 20 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_profile_lfs_utility_summary.Rd | 20 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_profile_lss_utility_plot.Rd | 19 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_profile_lss_utility_summary.Rd | 19 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_profile_mixed_dimensions_by_group_plot.Rd | 11 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_profile_pchc_by_group_plot.Rd | 11 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_profile_pchc_table.Rd | 11 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_profile_pchc_with_no_problems_table.Rd | 17 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_profile_shannon.Rd |only eq5dsuite-2.1.0/eq5dsuite/man/eq5d_profile_worse_dimensions_by_group_plot.Rd | 11 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_read_data.Rd |only eq5dsuite-2.1.0/eq5dsuite/man/eq5d_utility_by_group_plot.Rd | 36 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_utility_change_by_group_plot.Rd | 34 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_utility_distribution_plot.Rd | 25 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_utility_norms_comparison.Rd | 37 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_utility_over_time_plot.Rd | 34 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_utility_summary.Rd | 47 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_utility_summary_by_group.Rd | 27 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_utility_vas_scatter_plot.Rd | 28 eq5dsuite-2.1.0/eq5dsuite/man/eq5d_validate.Rd |only eq5dsuite-2.1.0/eq5dsuite/man/eq5d_vas_summary.Rd | 18 eq5dsuite-2.1.0/eq5dsuite/man/eq5dsuite-package.Rd | 84 eq5dsuite-2.1.0/eq5dsuite/man/eq5dy3l.Rd | 146 eq5dsuite-2.1.0/eq5dsuite/man/eqvs_add.Rd | 152 eq5dsuite-2.1.0/eq5dsuite/man/eqvs_display.Rd | 75 eq5dsuite-2.1.0/eq5dsuite/man/eqvs_drop.Rd | 109 eq5dsuite-2.1.0/eq5dsuite/man/eqvs_load.Rd | 67 eq5dsuite-2.1.0/eq5dsuite/man/eqxw.Rd | 78 eq5dsuite-2.1.0/eq5dsuite/man/eqxw_UK.Rd | 118 eq5dsuite-2.1.0/eq5dsuite/man/eqxwr.Rd | 93 eq5dsuite-2.1.0/eq5dsuite/man/eqxwr_UK.Rd |only eq5dsuite-2.1.0/eq5dsuite/man/example_data.Rd | 72 eq5dsuite-2.1.0/eq5dsuite/man/get_cache_dir.Rd | 10 eq5dsuite-2.1.0/eq5dsuite/man/make_all_EQ_indexes.Rd | 50 eq5dsuite-2.1.0/eq5dsuite/man/make_all_EQ_states.Rd | 56 eq5dsuite-2.1.0/eq5dsuite/man/make_dummies.Rd | 109 eq5dsuite-2.1.0/eq5dsuite/man/rename_value_set.Rd | 17 eq5dsuite-2.1.0/eq5dsuite/man/run_app.Rd | 123 eq5dsuite-2.1.0/eq5dsuite/man/script_from_session.Rd |only eq5dsuite-2.1.0/eq5dsuite/man/set_applied_migrations.Rd | 3 eq5dsuite-2.1.0/eq5dsuite/man/style_docx_tables.Rd |only eq5dsuite-2.1.0/eq5dsuite/man/tidy_table_headings.Rd |only eq5dsuite-2.1.0/eq5dsuite/man/toEQ5Ddims.Rd | 47 eq5dsuite-2.1.0/eq5dsuite/man/toEQ5Dindex.Rd | 83 eq5dsuite-2.1.0/eq5dsuite/man/update_value_sets.Rd | 28 eq5dsuite-2.1.0/eq5dsuite/man/write_results_docx.Rd |only eq5dsuite-2.1.0/eq5dsuite/vignettes/analysing-eq5d-data.Rmd | 583 eq5dsuite-2.1.0/eq5dsuite/vignettes/crosswalk-methods.Rmd | 345 eq5dsuite-2.1.0/eq5dsuite/vignettes/custom-value-sets.Rmd | 279 eq5dsuite-2.1.0/eq5dsuite/vignettes/getting-started.Rmd | 340 eq5dsuite-2.1.0/eq5dsuite/vignettes/update-value-sets.Rmd | 184 166 files changed, 15730 insertions(+), 11662 deletions(-)
Title: Document Conversion to 'PDF', Thumbnails and Visual Testing
Description: Provides the ability to generate images from documents of
different types. Three main features are provided: generating document
thumbnails, performing visual tests of documents, and updating fields
and tables of contents of a 'Microsoft Word' or 'RTF' document.
'Microsoft Office' ('Word', 'PowerPoint', 'Excel') and/or
'LibreOffice' must be installed on the machine. If 'Microsoft Office'
is available, it can produce PDF documents or images identical to the
originals; otherwise 'LibreOffice' is used and the rendering may
sometimes differ from the original documents.
Author: David Gohel [aut, cre],
ArData [cph],
David Hajage [ctb]
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between doconv versions 0.4.0 dated 2026-02-14 and 0.4.2 dated 2026-10-22
DESCRIPTION | 27 +-- MD5 | 50 ++++-- NAMESPACE | 24 ++- NEWS.md | 88 +++++++++++ R/docx2pdf.R | 192 +++++++++++++++++++++---- R/expect_snapshot_doc.R | 81 ++++++---- R/run_in_shiny_app.R | 59 ++++++- R/to_miniature.R | 66 +++++++- R/to_pdf.R | 85 +++++++---- R/utils.R | 117 ++++++++++++++- inst/doc-examples/example.xlsx |only inst/scripts/applescripts/docx2pdf.applescript | 5 inst/scripts/applescripts/xlsx2pdf.applescript |only inst/scripts/powershell/docx2pdf.ps1 | 9 + inst/scripts/powershell/xlsx2pdf.ps1 |only man/docx2pdf.Rd | 11 + man/docx_update.Rd | 2 man/expect_snapshot_doc.Rd | 9 - man/pptx2pdf.Rd | 5 man/to_miniature.Rd | 17 +- man/to_pdf.Rd | 46 +++-- man/xlsx2pdf.Rd |only tests |only 23 files changed, 731 insertions(+), 162 deletions(-)
Title: Visualise the Anatomical Therapeutic Chemical (ATC) Hierarchy
Description: Visualisation and subsetting of the World Health Organisation Anatomical Therapeutic Chemical (ATC) classification system.
Author: J Matthews [aut, cre, cph]
Maintainer: J Matthews <jnmatt212@gmail.com>
Diff between visATC versions 1.0.0 dated 2026-09-22 and 1.1.0 dated 2026-10-22
visATC-1.0.0/visATC/man/parents.Rd |only visATC-1.1.0/visATC/DESCRIPTION | 9 visATC-1.1.0/visATC/MD5 | 38 - visATC-1.1.0/visATC/NAMESPACE | 6 visATC-1.1.0/visATC/NEWS.md | 32 + visATC-1.1.0/visATC/R/atctree.r | 10 visATC-1.1.0/visATC/R/atctree_class.r | 433 ++++++++++++---- visATC-1.1.0/visATC/R/atctree_helpers.r | 45 + visATC-1.1.0/visATC/R/make_ATC_df.r | 3 visATC-1.1.0/visATC/R/node_helpers.r | 37 - visATC-1.1.0/visATC/R/sysdata.rda |only visATC-1.1.0/visATC/R/visATC-package.R | 4 visATC-1.1.0/visATC/man/atctree-class.Rd | 2 visATC-1.1.0/visATC/man/cutting-atctree-method.Rd | 4 visATC-1.1.0/visATC/man/drugnames.Rd | 5 visATC-1.1.0/visATC/man/graft-atctree-atctree-method.Rd |only visATC-1.1.0/visATC/man/helpers.Rd | 28 + visATC-1.1.0/visATC/man/look-atctree-method.Rd |only visATC-1.1.0/visATC/man/parents-atctree-method.Rd |only visATC-1.1.0/visATC/man/parents-character-method.Rd |only visATC-1.1.0/visATC/man/plot-atctree-method.Rd | 12 visATC-1.1.0/visATC/man/pruning-atctree-method.Rd | 2 visATC-1.1.0/visATC/man/sub-atctree-method.Rd | 13 23 files changed, 508 insertions(+), 175 deletions(-)
Title: Estimation of the ROC Curve and the AUC for Complex Survey Data
Description: Estimate the receiver operating characteristic (ROC) curve, area under the curve (AUC) and optimal cut-off points for individual classification taking into account complex sampling designs when working with complex survey data. Methods implemented in this package are described in: A. Iparragirre, I. Barrio, I. Arostegui (2024) <doi:10.1002/sta4.635>; A. Iparragirre, I. Barrio, J. Aramendi, I. Arostegui (2022) <doi:10.2436/20.8080.02.121>; A. Iparragirre, I. Barrio (2024) <doi:10.1007/978-3-031-65723-8_7>.
Author: Amaia Iparragirre [aut, cre, cph] ,
Irantzu Barrio [aut],
Inmaculada Arostegui [aut]
Maintainer: Amaia Iparragirre <amaia.iparragirre@ehu.eus>
Diff between svyROC versions 1.1.0 dated 2026-04-14 and 1.2.0 dated 2026-10-22
DESCRIPTION | 8 ++--- MD5 | 20 ++++++------- NAMESPACE | 21 +++++++++----- NEWS.md | 5 +++ R/ci.wauc.R | 79 +++++++++++++++++++++++++++++++++++++++---------------- R/ht.indep.R | 59 ++++++++++++++++++++++++++++++++--------- R/ht.paired.R | 47 ++++++++++++++++++++++++++------ README.md | 4 ++ man/ci.wauc.Rd | 27 +++++++++++++----- man/ht.indep.Rd | 10 ++++++ man/ht.paired.Rd | 12 ++++++-- 11 files changed, 216 insertions(+), 76 deletions(-)
Title: An Open-Source Loader for Bruker's timsTOF Data Files
Description: Reads raw data from Bruker's timsTOF mass spectrometers,
stored in analysis.tdf and analysis.tdf_bin files inside .d folders.
Frames can be selected by number or by retention time, and each peak is
reported with its scan, time-of-flight index, intensity, mass-to-charge
ratio and inverse ion mobility. Mass-to-charge ratios and ion mobilities
are computed with built-in open-source calibration, or optionally with
Bruker's proprietary library.
See Łącki et al. (2021) <doi:10.1021/acs.jproteome.0c00962>.
Author: Michal Piotr Startek [aut, cph] ,
Mateusz Krzysztof Lacki [aut, cre, cph] ,
mandreyel [ctb, cph] )
Maintainer: Mateusz Krzysztof Lacki <matteo.lacki@gmail.com>
This is a re-admission after prior archival of version 1.0.13 dated 2022-03-29
Diff between opentimsr versions 1.0.13 dated 2022-03-29 and 1.2.0 dated 2026-10-22
opentimsr-1.0.13/opentimsr/src/bruker_api.h |only opentimsr-1.0.13/opentimsr/src/converters.h |only opentimsr-1.0.13/opentimsr/src/opentims.h |only opentimsr-1.0.13/opentimsr/src/scan2inv_ion_mobility_converter.h |only opentimsr-1.0.13/opentimsr/src/so_manager.h |only opentimsr-1.0.13/opentimsr/src/thread_mgr.h |only opentimsr-1.0.13/opentimsr/src/tof2mz_converter.h |only opentimsr-1.0.13/opentimsr/src/zstd |only opentimsr-1.0.13/opentimsr/src/zstddec_cpl.c |only opentimsr-1.2.0/opentimsr/DESCRIPTION | 55 opentimsr-1.2.0/opentimsr/LICENSE |only opentimsr-1.2.0/opentimsr/MD5 | 112 + opentimsr-1.2.0/opentimsr/NAMESPACE | 15 opentimsr-1.2.0/opentimsr/R/RcppExports.R | 20 opentimsr-1.2.0/opentimsr/R/opentimsr.R | 388 +++-- opentimsr-1.2.0/opentimsr/cleanup |only opentimsr-1.2.0/opentimsr/configure |only opentimsr-1.2.0/opentimsr/inst/CITATION | 15 opentimsr-1.2.0/opentimsr/inst/COPYRIGHTS |only opentimsr-1.2.0/opentimsr/inst/extdata |only opentimsr-1.2.0/opentimsr/man/CloseTIMS.Rd | 8 opentimsr-1.2.0/opentimsr/man/MS1.Rd | 9 opentimsr-1.2.0/opentimsr/man/OpenTIMS.Rd | 12 opentimsr-1.2.0/opentimsr/man/download_bruker_proprietary_code.Rd | 15 opentimsr-1.2.0/opentimsr/man/explore.tdf.tables.Rd | 12 opentimsr-1.2.0/opentimsr/man/get_separate_frames.Rd |only opentimsr-1.2.0/opentimsr/man/length-OpenTIMS-method.Rd | 12 opentimsr-1.2.0/opentimsr/man/min_max_measurements.Rd | 9 opentimsr-1.2.0/opentimsr/man/opentims_set_threads.Rd | 10 opentimsr-1.2.0/opentimsr/man/peaks_per_frame_cnts.Rd | 9 opentimsr-1.2.0/opentimsr/man/query.Rd | 11 opentimsr-1.2.0/opentimsr/man/query_slice.Rd | 12 opentimsr-1.2.0/opentimsr/man/range-OpenTIMS-method.Rd | 20 opentimsr-1.2.0/opentimsr/man/retention_times.Rd | 9 opentimsr-1.2.0/opentimsr/man/rt_query.Rd | 9 opentimsr-1.2.0/opentimsr/man/setup_bruker_so.Rd | 19 opentimsr-1.2.0/opentimsr/man/setup_opensource.Rd |only opentimsr-1.2.0/opentimsr/man/sub-OpenTIMS-method.Rd | 14 opentimsr-1.2.0/opentimsr/man/table2df.Rd | 9 opentimsr-1.2.0/opentimsr/man/tables_names.Rd | 9 opentimsr-1.2.0/opentimsr/man/use_inv_ion_mobility_lookup.Rd |only opentimsr-1.2.0/opentimsr/man/use_mz_lookup.Rd |only opentimsr-1.2.0/opentimsr/src/Makevars.in |only opentimsr-1.2.0/opentimsr/src/Makevars.win |only opentimsr-1.2.0/opentimsr/src/RcppExports.cpp | 62 opentimsr-1.2.0/opentimsr/src/Rinterface.cpp | 365 +++-- opentimsr-1.2.0/opentimsr/src/converters.cpp | 37 opentimsr-1.2.0/opentimsr/src/opentims.cpp | 682 ---------- opentimsr-1.2.0/opentimsr/src/opentims_core |only opentimsr-1.2.0/opentimsr/src/opentimsr_types.h | 454 ------ opentimsr-1.2.0/opentimsr/src/platform_os.h | 14 opentimsr-1.2.0/opentimsr/src/scan2inv_ion_mobility_converter.cpp | 158 -- opentimsr-1.2.0/opentimsr/src/so_manager.cpp | 46 opentimsr-1.2.0/opentimsr/src/thread_mgr.cpp | 125 - opentimsr-1.2.0/opentimsr/src/tof2mz_converter.cpp | 150 -- opentimsr-1.2.0/opentimsr/tests |only 56 files changed, 827 insertions(+), 2079 deletions(-)
Title: Ensemble Platform for Species Distribution Modeling
Description: Functions for species distribution modelling, to calibrate, evaluate, and project
species-environment relationships across space and time using multiple modelling algorithms and
ensemble forecasting. It accommodates diverse ecological data types (presence-only, presence-absence,
counts, multi-class abundance, or relative/absolute abundance) within a unified modelling workflow
which includes cross-validation schemes, pseudo-absence selection strategies, expanded model
parametrization options, a dozen of algorithms, and tools for exploring and visualizing outputs.
Author: Maya Gueguen [aut, cre] ,
Helene Blancheteau [aut],
Remi Lemaire-Patin [aut],
Wilfried Thuiller [aut]
Maintainer: Maya Gueguen <maya.gueguen@univ-grenoble-alpes.fr>
Diff between biomod2 versions 4.3-4-7 dated 2026-10-08 and 4.3-4-8 dated 2026-10-22
DESCRIPTION | 8 - MD5 | 30 ++--- R/BIOMOD_EnsembleModeling.R | 4 R/BIOMOD_Modeling.R | 21 +-- R/biomod2_classes_4.R | 7 - R/bm_CrossValidation.R | 8 - R/bm_FindOptimStat.R | 17 +- R/bm_RangeSize.R | 251 ++++++++++++++++++++---------------------- R/bm_RunModelsLoop.R | 4 R/bm_VariablesImportance.R | 20 +-- README.md | 6 - inst/doc/news.Rmd | 20 +++ inst/doc/news.html | 34 +++++ man/bm_RangeSize.Rd | 55 ++++++--- man/bm_VariablesImportance.Rd | 4 vignettes/news.Rmd | 20 +++ 16 files changed, 299 insertions(+), 210 deletions(-)
Title: 'SPSS'-Compatible Statistical Tools for Survey Data
Description: Statistical analysis of survey data with full support
for survey weights, grouped operations, and 'tidyverse' integration. Provides
80 functions for data import/export ('SPSS', 'Stata', 'SAS', 'Excel') with
label roundtripping and tagged NA preservation, label management (variable
labels, value labels, type conversions, missing value declaration), data
transformation (recoding, dummy coding, standardization, centering),
descriptive statistics, codebook generation, hypothesis testing, correlation
analysis, post-hoc comparisons, weighted statistics, scale analysis,
regression, non-parametric tests, exact tests, factorial ANOVA, and ANCOVA.
Every analysis offers compact print() and detailed summary() output with
toggleable sections. Statistical results are checked against reference
output of 'SPSS' version 29 (see the compatibility vignette for the
status of each function). Methods follow the published
algorithms of IBM Corp. (2023, "IBM SPSS Statistics Algorithms"),
the Lilliefors-correc [...truncated...]
Author: Yannick Diehl [aut, cre]
Maintainer: Yannick Diehl <yannick.diehl@gmail.com>
Diff between mariposa versions 0.7.3 dated 2026-09-28 and 0.7.4 dated 2026-10-22
DESCRIPTION | 16 MD5 | 518 +-- NAMESPACE | 87 NEWS.md | 2168 ++++---------- R/ancova.R | 576 ++- R/binomial_test.R | 333 +- R/broom_methods.R | 58 R/chi_square.R | 769 ++-- R/chisq_gof.R | 376 +- R/codebook.R | 130 R/correlation-engine.R | 324 +- R/crosstab.R | 557 ++- R/data.R | 12 R/describe.R | 396 +- R/dunn_test.R | 84 R/efa.R | 1211 ++++++- R/factorial_anova.R | 502 ++- R/find_var.R | 88 R/fisher_test.R | 356 +- R/frequency.R | 605 +-- R/friedman_test.R | 155 - R/globals.R | 2 R/helpers.R | 555 +++ R/imports.R | 1 R/kendall_tau.R | 202 - R/kernels-weighted.R | 220 + R/kruskal_wallis.R | 197 - R/label_conversion.R | 296 + R/label_management.R | 226 + R/label_missing.R | 96 R/levene_test.R | 913 ++--- R/linear_regression.R | 1100 +++++-- R/logistic_regression.R | 701 +++- R/mann_whitney.R | 299 + R/marginal_effects.R | 214 + R/mcnemar_test.R | 331 +- R/multiple_response.R | 150 R/normality_test.R | 142 R/np-helpers.R |only R/oneway_anova.R | 274 + R/pairwise_wilcoxon.R | 133 R/parametric-helpers.R |only R/partial_cor.R | 92 R/pearson_cor.R | 105 R/posthoc-pairwise.R | 226 - R/print_helpers.R | 178 - R/read_sas.R | 11 R/read_spss.R | 473 ++- R/read_stata.R | 2 R/read_xlsx.R | 4 R/recode.R | 612 ++- R/reexports.R |only R/reliability.R | 565 ++- R/result-export.R |only R/row_operations.R | 134 R/scale_helpers.R | 53 R/scheffe_test.R | 12 R/spearman_rho.R | 71 R/standardize.R | 220 - R/summary_helpers.R | 17 R/t_test.R | 592 ++- R/tukey_test.R | 12 R/utils-format.R | 175 - R/w_factory.R | 447 +- R/w_iqr.R | 33 R/w_kurtosis.R | 25 R/w_mean.R | 21 R/w_median.R | 26 R/w_modus.R | 133 R/w_quantile.R | 180 - R/w_range.R | 15 R/w_sd.R | 24 R/w_se.R | 24 R/w_skew.R | 21 R/w_var.R | 21 R/wilcoxon_test.R | 227 - R/write_sas.R | 116 R/write_spss.R | 250 + R/write_stata.R | 7 R/write_xlsx.R | 541 ++- R/zzz.R | 31 README.md | 34 build/vignette.rds |binary inst/CITATION |only inst/doc/correlation-analysis.R | 4 inst/doc/correlation-analysis.Rmd | 8 inst/doc/correlation-analysis.html | 186 - inst/doc/data-transformation.R | 4 inst/doc/data-transformation.Rmd | 6 inst/doc/data-transformation.html | 222 - inst/doc/descriptive-statistics.R | 6 inst/doc/descriptive-statistics.Rmd | 6 inst/doc/descriptive-statistics.html | 612 ++- inst/doc/hypothesis-testing.Rmd | 2 inst/doc/hypothesis-testing.html | 290 + inst/doc/introduction.Rmd | 7 inst/doc/introduction.html | 301 + inst/doc/labels-and-missing-values.R | 14 inst/doc/labels-and-missing-values.Rmd | 14 inst/doc/labels-and-missing-values.html | 22 inst/doc/regression-analysis.html | 508 +-- inst/doc/scale-analysis.R | 11 inst/doc/scale-analysis.Rmd | 5 inst/doc/scale-analysis.html | 537 ++- inst/doc/spss-compatibility.Rmd | 240 - inst/doc/spss-compatibility.html | 710 +--- inst/doc/survey-weights.html | 355 +- man/ancova.Rd | 24 man/as.data.frame.mariposa.Rd |only man/binomial_test.Rd | 42 man/center.Rd | 15 man/chi_square.Rd | 23 man/chisq_gof.Rd | 20 man/codebook.Rd | 21 man/coef.linear_regression.Rd |only man/confint.linear_regression.Rd |only man/confint.logistic_regression.Rd |only man/copy_labels.Rd | 28 man/crosstab.Rd | 26 man/describe.Rd | 36 man/df.residual.linear_regression.Rd |only man/drop_labels.Rd | 25 man/dunn_test.Rd | 14 man/efa.Rd | 68 man/factorial_anova.Rd | 18 man/find_var.Rd | 25 man/fisher_test.Rd | 25 man/fitted.linear_regression.Rd |only man/frequency.Rd | 36 man/friedman_test.Rd | 17 man/kendall_tau.Rd | 20 man/kruskal_wallis.Rd | 17 man/levene_test.Rd | 37 man/linear_regression.Rd | 35 man/logistic_regression-accessors.Rd |only man/logistic_regression.Rd | 46 man/longitudinal_data.Rd | 5 man/longitudinal_data_wide.Rd | 7 man/mann_whitney.Rd | 41 man/marginal_effects.Rd | 23 man/mariposa-package.Rd | 2 man/mcnemar_test.Rd | 4 man/multiple_response.Rd | 26 man/na_frequencies.Rd | 31 man/nobs.linear_regression.Rd |only man/normality_test.Rd | 6 man/oneway_anova.Rd | 4 man/pairwise_wilcoxon.Rd | 35 man/partial_cor.Rd | 15 man/pearson_cor.Rd | 20 man/phi.Rd | 12 man/pomps.Rd | 8 man/print.crosstab.Rd | 23 man/print.fisher_test.Rd | 6 man/print.frequency.Rd | 22 man/print.linear_regression.Rd | 5 man/print.logistic_regression.Rd | 5 man/print.multiple_response.Rd | 10 man/print.normality_test.Rd | 9 man/print.summary.factorial_anova.Rd | 4 man/print.summary.w_quantile.Rd |only man/print.summary.w_statistic.Rd |only man/print.w_quantile.Rd | 6 man/profile.logistic_regression.Rd |only man/read_spss.Rd | 6 man/read_xpt.Rd | 2 man/rec.Rd | 48 man/reexports.Rd |only man/reliability.Rd | 44 man/residuals.linear_regression.Rd |only man/row_count.Rd | 17 man/row_means.Rd | 30 man/row_sums.Rd | 15 man/scheffe_test.Rd | 6 man/set_na.Rd | 4 man/spearman_rho.Rd | 24 man/std.Rd | 17 man/strip_tags.Rd | 16 man/summary.crosstab.Rd | 5 man/summary.efa.Rd | 4 man/summary.fisher_test.Rd | 3 man/summary.frequency.Rd | 2 man/t_test.Rd | 14 man/to_character.Rd | 4 man/to_dummy.Rd | 13 man/to_label.Rd | 20 man/to_labelled.Rd | 8 man/to_numeric.Rd | 26 man/tukey_test.Rd | 6 man/untag_na.Rd | 18 man/update.linear_regression.Rd |only man/update.logistic_regression.Rd |only man/val_labels.Rd | 21 man/var_label.Rd | 18 man/vcov.linear_regression.Rd |only man/w_iqr.Rd | 25 man/w_kurtosis.Rd | 14 man/w_mean.Rd | 14 man/w_median.Rd | 21 man/w_modus.Rd | 21 man/w_quantile.Rd | 23 man/w_range.Rd | 8 man/w_sd.Rd | 14 man/w_se.Rd | 14 man/w_skew.Rd | 14 man/w_var.Rd | 14 man/wilcoxon_test.Rd | 22 man/write_spss.Rd | 20 man/write_xlsx.Rd | 50 man/write_xpt.Rd | 8 tests/testthat/helper-crosstab-cells.R |only tests/testthat/helper-mariposa.R | 14 tests/testthat/helper-validation-tolerances.R | 47 tests/testthat/test-ancova-spss-validation.R | 646 ++++ tests/testthat/test-audit-regressions.R | 614 +++ tests/testthat/test-binomial-test-spss-validation.R | 99 tests/testthat/test-chi-squared-spss-validation.R | 420 ++ tests/testthat/test-chisq-gof-spss-validation.R | 161 - tests/testthat/test-console-discipline.R | 7 tests/testthat/test-crosstab-spss-validation.R | 1234 +++++++ tests/testthat/test-describe-spss-validation.R | 260 + tests/testthat/test-dunn-test-spss-validation.R | 15 tests/testthat/test-edge-cases.R | 9 tests/testthat/test-efa-spss-validation.R | 600 +++ tests/testthat/test-factorial-anova-spss-validation.R | 439 ++ tests/testthat/test-fisher-test-spss-validation.R | 466 ++- tests/testthat/test-frequency-spss-validation.R | 192 - tests/testthat/test-helpers.R | 6 tests/testthat/test-kendall-tau-spss-validation.R | 466 ++- tests/testthat/test-kruskal-wallis-spss-validation.R | 14 tests/testthat/test-label-conversion.R | 2 tests/testthat/test-levene-test-spss-validation.R | 101 tests/testthat/test-linear-regression-spss-validation.R | 410 ++ tests/testthat/test-mann-whitney-spss-validation.R | 32 tests/testthat/test-mcnemar-test-spss-validation.R | 191 + tests/testthat/test-multiple-response-spss-validation.R | 2 tests/testthat/test-normality-test-spss-validation.R | 6 tests/testthat/test-oneway-anova-spss-validation.R | 639 +++- tests/testthat/test-pairwise-wilcoxon-spss-validation.R | 306 + tests/testthat/test-practice-DESC.R |only tests/testthat/test-practice-IO.R |only tests/testthat/test-practice-NP.R |only tests/testthat/test-practice-PAR.R |only tests/testthat/test-practice-REG.R |only tests/testthat/test-practice-SCALE.R |only tests/testthat/test-practice-X1.R |only tests/testthat/test-practice-X2.R |only tests/testthat/test-practice-X3.R |only tests/testthat/test-practice-X4.R |only tests/testthat/test-print-helpers.R | 226 - tests/testthat/test-print-methods.R | 77 tests/testthat/test-read-sas.R | 4 tests/testthat/test-read-spss.R | 20 tests/testthat/test-read-stata.R | 4 tests/testthat/test-reliability-omega.R | 2 tests/testthat/test-reliability-spss-validation.R | 457 ++ tests/testthat/test-scale-helpers.R | 2 tests/testthat/test-scheffe-spss-validation.R | 667 ++++ tests/testthat/test-spearman-rho-spss-validation.R | 417 ++ tests/testthat/test-summary-methods.R | 35 tests/testthat/test-t-test-spss-validation.R | 782 ++--- tests/testthat/test-tukey-test-spss-validation.R | 703 ++++ tests/testthat/test-validation-discipline.R | 15 tests/testthat/test-weighted-statistics-spss-validation.R | 351 +- tests/testthat/test-weights-invariance.R | 10 tests/testthat/test-wilcoxon-test-spss-validation.R | 127 tests/testthat/test-write-spss.R | 4 tests/testthat/test-write-xlsx.R | 4 vignettes/correlation-analysis.Rmd | 8 vignettes/data-transformation.Rmd | 6 vignettes/descriptive-statistics.Rmd | 6 vignettes/hypothesis-testing.Rmd | 2 vignettes/introduction.Rmd | 7 vignettes/labels-and-missing-values.Rmd | 14 vignettes/scale-analysis.Rmd | 5 vignettes/spss-compatibility.Rmd | 240 - 276 files changed, 26677 insertions(+), 11709 deletions(-)
Title: Safe Zig Bindings
Description: Scaffolds packages backed by Zig and generates a safe native
boundary for plain Zig functions. The generated integration converts
objects at the language boundary, registers native routines, propagates
errors, and compiles across platforms without requiring C++. Each step
of the workflow is a function: locating a supported Zig compiler,
scaffolding the package, scanning the Zig source for exported functions,
rendering and writing the bindings, checking the package before
compilation, and building it with the compiler errors reported by file
and line. The scan, the checks and the generated bindings are pure R; a
Zig compiler is needed only to build a package created with the
scaffold.
Author: Marek Deja [aut, cre]
Maintainer: Marek Deja <marek.deja@uj.edu.pl>
Diff between rzig versions 0.2.3 dated 2026-09-12 and 1.0.0 dated 2026-10-22
rzig-0.2.3/rzig/LICENSE |only rzig-0.2.3/rzig/inst/zig/tools/scan.zig |only rzig-1.0.0/rzig/DESCRIPTION | 29 rzig-1.0.0/rzig/MD5 | 208 +- rzig-1.0.0/rzig/NAMESPACE | 32 rzig-1.0.0/rzig/NEWS.md | 855 +++++++++ rzig-1.0.0/rzig/R/build.R |only rzig-1.0.0/rzig/R/checks.R |only rzig-1.0.0/rzig/R/create.R |only rzig-1.0.0/rzig/R/document.R |only rzig-1.0.0/rzig/R/imports.R |only rzig-1.0.0/rzig/R/install-zig.R |only rzig-1.0.0/rzig/R/known-templates.R |only rzig-1.0.0/rzig/R/lapack.R |only rzig-1.0.0/rzig/R/mixed.R |only rzig-1.0.0/rzig/R/rd.R |only rzig-1.0.0/rzig/R/render.R |only rzig-1.0.0/rzig/R/scan.R |only rzig-1.0.0/rzig/R/source.R |only rzig-1.0.0/rzig/R/status.R |only rzig-1.0.0/rzig/R/test-zig.R |only rzig-1.0.0/rzig/R/update-rzig.R |only rzig-1.0.0/rzig/R/use-ci.R |only rzig-1.0.0/rzig/R/use-rzig.R | 517 +---- rzig-1.0.0/rzig/R/utils.R |only rzig-1.0.0/rzig/R/zig.R |only rzig-1.0.0/rzig/R/zzz.R |only rzig-1.0.0/rzig/README.md | 828 ++++++++- rzig-1.0.0/rzig/build/vignette.rds 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rzig-1.0.0/rzig/inst/doc/updating.Rmd |only rzig-1.0.0/rzig/inst/doc/updating.html |only rzig-1.0.0/rzig/inst/examples |only rzig-1.0.0/rzig/inst/templates/Makevars | 32 rzig-1.0.0/rzig/inst/templates/Makevars.win | 32 rzig-1.0.0/rzig/inst/templates/cleanup | 2 rzig-1.0.0/rzig/inst/templates/cleanup.win | 2 rzig-1.0.0/rzig/inst/templates/configure | 261 ++ rzig-1.0.0/rzig/inst/templates/entry.c | 65 rzig-1.0.0/rzig/inst/templates/rzig-check.yaml |only rzig-1.0.0/rzig/inst/zig/build.zig | 90 + rzig-1.0.0/rzig/inst/zig/c_libraries.zon |only rzig-1.0.0/rzig/inst/zig/framework/alloc.zig | 108 + rzig-1.0.0/rzig/inst/zig/framework/attributes.zig | 26 rzig-1.0.0/rzig/inst/zig/framework/boundary.zig | 79 rzig-1.0.0/rzig/inst/zig/framework/c/abi.zig | 138 + rzig-1.0.0/rzig/inst/zig/framework/callable.zig |only rzig-1.0.0/rzig/inst/zig/framework/class.zig |only rzig-1.0.0/rzig/inst/zig/framework/compat.zig |only rzig-1.0.0/rzig/inst/zig/framework/complex.zig |only rzig-1.0.0/rzig/inst/zig/framework/convert.zig | 927 +++++++++- rzig-1.0.0/rzig/inst/zig/framework/error_state.zig | 83 rzig-1.0.0/rzig/inst/zig/framework/external.zig |only rzig-1.0.0/rzig/inst/zig/framework/generated/arity.zig | 1259 ++++++++++++-- rzig-1.0.0/rzig/inst/zig/framework/generated/manifest.zig | 6 rzig-1.0.0/rzig/inst/zig/framework/io.zig |only rzig-1.0.0/rzig/inst/zig/framework/lapack.zig |only rzig-1.0.0/rzig/inst/zig/framework/matrix.zig | 116 + rzig-1.0.0/rzig/inst/zig/framework/na.zig | 62 rzig-1.0.0/rzig/inst/zig/framework/optimize.zig |only rzig-1.0.0/rzig/inst/zig/framework/panic.zig | 55 rzig-1.0.0/rzig/inst/zig/framework/parallel.zig | 235 ++ rzig-1.0.0/rzig/inst/zig/framework/progress.zig |only rzig-1.0.0/rzig/inst/zig/framework/rcall.zig |only rzig-1.0.0/rzig/inst/zig/framework/record.zig |only rzig-1.0.0/rzig/inst/zig/framework/register.zig | 127 + rzig-1.0.0/rzig/inst/zig/framework/rmath.zig | 214 ++ rzig-1.0.0/rzig/inst/zig/framework/rng.zig | 50 rzig-1.0.0/rzig/inst/zig/framework/rzig.zig | 66 rzig-1.0.0/rzig/inst/zig/framework/sexp.zig | 188 ++ rzig-1.0.0/rzig/inst/zig/framework/sparse.zig |only rzig-1.0.0/rzig/inst/zig/framework/thread_identity.zig |only rzig-1.0.0/rzig/inst/zig/framework/unwind.zig | 15 rzig-1.0.0/rzig/inst/zig/src/main.zig | 4 rzig-1.0.0/rzig/inst/zig/tools/fetch_zig.R |only rzig-1.0.0/rzig/inst/zig/tools/imports.R |only rzig-1.0.0/rzig/inst/zig/tools/repack_macos_archive.sh | 5 rzig-1.0.0/rzig/man/build_zig.Rd |only rzig-1.0.0/rzig/man/create_rzig_package.Rd |only rzig-1.0.0/rzig/man/document.Rd | 58 rzig-1.0.0/rzig/man/eng_zig.Rd |only rzig-1.0.0/rzig/man/find_zig.Rd |only rzig-1.0.0/rzig/man/install_zig.Rd |only rzig-1.0.0/rzig/man/render_bindings.Rd |only rzig-1.0.0/rzig/man/rzig-package.Rd | 12 rzig-1.0.0/rzig/man/rzig_status.Rd |only rzig-1.0.0/rzig/man/scan_exports.Rd |only rzig-1.0.0/rzig/man/test_zig.Rd |only rzig-1.0.0/rzig/man/update_rzig.Rd |only rzig-1.0.0/rzig/man/use_rzig.Rd | 70 rzig-1.0.0/rzig/man/use_rzig_ci.Rd |only rzig-1.0.0/rzig/man/use_rzig_import.Rd |only rzig-1.0.0/rzig/man/use_rzig_lapack.Rd |only rzig-1.0.0/rzig/man/use_rzig_mixed.Rd |only rzig-1.0.0/rzig/man/zig_function.Rd |only rzig-1.0.0/rzig/tests |only rzig-1.0.0/rzig/vignettes/distributing.Rmd |only rzig-1.0.0/rzig/vignettes/exports.Rmd |only rzig-1.0.0/rzig/vignettes/numerics.Rmd |only rzig-1.0.0/rzig/vignettes/parallel.Rmd |only rzig-1.0.0/rzig/vignettes/porting-rcpp.Rmd | 172 + rzig-1.0.0/rzig/vignettes/rzig.Rmd |only rzig-1.0.0/rzig/vignettes/sharing.Rmd |only rzig-1.0.0/rzig/vignettes/updating.Rmd |only 125 files changed, 6398 insertions(+), 1124 deletions(-)
Title: Echo State Networks for Time Series Modeling and Forecasting
Description: Provides a lightweight implementation of functions and methods for
fast and fully automatic time series modeling and forecasting using Echo
State Networks (ESNs).
Author: Alexander Haeusser [aut, cre, cph]
Maintainer: Alexander Haeusser <alexander-haeusser@gmx.de>
Diff between echos versions 1.0.4 dated 2026-06-15 and 1.0.5 dated 2026-10-22
echos-1.0.4/echos/inst/doc/vignette_01_baseR.R |only echos-1.0.4/echos/inst/doc/vignette_01_baseR.Rmd |only echos-1.0.4/echos/inst/doc/vignette_01_baseR.html |only echos-1.0.4/echos/inst/doc/vignette_02_tidyR.R |only echos-1.0.4/echos/inst/doc/vignette_02_tidyR.Rmd |only echos-1.0.4/echos/inst/doc/vignette_02_tidyR.html |only echos-1.0.4/echos/inst/doc/vignette_03_datasets.R |only echos-1.0.4/echos/inst/doc/vignette_03_datasets.Rmd |only echos-1.0.4/echos/inst/doc/vignette_03_datasets.html |only echos-1.0.4/echos/vignettes/vignette_01_baseR.Rmd |only echos-1.0.4/echos/vignettes/vignette_02_tidyR.Rmd |only echos-1.0.4/echos/vignettes/vignette_03_datasets.Rmd |only echos-1.0.5/echos/DESCRIPTION | 11 echos-1.0.5/echos/MD5 | 103 - echos-1.0.5/echos/NAMESPACE | 77 - echos-1.0.5/echos/NEWS.md | 7 echos-1.0.5/echos/R/RcppExports.R | 6 echos-1.0.5/echos/R/echos-package.R | 1 echos-1.0.5/echos/R/forecast_esn.R | 13 echos-1.0.5/echos/R/methods-fable.R | 20 echos-1.0.5/echos/R/train_esn.R | 15 echos-1.0.5/echos/R/tune_esn.R | 13 echos-1.0.5/echos/README.md | 22 echos-1.0.5/echos/build/partial.rdb |only echos-1.0.5/echos/build/vignette.rds |binary echos-1.0.5/echos/inst/doc/vignette_100_base_airpassengers.R |only echos-1.0.5/echos/inst/doc/vignette_100_base_airpassengers.Rmd |only echos-1.0.5/echos/inst/doc/vignette_100_base_airpassengers.html |only echos-1.0.5/echos/inst/doc/vignette_201_tidy_m4_monthly_models.R |only echos-1.0.5/echos/inst/doc/vignette_201_tidy_m4_monthly_models.Rmd |only echos-1.0.5/echos/inst/doc/vignette_201_tidy_m4_monthly_models.html |only echos-1.0.5/echos/inst/doc/vignette_202_tidy_m4_monthly_splits.R |only echos-1.0.5/echos/inst/doc/vignette_202_tidy_m4_monthly_splits.Rmd |only echos-1.0.5/echos/inst/doc/vignette_202_tidy_m4_monthly_splits.html |only echos-1.0.5/echos/inst/doc/vignette_300_datasets.R |only echos-1.0.5/echos/inst/doc/vignette_300_datasets.Rmd |only echos-1.0.5/echos/inst/doc/vignette_300_datasets.html |only echos-1.0.5/echos/man/ESN.Rd | 20 echos-1.0.5/echos/man/figures/README-base-1.svg | 124 +- echos-1.0.5/echos/man/figures/README-tidy-1.svg | 550 +++++----- echos-1.0.5/echos/man/filter_esn.Rd | 20 echos-1.0.5/echos/man/fitted.ESN.Rd | 20 echos-1.0.5/echos/man/forecast.ESN.Rd | 20 echos-1.0.5/echos/man/forecast_esn.Rd | 35 echos-1.0.5/echos/man/glance.ESN.Rd | 20 echos-1.0.5/echos/man/is.esn.Rd | 24 echos-1.0.5/echos/man/is.forecast_esn.Rd | 24 echos-1.0.5/echos/man/is.tune_esn.Rd | 24 echos-1.0.5/echos/man/model_sum.ESN.Rd | 20 echos-1.0.5/echos/man/plot.esn.Rd | 24 echos-1.0.5/echos/man/plot.forecast_esn.Rd | 24 echos-1.0.5/echos/man/plot.tune_esn.Rd | 24 echos-1.0.5/echos/man/print.esn.Rd | 24 echos-1.0.5/echos/man/report.ESN.Rd | 20 echos-1.0.5/echos/man/reservoir.Rd | 20 echos-1.0.5/echos/man/residuals.ESN.Rd | 20 echos-1.0.5/echos/man/run_reservoir.Rd | 7 echos-1.0.5/echos/man/summary.esn.Rd | 24 echos-1.0.5/echos/man/summary.tune_esn.Rd | 24 echos-1.0.5/echos/man/tidy.ESN.Rd | 20 echos-1.0.5/echos/man/train_esn.Rd | 35 echos-1.0.5/echos/man/tune_esn.Rd | 35 echos-1.0.5/echos/src/run_reservoir.cpp | 9 echos-1.0.5/echos/vignettes/vignette_100_base_airpassengers.Rmd |only echos-1.0.5/echos/vignettes/vignette_201_tidy_m4_monthly_models.Rmd |only echos-1.0.5/echos/vignettes/vignette_202_tidy_m4_monthly_splits.Rmd |only echos-1.0.5/echos/vignettes/vignette_300_datasets.Rmd |only 67 files changed, 778 insertions(+), 721 deletions(-)
Title: Your Go-to Motif Accountant
Description: Provides the 'C++' header-only library 'barry' for use in R packages.
'barry' is a 'C++' template library for counting sufficient statistics on binary
arrays and building discrete exponential-family models. It provides tools for
sparse arrays, user-defined count statistics, support set constraints,
power set generation, and includes modules for Discrete Exponential Family Models
(DEFMs) and network statistics. By placing these headers in this package, we
offer an efficient distribution system for CRAN as replication of this code in
the sources of other packages is avoided. This package follows the same
approach as the 'BH' package which provides 'Boost' headers for R packages.
Author: George Vega Yon [aut, cre] ,
U.S. Army Medical Research Acquisition Activity [fnd] ,
National Cancer Institute [fnd]
Maintainer: George Vega Yon <g.vegayon@gmail.com>
Diff between barry versions 0.2.2 dated 2026-07-22 and 0.3.0 dated 2026-10-22
DESCRIPTION | 6 MD5 | 20 + NEWS.md | 23 ++ R/barry-package.R | 3 R/zzz.R |only README.md | 11 + inst/CITATION |only inst/include/barry/barry.hpp | 4 inst/include/barry/model-bones.hpp | 44 ++++ inst/include/barry/model-meat.hpp | 310 ++++++++++++++++++++++++++++- inst/include/barry/models/defm/formula.hpp | 118 ++++++----- man/barry-package.Rd | 4 12 files changed, 475 insertions(+), 68 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-09-30 0.4.1
2026-09-13 0.4.0
2026-06-01 0.3.0
2026-01-12 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-01-31 0.1.3
2021-05-24 0.1.2
2020-03-26 0.1.1
2017-06-06 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-02-13 0.1.1
2024-06-17 0.1.0
Title: Analysis of Diffusion and Contagion Processes on Networks
Description: Empirical statistical analysis, visualization and simulation of
diffusion and contagion processes on networks. The package implements algorithms
for calculating network diffusion statistics such as transmission rate, hazard
rates, exposure models, network threshold levels, infectiousness (contagion),
and susceptibility. The package is inspired by work published in Valente,
et al., (2015) <DOI:10.1016/j.socscimed.2015.10.001>; Valente (1995) <ISBN:
9781881303213>, Myers (2000) <DOI:10.1086/303110>, Iyengar and others (2011)
<DOI:10.1287/mksc.1100.0566>, Burt (1987) <DOI:10.1086/228667>; among others.
Author: George Vega Yon [aut, cre] ,
Thomas Valente [aut, cph] ,
Anibal Olivera Morales [aut, ctb] ,
Stephanie Dyal [ctb] ,
Timothy Hayes [ctb]
Maintainer: George Vega Yon <g.vegayon@gmail.com>
Diff between netdiffuseR versions 1.25.0 dated 2026-04-10 and 1.25.1 dated 2026-10-22
DESCRIPTION | 8 MD5 | 45 - NEWS.md | 14 R/diffnet-class.r | 2 R/misc.r | 5 R/zzz.R |only README.md | 11 build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 70 +- inst/doc/analyzing-medical-innovation-data.Rmd | 5 inst/doc/analyzing-medical-innovation-data.html | 236 +++++----- inst/doc/introduction-to-netdiffuser.Rmd | 5 inst/doc/introduction-to-netdiffuser.html | 7 inst/doc/not-lost-in-translation-importing-and-exporting-graphs.Rmd | 5 inst/doc/not-lost-in-translation-importing-and-exporting-graphs.html | 7 inst/doc/time_discount_suscep_infect.Rmd | 5 inst/doc/time_discount_suscep_infect.html | 7 tests/testthat/test-rdiffnet.R | 17 tests/testthat/test-struct_equiv.R | 14 vignettes/analyzing-medical-innovation-data.Rmd | 5 vignettes/introduction-to-netdiffuser.Rmd | 5 vignettes/not-lost-in-translation-importing-and-exporting-graphs.Rmd | 5 vignettes/time_discount_suscep_infect.Rmd | 5 24 files changed, 312 insertions(+), 171 deletions(-)
Title: Extract Glycan Motifs from Glycan Structures
Description: Identify, count, and match recurring substructures in glycan structures.
Supports concrete and generic monosaccharide matching, several structural
alignment modes, node-to-node mappings, and batch analysis using subgraph
isomorphism. Includes curated motif annotations derived from the
'GlycoMotif' resource <https://glycomotif.glyomics.org/>. Integrates with
'glyrepr' and 'glyparse' for structural glycomics workflows.
Author: Bin Fu [aut, cre, cph]
Maintainer: Bin Fu <23110220018@m.fudan.edu.cn>
Diff between glymotif versions 1.0.0 dated 2026-10-07 and 1.0.1 dated 2026-10-22
DESCRIPTION | 6 MD5 | 16 NEWS.md | 4 README.md | 8 inst/doc/glymotif.html | 683 ++++++++++++++---------------------- inst/doc/motif-matching.html | 527 +++++++++++---------------- src/extract-motifs.cpp | 3 src/structure-matcher.cpp | 2 tests/testthat/test-extract-motif.R | 44 ++ 9 files changed, 562 insertions(+), 731 deletions(-)