Title: A Unified Tidy Interface to R's Machine Learning Ecosystem
Description: Provides a unified tidyverse-compatible interface to R's machine
learning ecosystem - from data ingestion to model publishing. The tl_read()
family reads data from files ('CSV', 'Excel', 'Parquet', 'JSON'), databases
('SQLite', 'PostgreSQL', 'MySQL', 'BigQuery'), and cloud sources ('S3',
'GitHub', 'Kaggle'). The tl_model() function wraps established
implementations from 'glmnet', 'randomForest', 'xgboost', 'e1071', 'rpart',
'gbm', 'nnet', 'cluster', 'dbscan', and others with consistent function
signatures and tidy tibble output. Results flow into unified 'ggplot2'-based
visualization and optional formatted 'gt' tables via the tl_table() family.
The underlying algorithms are unchanged; 'tidylearn' simply makes them
easier to use together. Access raw model objects via the $fit slot for a
supervised method, or $fit$model for an unsupervised one.
Methods include random forests Breiman (2001) <doi:10.1023/A:1010933404324>,
LASSO regression Tibshirani (1996) <doi:10.1111/j.2517-6161 [...truncated...]
Author: Cesaire Tobias [aut, cre]
Maintainer: Cesaire Tobias <cesaire@sheetsolved.com>
Diff between tidylearn versions 0.4.0 dated 2026-08-03 and 0.5.0 dated 2026-09-02
DESCRIPTION | 30 MD5 | 266 +++--- NAMESPACE | 4 NEWS.md | 762 +++++++++++++++++ R/cloud-consent.R |only R/cloud-cost.R |only R/cloud-endpoint.R |only R/cloud-serialize.R |only R/compute-advisor.R | 4 R/compute-detection.R | 3 R/core.R | 346 +++++++ R/diagnostics.R | 231 ++++- R/integration.R | 26 R/interactions.R | 57 + R/metrics.R | 132 ++ R/pipeline.R | 701 ++++++++++++--- R/preprocessing.R | 51 + R/read-backends.R | 234 ++++- R/read.R | 34 R/supervised-classification.R | 64 + R/supervised-deep-learning.R | 43 R/supervised-neural-networks.R | 53 + R/supervised-regularization.R | 25 R/supervised-svm.R | 59 - R/supervised-trees.R | 140 +-- R/supervised-xgboost.R | 199 +++- R/tuning.R | 237 ++++- R/unsupervised-clustering.R | 14 R/unsupervised-dbscan.R | 45 - R/unsupervised-distance.R | 21 R/unsupervised-hclust.R | 31 R/unsupervised-market-basket.R | 5 R/unsupervised-mds.R | 46 - R/unsupervised-pca.R | 92 +- R/unsupervised-validation.R | 2 R/utils.R | 575 +++++++++++- R/visualization.R | 73 + R/workflows.R | 140 ++- README.md | 137 ++- build/vignette.rds |binary inst/CITATION | 42 inst/WORDLIST | 53 + inst/doc/automl.R | 464 +++------- inst/doc/automl.Rmd | 674 +++++---------- inst/doc/automl.html | 902 ++++++++------------ inst/doc/compute-backends.R |only inst/doc/compute-backends.Rmd |only inst/doc/compute-backends.html |only inst/doc/data-ingestion.html | 16 inst/doc/diagnostics.R |only inst/doc/diagnostics.Rmd |only inst/doc/diagnostics.html |only inst/doc/getting-started.R | 10 inst/doc/getting-started.Rmd | 90 +- inst/doc/getting-started.html | 151 +-- inst/doc/integration-workflows.R | 45 - inst/doc/integration-workflows.Rmd | 148 +-- inst/doc/integration-workflows.html | 506 ++--------- inst/doc/market-basket.R |only inst/doc/market-basket.Rmd |only inst/doc/market-basket.html |only inst/doc/reporting.Rmd | 36 inst/doc/reporting.html | 1285 ++++++++++++++--------------- inst/doc/supervised-learning.R | 16 inst/doc/supervised-learning.Rmd | 52 - inst/doc/supervised-learning.html | 172 +-- inst/doc/tuning-and-pipelines.R |only inst/doc/tuning-and-pipelines.Rmd |only inst/doc/tuning-and-pipelines.html |only inst/doc/unsupervised-learning.R | 363 +++----- inst/doc/unsupervised-learning.Rmd | 565 +++++++----- inst/doc/unsupervised-learning.html | 1022 +++++++++++------------ inst/examples/unified_workflow.R | 32 inst/security/threat-model.md | 448 ++++++++-- man/get_pca_loadings.Rd | 3 man/get_pca_variance.Rd | 6 man/plot_mds.Rd | 4 man/predict.tidylearn_transfer.Rd | 2 man/print.tidylearn_automl.Rd | 12 man/print.tidylearn_compute_advice.Rd | 5 man/print.tidylearn_gpu_check.Rd | 4 man/recommend_products.Rd | 5 man/suggest_eps.Rd | 2 man/tidy_dbscan.Rd | 88 - man/tidy_pca_biplot.Rd | 3 man/tidylearn-cloud-consent.Rd |only man/tidylearn-cloud-cost.Rd |only man/tidylearn-cloud-endpoint.Rd |only man/tidylearn-cloud-serialize.Rd |only man/tidylearn-core.Rd | 4 man/tidylearn-package.Rd | 3 man/tl_anomaly_aware.Rd | 7 man/tl_check_assumptions.Rd | 66 - man/tl_cloud_allow_host.Rd |only man/tl_cloud_allowed_hosts.Rd |only man/tl_cloud_consent.Rd |only man/tl_cloud_jobs.Rd |only man/tl_compare_pipeline_models.Rd | 16 man/tl_cv.Rd | 11 man/tl_event_level_args.Rd |only man/tl_fit_deep.Rd | 6 man/tl_fit_forest.Rd | 6 man/tl_fit_svm.Rd | 5 man/tl_interaction_effects.Rd | 28 man/tl_model.Rd | 23 man/tl_pipeline.Rd | 88 - man/tl_plot_cv_results.Rd | 9 man/tl_plot_interaction.Rd | 12 man/tl_plot_nn_tuning.Rd | 18 man/tl_plot_xgboost_shap_dependence.Rd | 14 man/tl_plot_xgboost_tree.Rd | 11 man/tl_predict_boost.Rd | 56 - man/tl_predict_pipeline.Rd | 20 man/tl_predict_xgboost.Rd | 19 man/tl_read_kaggle.Rd | 6 man/tl_read_zip.Rd | 5 man/tl_semisupervised.Rd | 7 man/tl_stratified_models.Rd | 7 man/tl_transfer_learning.Rd | 9 man/tl_tune_nn.Rd | 14 man/tl_tune_random.Rd | 16 man/tl_tune_xgboost.Rd | 28 tests/testthat.R | 45 - tests/testthat/setup.R | 37 tests/testthat/test-cloud-cost.R |only tests/testthat/test-cloud-guards.R |only tests/testthat/test-cloud-roundtrip.R |only tests/testthat/test-cloud-serialize.R |only tests/testthat/test-core.R | 176 ++- tests/testthat/test-degenerate-specs.R |only tests/testthat/test-diagnostics.R | 665 ++++++++------- tests/testthat/test-examples.R |only tests/testthat/test-integration.R | 17 tests/testthat/test-leakage-and-guards.R |only tests/testthat/test-metrics-correctness.R |only tests/testthat/test-predict-contract.R |only tests/testthat/test-read.R | 137 ++- tests/testthat/test-supervised.R | 258 +++++ tests/testthat/test-tuning.R | 210 ++++ tests/testthat/test-unsupervised-predict.R | 140 +++ tests/testthat/test-unsupervised.R | 162 +++ tests/testthat/test-visualization.R | 514 ++++++----- tests/testthat/test-workflows.R | 59 + vignettes/automl.Rmd | 674 +++++---------- vignettes/compute-backends.Rmd |only vignettes/diagnostics.Rmd |only vignettes/getting-started.Rmd | 90 +- vignettes/integration-workflows.Rmd | 148 +-- vignettes/market-basket.Rmd |only vignettes/reporting.Rmd | 36 vignettes/supervised-learning.Rmd | 52 - vignettes/tuning-and-pipelines.Rmd |only vignettes/unsupervised-learning.Rmd | 565 +++++++----- 153 files changed, 10478 insertions(+), 6129 deletions(-)
Title: Utilities for Joining Dataframes with Inexact Matching
Description: Provides functions for joining data frames based on inexact
criteria, including string distance, Manhattan distance, Euclidean
distance, and interval overlap. This API is designed as a modern,
performance-oriented alternative to the 'fuzzyjoin' package (Robinson 2026)
<doi:10.32614/CRAN.package.fuzzyjoin>. String distance functions utilizing
'q-grams' are adapted with permission from the 'textdistance' 'Rust' crate
(Orsinium 2024) <https://docs.rs/textdistance/latest/textdistance/>. Other
string distance calculations rely on the 'rapidfuzz' 'Rust' crate (Bachmann
2023) <https://docs.rs/rapidfuzz/0.5.0/rapidfuzz/>. Interval joins are
backed by a Adelson-Velsky and Landis tree as implemented by the 'interavl'
'Rust' crate <https://docs.rs/interavl/0.5.0/interavl/>.
Author: Jon Downs [aut, cre],
The authors of the dependency Rust crates [ctb, cph]
Maintainer: Jon Downs <jon@jondowns.net>
Diff between fozziejoin versions 0.0.13 dated 2026-03-09 and 0.0.16 dated 2026-09-02
DESCRIPTION | 10 - MD5 | 54 +++++----- NEWS.md | 20 +++ R/fozzie_string_join.R | 6 - README.md | 64 ++++-------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/overview.R | 3 inst/doc/overview.Rmd | 4 inst/doc/overview.html | 36 +++--- inst/doc/string_dist_benchmarking.R | 17 ++- inst/doc/string_dist_benchmarking.Rmd | 21 ++-- inst/doc/string_dist_benchmarking.html | 107 ++++++++++---------- man/fozzie_string_join_family.Rd | 12 -- man/fozziejoin-package.Rd | 5 src/Makevars.win.in | 2 src/rust/Cargo.lock | 56 ++++++++-- src/rust/Cargo.toml | 2 src/rust/src/merge/mod.rs | 2 src/rust/src/string/ngram/jaccard.rs | 131 +++++++++++++++---------- src/rust/vendor.tar.xz |binary tests/testthat/setup.R | 1 tests/testthat/test_fozzie_difference_join.R | 26 ---- tests/testthat/test_fozzie_string_inner_join.R | 51 +++------ tests/testthat/test_fozzie_temporal_join.R | 16 +-- tools/config.R | 11 ++ vignettes/overview.Rmd | 4 vignettes/string_dist_benchmarking.Rmd | 21 ++-- 28 files changed, 369 insertions(+), 313 deletions(-)
Title: Access and Analyse 'VALD' Data via Our External 'APIs'
Description: Provides helper functions and wrappers to simplify authentication,
data retrieval, and result processing from the 'VALD' 'APIs'.
Designed to streamline integration for analysts and researchers working
with 'VALD's external 'APIs'.
For further documentation on integrating with 'VALD' 'APIs', see:
<https://support.vald.com/hc/en-au/articles/23415335574553-How-to-integrate-with-VALD-APIs>.
For a step-by-step guide to using this package, see:
<https://support.vald.com/hc/en-au/articles/48730811824281-A-guide-to-using-the-valdr-R-package>.
Author: Kieran Harrison [aut, cre],
VALD Support [ctb],
VALD [cph]
Maintainer: Kieran Harrison <k.harrison@vald.com>
Diff between valdr versions 3.0.0 dated 2026-04-22 and 4.0.0 dated 2026-09-02
DESCRIPTION | 6 MD5 | 73 + NAMESPACE | 8 R/config.R | 50 - R/dev |only R/dynamo_tests.R |only R/dynamo_tests_by_id.R |only R/forceframe_tests_by_id.R | 6 R/humantrak_reps_by_id.R |only R/humantrak_test_type_metrics.R |only R/humantrak_tests.R |only R/nordbord_tests_by_id.R | 4 R/profiles.R | 4 R/profiles_by_id.R |only R/session.R | 250 +++++- R/utils.R | 767 ++++++++++++++++++- man/dot-build_dynamo_asymmetries_df.Rd |only man/dot-build_dynamo_df.Rd |only man/dot-build_dynamo_ratios_df.Rd |only man/dot-build_dynamo_repetition_type_summaries_df.Rd |only man/dot-build_dynamo_repetitions_df.Rd |only man/dot-build_humantrak_df.Rd |only man/dot-build_humantrak_metric_groups_df.Rd |only man/dot-build_humantrak_repetition_counts_df.Rd |only man/dot-build_humantrak_repetitions_df.Rd |only man/dot-build_humantrak_summary_measurements_df.Rd |only man/dot-build_humantrak_test_type_metrics_df.Rd |only man/dot-build_profile_details_df.Rd |only man/dot-extract_nested_character_list.Rd |only man/get_dynamo_data.Rd |only man/get_dynamo_test_by_id.Rd |only man/get_dynamo_tests.Rd |only man/get_dynamo_tests_by_id.Rd |only man/get_dynamo_tests_only.Rd |only man/get_forceframe_repetitions_by_id.Rd | 2 man/get_forceframe_test_by_id.Rd | 2 man/get_forceframe_tests_by_id.Rd | 3 man/get_humantrak_data.Rd |only man/get_humantrak_repetitions_by_id.Rd |only man/get_humantrak_reps_by_id.Rd |only man/get_humantrak_test_type_metrics.Rd |only man/get_humantrak_test_type_metrics_only.Rd |only man/get_humantrak_tests.Rd |only man/get_humantrak_tests_only.Rd |only man/get_nordbord_test_by_id.Rd | 2 man/get_nordbord_tests_by_id.Rd | 3 man/get_nordbord_tests_only.Rd | 2 man/get_profile_by_id.Rd |only man/get_profiles_by_id.Rd |only man/get_profiles_groups_categories.Rd | 4 man/get_profiles_groups_categories_mapping.Rd | 13 man/load_credentials.Rd | 14 tests/testthat/test-12-dynamo-humantrak-builders.R |only tests/testthat/test-13-profile-by-id.R |only tests/testthat/test-14-dynamo-long-form.R |only tests/testthat/test-15-humantrak-relational.R |only tests/testthat/test-16-new-retrieval-visibility.R |only 57 files changed, 1107 insertions(+), 106 deletions(-)
Title: Plot Raster Map Tiles from Open Street Map and Other Sources
Description: Download and plot Open Street Map <https://www.openstreetmap.org/>,
Bing Maps <https://www.bing.com/maps> and other tiled map sources. Use to create
basemaps quickly and add hillshade to vector-based maps.
Author: Dewey Dunnington [aut, cre] ,
Timothee Giraud [ctb]
Maintainer: Dewey Dunnington <dewey@fishandwhistle.net>
Diff between rosm versions 0.3.1 dated 2026-01-21 and 0.3.2 dated 2026-09-02
DESCRIPTION | 8 +++---- MD5 | 10 ++++----- NEWS.md | 5 ++++ R/deprecated.R | 42 +++++++++++++++++++++++++++++---------- man/deprecated.Rd | 10 +++++++-- tests/testthat/test-deprecated.R | 32 +++++++++++++++++++++++++++-- 6 files changed, 84 insertions(+), 23 deletions(-)
Title: Read and Write ODS Files
Description: Read ODS (OpenDocument Spreadsheet) into R as data frame. Also support writing data frame into ODS file.
Author: Gerrit-Jan Schutten [aut],
Chung-hong Chan [aut, cre] ,
Peter Brohan [aut],
Detlef Steuer [aut] ,
Thomas J. Leeper [aut] ,
John Foster [ctb],
Sergio Oller [ctb],
Jim Hester [ctb] ,
Stephen Watts [ctb],
Arthur Katossky [ctb],
Stas Malavin [ctb],
Dunca [...truncated...]
Maintainer: Chung-hong Chan <chainsawtiney@gmail.com>
Diff between readODS versions 2.3.5 dated 2026-04-13 and 2.3.6 dated 2026-09-02
DESCRIPTION | 8 MD5 | 26 +- NEWS.md | 4 README.md | 10 - src/cpp11.cpp | 8 src/get_sheet_names.cpp | 11 - src/is_ods.cpp | 3 src/read_flat_ods_.cpp | 9 src/read_ods_.cpp | 7 src/splice.cpp | 236 ++++++++------------------ src/splice.h | 11 - src/write_sheet_file_.cpp | 6 tests/testthat/test_read_ods.R | 4 tests/testthat/test_write_ods_append_update.R | 14 + 14 files changed, 141 insertions(+), 216 deletions(-)
Title: Read 'Blackrock-Microsystems' Files ('NEV', 'NSx')
Description: Loads 'Blackrock' <https://blackrockneurotech.com> neural signal
data files into the memory, provides utility tools to extract the data into
common formats such as plain-text 'tsv' and 'HDF5'.
Author: Zhengjia Wang [aut, cre]
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>
Diff between readNSx versions 0.0.7 dated 2026-05-23 and 0.1.0 dated 2026-09-02
readNSx-0.0.7/readNSx/R/hdf5-alternative.R |only readNSx-0.1.0/readNSx/DESCRIPTION | 14 readNSx-0.1.0/readNSx/MD5 | 32 readNSx-0.1.0/readNSx/NEWS.md | 29 readNSx-0.1.0/readNSx/R/bci2000.R | 8 readNSx-0.1.0/readNSx/R/blackrock.R | 11 readNSx-0.1.0/readNSx/R/cpp11.R | 40 readNSx-0.1.0/readNSx/R/hdf5.R | 652 +++++--------- readNSx-0.1.0/readNSx/R/nsx.R | 2 readNSx-0.1.0/readNSx/R/specifications.R | 2 readNSx-0.1.0/readNSx/R/validators.R | 2 readNSx-0.1.0/readNSx/build/vignette.rds |binary readNSx-0.1.0/readNSx/man/import_nsp.Rd | 14 readNSx-0.1.0/readNSx/src/Makevars |only readNSx-0.1.0/readNSx/src/cpp11.cpp | 122 ++ readNSx-0.1.0/readNSx/src/h5native.cpp |only readNSx-0.1.0/readNSx/tests/testthat/golden-hdf5r.h5 |only readNSx-0.1.0/readNSx/tests/testthat/test-h5-allocation.R | 85 - readNSx-0.1.0/readNSx/tests/testthat/test-h5.R |only readNSx-0.1.0/readNSx/tests/testthat/test-hdf5r-compat.R |only 20 files changed, 487 insertions(+), 526 deletions(-)
Title: Clustering Algorithm for Data Integration and Disease Subtyping
Description: Provides a robust approach for omics data integration and disease subtyping. PINSPlus is fast and supports the analysis of large datasets with hundreds of thousands of samples and features. The software automatically determines the optimal number of clusters and then partitions the samples in a way such that the results are robust against noise and data perturbation (Nguyen et al. (2019) <DOI: 10.1093/bioinformatics/bty1049>, Nguyen et al. (2017)<DOI: 10.1101/gr.215129.116>, Nguyen et al. (2021)<DOI: 10.3389/fonc.2021.725133>).
Author: Hung Nguyen [aut],
Bang Tran [aut],
Duc Tran [aut],
Tin Nguyen [aut],
Van-Dung Pham [cre]
Maintainer: Van-Dung Pham <dvp0001@wayne.edu>
Diff between PINSPlus versions 2.0.9 dated 2025-07-29 and 2.0.10 dated 2026-09-02
DESCRIPTION | 14 +- MD5 | 4 inst/doc/PINSPlus.html | 260 ++++++++++++++++++++++++------------------------- 3 files changed, 138 insertions(+), 140 deletions(-)
Title: NHDPlus Tools
Description: Tools for traversing and working with National Hydrography Dataset Plus (NHDPlus) data. All methods implemented in 'nhdplusTools' are available in the NHDPlus documentation available from the US Environmental Protection Agency <https://www.epa.gov/waterdata/basic-information>.
Author: David Blodgett [aut, cre] ,
Mike Johnson [aut] ,
Marc Weber [ctb] ,
Josh Erickson [ctb],
Lauren Koenig [ctb]
Maintainer: David Blodgett <dblodgett@usgs.gov>
Diff between nhdplusTools versions 1.5.1 dated 2026-07-27 and 1.5.2 dated 2026-09-02
nhdplusTools-1.5.1/nhdplusTools/build/vignette.rds |only nhdplusTools-1.5.1/nhdplusTools/inst/doc |only nhdplusTools-1.5.1/nhdplusTools/vignettes |only nhdplusTools-1.5.2/nhdplusTools/DESCRIPTION | 13 nhdplusTools-1.5.2/nhdplusTools/MD5 | 202 ++++------ nhdplusTools-1.5.2/nhdplusTools/NEWS.md | 5 nhdplusTools-1.5.2/nhdplusTools/R/A_nhdplusTools.R | 16 nhdplusTools-1.5.2/nhdplusTools/R/calc_network.R | 32 - nhdplusTools-1.5.2/nhdplusTools/R/discover_nhdplus.R | 11 nhdplusTools-1.5.2/nhdplusTools/R/downloading_tools.R | 38 - nhdplusTools-1.5.2/nhdplusTools/R/get_codes.R | 92 ---- nhdplusTools-1.5.2/nhdplusTools/R/get_drainage_area_estimates.R | 8 nhdplusTools-1.5.2/nhdplusTools/R/get_geoconnex.R | 24 - nhdplusTools-1.5.2/nhdplusTools/R/get_hydro.R | 61 --- nhdplusTools-1.5.2/nhdplusTools/R/get_network.R | 84 ---- nhdplusTools-1.5.2/nhdplusTools/R/get_nhdplus.R | 16 nhdplusTools-1.5.2/nhdplusTools/R/get_nhdplushr.R | 63 --- nhdplusTools-1.5.2/nhdplusTools/R/get_nldi.R | 83 ---- nhdplusTools-1.5.2/nhdplusTools/R/get_oaproc.R | 136 ------ nhdplusTools-1.5.2/nhdplusTools/R/get_path_lengths.R | 26 - nhdplusTools-1.5.2/nhdplusTools/R/get_paths.R | 47 -- nhdplusTools-1.5.2/nhdplusTools/R/get_vaa.R | 29 - nhdplusTools-1.5.2/nhdplusTools/R/index_nhdplus.R | 81 ---- nhdplusTools-1.5.2/nhdplusTools/R/map_nhdplus.R | 15 nhdplusTools-1.5.2/nhdplusTools/R/plot_nhdplus.R | 77 --- nhdplusTools-1.5.2/nhdplusTools/R/prep_nhdplus.R | 16 nhdplusTools-1.5.2/nhdplusTools/R/rebuild_topology.R | 19 nhdplusTools-1.5.2/nhdplusTools/R/rescale_catchments.R | 27 - nhdplusTools-1.5.2/nhdplusTools/R/run_plus_attributes.R | 14 nhdplusTools-1.5.2/nhdplusTools/R/subset_nhdplus.R | 91 ---- nhdplusTools-1.5.2/nhdplusTools/man/add_plus_network_attributes.Rd | 15 nhdplusTools-1.5.2/nhdplusTools/man/align_nhdplus_names.Rd | 12 nhdplusTools-1.5.2/nhdplusTools/man/calculate_arbolate_sum.Rd | 17 nhdplusTools-1.5.2/nhdplusTools/man/calculate_total_drainage_area.Rd | 17 nhdplusTools-1.5.2/nhdplusTools/man/disambiguate_flowline_indexes.Rd | 39 - nhdplusTools-1.5.2/nhdplusTools/man/discover_geoconnex_reference.Rd | 6 nhdplusTools-1.5.2/nhdplusTools/man/discover_nhdplus_id.Rd | 12 nhdplusTools-1.5.2/nhdplusTools/man/download_nhd.Rd | 10 nhdplusTools-1.5.2/nhdplusTools/man/download_nhdplushr.Rd | 13 nhdplusTools-1.5.2/nhdplusTools/man/download_nhdplusv2.Rd | 10 nhdplusTools-1.5.2/nhdplusTools/man/download_rf1.Rd | 5 nhdplusTools-1.5.2/nhdplusTools/man/download_wbd.Rd | 63 +-- nhdplusTools-1.5.2/nhdplusTools/man/get_3dhp.Rd | 41 -- nhdplusTools-1.5.2/nhdplusTools/man/get_DD.Rd | 15 nhdplusTools-1.5.2/nhdplusTools/man/get_DM.Rd | 16 nhdplusTools-1.5.2/nhdplusTools/man/get_UM.Rd | 16 nhdplusTools-1.5.2/nhdplusTools/man/get_UT.Rd | 14 nhdplusTools-1.5.2/nhdplusTools/man/get_catchment_characteristics.Rd | 5 nhdplusTools-1.5.2/nhdplusTools/man/get_characteristics_metadata.Rd | 10 nhdplusTools-1.5.2/nhdplusTools/man/get_drainage_area_estimates.Rd | 9 nhdplusTools-1.5.2/nhdplusTools/man/get_elev_along_path.Rd | 27 - nhdplusTools-1.5.2/nhdplusTools/man/get_flowline_index.Rd | 30 - nhdplusTools-1.5.2/nhdplusTools/man/get_geoconnex_reference.Rd | 20 nhdplusTools-1.5.2/nhdplusTools/man/get_levelpaths.Rd | 16 nhdplusTools-1.5.2/nhdplusTools/man/get_nhdphr.Rd | 22 - nhdplusTools-1.5.2/nhdplusTools/man/get_nhdplus.Rd | 14 nhdplusTools-1.5.2/nhdplusTools/man/get_nhdplushr.Rd | 24 - nhdplusTools-1.5.2/nhdplusTools/man/get_nldi_basin.Rd | 34 - nhdplusTools-1.5.2/nhdplusTools/man/get_nldi_feature.Rd | 5 nhdplusTools-1.5.2/nhdplusTools/man/get_nldi_index.Rd | 18 nhdplusTools-1.5.2/nhdplusTools/man/get_path_lengths.Rd | 14 nhdplusTools-1.5.2/nhdplusTools/man/get_path_members.Rd | 14 nhdplusTools-1.5.2/nhdplusTools/man/get_pathlength.Rd | 9 nhdplusTools-1.5.2/nhdplusTools/man/get_pfaf.Rd | 57 -- nhdplusTools-1.5.2/nhdplusTools/man/get_raindrop_trace.Rd | 18 nhdplusTools-1.5.2/nhdplusTools/man/get_sorted.Rd | 15 nhdplusTools-1.5.2/nhdplusTools/man/get_split_catchment.Rd | 54 -- nhdplusTools-1.5.2/nhdplusTools/man/get_streamlevel.Rd | 22 - nhdplusTools-1.5.2/nhdplusTools/man/get_streamorder.Rd | 16 nhdplusTools-1.5.2/nhdplusTools/man/get_terminal.Rd | 11 nhdplusTools-1.5.2/nhdplusTools/man/get_tocomid.Rd | 8 nhdplusTools-1.5.2/nhdplusTools/man/get_vaa.Rd | 14 nhdplusTools-1.5.2/nhdplusTools/man/get_vaa_names.Rd | 9 nhdplusTools-1.5.2/nhdplusTools/man/get_waterbody_index.Rd | 15 nhdplusTools-1.5.2/nhdplusTools/man/get_wb_outlet.Rd | 14 nhdplusTools-1.5.2/nhdplusTools/man/get_xs_point.Rd | 20 nhdplusTools-1.5.2/nhdplusTools/man/get_xs_points.Rd | 22 - nhdplusTools-1.5.2/nhdplusTools/man/make_node_topology.Rd | 20 nhdplusTools-1.5.2/nhdplusTools/man/make_standalone.Rd | 41 -- nhdplusTools-1.5.2/nhdplusTools/man/map_nhdplus.Rd | 16 nhdplusTools-1.5.2/nhdplusTools/man/navigate_network.Rd | 28 - nhdplusTools-1.5.2/nhdplusTools/man/navigate_nldi.Rd | 30 - nhdplusTools-1.5.2/nhdplusTools/man/plot_nhdplus.Rd | 65 --- nhdplusTools-1.5.2/nhdplusTools/man/prepare_nhdplus.Rd | 10 nhdplusTools-1.5.2/nhdplusTools/man/reexports.Rd | 2 nhdplusTools-1.5.2/nhdplusTools/man/rescale_catchment_characteristics.Rd | 158 +++---- nhdplusTools-1.5.2/nhdplusTools/man/subset_nhdplus.Rd | 76 --- nhdplusTools-1.5.2/nhdplusTools/man/subset_rpu.Rd | 9 nhdplusTools-1.5.2/nhdplusTools/man/subset_vpu.Rd | 9 nhdplusTools-1.5.2/nhdplusTools/tests/testthat.R | 8 90 files changed, 206 insertions(+), 2479 deletions(-)
Title: Matrix eQTL: Ultra Fast eQTL Analysis via Large Matrix
Operations
Description: Matrix eQTL is designed for fast eQTL analysis on large datasets.
Matrix eQTL can test for association between genotype
and gene expression using linear regression
with either additive or ANOVA genotype effects.
The models can include covariates to account for factors
as population stratification, gender, and clinical variables.
It also supports models with heteroscedastic and/or correlated errors,
false discovery rate estimation and
separate treatment of local (cis) and distant (trans) eQTLs.
For more details see Shabalin (2012) <doi:10.1093/bioinformatics/bts163>.
Author: Andrey A Shabalin [aut, cre]
Maintainer: Andrey A Shabalin <andrey.shabalin@gmail.com>
Diff between MatrixEQTL versions 2.3 dated 2019-12-22 and 2.4 dated 2026-09-02
DESCRIPTION | 11 MD5 | 10 NAMESPACE | 18 R/Matrix_eQTL_engine.R | 4341 ++++++++++++++++++++++++------------------------ inst/CITATION | 30 man/Matrix_eQTL_main.Rd | 4 6 files changed, 2208 insertions(+), 2206 deletions(-)
Title: Extension to 'ggplot2' for Plotting Stats
Description: Provides new statistics, new geometries and new positions for
'ggplot2' and a suite of functions to facilitate the creation of
statistical plots.
Author: Joseph Larmarange [aut, cre]
Maintainer: Joseph Larmarange <joseph@larmarange.net>
Diff between ggstats versions 0.13.0 dated 2026-03-06 and 0.14.0 dated 2026-09-02
DESCRIPTION | 8 MD5 | 46 +-- NAMESPACE | 28 +- NEWS.md | 13 + R/deprecated.R | 204 ++++++++-------- R/ggcoef_model.R | 388 +++++++++++++++---------------- R/gglikert.R | 47 ++- R/weighted_quantile.R | 2 build/vignette.rds |binary inst/doc/ggcoef_model.html | 23 + inst/doc/stat_cross.html | 2 man/figures/README-unnamed-chunk-8-1.png |binary man/geom_connector.Rd | 4 man/ggcoef_model.Rd | 6 man/ggcoef_multicomponents.Rd | 310 ++++++++++++------------ man/gglikert.Rd | 20 + man/ggstats-package.Rd | 5 man/hex_bw.Rd | 5 man/pal_extender.Rd | 2 man/position_likert.Rd | 4 man/stat_cross.Rd | 2 man/stat_prop.Rd | 6 man/stat_weighted_mean.Rd | 2 tests/testthat/test-ggcoef_model.R | 16 - 24 files changed, 610 insertions(+), 533 deletions(-)
Title: Vectorised Computation of P-Values and Their Supports for
Several Discrete Statistical Tests
Description: Provides vectorised functions for computing p-values of various
common discrete statistical tests, as described e.g. in Agresti (2002)
<doi:10.1002/0471249688>, including their distributions. Exact and
approximate computation methods are provided. For exact ones, several
procedures of determining two-sided p-values are included, which are
outlined in more detail in Hirji (2006) <doi:10.1201/9781420036190>.
Author: Florian Junge [cre, aut] ,
Christina Kihn [aut],
Sebastian Doehler [ctb] ,
Guillermo Durand [ctb]
Maintainer: Florian Junge <diso.fbmn@h-da.de>
Diff between DiscreteTests versions 0.5.0 dated 2026-08-26 and 0.5.1 dated 2026-09-02
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 8 ++++++++ R/mann-whitney.R | 1 + src/mann_whitney.cpp | 10 +++++++--- 5 files changed, 24 insertions(+), 11 deletions(-)