Title: Interaction Between R and REDCap
Description: Encapsulates functions to streamline calls from R to the REDCap
API. REDCap (Research Electronic Data CAPture) is a web application for
building and managing online surveys and databases developed at Vanderbilt
University. The Application Programming Interface (API) offers an avenue
to access and modify data programmatically, improving the capacity for
literate and reproducible programming.
Author: Will Beasley [aut, cre] ,
David Bard [ctb] ,
Thomas Wilson [ctb],
John J Aponte [ctb],
Rollie Parrish [ctb] ,
Benjamin Nutter [ctb],
Andrew Peters [ctb] ,
Hao Zhu [ctb] ,
Janosch Linkersdoerfer [ctb] ,
Jonathan Mang [ctb] ,
Felix Torres [ctb],
Philip [...truncated...]
Maintainer: Will Beasley <wibeasley@hotmail.com>
Diff between REDCapR versions 1.4.0 dated 2025-01-11 and 1.5.0 dated 2025-07-28
DESCRIPTION | 34 LICENSE | 4 MD5 | 768 +- NAMESPACE | 110 NEWS.md | 810 +- R/REDCapR-package.R | 132 R/constant.R | 462 - R/create-batch-glossary.R | 208 R/helpers-testing.R | 264 R/kernel-api.R | 238 R/metadata-utilities.R | 270 R/project-dag-write.R | 364 - R/project-delete-multiple-arm.R | 220 R/project-delete-single-arm.R | 224 R/project-simple.R | 332 - R/redcap-arm-export.R | 372 - R/redcap-column-sanitize.R | 128 R/redcap-dag-read.R | 334 - R/redcap-delete.R | 432 - R/redcap-event-instruments.R | 366 - R/redcap-event-read.R | 368 - R/redcap-file-download-oneshot.R | 520 - R/redcap-file-repo-list.R | 390 - R/redcap-file-upload-oneshot.R | 400 - R/redcap-instrument-download.R | 464 - R/redcap-instruments.R | 332 - R/redcap-log-read.R | 446 - R/redcap-metadata-coltypes.R | 1014 +-- R/redcap-metadata-read.R | 438 - R/redcap-metadata-write.R | 316 - R/redcap-next-free-record-name.R | 286 R/redcap-project-info-read.R | 604 - R/redcap-project.R | 266 R/redcap-read-eav-oneshot.R | 708 +- R/redcap-read-oneshot-eav.R | 818 +- R/redcap-read-oneshot.R | 808 +- R/redcap-read.R | 1232 ++-- R/redcap-report.R | 498 - R/redcap-survey-link-export-oneshot.R | 342 - R/redcap-users-export.R | 450 - R/redcap-variables.R | 346 - R/redcap-version.R | 218 R/redcap-write-oneshot.R | 406 - R/redcap-write.R | 424 - R/retrieve-credential.R | 794 +- R/sanitize-token.R | 196 R/skippers.R | 38 R/utilities.R | 236 R/validate.R | 830 +- README.md | 190 build/vignette.rds |binary inst/WORDLIST | 316 - inst/doc/BasicREDCapROperations.R | 186 inst/doc/BasicREDCapROperations.Rmd | 344 - inst/doc/BasicREDCapROperations.html | 1043 +-- inst/doc/SecurityDatabase.Rmd | 694 +- inst/doc/SecurityDatabase.html | 1437 ++-- inst/doc/TroubleshootingApiCalls.R | 38 inst/doc/TroubleshootingApiCalls.Rmd | 1068 +-- inst/doc/TroubleshootingApiCalls.html | 2113 +++--- inst/doc/advanced-redcapr-operations.R | 282 inst/doc/advanced-redcapr-operations.Rmd | 540 - inst/doc/advanced-redcapr-operations.html | 1191 +-- inst/doc/longitudinal-and-repeating.R | 254 inst/doc/longitudinal-and-repeating.Rmd | 852 +- inst/doc/longitudinal-and-repeating.html | 3079 +++++----- inst/doc/workflow-read.R | 212 inst/doc/workflow-read.Rmd | 866 +- inst/doc/workflow-read.html | 1421 ++-- inst/doc/workflow-write.R | 34 inst/doc/workflow-write.Rmd | 838 +- inst/doc/workflow-write.html | 1509 ++-- inst/misc/bad.credentials | 16 inst/misc/conflicting-rows.credentials | 16 inst/misc/coph.credentials | 76 inst/misc/dev-2.credentials | 76 inst/misc/example.credentials | 76 inst/misc/out-of-order.credentials | 16 inst/misc/plugin-redirection.yml | 46 inst/misc/project-redirection.yml | 206 inst/misc/skeleton.credentials | 38 inst/misc/validation-transformation.yml | 280 inst/misc/vignette.css | 72 inst/misc/zero-rows.credentials | 12 inst/test-data/project-color-boxes/Readme.md | 106 inst/test-data/project-color-boxes/data.csv | 8 inst/test-data/project-color-boxes/dictionary.csv | 6 inst/test-data/projects/README.md | 54 inst/test-data/projects/arm-multiple-delete/README.md | 14 inst/test-data/projects/arm-multiple-delete/arm.csv | 8 inst/test-data/projects/arm-multiple-delete/data-old.csv | 114 inst/test-data/projects/arm-multiple-delete/data.csv | 122 inst/test-data/projects/arm-multiple-delete/dictionary.csv | 8 inst/test-data/projects/arm-multiple-delete/event.csv | 6 inst/test-data/projects/arm-single-delete/README.md | 14 inst/test-data/projects/arm-single-delete/data-old.csv | 34 inst/test-data/projects/arm-single-delete/data.csv | 42 inst/test-data/projects/arm-single-delete/dictionary.csv | 8 inst/test-data/projects/arm-single-longitudinal/arm.csv | 2 inst/test-data/projects/arm-single-longitudinal/data.csv | 20 inst/test-data/projects/arm-single-longitudinal/dictionary.csv | 10 inst/test-data/projects/arm-single-longitudinal/event.csv | 6 inst/test-data/projects/blank-for-gray-status/README.md | 48 inst/test-data/projects/blank-for-gray-status/data.csv | 14 inst/test-data/projects/blank-for-gray-status/dictionary.csv | 36 inst/test-data/projects/checkboxes-1/data.csv | 10 inst/test-data/projects/checkboxes-1/dictionary.csv | 10 inst/test-data/projects/clinical-trial-1/README.md | 12 inst/test-data/projects/dag-write/README.md | 24 inst/test-data/projects/dag-write/data.csv | 8 inst/test-data/projects/dag-write/dictionary.csv | 32 inst/test-data/projects/dag/README.md | 16 inst/test-data/projects/decimal-comma-and-dot/data.csv | 10 inst/test-data/projects/decimal-comma-and-dot/dictionary.csv | 18 inst/test-data/projects/decimal-comma-and-dot/metadata.csv | 18 inst/test-data/projects/decimal-comma-and-dot/redcapr-specific/default-mismatched.R | 12 inst/test-data/projects/decimal-comma/data.csv | 10 inst/test-data/projects/decimal-comma/dictionay.csv | 12 inst/test-data/projects/decimal-comma/redcapr-specific/default-mismatched.R | 12 inst/test-data/projects/decimal-comma/redcapr-specific/set-locale.R | 10 inst/test-data/projects/decimal-dot/data.csv | 10 inst/test-data/projects/decimal-dot/dictionary.csv | 12 inst/test-data/projects/decimal-dot/redcapr-specific/set-locale.R | 10 inst/test-data/projects/file-repo/README.md | 32 inst/test-data/projects/file-repo/data.csv | 6 inst/test-data/projects/file-repo/dictionary.csv | 12 inst/test-data/projects/longitudinal/arm.csv | 4 inst/test-data/projects/longitudinal/data.csv | 38 inst/test-data/projects/longitudinal/dictionary.csv | 192 inst/test-data/projects/longitudinal/event.csv | 26 inst/test-data/projects/longitudinal/expected/default.R | 398 - inst/test-data/projects/longitudinal/expected/dummy.R | 4 inst/test-data/projects/longitudinal/expected/filter-character.R | 68 inst/test-data/projects/longitudinal/expected/filter-numeric.R | 98 inst/test-data/projects/longitudinal/expected/so-example-data-frame-retrieval.R | 4 inst/test-data/projects/metadata-write/data.csv | 12 inst/test-data/projects/metadata-write/dictionary.csv | 34 inst/test-data/projects/repeating-instruments-sparse/data.csv | 20 inst/test-data/projects/repeating-instruments-sparse/dictionary.csv | 24 inst/test-data/projects/russian/data.csv | 8 inst/test-data/projects/simple-write/README.md | 10 inst/test-data/projects/simple/README.md | 64 inst/test-data/projects/simple/data.csv | 32 inst/test-data/projects/simple/dictionary.csv | 34 inst/test-data/projects/simple/metadata.csv | 34 inst/test-data/projects/simple/project-old.xml | 1082 +-- inst/test-data/projects/super-wide-3/README.md | 44 inst/test-data/projects/super-wide-3/generate-project.R | 212 inst/test-data/projects/survey/README.md | 42 inst/test-data/projects/survey/expected/default.R | 30 inst/test-data/projects/survey/expected/so-example-data-frame-retrieval.R | 4 inst/test-data/projects/validation-types-1/data.csv | 4 inst/test-data/projects/validation-types-1/dictionary.csv | 102 inst/test-data/projects/vignette-repeating/data.csv | 36 inst/test-data/projects/vignette-repeating/dictionary.csv | 20 inst/test-data/specific-redcapr/delete/multiple-arm-four-records.R | 70 inst/test-data/specific-redcapr/delete/single-arm-four-records.R | 14 inst/test-data/specific-redcapr/event-instruments/1-arm.R | 16 inst/test-data/specific-redcapr/event-instruments/2-arms-retrieve-both-arms.R | 48 inst/test-data/specific-redcapr/event-instruments/2-arms-retrieve-only-arm-1.R | 34 inst/test-data/specific-redcapr/event-instruments/2-arms-retrieve-only-arm-2.R | 28 inst/test-data/specific-redcapr/event-instruments/no-arms.R | 2 inst/test-data/specific-redcapr/file-repo-list-oneshot/bad-folder-id.R | 2 inst/test-data/specific-redcapr/file-repo-list-oneshot/default.R | 20 inst/test-data/specific-redcapr/file-repo-list-oneshot/first-subdirectory.R | 14 inst/test-data/specific-redcapr/instruments/default.R | 12 inst/test-data/specific-redcapr/log-read/2024-10-11.R | 62 inst/test-data/specific-redcapr/metadata-coltypes/longitudinal.R | 254 inst/test-data/specific-redcapr/metadata-coltypes/problematic-dictionary.R | 18 inst/test-data/specific-redcapr/metadata-coltypes/repeating-instruments.R | 34 inst/test-data/specific-redcapr/metadata-coltypes/simple.R | 54 inst/test-data/specific-redcapr/metadata-coltypes/validation-types.R | 108 inst/test-data/specific-redcapr/metadata-read/normal-filter-form-all-three.R | 96 inst/test-data/specific-redcapr/metadata-read/normal-filter-form-demographics.R | 64 inst/test-data/specific-redcapr/metadata-read/normal-filter-form-health.R | 50 inst/test-data/specific-redcapr/metadata-read/normal-filter-form-race_and_ethnicity.R | 42 inst/test-data/specific-redcapr/metadata-read/normal.R | 120 inst/test-data/specific-redcapr/metadata-read/super-wide-3-subset.R | 96 inst/test-data/specific-redcapr/project-info-read/all-test-projects.R | 270 inst/test-data/specific-redcapr/project-info-read/chicago.R | 86 inst/test-data/specific-redcapr/project-info-read/simple.R | 84 inst/test-data/specific-redcapr/read-batch-plumbing/longitudinal.R | 72 inst/test-data/specific-redcapr/read-batch-plumbing/repeated.R | 50 inst/test-data/specific-redcapr/read-batch-plumbing/simple.R | 14 inst/test-data/specific-redcapr/read-batch-repeating-sparse/default.R | 28 inst/test-data/specific-redcapr/read-batch-simple/blank-for-gray-false.R | 50 inst/test-data/specific-redcapr/read-batch-simple/blank-for-gray-true.R | 52 inst/test-data/specific-redcapr/read-batch-simple/col_types.R | 48 inst/test-data/specific-redcapr/read-batch-simple/default.R | 46 inst/test-data/specific-redcapr/read-batch-simple/error-bad-token.R | 104 inst/test-data/specific-redcapr/read-batch-simple/export_checkbox_label.R | 62 inst/test-data/specific-redcapr/read-batch-simple/filter-character.R | 18 inst/test-data/specific-redcapr/read-batch-simple/filter-numeric.R | 26 inst/test-data/specific-redcapr/read-batch-simple/label-and-dag-one-single-batch.R | 64 inst/test-data/specific-redcapr/read-batch-simple/label-and-dag-three-tiny-batches.R | 64 inst/test-data/specific-redcapr/read-batch-simple/label-header.R | 54 inst/test-data/specific-redcapr/read-batch-simple/label.R | 62 inst/test-data/specific-redcapr/read-batch-simple/na.R | 104 inst/test-data/specific-redcapr/read-batch-simple/raw-and-dag.R | 48 inst/test-data/specific-redcapr/read-batch-simple/raw.R | 46 inst/test-data/specific-redcapr/read-batch-simple/specify-fields-without-record-id.R | 12 inst/test-data/specific-redcapr/read-batch-simple/specify-fields-zero-length.R | 46 inst/test-data/specific-redcapr/read-batch-simple/specify-fields.R | 8 inst/test-data/specific-redcapr/read-batch-simple/specify-forms-only-1st.R | 24 inst/test-data/specific-redcapr/read-batch-simple/specify-forms-without-record-id.R | 18 inst/test-data/specific-redcapr/read-batch-simple/specify-forms.R | 32 inst/test-data/specific-redcapr/read-batch-simple/specify-records-zero-length.R | 46 inst/test-data/specific-redcapr/read-batch-simple/specify-records.R | 34 inst/test-data/specific-redcapr/read-clinical-trial/default.R | 1998 +++--- inst/test-data/specific-redcapr/read-dag/assigned-to-dag-a.R | 22 inst/test-data/specific-redcapr/read-dag/no-assignment.R | 22 inst/test-data/specific-redcapr/read-eav-oneshot/blank-for-gray-false.R | 94 inst/test-data/specific-redcapr/read-eav-oneshot/blank-for-gray-true.R | 94 inst/test-data/specific-redcapr/read-eav-oneshot/default.R | 90 inst/test-data/specific-redcapr/read-eav-oneshot/filter-character.R | 22 inst/test-data/specific-redcapr/read-eav-oneshot/filter-numeric.R | 38 inst/test-data/specific-redcapr/read-eav-oneshot/specify-fields-zero-length.R | 90 inst/test-data/specific-redcapr/read-eav-oneshot/specify-fields.R | 20 inst/test-data/specific-redcapr/read-eav-oneshot/specify-forms.R | 66 inst/test-data/specific-redcapr/read-eav-oneshot/specify-records-zero-length.R | 90 inst/test-data/specific-redcapr/read-eav-oneshot/specify-records.R | 56 inst/test-data/specific-redcapr/read-oneshot-eav/blank-for-gray-false.R | 44 inst/test-data/specific-redcapr/read-oneshot-eav/blank-for-gray-true.R | 44 inst/test-data/specific-redcapr/read-oneshot-eav/default.R | 42 inst/test-data/specific-redcapr/read-oneshot-eav/filter-character.R | 14 inst/test-data/specific-redcapr/read-oneshot-eav/filter-numeric.R | 24 inst/test-data/specific-redcapr/read-oneshot-eav/label-and-dag.R | 56 inst/test-data/specific-redcapr/read-oneshot-eav/label-header.R | 42 inst/test-data/specific-redcapr/read-oneshot-eav/raw-and-dag.R | 50 inst/test-data/specific-redcapr/read-oneshot-eav/raw.R | 42 inst/test-data/specific-redcapr/read-oneshot-eav/specify-forms.R | 30 inst/test-data/specific-redcapr/read-oneshot/blank-for-gray-false.R | 50 inst/test-data/specific-redcapr/read-oneshot/blank-for-gray-true.R | 106 inst/test-data/specific-redcapr/read-oneshot/col_types.R | 102 inst/test-data/specific-redcapr/read-oneshot/default.R | 100 inst/test-data/specific-redcapr/read-oneshot/export_checkbox_label.R | 114 inst/test-data/specific-redcapr/read-oneshot/filter-character.R | 70 inst/test-data/specific-redcapr/read-oneshot/filter-numeric.R | 80 inst/test-data/specific-redcapr/read-oneshot/force-character-type.R | 102 inst/test-data/specific-redcapr/read-oneshot/label-and-dag.R | 118 inst/test-data/specific-redcapr/read-oneshot/label-header.R | 106 inst/test-data/specific-redcapr/read-oneshot/label.R | 114 inst/test-data/specific-redcapr/read-oneshot/na.R | 104 inst/test-data/specific-redcapr/read-oneshot/raw-and-dag.R | 104 inst/test-data/specific-redcapr/read-oneshot/raw.R | 100 inst/test-data/specific-redcapr/read-oneshot/specify-fields-without-record-id.R | 22 inst/test-data/specific-redcapr/read-oneshot/specify-fields-zero-length.R | 46 inst/test-data/specific-redcapr/read-oneshot/specify-fields.R | 8 inst/test-data/specific-redcapr/read-oneshot/specify-forms-only-1st.R | 48 inst/test-data/specific-redcapr/read-oneshot/specify-forms-only-2nd.R | 34 inst/test-data/specific-redcapr/read-oneshot/specify-forms-without-record-id.R | 32 inst/test-data/specific-redcapr/read-oneshot/specify-forms.R | 74 inst/test-data/specific-redcapr/read-oneshot/specify-records-zero-length.R | 46 inst/test-data/specific-redcapr/read-oneshot/specify-records.R | 34 inst/test-data/specific-redcapr/report/col_types.R | 24 inst/test-data/specific-redcapr/report/default.R | 26 inst/test-data/specific-redcapr/report/export_checkbox_label.R | 30 inst/test-data/specific-redcapr/report/force-character-type.R | 26 inst/test-data/specific-redcapr/report/label-header.R | 106 inst/test-data/specific-redcapr/report/raw.R | 24 inst/test-data/specific-redcapr/test-project/read-insert-and-update.R | 40 inst/test-data/specific-redcapr/users-export/with-dags--user.R | 26 inst/test-data/specific-redcapr/users-export/with-dags--user_form.R | 8 inst/test-data/specific-redcapr/users-export/without-dags--user.R | 28 inst/test-data/specific-redcapr/users-export/without-dags--user_form.R | 12 inst/test-data/specific-redcapr/variables/default.R | 36 inst/test-data/specific-redcapr/write-batch/default.R | 96 inst/test-data/specific-redcapr/write-batch/update-one-field.R | 92 inst/test-data/specific-redcapr/write-batch/update-two-fields.R | 92 inst/test-data/specific-redcapr/write-dag/after.R | 16 inst/test-data/specific-redcapr/write-dag/before.R | 14 inst/test-data/specific-redcapr/write-oneshot/default.R | 96 inst/test-data/specific-redcapr/write-oneshot/one-field.R | 92 inst/test-data/specific-redcapr/write-oneshot/overwrite-true.R | 90 inst/test-data/specific-redcapr/write-oneshot/two-fields.R | 92 man/REDCapR-package.Rd | 212 man/collapse_vector.Rd | 60 man/constant.Rd | 232 man/create_batch_glossary.Rd | 122 man/figures/logo.svg | 278 man/kernel_api.Rd | 150 man/metadata_utilities.Rd | 188 man/redcap_arm_export.Rd | 178 man/redcap_column_sanitize.Rd | 112 man/redcap_dag_read.Rd | 168 man/redcap_delete.Rd | 226 man/redcap_event_instruments.Rd | 204 man/redcap_event_read.Rd | 182 man/redcap_file_download_oneshot.Rd | 290 man/redcap_file_repo_list_oneshot.Rd | 214 man/redcap_file_upload_oneshot.Rd | 264 man/redcap_instrument_download.Rd | 274 man/redcap_instruments.Rd | 172 man/redcap_log_read.Rd | 260 man/redcap_metadata_coltypes.Rd | 346 - man/redcap_metadata_read.Rd | 194 man/redcap_metadata_write.Rd | 200 man/redcap_next_free_record_name.Rd | 170 man/redcap_project.Rd | 168 man/redcap_project_info_read.Rd | 318 - man/redcap_read.Rd | 640 +- man/redcap_read_eav_oneshot.Rd | 350 - man/redcap_read_oneshot.Rd | 502 - man/redcap_read_oneshot_eav.Rd | 360 - man/redcap_report.Rd | 306 man/redcap_survey_link_export_oneshot.Rd | 218 man/redcap_users_export.Rd | 154 man/redcap_variables.Rd | 164 man/redcap_version.Rd | 110 man/redcap_write.Rd | 290 man/redcap_write_oneshot.Rd | 250 man/replace_nas_with_explicit.Rd | 98 man/retrieve_credential.Rd | 288 man/sanitize_token.Rd | 146 man/to_api_array.Rd | 52 man/validate.Rd | 310 - tests/manual/README.md | 8 tests/manual/test-could-not-connect-rate.R | 114 tests/manual/test-stress-test-serial.R | 248 tests/spelling.R | 14 tests/test-all.R | 32 tests/testthat/test-arm-export.R | 260 tests/testthat/test-column-sanitize.R | 70 tests/testthat/test-constant.R | 196 tests/testthat/test-create-batch-glossary.R | 198 tests/testthat/test-create-credential-local.R | 74 tests/testthat/test-dag-read.R | 162 tests/testthat/test-delete.R | 406 - tests/testthat/test-event-instruments.R | 371 - tests/testthat/test-event-read.R | 356 - tests/testthat/test-file-oneshot.R | 1166 +-- tests/testthat/test-file-repo-list-oneshot.R | 329 - tests/testthat/test-instruments-metadata.R | 163 tests/testthat/test-instruments.R | 188 tests/testthat/test-log-read.R | 100 tests/testthat/test-metadata-coltypes.R | 460 - tests/testthat/test-metadata-read.R | 642 +- tests/testthat/test-metadata-utilities.R | 380 - tests/testthat/test-metadata-write.R | 110 tests/testthat/test-next-free-record-name.R | 188 tests/testthat/test-project-info-read.R | 236 tests/testthat/test-project.R | 158 tests/testthat/test-read-batch-longitudinal.R | 390 - tests/testthat/test-read-batch-plumbing.R | 190 tests/testthat/test-read-batch-repeating-sparse.R | 246 tests/testthat/test-read-batch-simple.R | 1800 ++--- tests/testthat/test-read-batch-survey.R | 228 tests/testthat/test-read-clinical-trial.R | 86 tests/testthat/test-read-dag.R | 90 tests/testthat/test-read-decimal-comma.R | 232 tests/testthat/test-read-decimal-dot.R | 176 tests/testthat/test-read-eav-oneshot.R | 706 +- tests/testthat/test-read-errors.R | 184 tests/testthat/test-read-oneshot-eav.R | 698 +- tests/testthat/test-read-oneshot.R | 1542 ++--- tests/testthat/test-read-russian.R | 88 tests/testthat/test-read-superwide.R | 294 tests/testthat/test-report.R | 346 - tests/testthat/test-retrieve-credential-local.R | 346 - tests/testthat/test-retrieve-credential-mssql.R | 332 - tests/testthat/test-sanitize.R | 146 tests/testthat/test-skippers.R | 22 tests/testthat/test-survey-link-export-oneshot.R | 134 tests/testthat/test-users-export.R | 286 tests/testthat/test-utilities-collapse_vector.R | 40 tests/testthat/test-utilities-replace_nas_with_explicit.R | 160 tests/testthat/test-validate-field-names.R | 106 tests/testthat/test-validate-no-logical.R | 160 tests/testthat/test-validate-record-id-name.R | 78 tests/testthat/test-validate-repeat.R | 66 tests/testthat/test-validate-uniqueness.R | 220 tests/testthat/test-validate.R | 182 tests/testthat/test-variables.R | 186 tests/testthat/test-version.R | 90 tests/testthat/test-write-batch.R | 416 - tests/testthat/test-write-dag.R | 428 - tests/testthat/test-write-error.R | 298 tests/testthat/test-write-oneshot.R | 564 - vignettes/BasicREDCapROperations.Rmd | 344 - vignettes/SecurityDatabase.Rmd | 694 +- vignettes/TroubleshootingApiCalls.Rmd | 1068 +-- vignettes/advanced-redcapr-operations.Rmd | 540 - vignettes/longitudinal-and-repeating.Rmd | 852 +- vignettes/workflow-read.Rmd | 866 +- vignettes/workflow-write.Rmd | 838 +- 385 files changed, 42497 insertions(+), 42463 deletions(-)
Title: Meta-Analytic Effect Size Calculation for Pre-Post Designs with
Correlation Imputation
Description: Tools for the calculation of effect sizes (standardised mean difference) and mean difference in pre-post controlled studies, including robust imputation of missing variances (standard deviation of changes) and correlations (Pearson correlation coefficient). The main function metacor_dual() implements several methods for imputing missing standard deviation of changes or Pearson correlation coefficient, and generates transparent imputation reports. Designed for meta-analyses with incomplete summary statistics. For more details on the methods, see Higgins et al. (2023) and Fu et al. (2013).
Author: Iker J. Bautista [aut, cre],
Saul M. Rodriguez [ctb]
Maintainer: Iker J. Bautista <ikerugr@gmail.com>
Diff between metacor versions 1.1.1 dated 2025-07-22 and 1.1.2 dated 2025-07-28
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/metacor_dual.R | 32 ++++++++++++++++++++++++++++---- inst/doc/introduccion.html | 28 +++++++++------------------- 4 files changed, 43 insertions(+), 29 deletions(-)
Title: Matrix Correlation Coefficients
Description: Computation and visualization of matrix correlation coefficients.
The main method is the Similarity of Matrices Index, while various related
measures like r1, r2, r3, r4, Yanai's GCD, RV, RV2, adjusted RV, Rozeboom's
linear correlation and Coxhead's coefficient are included
for comparison and flexibility.
Author: Kristian Hovde Liland [aut, cre]
Maintainer: Kristian Hovde Liland <kristian.liland@nmbu.no>
Diff between MatrixCorrelation versions 0.10.0 dated 2022-04-18 and 0.10.1 dated 2025-07-28
DESCRIPTION | 16 +++++++++------- MD5 | 24 ++++++++++++------------ NEWS | 4 ++++ R/MatrixCorrelation.R | 8 ++++---- R/RV.R | 10 +++++++--- R/allCorrelations.R | 2 +- R/rx.R | 2 +- README.md | 4 ++-- inst/CITATION | 23 +++++++++++------------ man/MatrixCorrelation.Rd | 14 +++++++++----- man/RV.Rd | 2 +- man/allCorrelations.Rd | 2 +- man/r1.Rd | 2 +- 13 files changed, 63 insertions(+), 50 deletions(-)
More information about MatrixCorrelation at CRAN
Permanent link
Title: Generates Incidence Matrices and Bipartite Graphs
Description: Functions to generate incidence matrices and bipartite graphs that have (1) a fixed fill rate, (2) given marginal sums, (3) marginal sums that follow given distributions, or (4) represent bill sponsorships in the US Congress <doi:10.31219/osf.io/ectms>. It can also generate an incidence matrix from an adjacency matrix, or bipartite graph from a unipartite graph, via a social process mirroring team, group, or organization formation <doi:10.48550/arXiv.2204.13670>, or examine the space of binary matrices with fixed marginals.
Author: Zachary Neal [aut, cre]
Maintainer: Zachary Neal <zpneal@msu.edu>
Diff between incidentally versions 1.0.2 dated 2023-02-15 and 1.0.3 dated 2025-07-28
DESCRIPTION | 13 MD5 | 66 ++-- NAMESPACE | 1 NEWS.md | 9 R/add.blocks.R | 6 R/curveball.R | 8 R/incidence.from.adjacency.R | 7 R/incidence.from.congress.R | 121 +++---- R/incidence.from.distribution.R | 4 R/incidence.from.probability.R | 4 R/incidence.from.vector.R | 4 R/incidentally.R | 3 R/space.R |only R/utils.R | 2 README.md | 12 build/partial.rdb |binary build/vignette.rds |binary inst/doc/congress.R | 24 - inst/doc/congress.Rmd | 18 - inst/doc/congress.html | 216 +++++++------- inst/doc/incidentally.R | 31 +- inst/doc/incidentally.Rmd | 21 + inst/doc/incidentally.html | 564 ++++++++++++++++++++----------------- man/add.blocks.Rd | 6 man/curveball.Rd | 8 man/incidence.from.adjacency.Rd | 8 man/incidence.from.congress.Rd | 11 man/incidence.from.distribution.Rd | 4 man/incidence.from.probability.Rd | 4 man/incidence.from.vector.Rd | 4 man/incidentally.Rd | 14 man/space.Rd |only vignettes/congress.Rmd | 18 - vignettes/incidentally.Rmd | 21 + vignettes/incidentally.bib | 1 35 files changed, 678 insertions(+), 555 deletions(-)
Title: Effect + Residual Modelling
Description: Multivariate modeling of data after deflation of interfering effects. EF Mosleth et al. (2021) <doi:10.1038/s41598-021-82388-w> and EF Mosleth et al. (2020) <doi:10.1016/B978-0-12-409547-2.14882-6>.
Author: Kristian Hovde Liland [aut, cre],
Ellen Faergestad Mosleth [ctb]
Maintainer: Kristian Hovde Liland <kristian.liland@nmbu.no>
Diff between ER versions 1.1.1 dated 2022-10-10 and 1.1.2 dated 2025-07-28
DESCRIPTION | 12 ++++++------ MD5 | 14 +++++++------- NEWS | 6 +++++- R/ER.R | 23 +++++++++++++++++++++++ R/confints.R | 6 ++++++ R/elastic.R | 8 +++++++- R/pls.R | 6 ++++++ man/elastic.Rd | 2 +- 8 files changed, 61 insertions(+), 16 deletions(-)
Title: Construct Two-Phase Experimental Designs with Correlated Errors
Description: Tools for constructing and analyzing two-phase experimental designs under correlated error structures. Version 1.1.0 includes improved efficiency factor classification with tolerance control, updated plot visualizations, and improved clarity of the results. The conceptual framework and the term two-phase were introduced by McIntyre (1955) <doi:10.2307/3001770>).
Author: Akhilesh Jha [aut, cre],
Cini Varghese [aut],
Seema Jaggi [aut],
Eldho Varghese [aut],
Mohd Harun [aut],
Med Ram Verma [aut]
Maintainer: Akhilesh Jha <jha.akhilesh09@gmail.com>
Diff between TwoPhaseCorR versions 1.0.0 dated 2025-07-09 and 1.1.0 dated 2025-07-28
DESCRIPTION | 15 - MD5 | 10 - NAMESPACE | 13 - NEWS.md |only R/TwoPhaseDesign.R | 399 ++++++++++++++++++++++++++------------------------ README.md |only man/TwoPhaseDesign.Rd | 28 +-- 7 files changed, 249 insertions(+), 216 deletions(-)
Title: Classes for Storing and Manipulating Taxonomic Data
Description: Provides classes for storing and manipulating taxonomic data.
Most of the classes can be treated like base R vectors (e.g. can be used
in tables as columns and can be named). Vectorized classes can store taxon names
and authorities, taxon IDs from databases, taxon ranks, and other types of
information. More complex classes are provided to store taxonomic trees and
user-defined data associated with them.
Author: Scott Chamberlain [aut] ,
Zachary Foster [aut, cre]
Maintainer: Zachary Foster <zacharyfoster1989@gmail.com>
Diff between taxa versions 0.4.3 dated 2024-02-20 and 0.4.4 dated 2025-07-28
taxa-0.4.3/taxa/build/taxa.pdf |only taxa-0.4.4/taxa/DESCRIPTION | 14 ++++++++------ taxa-0.4.4/taxa/MD5 | 11 +++++------ taxa-0.4.4/taxa/NEWS.md | 5 +++++ taxa-0.4.4/taxa/R/s3_generics.R | 2 +- taxa-0.4.4/taxa/build/stage23.rdb |binary taxa-0.4.4/taxa/man/as_data_frame.Rd | 2 +- 7 files changed, 20 insertions(+), 14 deletions(-)
Title: Plot Scaled 'ggplot' Representations of Sports Playing Surfaces
Description: Create scaled 'ggplot' representations of playing surfaces.
Playing surfaces are drawn pursuant to rule-book specifications.
This package should be used as a baseline plot for displaying any type of
tracking data.
Author: Ross Drucker [aut, cre]
Maintainer: Ross Drucker <ross.a.drucker@gmail.com>
Diff between sportyR versions 2.2.2 dated 2024-02-15 and 2.2.3 dated 2025-07-28
DESCRIPTION | 13 MD5 | 458 ++++++++++---------- NEWS.md | 6 R/cani-functions.R | 6 R/coordinate-transformations.R | 4 R/create-shapes.R | 10 R/features-baseball.R | 20 R/features-basketball.R | 48 ++ R/features-curling.R | 24 + R/features-football.R | 38 + R/features-hockey.R | 64 ++ R/features-lacrosse.R | 68 ++ R/features-soccer.R | 26 + R/features-tennis.R | 20 R/features-volleyball.R | 20 R/geom-baseball.R | 4 R/geom-basketball.R | 4 R/geom-curling.R | 4 R/geom-football.R | 4 R/geom-hockey.R | 4 R/geom-lacrosse.R | 4 R/geom-soccer.R | 4 R/geom-tennis.R | 4 R/geom-volleyball.R | 4 R/math-functions.R | 4 R/plot-helpers.R | 4 R/sysdata.rda |binary R/unit-conversions.R | 2 R/utils.R | 6 build/vignette.rds |binary inst/doc/animating-tracking-data.R | 32 - inst/doc/animating-tracking-data.html | 15 inst/doc/customize-plot.R | 2 inst/doc/customize-plot.html | 8 inst/doc/plotting-tracking-data.R | 4 inst/doc/plotting-tracking-data.Rmd | 2 inst/doc/plotting-tracking-data.html | 16 inst/doc/sportyR.R | 8 inst/doc/sportyR.html | 16 man/baseball_base.Rd | 3 man/baseball_batters_box.Rd | 3 man/baseball_catchers_box.Rd | 4 man/baseball_features_set_colors.Rd | 7 man/baseball_foul_line.Rd | 6 man/baseball_home_plate.Rd | 4 man/baseball_infield_dirt.Rd | 7 man/baseball_infield_grass.Rd | 3 man/baseball_pitchers_mound.Rd | 3 man/baseball_pitchers_plate.Rd | 3 man/baseball_running_lane.Rd | 9 man/basketball_backboard.Rd | 4 man/basketball_basket_ring.Rd | 10 man/basketball_center_circle_fill.Rd | 4 man/basketball_center_circle_outline.Rd | 3 man/basketball_court_apron.Rd | 4 man/basketball_division_line.Rd | 5 man/basketball_endline.Rd | 6 man/basketball_features_set_colors.Rd | 7 man/basketball_free_throw_circle.Rd | 3 man/basketball_free_throw_circle_dash.Rd | 4 man/basketball_free_throw_circle_fill.Rd | 5 man/basketball_free_throw_lane_boundary.Rd | 9 man/basketball_half_court.Rd | 3 man/basketball_inbounding_line.Rd | 5 man/basketball_lane_space_mark.Rd | 4 man/basketball_lower_defensive_box_mark.Rd | 6 man/basketball_net.Rd | 3 man/basketball_painted_area.Rd | 9 man/basketball_restricted_arc.Rd | 5 man/basketball_sideline.Rd | 6 man/basketball_substitution_line.Rd | 5 man/basketball_team_bench_line.Rd | 3 man/basketball_three_point_line.Rd | 12 man/basketball_two_point_range.Rd | 16 man/cani_color_league_features.Rd | 2 man/cani_plot_league.Rd | 3 man/cani_plot_sport.Rd | 3 man/convert_units.Rd | 2 man/curling_back_line.Rd | 3 man/curling_button.Rd | 4 man/curling_centre_line.Rd | 3 man/curling_centre_zone.Rd | 3 man/curling_courtesy_line.Rd | 3 man/curling_end.Rd | 4 man/curling_features_set_colors.Rd | 7 man/curling_hack_foothold.Rd | 5 man/curling_hack_line.Rd | 4 man/curling_hog_line.Rd | 4 man/curling_house_ring.Rd | 4 man/curling_sheet_apron.Rd | 3 man/curling_tee_line.Rd | 4 man/football_coaching_box.Rd | 5 man/football_coaching_box_line.Rd | 4 man/football_directional_arrow.Rd | 5 man/football_end_line.Rd | 3 man/football_endzone.Rd | 6 man/football_features_set_colors.Rd | 7 man/football_field_apron.Rd | 4 man/football_field_border.Rd | 4 man/football_field_border_outline.Rd | 4 man/football_goal_line.Rd | 6 man/football_half_field.Rd | 3 man/football_major_yard_line.Rd | 5 man/football_minor_yard_line.Rd | 4 man/football_red_zone_border.Rd | 4 man/football_red_zone_border_outline.Rd | 4 man/football_restricted_area.Rd | 4 man/football_sideline.Rd | 4 man/football_team_bench_area.Rd | 4 man/football_team_bench_area_outline.Rd | 4 man/football_try_mark.Rd | 4 man/geom_baseball.Rd | 3 man/geom_basketball.Rd | 3 man/geom_curling.Rd | 3 man/geom_football.Rd | 3 man/geom_hockey.Rd | 3 man/geom_lacrosse.Rd | 3 man/geom_soccer.Rd | 3 man/geom_tennis.Rd | 3 man/geom_volleyball.Rd | 3 man/grapes-or-grapes.Rd | 2 man/hockey_boards.Rd | 3 man/hockey_center_faceoff_circle.Rd | 13 man/hockey_center_faceoff_spot.Rd | 4 man/hockey_center_line.Rd | 5 man/hockey_defensive_zone.Rd | 3 man/hockey_features_set_colors.Rd | 7 man/hockey_goal_crease_fill.Rd | 11 man/hockey_goal_crease_outline.Rd | 11 man/hockey_goal_frame.Rd | 13 man/hockey_goal_frame_fill.Rd | 13 man/hockey_goal_line.Rd | 9 man/hockey_goaltenders_restricted_area.Rd | 14 man/hockey_neutral_zone.Rd | 4 man/hockey_nodzone_faceoff_spot_ring.Rd | 16 man/hockey_nodzone_faceoff_spot_stripe.Rd | 16 man/hockey_odzone_faceoff_circle.Rd | 11 man/hockey_odzone_faceoff_lines.Rd | 11 man/hockey_off_ice_officials_box.Rd | 7 man/hockey_offensive_zone.Rd | 4 man/hockey_penalty_box_fill.Rd | 13 man/hockey_penalty_box_outline.Rd | 11 man/hockey_player_bench_area_fill.Rd | 9 man/hockey_player_bench_outline.Rd | 9 man/hockey_referee_crease.Rd | 3 man/hockey_zone_line.Rd | 4 man/is_hex.Rd | 2 man/lacrosse_below_goal_marking.Rd | 3 man/lacrosse_boards.Rd | 4 man/lacrosse_center_circle.Rd | 3 man/lacrosse_center_line.Rd | 5 man/lacrosse_change_area_fill.Rd | 4 man/lacrosse_change_area_outline.Rd | 4 man/lacrosse_defensive_area_line.Rd | 4 man/lacrosse_defensive_zone.Rd | 3 man/lacrosse_end_line.Rd | 3 man/lacrosse_face_off_marker.Rd | 3 man/lacrosse_features_set_colors.Rd | 7 man/lacrosse_field_apron.Rd | 3 man/lacrosse_goal_arc.Rd | 6 man/lacrosse_goal_circle.Rd | 7 man/lacrosse_goal_circle_fill.Rd | 3 man/lacrosse_goal_fan.Rd | 6 man/lacrosse_goal_fan_hash_mark.Rd | 4 man/lacrosse_goal_frame.Rd | 3 man/lacrosse_goal_line.Rd | 5 man/lacrosse_goal_mouth.Rd | 5 man/lacrosse_goal_mouth_hash_mark.Rd | 4 man/lacrosse_goal_net.Rd | 2 man/lacrosse_neutral_zone.Rd | 3 man/lacrosse_off_field_officials_box.Rd | 7 man/lacrosse_offensive_zone.Rd | 3 man/lacrosse_penalty_box_fill.Rd | 13 man/lacrosse_penalty_box_outline.Rd | 11 man/lacrosse_player_bench_area_fill.Rd | 9 man/lacrosse_player_bench_outline.Rd | 9 man/lacrosse_referee_crease.Rd | 3 man/lacrosse_referee_crease_fill.Rd | 4 man/lacrosse_restraining_line.Rd | 3 man/lacrosse_sideline.Rd | 3 man/lacrosse_wing_line.Rd | 2 man/load_default_parameters.Rd | 3 man/reflect.Rd | 2 man/rotate_coords.Rd | 4 man/soccer_center_circle.Rd | 9 man/soccer_center_mark.Rd | 4 man/soccer_corner_arc.Rd | 7 man/soccer_corner_defensive_marks.Rd | 12 man/soccer_features_set_colors.Rd | 7 man/soccer_goal.Rd | 9 man/soccer_goal_box.Rd | 9 man/soccer_goal_line.Rd | 7 man/soccer_half_pitch.Rd | 3 man/soccer_halfway_line.Rd | 9 man/soccer_penalty_box.Rd | 12 man/soccer_penalty_mark.Rd | 3 man/soccer_pitch_apron.Rd | 9 man/soccer_touchline.Rd | 9 man/tennis_backcourt.Rd | 3 man/tennis_baseline.Rd | 4 man/tennis_center_mark.Rd | 3 man/tennis_center_serviceline.Rd | 7 man/tennis_court_apron.Rd | 4 man/tennis_doubles_alley.Rd | 3 man/tennis_features_set_colors.Rd | 7 man/tennis_frontcourt_half.Rd | 11 man/tennis_net.Rd | 3 man/tennis_serviceline.Rd | 9 man/tennis_sideline.Rd | 5 man/volleyball_attack_line.Rd | 7 man/volleyball_backcourt.Rd | 7 man/volleyball_center_line.Rd | 3 man/volleyball_court_apron.Rd | 7 man/volleyball_end_line.Rd | 3 man/volleyball_features_set_colors.Rd | 7 man/volleyball_free_zone.Rd | 9 man/volleyball_front_zone.Rd | 5 man/volleyball_service_zone_mark.Rd | 5 man/volleyball_sideline.Rd | 3 man/volleyball_substitution_zone_dash.Rd | 4 tests/testthat/test-plots-and-features-baseball.R | 15 tests/testthat/test-plots-and-features-basketball.R | 18 tests/testthat/test-plots-and-features-curling.R | 15 tests/testthat/test-plots-and-features-football.R | 15 tests/testthat/test-plots-and-features-hockey.R | 15 tests/testthat/test-plots-and-features-lacrosse.R | 20 tests/testthat/test-plots-and-features-soccer.R | 20 tests/testthat/test-plots-and-features-tennis.R | 10 tests/testthat/test-plots-and-features-volleyball.R | 10 vignettes/plotting-tracking-data.Rmd | 2 230 files changed, 1193 insertions(+), 922 deletions(-)
Title: Robust Bayesian Meta-Analyses
Description: A framework for estimating ensembles of meta-analytic, meta-regression, and
multilevel models (assuming either presence or absence of the effect, heterogeneity,
publication bias, and moderators). The RoBMA framework uses Bayesian model-averaging to
combine the competing meta-analytic models into a model ensemble, weights
the posterior parameter distributions based on posterior model probabilities
and uses Bayes factors to test for the presence or absence of the
individual components (e.g., effect vs. no effect; Bartoš et al., 2022,
<doi:10.1002/jrsm.1594>; Maier, Bartoš & Wagenmakers, 2022,
<doi:10.1037/met0000405>; Bartoš et al., 2025, <doi:10.1037/met0000737>).
Users can define a wide range of prior distributions for the effect size, heterogeneity,
publication bias (including selection models and PET-PEESE), and moderator components.
The package provides convenient functions for summary, visualizations, and fit diagnostics.
Author: Frantisek Bartos [aut, cre] ,
Maximilian Maier [aut] ,
Eric-Jan Wagenmakers [ths] ,
Joris Goosen [ctb],
Matthew Denwood [cph] ,
Martyn Plummer [cph]
Maintainer: Frantisek Bartos <f.bartos96@gmail.com>
Diff between RoBMA versions 3.5.0 dated 2025-06-11 and 3.5.1 dated 2025-07-28
RoBMA-3.5.0/RoBMA/tests/testthat/test-0-CRAN.R |only RoBMA-3.5.0/RoBMA/tests/testthat/test-9-validation.R |only RoBMA-3.5.1/RoBMA/DESCRIPTION | 6 RoBMA-3.5.1/RoBMA/MD5 | 120 ++-- RoBMA-3.5.1/RoBMA/NAMESPACE | 4 RoBMA-3.5.1/RoBMA/NEWS.md | 13 RoBMA-3.5.1/RoBMA/R/NoBMA.R | 8 RoBMA-3.5.1/RoBMA/R/check-input-and-settings.R | 22 RoBMA-3.5.1/RoBMA/R/distributions.R | 73 ++ RoBMA-3.5.1/RoBMA/R/extract_posterior.R |only RoBMA-3.5.1/RoBMA/R/plots.R | 135 ---- RoBMA-3.5.1/RoBMA/R/predict.R |only RoBMA-3.5.1/RoBMA/R/summary-effect.R | 285 ++++++++-- RoBMA-3.5.1/RoBMA/R/summary.R | 47 + RoBMA-3.5.1/RoBMA/R/transformations.R | 42 + RoBMA-3.5.1/RoBMA/R/utilities.R | 1 RoBMA-3.5.1/RoBMA/README.md | 2 RoBMA-3.5.1/RoBMA/build/partial.rdb |binary RoBMA-3.5.1/RoBMA/build/vignette.rds |binary RoBMA-3.5.1/RoBMA/inst/doc/CustomEnsembles.html | 17 RoBMA-3.5.1/RoBMA/inst/doc/FastRoBMA.html | 13 RoBMA-3.5.1/RoBMA/inst/doc/HierarchicalBMA.html | 11 RoBMA-3.5.1/RoBMA/inst/doc/MedicineBMA.html | 19 RoBMA-3.5.1/RoBMA/inst/doc/MedicineBiBMA.html | 11 RoBMA-3.5.1/RoBMA/inst/doc/MetaRegression.html | 13 RoBMA-3.5.1/RoBMA/inst/doc/ReproducingBMA.html | 17 RoBMA-3.5.1/RoBMA/inst/doc/Tutorial.html | 12 RoBMA-3.5.1/RoBMA/man/NoBMA.Rd | 9 RoBMA-3.5.1/RoBMA/man/RoBMA-package.Rd | 84 +- RoBMA-3.5.1/RoBMA/man/RoBMA_options.Rd | 54 - RoBMA-3.5.1/RoBMA/man/adjusted_effect.Rd | 8 RoBMA-3.5.1/RoBMA/man/check_setup.Rd | 14 RoBMA-3.5.1/RoBMA/man/check_setup.reg.Rd | 10 RoBMA-3.5.1/RoBMA/man/contr.BayesTools.Rd | 124 ++-- RoBMA-3.5.1/RoBMA/man/effect_sizes.Rd | 186 +++--- RoBMA-3.5.1/RoBMA/man/extract_posterior.Rd |only RoBMA-3.5.1/RoBMA/man/figures/README-fig_PETPEESE-1.png |binary RoBMA-3.5.1/RoBMA/man/figures/README-fig_forest-1.png |binary RoBMA-3.5.1/RoBMA/man/figures/README-fig_mu-1.png |binary RoBMA-3.5.1/RoBMA/man/figures/README-fig_mu_chain-1.png |binary RoBMA-3.5.1/RoBMA/man/figures/README-fig_mu_ind-1.png |binary RoBMA-3.5.1/RoBMA/man/figures/README-fig_tau-1.png |binary RoBMA-3.5.1/RoBMA/man/figures/README-fig_weightfunction-1.png |binary RoBMA-3.5.1/RoBMA/man/forest.Rd | 144 ++--- RoBMA-3.5.1/RoBMA/man/interpret.Rd | 42 - RoBMA-3.5.1/RoBMA/man/is.RoBMA.Rd | 3 RoBMA-3.5.1/RoBMA/man/plot.RoBMA.Rd | 218 +++---- RoBMA-3.5.1/RoBMA/man/plot_models.Rd | 164 ++--- RoBMA-3.5.1/RoBMA/man/pooled_effect.Rd | 8 RoBMA-3.5.1/RoBMA/man/predict.RoBMA.Rd |only RoBMA-3.5.1/RoBMA/man/print.RoBMA.Rd | 44 - RoBMA-3.5.1/RoBMA/man/print.summary.RoBMA.Rd | 44 - RoBMA-3.5.1/RoBMA/man/prior.Rd | 170 ++--- RoBMA-3.5.1/RoBMA/man/prior_PEESE.Rd | 156 ++--- RoBMA-3.5.1/RoBMA/man/prior_PET.Rd | 156 ++--- RoBMA-3.5.1/RoBMA/man/prior_none.Rd | 80 +- RoBMA-3.5.1/RoBMA/man/prior_weightfunction.Rd | 124 ++-- RoBMA-3.5.1/RoBMA/man/sample_sizes.Rd | 120 ++-- RoBMA-3.5.1/RoBMA/man/set_default_priors.Rd | 150 ++--- RoBMA-3.5.1/RoBMA/man/standard_errors.Rd | 190 +++--- RoBMA-3.5.1/RoBMA/man/summary.RoBMA.Rd | 10 RoBMA-3.5.1/RoBMA/man/true_effects.Rd |only RoBMA-3.5.1/RoBMA/man/weighted_multivariate_normal.Rd | 72 +- RoBMA-3.5.1/RoBMA/man/weighted_normal.Rd | 15 RoBMA-3.5.1/RoBMA/tests/testthat/test-00-CRAN.R |only 65 files changed, 1811 insertions(+), 1459 deletions(-)
Title: Record Linkage Functions for Linking and Deduplicating Data Sets
Description: Provides functions for linking and deduplicating data sets.
Methods based on a stochastic approach are implemented as well as
classification algorithms from the machine learning domain. For details,
see our paper "The RecordLinkage Package: Detecting Errors in Data"
Sariyar M / Borg A (2010) <doi:10.32614/RJ-2010-017>.
Author: Murat Sariyar [aut, cre],
Andreas Borg [aut]
Maintainer: Murat Sariyar <murat.sariyar@bfh.ch>
Diff between RecordLinkage versions 0.4-12.4 dated 2022-11-08 and 0.4-12.5 dated 2025-07-28
DESCRIPTION | 8 +-- MD5 | 24 ++++----- NEWS | 2 R/evt.r | 122 ++++++++++++++++++++++++++++------------------ build/partial.rdb |binary build/vignette.rds |binary inst/doc/BigData.pdf |binary inst/doc/EVT.pdf |binary inst/doc/Supervised.pdf |binary inst/doc/WeightBased.pdf |binary man/RLdata.rd | 2 man/RecLinkData.object.rd | 2 man/trainSupv.Rd | 2 13 files changed, 97 insertions(+), 65 deletions(-)
Title: Running OpenBUGS from R
Description: Using this package,
it is possible to call a BUGS model, summarize inferences and
convergence in a table and graph, and save the simulations in arrays for easy access
in R.
Author: Andrew Gelman [aut],
Sibylle Sturtz [aut],
Uwe Ligges [cre, aut],
Gregor Gorjanc [ctb],
Jouni Kerman [ctb],
Neal Thomas [aut]
Maintainer: Uwe Ligges <ligges@statistik.tu-dortmund.de>
Diff between R2OpenBUGS versions 3.2-3.2.1 dated 2020-04-02 and 3.2-4 dated 2025-07-28
DESCRIPTION | 48 +++++++++++++++++++++++++++++++++++++----------- MD5 | 14 +++++++------- R/attach.all.R | 2 +- build/vignette.rds |binary data/schools.txt.gz |binary inst/CITATION | 7 ++----- inst/doc/R2OpenBUGS.pdf |binary man/bugs.Rd | 9 ++++----- 8 files changed, 51 insertions(+), 29 deletions(-)
Title: Density Estimation and Nonparametric Regression on Irregular
Regions
Description: Functions that compute the
lattice-based density and regression estimators for two-dimensional regions
with irregular boundaries and holes. The density estimation technique is
described in Barry and McIntyre (2011)
<doi:10.1016/j.ecolmodel.2011.02.016>,
while the non-parametric regression technique is described in McIntyre and
Barry (2018) <doi:10.1080/10618600.2017.1375935>.
Author: Ronald Barry [aut, cre]
Maintainer: Ronald Barry <rpbarry@alaska.edu>
This is a re-admission after prior archival of version 1.2.6 dated 2021-04-18
Diff between latticeDensity versions 1.2.6 dated 2021-04-18 and 1.2.7 dated 2025-07-28
latticeDensity-1.2.6/latticeDensity/NEWS |only latticeDensity-1.2.7/latticeDensity/DESCRIPTION | 32 latticeDensity-1.2.7/latticeDensity/MD5 | 76 - latticeDensity-1.2.7/latticeDensity/NEWS.md |only latticeDensity-1.2.7/latticeDensity/R/Tkp.R | 2 latticeDensity-1.2.7/latticeDensity/R/addObservations.R | 13 latticeDensity-1.2.7/latticeDensity/R/addQuantVar.R | 12 latticeDensity-1.2.7/latticeDensity/R/createDensity.R | 2 latticeDensity-1.2.7/latticeDensity/R/createNparReg.R | 4 latticeDensity-1.2.7/latticeDensity/R/crossvalDensity.R | 2 latticeDensity-1.2.7/latticeDensity/R/crossvalNparReg.R | 2 latticeDensity-1.2.7/latticeDensity/R/deletedResid.R | 2 latticeDensity-1.2.7/latticeDensity/R/editLattice.R | 8 latticeDensity-1.2.7/latticeDensity/R/formLattice.R | 2 latticeDensity-1.2.7/latticeDensity/R/homerange.R | 11 latticeDensity-1.2.7/latticeDensity/R/makeTmatrix.R | 2 latticeDensity-1.2.7/latticeDensity/R/nodeFilling.R | 5 latticeDensity-1.2.7/latticeDensity/R/plot.NparRegOut.R | 5 latticeDensity-1.2.7/latticeDensity/R/plot.densityOut.R | 4 latticeDensity-1.2.7/latticeDensity/R/plot.formLatticeOutput.R | 5 latticeDensity-1.2.7/latticeDensity/R/plot.nodeFillingOutput.R | 5 latticeDensity-1.2.7/latticeDensity/R/plot.varianceMapOut.R | 5 latticeDensity-1.2.7/latticeDensity/R/removeHole.R | 2 latticeDensity-1.2.7/latticeDensity/R/varianceMap.R | 2 latticeDensity-1.2.7/latticeDensity/build/vignette.rds |binary latticeDensity-1.2.7/latticeDensity/inst/doc/latticeDensity.R | 6 latticeDensity-1.2.7/latticeDensity/inst/doc/latticeDensity.Rmd | 13 latticeDensity-1.2.7/latticeDensity/inst/doc/latticeDensity.html | 517 +++++----- latticeDensity-1.2.7/latticeDensity/man/addObservations.Rd | 6 latticeDensity-1.2.7/latticeDensity/man/addQuantVar.Rd | 23 latticeDensity-1.2.7/latticeDensity/man/createNparReg.Rd | 2 latticeDensity-1.2.7/latticeDensity/man/editLattice.Rd | 8 latticeDensity-1.2.7/latticeDensity/man/homerange.Rd | 4 latticeDensity-1.2.7/latticeDensity/man/nodeFilling.Rd | 2 latticeDensity-1.2.7/latticeDensity/man/plot.NparRegOut.Rd | 3 latticeDensity-1.2.7/latticeDensity/man/plot.densityOut.Rd | 3 latticeDensity-1.2.7/latticeDensity/man/plot.formLatticeOutput.Rd | 3 latticeDensity-1.2.7/latticeDensity/man/plot.nodeFillingOutput.Rd | 3 latticeDensity-1.2.7/latticeDensity/man/plot.varianceMapOut.Rd | 3 latticeDensity-1.2.7/latticeDensity/vignettes/latticeDensity.Rmd | 13 40 files changed, 462 insertions(+), 350 deletions(-)
More information about latticeDensity at CRAN
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Title: Invertible Transforms for Matrices
Description: Provides composable invertible transforms for
(sparse) matrices.
Author: Alex Hayes [aut, cre, cph]
Maintainer: Alex Hayes <alexpghayes@gmail.com>
Diff between invertiforms versions 0.1.1 dated 2022-11-25 and 0.1.2 dated 2025-07-28
DESCRIPTION | 11 ++++++----- MD5 | 16 ++++++++-------- NEWS.md | 4 ++++ R/NormalizedLaplacian.R | 4 ++-- R/PerturbedLaplacian.R | 4 ++-- R/RegularizedLaplacian.R | 4 ++-- man/NormalizedLaplacian.Rd | 4 ++-- man/PerturbedLaplacian.Rd | 4 ++-- man/RegularizedLaplacian.Rd | 4 ++-- 9 files changed, 30 insertions(+), 25 deletions(-)
Title: Exponential-Family Random Network Models
Description: Estimation of fully and partially observed Exponential-Family Random Network Models (ERNM). Exponential-family Random Graph Models (ERGM) and Gibbs Fields are special cases of ERNMs and can also be estimated with the package. Please cite Fellows and Handcock (2012), "Exponential-family Random Network Models" available at <doi:10.48550/arXiv.1208.0121>.
Author: Ian Fellows [aut],
Duncan Clark [aut, cre]
Maintainer: Duncan Clark <dac6@williams.edu>
Diff between ernm versions 1.0.1 dated 2025-07-22 and 1.0.2 dated 2025-07-28
DESCRIPTION | 6 MD5 | 43 ++--- NAMESPACE | 1 R/BinaryNet.R | 14 - R/ernm-fit.R | 284 +---------------------------------- R/ernm-gof.R |only R/ernm-methods.R |only R/ernm.R | 8 man/as.BinaryNet.Rd | 4 man/as.network.Rcpp_DirectedNet.Rd | 4 man/as.network.Rcpp_UndirectedNet.Rd | 4 man/coef.ernm.Rd |only man/createCppModel.Rd | 4 man/createCppSampler.Rd | 4 man/ernm.Rd | 4 man/ernmFit.Rd | 4 man/ernm_gof.Rd | 20 ++ man/plot.Rcpp_DirectedNet.Rd | 4 man/plot.Rcpp_UndirectedNet.Rd | 4 man/plot.ernm.Rd | 6 man/print.ernm.Rd | 6 man/simulateStatistics.Rd | 4 man/summary.ernm.Rd | 10 - man/vcov.ernm.Rd | 6 24 files changed, 103 insertions(+), 341 deletions(-)
More information about CrossExpression at CRAN
Permanent link
Title: Generate 'CodeMeta' Metadata for R Packages
Description: The 'Codemeta' Project defines a 'JSON-LD' format
for describing software metadata, as detailed at
<https://codemeta.github.io>. This package provides utilities to
generate, parse, and modify 'codemeta.json' files automatically for R
packages, as well as tools and examples for working with
'codemeta.json' 'JSON-LD' more generally.
Author: Carl Boettiger [aut, cre, cph] ,
Anna Krystalli [rev, ctb] ,
Toph Allen [rev] ,
Maelle Salmon [ctb, aut] ,
rOpenSci [fnd] ,
Katrin Leinweber [ctb] ,
Noam Ross [ctb] ,
Arfon Smith [ctb],
Jeroen Ooms [ctb] ,
Sebastian Meyer [ctb] ,
Michael Rustler [ctb [...truncated...]
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between codemetar versions 0.3.5 dated 2022-09-02 and 0.3.6 dated 2025-07-28
DESCRIPTION | 41 ++-- MD5 | 38 ++-- NEWS.md | 6 R/get_url.R | 2 R/guess_github_metadata.R | 2 R/write_codemeta.R | 2 README.md | 130 +++++++-------- build/vignette.rds |binary inst/doc/codemetar.R | 24 +- inst/doc/codemetar.html | 199 +++++++++++------------ inst/examples/meta_from_gh.R | 2 inst/schema/codemeta_schema.json | 2 man/codemetar-package.Rd | 11 - man/create_codemeta.Rd | 2 man/rmdhunks/improvecodemetadata.Rmd | 2 man/rmdhunks/internet.Rmd | 2 man/write_codemeta.Rd | 2 tests/testthat/test-create_codemeta.R | 6 tests/testthat/test-write_codemeta.R | 9 - vignettes/articles/examples-parsing-codemeta.Rmd | 2 20 files changed, 248 insertions(+), 236 deletions(-)
Title: The Ultimate Tool for Reading Data in Bulk
Description: Designed to simplify and streamline the process of reading
and processing large volumes of data in R, this package offers a
collection of functions tailored for bulk data operations. It enables
users to efficiently read multiple sheets from Microsoft Excel and
Google Sheets workbooks, as well as various CSV files from a
directory. The data is returned as organized data frames, facilitating
further analysis and manipulation. Ideal for handling extensive data
sets or batch processing tasks, bulkreadr empowers users to manage
data in bulk effortlessly, saving time and effort in data preparation
workflows. Additionally, the package seamlessly works with labelled
data from SPSS and Stata.
Author: Ezekiel Ogundepo [aut, cre] ,
Ernest Fokoue [ctb] ,
Golibe Ezeechesi [ctb],
Fatimo Adebanjo [ctb],
Isaac Ajao [ctb]
Maintainer: Ezekiel Ogundepo <gbganalyst@gmail.com>
Diff between bulkreadr versions 1.2.0 dated 2025-04-28 and 1.2.1 dated 2025-07-28
DESCRIPTION | 11 ++-- MD5 | 12 ++-- NEWS.md | 6 ++ R/write_excel_sheets_to_csv.R | 100 +++++++++++++++++++-------------------- inst/doc/intro-to-bulkreadr.html | 10 +-- inst/doc/other-functions.html | 2 man/write_excel_sheets_to_csv.Rd | 7 +- 7 files changed, 80 insertions(+), 68 deletions(-)
Title: Maps Bone Densities from CT Scans to Surface Models
Description: Allows local bone density estimates to be derived from CT data and mapped to 3D bone models in a reproducible manner. Processing can be performed at the individual bone or group level. Also includes tools for visualizing the bone density estimates. Example methods are described in Telfer et al., (2021) <doi:10.1002/jor.24792>, Telfer et al., (2021) <doi:10.1016/j.jse.2021.05.011>.
Author: Scott Telfer [aut, cre, cph] ,
Lucas Lacambra [aut]
Maintainer: Scott Telfer <scott.telfer@gmail.com>
Diff between BoneDensityMapping versions 0.1.1 dated 2025-07-25 and 0.1.2 dated 2025-07-28
BoneDensityMapping-0.1.1/BoneDensityMapping/man/reorientate_landmarks.Rd |only BoneDensityMapping-0.1.2/BoneDensityMapping/DESCRIPTION | 9 - BoneDensityMapping-0.1.2/BoneDensityMapping/MD5 | 13 -- BoneDensityMapping-0.1.2/BoneDensityMapping/NAMESPACE | 5 BoneDensityMapping-0.1.2/BoneDensityMapping/NEWS.md | 4 BoneDensityMapping-0.1.2/BoneDensityMapping/R/BoneDensityFunctions.R | 64 +--------- BoneDensityMapping-0.1.2/BoneDensityMapping/build/vignette.rds |binary BoneDensityMapping-0.1.2/BoneDensityMapping/man/import_lmks.Rd | 8 + 8 files changed, 32 insertions(+), 71 deletions(-)
More information about BoneDensityMapping at CRAN
Permanent link
Title: Management and Processing of Autonomous Recording Unit (ARU)
Data
Description: Parse Autonomous Recording Unit (ARU) data and for sub-sampling recordings.
Extract Metadata from your recordings, select a subset of recordings for
interpretation, and prepare files for processing on the
'WildTrax' <https://wildtrax.ca/> platform. Read and process metadata
from recordings collected using the SongMeter and BAR-LT types of ARUs.
Author: David Hope [aut, cre] ,
Steffi LaZerte [aut] ,
Government of Canada [cph, fnd]
Maintainer: David Hope <david.hope@ec.gc.ca>
This is a re-admission after prior archival of version 0.7.2 dated 2025-03-19
Diff between ARUtools versions 0.7.2 dated 2025-03-19 and 0.7.3 dated 2025-07-28
DESCRIPTION | 16 MD5 | 24 NEWS.md | 4 README.md | 2 build/vignette.rds |binary inst/doc/SubSample.html | 2 man/create_lookaround.Rd | 102 man/get_pattern.Rd | 44 man/guess_ARU_type.Rd | 50 man/meta_clean_logs.Rd | 72 man/set_pattern.Rd | 58 tests/testthat/_snaps/08_selections.md | 3728 ++++++++++++++++----------------- tests/testthat/_snaps/10_clean_logs.md | 592 ++--- 13 files changed, 2349 insertions(+), 2345 deletions(-)
Title: A Robust Interface to ArcGIS 'Geocoding Services'
Description: A very fast and robust interface to ArcGIS 'Geocoding
Services'. Provides capabilities for reverse geocoding, finding
address candidates, character-by-character search autosuggestion, and
batch geocoding. The public 'ArcGIS World Geocoder' is accessible for
free use via 'arcgisgeocode' for all services except batch geocoding.
'arcgisgeocode' also integrates with 'arcgisutils' to provide access
to custom locators or private 'ArcGIS World Geocoder' hosted on
'ArcGIS Enterprise'. Learn more in the 'Geocode service' API reference
<https://developers.arcgis.com/rest/geocode/api-reference/overview-world-geocoding-service.htm>.
Author: Josiah Parry [aut, cre]
Maintainer: Josiah Parry <josiah.parry@gmail.com>
Diff between arcgisgeocode versions 0.2.3 dated 2025-04-11 and 0.3.0 dated 2025-07-28
DESCRIPTION | 13 +++++++------ MD5 | 10 +++++----- NEWS.md | 5 +++++ R/core-batch-geocode.R | 2 +- man/arcgisgeocode-package.Rd | 2 +- src/rust/src/find_candidates.rs | 15 +++++++++++++++ 6 files changed, 34 insertions(+), 13 deletions(-)
More information about AgeBandDecomposition at CRAN
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Title: Tidy Data Validation Reports
Description: Tools for creating data validation pipelines and
tidy reports. This package offers a framework for exploring and
validating data frame like objects using 'dplyr' grammar of data
manipulation.
Author: Evgeni Chasnovski [aut, cre]
Maintainer: Evgeni Chasnovski <evgeni.chasnovski@gmail.com>
Diff between ruler versions 0.3.0 dated 2023-03-28 and 0.3.1 dated 2025-07-28
DESCRIPTION | 11 +-- MD5 | 44 ++++++------ NEWS.md | 4 + R/actions.R | 8 +- R/expose-helpers.R | 17 +++- R/expose.R | 102 +++++++++++++++++++++------- R/exposure.R | 35 ++++++--- R/rules.R | 10 +- R/utils.R | 9 +- README.md | 6 - build/vignette.rds |binary inst/doc/design-and-format.html | 4 - inst/doc/rule-packs.html | 5 - inst/doc/validation.html | 5 - man/rules.Rd | 2 tests/testthat/helper-expose-data.R | 115 ++++++++++++++++++++------------ tests/testthat/test-actions.R | 23 ++++-- tests/testthat/test-expose-helpers.R | 38 ++++++++-- tests/testthat/test-expose.R | 125 ++++++++++++++++++++++++----------- tests/testthat/test-exposure.R | 23 ++++-- tests/testthat/test-rules.R | 4 - tests/testthat/test-spread-groups.R | 12 ++- tests/testthat/test-utils.R | 30 ++++++-- 23 files changed, 426 insertions(+), 206 deletions(-)
Title: Optimized Integer Risk Score Models
Description: Implements an optimized approach to learning risk score models, where sparsity and integer constraints are integrated into the model-fitting process.
Author: Hannah Eglinton [aut, cre],
Seehanah Tang [aut, aut],
Alice Paul [aut, cph],
Oscar Yan [aut],
R Core Team [ctb, cph] ,
Robert Gentleman [ctb, cph] ,
Ross Ihaka [ctb, cph] ,
Simon Davies [ctb] ),
Thomas Lumley [ctb] )
Maintainer: Hannah Eglinton <eglintonh@gmail.com>
Diff between riskscores versions 1.2.1 dated 2025-05-30 and 1.2.3 dated 2025-07-28
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/generic.R | 2 +- R/risk_mod.R | 44 +++++++++++++++++++++++++------------------- inst/doc/riskscores.html | 2 +- 5 files changed, 34 insertions(+), 28 deletions(-)
Title: Extract 'REDCap' Databases into Tidy 'Tibble's
Description: Convert 'REDCap' exports into tidy tables for easy handling of 'REDCap' repeat instruments and event arms.
Author: Richard Hanna [aut, cre] ,
Stephan Kadauke [aut] ,
Ezra Porter [aut]
Maintainer: Richard Hanna <hannar1@chop.edu>
Diff between REDCapTidieR versions 1.2.3 dated 2025-06-06 and 1.2.4 dated 2025-07-28
DESCRIPTION | 6 +- MD5 | 22 ++++----- NAMESPACE | 1 NEWS.md | 5 ++ R/REDCapTidieR-package.R | 2 R/combine_checkboxes.R | 69 +++++++++++++++++++++++++------ R/skimr.R | 9 +--- build/vignette.rds |binary man/add_skimr_metadata.Rd | 9 +--- man/combine_checkboxes.Rd | 8 +++ man/convert_checkbox_vals.Rd | 12 ++++- tests/testthat/test-combine_checkboxes.R | 35 +++++++++++++++ 12 files changed, 137 insertions(+), 41 deletions(-)
Title: Binary Gene Operations for Genetic Algorithms
Description: Representation-dependent gene level operations of a
genetic algorithm with binary coded genes:
Initialization of random binary genes, several gene maps for
binary genes, several mutation operators, several crossover
operators with 1 and 2 kids, replication
pipelines for 1 and 2 kids, and, last but not least, function
factories for configuration.
See Goldberg, D. E. (1989, ISBN:0-201-15767-5).
For crossover operators, see
Syswerda, G. (1989, ISBN:1-55860-066-3),
Spears, W. and De Jong, K. (1991, ISBN:1-55860-208-9).
For mutation operators, see
Stanhope, S. A. and Daida, J. M. (1996, ISBN:0-18-201-031-7).
Author: Andreas Geyer-Schulz [aut, cre]
Maintainer: Andreas Geyer-Schulz <Andreas.Geyer-Schulz@kit.edu>
Diff between xegaGaGene versions 1.0.0.2 dated 2025-04-16 and 1.0.0.4 dated 2025-07-28
DESCRIPTION | 10 - MD5 | 33 +++-- NAMESPACE | 10 + NEWS | 25 ++++ R/xegaGaGene-package.R | 50 +++++++- R/xegaGaReplicate.R | 204 +++++++++++++++++++++++++++++++++++- R/xegaGalF.R | 3 R/xegaOperatorPipelines.R |only man/lFxegaGaGene.Rd | 2 man/newCross2Mut1Pipeline.Rd |only man/newCross2Mut2Pipeline.Rd |only man/newCross2Pipeline.Rd |only man/newCrossMut2Pipeline.Rd |only man/newCrossMutPipeline.Rd |only man/newCrossPipeline.Rd |only man/newMutPipeline.Rd |only man/newPipeline.Rd |only man/xegaGaGene.Rd | 52 ++++++++- man/xegaGaReplicate2Gene.Rd | 8 - man/xegaGaReplicate2GenePipeline.Rd |only man/xegaGaReplicateGene.Rd | 6 - man/xegaGaReplicateGenePipeline.Rd |only man/xegaGaReplicationFactory.Rd | 4 23 files changed, 369 insertions(+), 38 deletions(-)
Title: Right to Left Dynamic Documents Using 'knitr'
Description: Provide seamless support for right-to-left (RTL) languages, such as Persian and Arabic,
in R Markdown documents and 'LaTeX' output. It includes functions and hooks that enable easy
integration of RTL language content, allowing users to create documents that adhere to RTL writing
conventions. For in-depth insights into dynamic documents and the 'knitr' package, consider referring
to Xie, Y (2014) <ISBN: 978-1-482-20353-0>.
Author: Foad Esmaeili [aut, cre, cph]
Maintainer: Foad Esmaeili <foadesmaeili5@gmail.com>
Diff between RTLknitr versions 1.0.0 dated 2023-08-25 and 1.0.1 dated 2025-07-28
DESCRIPTION | 21 +++++-- MD5 | 10 +-- R/markdown_rtl.R | 122 ++++++++++++++++++++++----------------------- R/markdown_rtl_header.R | 48 +++++++++-------- man/markdown_rtl.Rd | 74 +++++++++++++-------------- man/markdown_rtl_header.Rd | 4 + 6 files changed, 146 insertions(+), 133 deletions(-)
Title: Data Visualization for QTL Experiments
Description: Functions to plot QTL (quantitative trait loci) analysis
results and related diagnostics.
Part of 'qtl2', an upgrade of the 'qtl'
package to better handle high-dimensional data and complex cross
designs.
Author: Brian S Yandell [aut, cre],
Karl W Broman [aut]
Maintainer: Brian S Yandell <brian.yandell@wisc.edu>
Diff between qtl2ggplot versions 1.2.4 dated 2024-03-15 and 1.2.6 dated 2025-07-28
DESCRIPTION | 15 +++--- MD5 | 20 ++++----- R/ggplot_pxg.R | 2 R/ggplot_scan1_internal.R | 2 R/listof_scan1coef.R | 15 +++--- build/vignette.rds |binary inst/doc/qtl2ggplot.R | 18 ++++---- inst/doc/qtl2ggplot.html | 100 +++++++++++++++++++++++----------------------- man/ggplot_pxg.Rd | 2 man/ggplot_scan1.Rd | 2 man/listof_scan1coef.Rd | 9 ++-- 11 files changed, 94 insertions(+), 91 deletions(-)
Title: Analysis and Visualization of Circular Data
Description: Circumplex models, which organize constructs in a circle around two
underlying dimensions, are popular for studying interpersonal functioning,
mood/affect, and vocational preferences/environments. This package provides
tools for analyzing and visualizing circular data, including scoring
functions for relevant instruments and a generalization of the bootstrapped
structural summary method from Zimmermann & Wright (2017)
<doi:10.1177/1073191115621795> and functions for creating publication-ready
tables and figures from the results.
Author: Jeffrey Girard [aut, cre] ,
Johannes Zimmermann [aut] ,
Aidan Wright [aut]
Maintainer: Jeffrey Girard <me@jmgirard.com>
Diff between circumplex versions 1.0.0 dated 2024-10-28 and 1.0.1 dated 2025-07-28
circumplex-1.0.0/circumplex/man/instrument.Rd |only circumplex-1.0.0/circumplex/tests/testthat/_snaps/ssm_table.md |only circumplex-1.0.1/circumplex/DESCRIPTION | 14 circumplex-1.0.1/circumplex/MD5 | 131 +- circumplex-1.0.1/circumplex/NAMESPACE | 2 circumplex-1.0.1/circumplex/NEWS.md | 596 ++++----- circumplex-1.0.1/circumplex/R/RcppExports.R | 4 circumplex-1.0.1/circumplex/R/convenience_functions.R | 16 circumplex-1.0.1/circumplex/R/instrument_data.R | 22 circumplex-1.0.1/circumplex/R/instrument_oop.R | 59 circumplex-1.0.1/circumplex/R/ssm_plot.R | 228 +-- circumplex-1.0.1/circumplex/R/tidying_functions.R | 59 circumplex-1.0.1/circumplex/build/partial.rdb |binary circumplex-1.0.1/circumplex/build/vignette.rds |binary circumplex-1.0.1/circumplex/inst/doc/intermediate-ssm-analysis.Rmd | 2 circumplex-1.0.1/circumplex/inst/doc/intermediate-ssm-analysis.html | 28 circumplex-1.0.1/circumplex/inst/doc/introduction-to-ssm-analysis.R | 2 circumplex-1.0.1/circumplex/inst/doc/introduction-to-ssm-analysis.Rmd | 2 circumplex-1.0.1/circumplex/inst/doc/introduction-to-ssm-analysis.html | 167 +- circumplex-1.0.1/circumplex/inst/doc/using-instruments.R | 18 circumplex-1.0.1/circumplex/inst/doc/using-instruments.Rmd | 39 circumplex-1.0.1/circumplex/inst/doc/using-instruments.html | 646 ++++------ circumplex-1.0.1/circumplex/man/PANO.Rd | 7 circumplex-1.0.1/circumplex/man/anchors.Rd | 2 circumplex-1.0.1/circumplex/man/cais.Rd | 1 circumplex-1.0.1/circumplex/man/csie.Rd | 3 circumplex-1.0.1/circumplex/man/csig.Rd | 3 circumplex-1.0.1/circumplex/man/csip.Rd | 1 circumplex-1.0.1/circumplex/man/csiv.Rd | 3 circumplex-1.0.1/circumplex/man/figures/README-plot-1.png |binary circumplex-1.0.1/circumplex/man/figures/README-plot2-1.png |binary circumplex-1.0.1/circumplex/man/figures/README-plot3-1.png |binary circumplex-1.0.1/circumplex/man/iei.Rd | 3 circumplex-1.0.1/circumplex/man/igicr.Rd | 1 circumplex-1.0.1/circumplex/man/iip32.Rd | 1 circumplex-1.0.1/circumplex/man/iip64.Rd | 1 circumplex-1.0.1/circumplex/man/iipsc.Rd | 1 circumplex-1.0.1/circumplex/man/iis32.Rd | 1 circumplex-1.0.1/circumplex/man/iis64.Rd | 1 circumplex-1.0.1/circumplex/man/iitc.Rd | 1 circumplex-1.0.1/circumplex/man/instruments.Rd | 1 circumplex-1.0.1/circumplex/man/ipipipc.Rd | 1 circumplex-1.0.1/circumplex/man/ipsatize.Rd | 3 circumplex-1.0.1/circumplex/man/isc.Rd | 1 circumplex-1.0.1/circumplex/man/items.Rd | 2 circumplex-1.0.1/circumplex/man/norm_standardize.Rd | 4 circumplex-1.0.1/circumplex/man/norms.Rd | 2 circumplex-1.0.1/circumplex/man/scales.Rd | 2 circumplex-1.0.1/circumplex/man/score.Rd | 4 circumplex-1.0.1/circumplex/man/self_standardize.Rd |only circumplex-1.0.1/circumplex/man/ssm_plot_circle.Rd | 149 +- circumplex-1.0.1/circumplex/man/ssm_plot_contrast.Rd | 114 - circumplex-1.0.1/circumplex/src/RcppExports.cpp | 12 circumplex-1.0.1/circumplex/src/circular.cpp | 15 circumplex-1.0.1/circumplex/tests/testthat/_snaps/instrument_oop.md | 29 circumplex-1.0.1/circumplex/tests/testthat/_snaps/ssm_plot/cross-zero-circle.svg | 76 - circumplex-1.0.1/circumplex/tests/testthat/_snaps/ssm_plot/many-circle-plots.svg | 84 - circumplex-1.0.1/circumplex/tests/testthat/_snaps/ssm_plot/measure-contrast-circle-ssm.svg | 76 - circumplex-1.0.1/circumplex/tests/testthat/_snaps/ssm_plot/single-group-correlation-ssm.svg | 76 - circumplex-1.0.1/circumplex/tests/testthat/_snaps/ssm_plot/single-group-mean-ssm-no-palette.svg | 4 circumplex-1.0.1/circumplex/tests/testthat/_snaps/ssm_plot/single-group-mean-ssm.svg | 76 - circumplex-1.0.1/circumplex/tests/testthat/test-instrument_oop.R | 10 circumplex-1.0.1/circumplex/tests/testthat/test-ssm_plot.R | 15 circumplex-1.0.1/circumplex/tests/testthat/test-ssm_table.R | 16 circumplex-1.0.1/circumplex/tests/testthat/test-tidying_functions.R | 33 circumplex-1.0.1/circumplex/vignettes/intermediate-ssm-analysis.Rmd | 2 circumplex-1.0.1/circumplex/vignettes/introduction-to-ssm-analysis.Rmd | 2 circumplex-1.0.1/circumplex/vignettes/using-instruments.Rmd | 39 68 files changed, 1399 insertions(+), 1514 deletions(-)
Title: Streamline Bioacoustic Analysis
Description: Functions aiming to facilitate the analysis of the structure of animal acoustic signals in 'R'. 'warbleR' makes use of the basic sound analysis tools from the packages 'tuneR' and 'seewave', and offers new tools for exploring and quantifying acoustic signal structure. The package allows to organize and manipulate multiple sound files, create spectrograms of complete recordings or individual signals in different formats, run several measures of acoustic structure, and characterize different structural levels in acoustic signals (Araya-Salas et al 2016 <doi:10.1111/2041-210X.12624>).
Author: Marcelo Araya-Salas [aut, cre] ,
Grace Smith-Vidaurre [aut]
Maintainer: Marcelo Araya-Salas <marcelo.araya@ucr.ac.cr>
Diff between warbleR versions 1.1.35 dated 2025-07-17 and 1.1.36 dated 2025-07-28
DESCRIPTION | 6 +-- MD5 | 54 +++++++++++++++++---------------- NAMESPACE | 1 NEWS.md | 8 ++++ R/acoustic_activity.R |only R/check_sels.R | 4 +- R/check_sound_files.R | 4 +- R/filter_sels.R | 2 - R/freq_range.R | 2 - R/mfcc_stats.R | 2 - R/query_xc.R | 6 ++- R/spectro_analysis.R | 2 - R/wpd_features.R | 2 - build/vignette.rds |binary data/comp_matrix.rda |binary data/lbh_selec_table.rda |binary data/sim_coor_sing.rda |binary data/sth_annotations.rda |binary inst/doc/a_warbleR.html | 48 ++++++++++++++--------------- inst/doc/b_annotation_data_format.html | 26 +++++++-------- inst/doc/c_warbleR_workflow_02.html | 12 +++---- man/acoustic_activity.Rd |only man/check_sels.Rd | 4 +- man/check_sound_files.Rd | 2 - man/filter_sels.Rd | 2 - man/freq_range.Rd | 2 - man/mfcc_stats.Rd | 2 - man/spectro_analysis.Rd | 2 - man/wpd_features.Rd | 2 - 29 files changed, 104 insertions(+), 91 deletions(-)
Title: World Map Data from Natural Earth
Description: Facilitates mapping by making natural earth map data from <https://www.naturalearthdata.com/> more easily available to R users.
Author: Philippe Massicotte [aut, cre] ,
Andy South [aut],
Koen Hufkens [ctb]
Maintainer: Philippe Massicotte <pmassicotte@hotmail.com>
Diff between rnaturalearth versions 1.0.1 dated 2023-12-15 and 1.1.0 dated 2025-07-28
DESCRIPTION | 22 - MD5 | 203 ++++++++------- NAMESPACE | 5 NEWS.md | 67 +++++ R/check_data_exist.R | 36 +- R/check_scale.R | 15 - R/datasets.R | 2 R/find_data.R | 41 +-- R/get_data.R | 32 +- R/install-rnaturalearthdata.R | 42 +-- R/install-rnaturalearthhires.R | 55 ++-- R/ne_coastline.R | 11 R/ne_countries.R | 32 +- R/ne_download.R | 108 ++++---- R/ne_file_name.R | 135 +++++++--- R/ne_load.R | 81 ++++-- R/ne_states.R | 57 ++-- R/rnaturalearth-package.R | 5 R/utils.R | 56 +++- README.md | 84 +++--- build/vignette.rds |binary inst/doc/finding-data.Rmd | 148 +++++------ inst/doc/finding-data.html | 375 +++++++++++++++------------- inst/doc/language-support.Rmd | 82 +++--- inst/doc/language-support.html | 401 ++++++++++++++----------------- inst/doc/rnaturalearth.Rmd | 57 ++-- inst/doc/rnaturalearth.html | 283 +++++++++++---------- inst/doc/what-is-a-country.Rmd | 57 ++-- inst/doc/what-is-a-country.html | 307 ++++++++++++----------- man/check_data_exist.Rd | 18 - man/convert_spatial_class.Rd | 7 man/countries.Rd | 2 man/figures/README-unnamed-chunk-2-1.png |binary man/figures/README-unnamed-chunk-2-2.png |binary man/figures/README-unnamed-chunk-2-3.png |binary man/get_data.Rd | 9 man/layer_name.Rd |only man/make_dest_path.Rd |only man/ne_coastline.Rd | 6 man/ne_countries.Rd | 6 man/ne_download.Rd | 15 - man/ne_file_name.Rd | 15 - man/ne_find_vector_data.Rd | 6 man/ne_load.Rd | 46 ++- man/ne_states.Rd | 13 - man/normalize_type.Rd |only man/read_spatial_vector.Rd |only man/sanitize_gdal_url.Rd |only tests/testthat/test_ne_download.R |only tests/testthat/test_ne_file_name.R | 49 ++- tests/testthat/test_ne_load.R |only vignettes/create_cran_vignettes.R | 2 vignettes/finding-data.Rmd | 148 +++++------ vignettes/finding-data.Rmd-10-1.png |binary vignettes/finding-data.Rmd-12-1.png |binary vignettes/finding-data.Rmd-12-2.png |binary vignettes/finding-data.Rmd-12-3.png |binary vignettes/finding-data.Rmd-12-4.png |binary vignettes/finding-data.Rmd-12-5.png |binary vignettes/finding-data.Rmd-12-6.png |binary vignettes/finding-data.Rmd-12-7.png |binary vignettes/finding-data.Rmd-12-8.png |binary vignettes/finding-data.Rmd-3-1.png |binary vignettes/finding-data.Rmd-7-1.png |binary vignettes/finding-data.Rmd-7-2.png |binary vignettes/finding-data.Rmd-7-3.png |binary vignettes/finding-data.Rmd-7-4.png |binary vignettes/finding-data.Rmd-7-5.png |binary vignettes/finding-data.Rmd-7-6.png |binary vignettes/finding-data.Rmd.orig | 54 ++-- vignettes/language-support.Rmd | 82 +++--- vignettes/language-support.Rmd-3-1.png |binary vignettes/language-support.Rmd-3-10.png |binary vignettes/language-support.Rmd-3-2.png |binary vignettes/language-support.Rmd-3-3.png |binary vignettes/language-support.Rmd-3-4.png |binary vignettes/language-support.Rmd-3-5.png |binary vignettes/language-support.Rmd-3-6.png |binary vignettes/language-support.Rmd-3-7.png |binary vignettes/language-support.Rmd-3-8.png |binary vignettes/language-support.Rmd-3-9.png |binary vignettes/language-support.Rmd.orig | 45 +-- vignettes/rnaturalearth.Rmd | 57 ++-- vignettes/rnaturalearth.Rmd-3-1.png |binary vignettes/rnaturalearth.Rmd-3-2.png |binary vignettes/rnaturalearth.Rmd-3-3.png |binary vignettes/rnaturalearth.Rmd-3-4.png |binary vignettes/rnaturalearth.Rmd-3-5.png |binary vignettes/rnaturalearth.Rmd-5-1.png |binary vignettes/rnaturalearth.Rmd.orig | 34 +- vignettes/what-is-a-country.Rmd | 57 ++-- vignettes/what-is-a-country.Rmd-3-1.png |binary vignettes/what-is-a-country.Rmd-3-2.png |binary vignettes/what-is-a-country.Rmd-3-3.png |binary vignettes/what-is-a-country.Rmd-3-4.png |binary vignettes/what-is-a-country.Rmd-3-5.png |binary vignettes/what-is-a-country.Rmd-3-6.png |binary vignettes/what-is-a-country.Rmd-3-7.png |binary vignettes/what-is-a-country.Rmd-4-1.png |binary vignettes/what-is-a-country.Rmd-4-2.png |binary vignettes/what-is-a-country.Rmd-4-3.png |binary vignettes/what-is-a-country.Rmd-5-1.png |binary vignettes/what-is-a-country.Rmd-5-2.png |binary vignettes/what-is-a-country.Rmd-5-3.png |binary vignettes/what-is-a-country.Rmd-5-4.png |binary vignettes/what-is-a-country.Rmd.orig | 21 + 106 files changed, 1915 insertions(+), 1576 deletions(-)
Title: Consensus Pathway Analysis
Description: Provides a set of functions to perform pathway analysis and meta-analysis from multiple gene expression datasets, as well as visualization of the results. This package wraps functionality from the following packages: Ritchie et al. (2015) <doi:10.1093/nar/gkv007>, Love et al. (2014) <doi:10.1186/s13059-014-0550-8>, Robinson et al. (2010) <doi:10.1093/bioinformatics/btp616>, Korotkevich et al. (2016) <arxiv:10.1101/060012>, Efron et al. (2015) <https://CRAN.R-project.org/package=GSA>, and Gu et al. (2012) <https://CRAN.R-project.org/package=CePa>.
Author: Ha Nguyen [aut, cre],
Phi Bya [aut],
Zeynab Maghsoudi [aut],
Tin Nguyen [fnd]
Maintainer: Ha Nguyen <hvn0006@auburn.edu>
Diff between RCPA versions 0.2.6 dated 2025-04-30 and 0.2.7 dated 2025-07-28
DESCRIPTION | 8 MD5 | 8 build/vignette.rds |binary inst/doc/RCPA.R | 536 ++++++++++++++++++++++++++--------------------------- inst/doc/RCPA.html | 246 ++++++++++-------------- 5 files changed, 386 insertions(+), 412 deletions(-)
Title: Utilities for Quantiles
Description: Functions for unconditional and conditional quantiles. These
include methods for transformation-based quantile regression,
quantile-based measures of location, scale and shape, methods for quantiles
of discrete variables, quantile-based multiple imputation, restricted
quantile regression, directional quantile classification, and quantile
ratio regression.
A vignette is given in Geraci (2016, The R Journal) <doi:10.32614/RJ-2016-037> and included in the package.
Author: Marco Geraci [aut, cph, cre] ,
Alessio Farcomeni [ctb] ,
Cinzia Viroli [ctb]
Maintainer: Marco Geraci <marco.geraci@uniroma1.it>
Diff between Qtools versions 1.5.9 dated 2023-10-28 and 1.6.0 dated 2025-07-28
Qtools-1.5.9/Qtools/man/GOFTest.Rd |only Qtools-1.5.9/Qtools/man/print.GOFTest.Rd |only Qtools-1.6.0/Qtools/DESCRIPTION | 21 ++-- Qtools-1.6.0/Qtools/MD5 | 57 ++++++----- Qtools-1.6.0/Qtools/NAMESPACE | 5 + Qtools-1.6.0/Qtools/NEWS | 9 + Qtools-1.6.0/Qtools/R/Qtools.R | 114 ++++++++++++++++++++++ Qtools-1.6.0/Qtools/R/Qtools_mid.R | 109 ++++++++++++++++++--- Qtools-1.6.0/Qtools/build/vignette.rds |binary Qtools-1.6.0/Qtools/data/Chemistry.rda |binary Qtools-1.6.0/Qtools/data/Orthodont.rda |binary Qtools-1.6.0/Qtools/data/esterase.rda |binary Qtools-1.6.0/Qtools/data/fars.rda |only Qtools-1.6.0/Qtools/data/labor.rda |binary Qtools-1.6.0/Qtools/inst/doc/Qtools.R | 2 Qtools-1.6.0/Qtools/inst/doc/Qtools.html | 145 ++++++++++++++--------------- Qtools-1.6.0/Qtools/man/KhmaladzeFormat.Rd | 2 Qtools-1.6.0/Qtools/man/LOFTest.Rd |only Qtools-1.6.0/Qtools/man/Qtools-package.Rd | 4 Qtools-1.6.0/Qtools/man/cmidecdf.Rd | 2 Qtools-1.6.0/Qtools/man/fars.Rd |only Qtools-1.6.0/Qtools/man/mice.impute.rq.Rd | 2 Qtools-1.6.0/Qtools/man/midq2q.Rd | 37 +++++-- Qtools-1.6.0/Qtools/man/midrqControl.Rd | 2 Qtools-1.6.0/Qtools/man/print.LOFTest.Rd |only Qtools-1.6.0/Qtools/man/qlss.Rd | 2 Qtools-1.6.0/Qtools/man/qsmspline.Rd |only Qtools-1.6.0/Qtools/man/rq.counts.Rd | 2 Qtools-1.6.0/Qtools/man/rrq.Rd | 2 Qtools-1.6.0/Qtools/man/sparsity.rqt.Rd | 2 Qtools-1.6.0/Qtools/man/summary.rqt.Rd | 10 +- Qtools-1.6.0/Qtools/man/summary.rrq.Rd | 6 - Qtools-1.6.0/Qtools/man/tsrq.Rd | 4 33 files changed, 380 insertions(+), 159 deletions(-)
Title: Ordered Probit Switching Regression
Description: Estimates ordered probit switching regression models - a Heckman
type selection model with an ordinal selection and continuous outcomes.
Different model specifications are allowed for each treatment/regime. For
more details on the method, see Wang & Mokhtarian (2024) <doi:10.1016/j.tra.2024.104072>
or Chiburis & Lokshin (2007) <doi:10.1177/1536867X0700700202>.
Author: Daniel Heimgartner [aut, cre, cph] ,
Xinyi Wang [aut]
Maintainer: Daniel Heimgartner <d.heimgartners@gmail.com>
Diff between OPSR versions 1.0.0 dated 2025-07-07 and 1.0.1 dated 2025-07-28
DESCRIPTION | 6 +++--- MD5 | 28 ++++++++++++++-------------- NEWS.md | 7 +++++++ R/opsr_simulate.R | 8 +++++++- R/opsr_te.R | 4 +++- R/plot_opsr.R | 4 +++- build/partial.rdb |binary build/vignette.rds |binary inst/doc/opsr.R | 2 +- inst/doc/opsr.Rnw | 2 +- inst/doc/opsr.pdf |binary man/opsr_simulate.Rd | 5 ++++- man/opsr_te.Rd | 7 ++++++- man/plot.opsr.Rd | 7 ++++++- vignettes/opsr.Rnw | 2 +- 15 files changed, 56 insertions(+), 26 deletions(-)
Title: The Maraca Plot: Visualizing Hierarchical Composite Endpoints
Description: Supports visual interpretation of hierarchical composite
endpoints (HCEs). HCEs are complex constructs used as primary endpoints in
clinical trials, combining outcomes of different types into ordinal endpoints,
in which each patient contributes the most clinically important event (one and
only one) to the analysis. See Karpefors M et al. (2022)
<doi:10.1177/17407745221134949>.
Author: Martin Karpefors [aut] ,
Samvel B. Gasparyan [aut] ,
Stefano Borini [ctb],
Monika Huhn [aut, cre]
Maintainer: Monika Huhn <monika.huhn@astrazeneca.com>
Diff between maraca versions 1.0.0 dated 2025-06-08 and 1.0.1 dated 2025-07-28
DESCRIPTION | 6 MD5 | 26 +- NEWS.md | 5 R/internal.R | 7 build/partial.rdb |binary build/vignette.rds |binary inst/doc/faq.R | 2 inst/doc/faq.html | 464 +++++++++++++++++++++++++++++-------------- inst/doc/maraca.html | 329 +++++++++++++++++++++++------- inst/doc/mosaic.html | 335 ++++++++++++++++++++++++------- inst/doc/otherEndpoints.html | 416 +++++++++++++++++++++++++++----------- inst/doc/themes.html | 354 +++++++++++++++++++++++++------- inst/doc/validation.html | 448 +++++++++++++++++++++++++++++------------ inst/doc/winOdds.html | 357 +++++++++++++++++++++++++-------- 14 files changed, 2036 insertions(+), 713 deletions(-)
Title: Read and Write Ecological Metadata Language Files
Description: Work with Ecological Metadata Language ('EML') files.
'EML' is a widely used metadata standard in the ecological and
environmental sciences, described in Jones et al. (2006),
<doi:10.1146/annurev.ecolsys.37.091305.110031>.
Author: Carl Boettiger [aut, cre, cph] ,
Matthew B. Jones [aut] ,
Mitchell Maier [ctb] ,
Bryce Mecum [ctb] ,
Maelle Salmon [ctb] ,
Jeanette Clark [ctb]
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between EML versions 2.0.6.1 dated 2022-04-28 and 2.0.7 dated 2025-07-28
DESCRIPTION | 22 - MD5 | 30 - NEWS.md | 4 R/set_responsibleParty.R | 17 R/write_eml.R | 2 README.md | 2 build/vignette.rds |binary inst/WORDLIST | 2 inst/doc/creating-EML.R | 6 inst/doc/creating-EML.Rmd | 4 inst/doc/creating-EML.html | 503 ++++++++++++++--------------- inst/doc/working-with-units.html | 176 +++++----- man/set_responsibleParty.Rd | 8 man/write_eml.Rd | 2 tests/testthat/test-set_responsibleParty.R | 21 + vignettes/creating-EML.Rmd | 4 16 files changed, 431 insertions(+), 372 deletions(-)
Title: Convert Statistical Objects into Tidy Tibbles
Description: Summarizes key information about statistical objects in tidy
tibbles. This makes it easy to report results, create plots and
consistently work with large numbers of models at once. Broom
provides three verbs that each provide different types of information
about a model. tidy() summarizes information about model components
such as coefficients of a regression. glance() reports information
about an entire model, such as goodness of fit measures like AIC and
BIC. augment() adds information about individual observations to a
dataset, such as fitted values or influence measures.
Author: David Robinson [aut],
Alex Hayes [aut] ,
Simon Couch [aut, cre] ,
Posit Software, PBC [cph, fnd] ,
Indrajeet Patil [ctb] ,
Derek Chiu [ctb],
Matthieu Gomez [ctb],
Boris Demeshev [ctb],
Dieter Menne [ctb],
Benjamin Nutter [ctb],
Luke Johnston [ctb],
B [...truncated...]
Maintainer: Simon Couch <simon.couch@posit.co>
Diff between broom versions 1.0.8 dated 2025-03-28 and 1.0.9 dated 2025-07-28
DESCRIPTION | 783 ++++++++------------------------ LICENSE | 2 MD5 | 331 ++++++------- NEWS.md | 6 R/aaa-documentation-helper.R | 30 - R/aer.R | 14 R/auc.R | 8 R/betareg.R | 14 R/biglm.R | 18 R/boot.R | 49 +- R/broom-package.R | 4 R/caret.R | 25 - R/cluster.R | 10 R/cmprsk.R | 17 R/data-frame.R | 8 R/deprecated-0-7-0.R | 126 ++--- R/drc.R | 30 - R/emmeans.R | 25 - R/epiR.R | 41 + R/ergm.R | 19 R/fixest.R | 26 - R/geepack.R | 15 R/glmnet-glmnet.R | 21 R/gmm.R | 17 R/hmisc.R | 13 R/joinerml.R | 10 R/ks.R | 20 R/lavaan.R | 55 +- R/lfe.R | 60 +- R/list-svd.R | 34 - R/lm-beta.R | 8 R/lmodel2.R | 26 - R/lmtest.R | 6 R/margins.R | 25 - R/mass-negbin.R | 10 R/mass-polr.R | 39 + R/mass-ridgelm.R | 11 R/mass-rlm.R | 9 R/mclust.R | 8 R/mediation.R | 25 - R/metafor.R | 56 +- R/mfx.R | 71 +- R/mgcv.R | 40 + R/mlogit.R | 11 R/muhaz.R | 8 R/multcomp.R | 13 R/nnet.R | 21 R/null-and-default.R | 9 R/ordinal-clm.R | 20 R/ordinal-clmm.R | 9 R/polca.R | 18 R/psych.R | 4 R/quantreg-rq.R | 22 R/quantreg-rqs.R | 30 - R/robust-lmrob.R | 4 R/robustbase-glmrob.R | 23 R/robustbase-lmrob.R | 18 R/sp.R | 2 R/spdep.R | 8 R/speedglm-speedglm.R | 9 R/stats-anova.R | 63 +- R/stats-decompose.R | 16 R/stats-factanal.R | 33 - R/stats-glm.R | 39 - R/stats-htest.R | 25 - R/stats-kmeans.R | 2 R/stats-lm.R | 30 - R/stats-loess.R | 9 R/stats-mlm.R | 5 R/stats-prcomp.R | 29 - R/stats-summary-lm.R | 8 R/stats-time-series.R | 2 R/survey.R | 18 R/survival-aareg.R | 8 R/survival-cch.R | 8 R/survival-coxph.R | 25 - R/survival-survfit.R | 2 R/survival-survreg.R | 16 R/tseries.R | 6 R/utilities.R | 126 +++-- R/vars.R | 2 R/zoo.R | 3 README.md | 64 +- build/vignette.rds |binary inst/doc/adding-tidiers.html | 4 inst/doc/available-methods.R | 12 inst/doc/available-methods.Rmd | 17 inst/doc/available-methods.html | 4 inst/doc/bootstrapping.R | 2 inst/doc/bootstrapping.Rmd | 4 inst/doc/bootstrapping.html | 4 inst/doc/broom.R | 8 inst/doc/broom.Rmd | 13 inst/doc/broom.html | 9 inst/doc/broom_and_dplyr.R | 42 - inst/doc/broom_and_dplyr.Rmd | 46 + inst/doc/broom_and_dplyr.html | 47 - man/augment.Mclust.Rd | 6 man/augment.decomposed.ts.Rd | 16 man/augment.lm.Rd | 6 man/augment.pam.Rd | 2 man/broom.Rd | 2 man/glance.Mclust.Rd | 6 man/glance.glmnet.Rd | 2 man/glance.gmm.Rd | 8 man/glance.lm.Rd | 6 man/glance.pam.Rd | 2 man/glance.rq.Rd | 4 man/glance.summary.lm.Rd | 6 man/tidy.Mclust.Rd | 6 man/tidy.glmnet.Rd | 2 man/tidy.gmm.Rd | 8 man/tidy.kde.Rd | 4 man/tidy.lm.Rd | 6 man/tidy.pam.Rd | 2 man/tidy.prcomp.Rd | 8 man/tidy.roc.Rd | 8 man/tidy_irlba.Rd | 4 man/tidy_svd.Rd | 4 tests/spelling.R | 3 tests/testthat/_snaps/utilities.new.md |only tests/testthat/test-aer.R | 5 tests/testthat/test-bbmle.R | 6 tests/testthat/test-betareg.R | 2 tests/testthat/test-boot.R | 14 tests/testthat/test-car.R | 32 - tests/testthat/test-cmprsk.R | 22 tests/testthat/test-drc.R | 13 tests/testthat/test-emmeans.R | 33 - tests/testthat/test-epiR.R | 29 - tests/testthat/test-ergm.R | 6 tests/testthat/test-fixest.R | 7 tests/testthat/test-geepack.R | 2 tests/testthat/test-glmnetUtils.R | 6 tests/testthat/test-joineRML.R | 4 tests/testthat/test-lfe.R | 5 tests/testthat/test-lmbeta-lm-beta.R | 2 tests/testthat/test-lmtest.R | 4 tests/testthat/test-margins.R | 6 tests/testthat/test-mass-polr.R | 4 tests/testthat/test-mlogit.R | 16 tests/testthat/test-multcomp.R | 4 tests/testthat/test-null-and-default.R | 2 tests/testthat/test-ordinal.R | 5 tests/testthat/test-quantreg-rq.R | 4 tests/testthat/test-robust.R | 3 tests/testthat/test-spdep.R | 13 tests/testthat/test-stats-anova.R | 7 tests/testthat/test-stats-factanal.R | 2 tests/testthat/test-stats-glm.R | 16 tests/testthat/test-stats-htest.R | 21 tests/testthat/test-stats-lm.R | 19 tests/testthat/test-stats-mlm.R | 5 tests/testthat/test-stats-prcomp.R | 4 tests/testthat/test-survival-cch.R | 4 tests/testthat/test-survival-coxph.R | 17 tests/testthat/test-survival-pyears.R | 6 tests/testthat/test-survival-survdiff.R | 6 tests/testthat/test-survival-survexp.R | 6 tests/testthat/test-survival-survfit.R | 2 tests/testthat/test-survival-survreg.R | 11 tests/testthat/test-systemfit.R | 21 tests/testthat/test-utilities.R | 145 ++++- vignettes/available-methods.Rmd | 17 vignettes/bootstrapping.Rmd | 4 vignettes/broom.Rmd | 13 vignettes/broom_and_dplyr.Rmd | 46 + 167 files changed, 2123 insertions(+), 1764 deletions(-)
Title: Connect to Your 'Zoom' Data
Description: Facilitates making a connection to the 'Zoom' API and executing
various queries. You can use it to get data on 'Zoom' webinars and 'Zoom'
meetings. The 'Zoom' documentation is available at
<https://developers.zoom.us/docs/api/>. This package is
not supported by 'Zoom' (owner of the software).
Author: Chris Umphlett [aut, cre],
Paul Schmidt [ctb]
Maintainer: Chris Umphlett <christopher.umphlett@gmail.com>
Diff between zoomr versions 0.3.0 dated 2024-02-23 and 0.4.0 dated 2025-07-28
DESCRIPTION | 29 +++++-- MD5 | 43 ++++++----- NAMESPACE | 53 ++++++++------ R/get_meeting_details.R |only R/get_meeting_participants.R |only R/list_meetings.R |only R/utils.R | 141 ++++++++++++++++++++++---------------- man/generate_query_params.Rd | 46 ++++++------ man/generate_url.Rd | 46 ++++++------ man/get_access_token.Rd | 38 +++++----- man/get_account_users.Rd | 66 ++++++++--------- man/get_meeting_details.Rd |only man/get_meeting_format_labels.Rd |only man/get_meeting_participants.Rd |only man/get_panelists.Rd | 70 +++++++++--------- man/get_registration_questions.Rd | 90 ++++++++++++------------ man/get_tracking_sources.Rd | 72 +++++++++---------- man/get_webinar_details.Rd | 70 +++++++++--------- man/get_webinar_participants.Rd | 70 +++++++++--------- man/get_webinar_polls.Rd | 70 +++++++++--------- man/get_webinar_qanda.Rd | 70 +++++++++--------- man/get_webinar_registrants.Rd | 90 ++++++++++++------------ man/list_meetings.Rd |only man/list_webinars.Rd | 72 +++++++++---------- man/zoom_api_request.Rd | 54 +++++++------- man/zoom_response_codes.Rd | 30 ++++---- 26 files changed, 637 insertions(+), 583 deletions(-)
Title: Calibration and Analysis of Radiocarbon Dates
Description: Enables the calibration and analysis of radiocarbon dates, often but not exclusively for the purposes of archaeological research. It includes functions not only for basic calibration, uncalibration, and plotting of one or more dates, but also a statistical framework for building demographic and related longitudinal inferences from aggregate radiocarbon date lists, including: Monte-Carlo simulation test (Timpson et al 2014 <doi:10.1016/j.jas.2014.08.011>), random mark permutation test (Crema et al 2016 <doi:10.1371/journal.pone.0154809>) and spatial permutation tests (Crema, Bevan, and Shennan 2017 <doi:10.1016/j.jas.2017.09.007>).
Author: Andrew Bevan [aut] ,
Enrico Crema [aut, cre] ,
R. Kyle Bocinsky [ctb],
Martin Hinz [ctb],
Philip Riris [ctb],
Fabio Silva [ctb]
Maintainer: Enrico Crema <enrico.crema@gmail.com>
Diff between rcarbon versions 1.5.1 dated 2023-08-24 and 1.5.2 dated 2025-07-28
DESCRIPTION | 16 +++---- MD5 | 100 ++++++++++++++++++++++---------------------- R/aggregation.R | 62 +++++++++++++-------------- R/calibration.R | 18 +++---- R/data.R | 4 - R/package-rcarbon.R | 6 +- R/plots.R | 58 ++++++++++++------------- R/tests.R | 60 +++++++++++++------------- R/utilities.R | 12 ++--- build/vignette.rds |binary inst/CITATION | 8 --- inst/doc/rcarbon.Rmd | 3 - inst/doc/rcarbon.html | 57 ++++++++++++------------- man/barCodes.Rd | 4 - man/binMed.Rd | 4 - man/binPrep.Rd | 12 ++--- man/binsense.Rd | 8 +-- man/calibrate.Rd | 8 +-- man/ckde.Rd | 8 +-- man/combine.Rd | 2 man/ewdates.Rd | 2 man/ewowin.Rd | 2 man/hpdi.Rd | 2 man/medCal.Rd | 2 man/mixCurves.Rd | 4 - man/modelTest.Rd | 32 +++++++------- man/multiplot.Rd | 2 man/p2pTest.Rd | 6 +- man/permTest.Rd | 10 ++-- man/plot.CalDates.Rd | 2 man/plot.CalGrid.Rd | 2 man/plot.CalSPD.Rd | 2 man/plot.SpdModelTest.Rd | 8 +-- man/plot.SpdPermTest.Rd | 12 ++--- man/plot.compositeKDE.Rd | 4 - man/plot.spatialTest.Rd | 2 man/plot.spdRC.Rd | 6 +- man/plot.stackCalSPD.Rd | 6 +- man/qCal.Rd | 2 man/rcarbon.Rd | 6 +- man/sampleDates.Rd | 4 - man/spd.Rd | 10 ++-- man/spd2rc.Rd | 2 man/spkde.Rd | 10 ++-- man/sptest.Rd | 4 - man/stackspd.Rd | 2 man/stkde.Rd | 10 ++-- man/summary.SpdModelTest.Rd | 4 - man/summary.SpdPermTest.Rd | 4 - man/thinDates.Rd | 2 vignettes/rcarbon.Rmd | 3 - 51 files changed, 308 insertions(+), 311 deletions(-)
Title: Tree Taper Curves and Sorting Based on 'TapeR'
Description: Providing new german-wide 'TapeR' Models and functions for their
evaluation. Included are the most common tree species in Germany (Norway
spruce, Scots pine, European larch, Douglas fir, Silver fir as well as
European beech, Common/Sessile oak and Red oak). Many other species are mapped
to them so that 36 tree species / groups can be processed. Single trees are
defined by species code, one or multiple diameters in arbitrary measuring
height and tree height. The functions then provide information on diameters
along the stem, bark thickness, height of diameters, volume of the total or
parts of the trunk and total and component above-ground biomass. It is also
possible to calculate assortments from the taper curves. Uncertainty
information is provided for diameter, volume and component biomass estimation.
Author: Christian Vonderach [aut, cre],
Edgar Kublin [aut],
Gerald Kaendler [aut]
Maintainer: Christian Vonderach <christian.vonderach@forst.bwl.de>
Diff between TapeS versions 0.13.4 dated 2025-07-23 and 0.14.1 dated 2025-07-28
DESCRIPTION | 6 LICENSE | 4 MD5 | 24 - NAMESPACE | 2 NEWS.md | 11 R/ParSort.r | 769 +++++++++++++++++++++++++------------------------- R/fnAssort.r |only R/tprAssortment.r | 68 +++- inst/doc/tapes.html | 12 man/fnMultipleFixL.Rd |only man/parSort-class.Rd | 9 man/parSort.Rd | 4 man/tprAssortment.Rd | 15 man/tprTrees-class.Rd | 6 14 files changed, 512 insertions(+), 418 deletions(-)
Title: Write Formatted Tables in Excel Workbooks
Description: For writing tables with custom formats in a Excel file ready to be distributed.
Author: Jesus Maria Rodriguez Rodriguez [aut],
Jesus Maria Rodriguez Rodriguez [cre]
Maintainer: Jesus Maria Rodriguez Rodriguez <jesusmro@gmail.com>
Diff between tablaxlsx versions 1.2.5 dated 2023-05-04 and 1.2.6 dated 2025-07-28
DESCRIPTION | 20 ++++++++++++++------ MD5 | 8 ++++---- man/bordear.Rd | 2 +- man/escribirTabla.Rd | 2 +- man/tablaxlsx.estilos.set.Rd | 2 +- 5 files changed, 21 insertions(+), 13 deletions(-)
Title: Recursive Partitioning for Structural Equation Models
Description: SEM Trees and SEM Forests -- an extension of model-based decision
trees and forests to Structural Equation Models (SEM). SEM trees hierarchically
split empirical data into homogeneous groups each sharing similar data patterns
with respect to a SEM by recursively selecting optimal predictors of these
differences. SEM forests are an extension of SEM trees. They are ensembles of
SEM trees each built on a random sample of the original data. By aggregating
over a forest, we obtain measures of variable importance that are more robust
than measures from single trees. A description of the method was published by
Brandmaier, von Oertzen, McArdle, & Lindenberger (2013) <doi:10.1037/a0030001>
and Arnold, Voelkle, & Brandmaier (2020) <doi:10.3389/fpsyg.2020.564403>.
Author: Andreas M. Brandmaier [aut, cre],
John J. Prindle [aut],
Manuel Arnold [aut],
Caspar J. Van Lissa [aut]
Maintainer: Andreas M. Brandmaier <andy@brandmaier.de>
Diff between semtree versions 0.9.20 dated 2024-04-08 and 0.9.22 dated 2025-07-28
semtree-0.9.20/semtree/R/crossvalidatedSplit.R |only semtree-0.9.22/semtree/DESCRIPTION | 12 semtree-0.9.22/semtree/MD5 | 209 ++-- semtree-0.9.22/semtree/NAMESPACE | 5 semtree-0.9.22/semtree/NEWS.md | 12 semtree-0.9.22/semtree/R/OpenMx_scores_input.R | 21 semtree-0.9.22/semtree/R/boruta.R | 285 +++++ semtree-0.9.22/semtree/R/checkControl.R | 6 semtree-0.9.22/semtree/R/checkModel.R | 3 semtree-0.9.22/semtree/R/coef.R | 14 semtree-0.9.22/semtree/R/conditional.R | 2 semtree-0.9.22/semtree/R/cvLikelihood.R | 14 semtree-0.9.22/semtree/R/evaluateDataLikelihood.R | 74 - semtree-0.9.22/semtree/R/evaluateTree.R | 25 semtree-0.9.22/semtree/R/evaluateTreeConditional.R | 6 semtree-0.9.22/semtree/R/evaluateTreeFocus.R | 4 semtree-0.9.22/semtree/R/fairSplit.R | 6 semtree-0.9.22/semtree/R/findDefinitionVariables.R | 14 semtree-0.9.22/semtree/R/findOtherSplits.R | 13 semtree-0.9.22/semtree/R/getExpectedCov.R | 41 semtree-0.9.22/semtree/R/getExpectedMean.R | 27 semtree-0.9.22/semtree/R/getHeight.R | 36 semtree-0.9.22/semtree/R/growTree.R | 62 + semtree-0.9.22/semtree/R/lavaan_casewise_loglik.R |only semtree-0.9.22/semtree/R/mergeVarimp.R |only semtree-0.9.22/semtree/R/render_tree.R | 61 - semtree-0.9.22/semtree/R/render_tree_recursively.R | 490 +++++----- semtree-0.9.22/semtree/R/semforest.R | 4 semtree-0.9.22/semtree/R/semtree.R | 47 semtree-0.9.22/semtree/R/semtree.control.R | 18 semtree-0.9.22/semtree/R/toLatex.semtree.R | 41 semtree-0.9.22/semtree/R/toTable.R | 217 ++-- semtree-0.9.22/semtree/R/ui.R | 8 semtree-0.9.22/semtree/R/varimp.R | 25 semtree-0.9.22/semtree/R/varimpFocus.R | 6 semtree-0.9.22/semtree/R/varimpTree.R | 15 semtree-0.9.22/semtree/R/zzz.R |only semtree-0.9.22/semtree/build/vignette.rds |binary semtree-0.9.22/semtree/inst/doc/constraints.R | 16 semtree-0.9.22/semtree/inst/doc/constraints.html | 202 ---- semtree-0.9.22/semtree/inst/doc/forests.html | 21 semtree-0.9.22/semtree/inst/doc/getting-started.R | 2 semtree-0.9.22/semtree/inst/doc/getting-started.html | 8 semtree-0.9.22/semtree/inst/doc/score-based-tests.R | 2 semtree-0.9.22/semtree/inst/doc/score-based-tests.Rmd | 2 semtree-0.9.22/semtree/inst/doc/score-based-tests.html | 16 semtree-0.9.22/semtree/inst/doc/semforest-focus.R | 2 semtree-0.9.22/semtree/inst/doc/semforest-focus.html | 28 semtree-0.9.22/semtree/man/biodiversity.Rd | 44 semtree-0.9.22/semtree/man/boruta.Rd |only semtree-0.9.22/semtree/man/coef.semtree.Rd | 36 semtree-0.9.22/semtree/man/computePval_maxLR.Rd | 80 - semtree-0.9.22/semtree/man/diversityMatrix.Rd | 36 semtree-0.9.22/semtree/man/evaluate.Rd | 68 - semtree-0.9.22/semtree/man/evaluateDataLikelihood.Rd | 77 - semtree-0.9.22/semtree/man/evaluateTree.Rd | 95 + semtree-0.9.22/semtree/man/findOtherSplits.Rd | 64 - semtree-0.9.22/semtree/man/fitSubmodels.Rd | 64 - semtree-0.9.22/semtree/man/getDepth.Rd | 44 semtree-0.9.22/semtree/man/getHeight.Rd | 46 semtree-0.9.22/semtree/man/getLeafs.Rd | 54 - semtree-0.9.22/semtree/man/getNodeById.Rd | 48 semtree-0.9.22/semtree/man/getNumNodes.Rd | 44 semtree-0.9.22/semtree/man/getParDiffForest.Rd | 70 - semtree-0.9.22/semtree/man/getParDiffTree.Rd | 68 - semtree-0.9.22/semtree/man/getTerminalNodes.Rd | 44 semtree-0.9.22/semtree/man/isLeaf.Rd | 44 semtree-0.9.22/semtree/man/kl.Rd | 46 semtree-0.9.22/semtree/man/lgcm.Rd | 36 semtree-0.9.22/semtree/man/merge.semforest.Rd | 58 - semtree-0.9.22/semtree/man/modelEstimates.Rd | 48 semtree-0.9.22/semtree/man/outliers.Rd | 50 - semtree-0.9.22/semtree/man/parameters.Rd | 80 - semtree-0.9.22/semtree/man/partialDependence.Rd | 106 +- semtree-0.9.22/semtree/man/partialDependence_data.Rd | 94 - semtree-0.9.22/semtree/man/partialDependence_growth.Rd | 126 +- semtree-0.9.22/semtree/man/plotParDiffForest.Rd | 84 - semtree-0.9.22/semtree/man/plotParDiffTree.Rd | 84 - semtree-0.9.22/semtree/man/plotTreeStructure.Rd | 52 - semtree-0.9.22/semtree/man/predict.semforest.Rd | 54 - semtree-0.9.22/semtree/man/proximity.Rd | 96 - semtree-0.9.22/semtree/man/prune.Rd | 84 - semtree-0.9.22/semtree/man/se.Rd | 80 - semtree-0.9.22/semtree/man/semforest.Rd | 110 +- semtree-0.9.22/semtree/man/semforest.control.Rd | 80 - semtree-0.9.22/semtree/man/semtree.Rd | 232 ++-- semtree-0.9.22/semtree/man/semtree.constraints.Rd | 86 - semtree-0.9.22/semtree/man/semtree.control.Rd | 343 +++---- semtree-0.9.22/semtree/man/subforest.Rd | 62 - semtree-0.9.22/semtree/man/subtree.Rd | 84 - semtree-0.9.22/semtree/man/toTable.Rd | 56 - semtree-0.9.22/semtree/man/varimp.Rd | 100 +- semtree-0.9.22/semtree/tests/control.R | 13 semtree-0.9.22/semtree/tests/lavaan.R | 4 semtree-0.9.22/semtree/tests/testthat/Rplots.pdf |only semtree-0.9.22/semtree/tests/testthat/boruta_one_indicator.R |only semtree-0.9.22/semtree/tests/testthat/fair.R | 3 semtree-0.9.22/semtree/tests/testthat/forced_splitl.R |only semtree-0.9.22/semtree/tests/testthat/prediction.R | 19 semtree-0.9.22/semtree/tests/testthat/scores.R | 3 semtree-0.9.22/semtree/tests/testthat/test-dummy-split.R | 1 semtree-0.9.22/semtree/tests/testthat/test-forest-focus.R | 207 ++-- semtree-0.9.22/semtree/tests/testthat/test-likelihood-lavaan.R |only semtree-0.9.22/semtree/tests/testthat/test-score-minN.R | 4 semtree-0.9.22/semtree/tests/testthat/test-scores.R |only semtree-0.9.22/semtree/tests/testthat/test-single-predictor.R |only semtree-0.9.22/semtree/tests/testthat/test-vim.R | 4 semtree-0.9.22/semtree/tests/testthat/test-vim2.R | 138 +- semtree-0.9.22/semtree/tests/testthat/test_boruta.R | 4 semtree-0.9.22/semtree/tests/testthat/testthat.R | 2 semtree-0.9.22/semtree/vignettes/score-based-tests.Rmd | 2 111 files changed, 3152 insertions(+), 2731 deletions(-)
Title: R Interface to 'Quarto' Markdown Publishing System
Description: Convert R Markdown documents and 'Jupyter' notebooks to a
variety of output formats using 'Quarto'.
Author: JJ Allaire [aut] ,
Christophe Dervieux [cre, aut] ,
Posit Software, PBC [cph, fnd],
Gordon Woodhull [ctb]
Maintainer: Christophe Dervieux <cderv@posit.co>
Diff between quarto versions 1.4.4 dated 2024-07-20 and 1.5.0 dated 2025-07-28
quarto-1.4.4/quarto/tests/testthat/helper.R |only quarto-1.5.0/quarto/DESCRIPTION | 33 quarto-1.5.0/quarto/LICENSE |only quarto-1.5.0/quarto/MD5 | 234 ++ quarto-1.5.0/quarto/NAMESPACE | 39 quarto-1.5.0/quarto/NEWS.md | 270 ++- quarto-1.5.0/quarto/R/aaa.R | 15 quarto-1.5.0/quarto/R/add.R | 118 - quarto-1.5.0/quarto/R/backports.R | 6 quarto-1.5.0/quarto/R/blog.R |only quarto-1.5.0/quarto/R/convert-bookdown.R |only quarto-1.5.0/quarto/R/create.R | 184 +- quarto-1.5.0/quarto/R/daemon.R | 406 ++-- quarto-1.5.0/quarto/R/inspect.R | 106 - quarto-1.5.0/quarto/R/list.R |only quarto-1.5.0/quarto/R/metadata.R |only quarto-1.5.0/quarto/R/parameters.R |only quarto-1.5.0/quarto/R/preview.R | 192 +- quarto-1.5.0/quarto/R/publish.R | 817 +++++----- quarto-1.5.0/quarto/R/quarto-args.R | 43 quarto-1.5.0/quarto/R/quarto-package.R | 25 quarto-1.5.0/quarto/R/quarto.R | 533 ++++-- quarto-1.5.0/quarto/R/r-logging.R |only quarto-1.5.0/quarto/R/remove.R |only quarto-1.5.0/quarto/R/render.R | 425 ++--- quarto-1.5.0/quarto/R/run.R | 84 - 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Title: Generalized Laplace Mixed-Effects Models
Description: Provides functions to fit linear mixed models
based on convolutions of the generalized Laplace (GL) distribution.
The GL mixed-effects model includes four special cases with normal random
effects and normal errors (NN), normal random effects and Laplace errors (NL),
Laplace random effects and normal errors (LN), and Laplace random effects
and Laplace errors (LL). The methods are described in Geraci and Farcomeni (2020,
Statistical Methods in Medical Research) <doi:10.1177/0962280220903763>.
Author: Marco Geraci [aut, cph, cre] ,
Alessio Farcomeni [ctb]
Maintainer: Marco Geraci <marco.geraci@uniroma1.it>
Diff between nlmm versions 1.1.0 dated 2023-11-24 and 1.1.1 dated 2025-07-28
DESCRIPTION | 11 ++++++----- MD5 | 14 +++++++------- NEWS | 6 ++++++ R/nlmm.R | 4 ++-- man/generate.data.Rd | 2 +- man/nlmm-package.Rd | 4 ++-- man/nlmm.Rd | 4 ++-- man/nlmmControl.Rd | 8 ++++---- 8 files changed, 30 insertions(+), 23 deletions(-)
Title: Simulate with 'mrgsolve' in Parallel
Description: Simulation from an 'mrgsolve'
<https://cran.r-project.org/package=mrgsolve> model using a parallel backend.
Input data sets are split (chunked) and simulated in parallel using
mclapply() or future_lapply()
<https://cran.r-project.org/package=future.apply>.
Author: Kyle Baron [aut, cre]
Maintainer: Kyle Baron <kylebtwin@imap.cc>
Diff between mrgsim.parallel versions 0.2.1 dated 2022-03-17 and 0.3.0 dated 2025-07-28
DESCRIPTION | 13 MD5 | 40 +- NAMESPACE | 1 R/AAA.R | 2 R/data_parallel.R | 7 R/locker.R | 2 R/mrgsim-bg.R | 41 +- R/stream-write.R | 10 R/stream.R | 12 build/vignette.rds |binary inst/doc/mrgsim.parallel.R | 30 +- inst/doc/mrgsim.parallel.html | 597 ++++++++++++++++++++++++++++++------------ man/bg_mrgsim_d.Rd | 16 - man/format_is_set.Rd | 2 man/format_stream.Rd | 8 man/parallel_mrgsim_d.Rd | 7 man/parallel_mrgsim_ei.Rd | 7 man/write_stream.Rd | 3 tests/testthat/test-bg.R | 83 +++++ tests/testthat/test-locker.R | 2 tests/testthat/test-stream.R | 14 21 files changed, 640 insertions(+), 257 deletions(-)
More information about mrgsim.parallel at CRAN
Permanent link
Title: Harmonised Index of Consumer Prices
Description: The Harmonised Index of Consumer Prices (HICP) is the key economic figure to measure inflation in the euro area.
The methodology underlying the HICP is documented in the HICP Methodological Manual (<https://ec.europa.eu/eurostat/web/products-manuals-and-guidelines/w/ks-gq-24-003>).
Based on the manual, this package provides functions to access and work with HICP data from Eurostat's public database (<https://ec.europa.eu/eurostat/data/database>).
Author: Sebastian Weinand [aut, cre]
Maintainer: Sebastian Weinand <sebastian.weinand@ec.europa.eu>
Diff between hicp versions 0.6.1 dated 2024-07-23 and 1.0.0 dated 2025-07-28
hicp-0.6.1/hicp/R/coicop.bundles.r |only hicp-0.6.1/hicp/R/coicop.relatives.r |only hicp-0.6.1/hicp/R/coicop.tree.r |only hicp-0.6.1/hicp/man/coicop.bundles.Rd |only hicp-0.6.1/hicp/man/coicop.relatives.Rd |only hicp-0.6.1/hicp/man/coicop.tree.Rd |only hicp-0.6.1/hicp/tests/testthat/test_coicop.bundles.r |only hicp-0.6.1/hicp/tests/testthat/test_coicop.relatives.r |only hicp-0.6.1/hicp/tests/testthat/test_coicop.tree.r |only hicp-1.0.0/hicp/DESCRIPTION | 8 hicp-1.0.0/hicp/MD5 | 83 - hicp-1.0.0/hicp/NAMESPACE | 9 hicp-1.0.0/hicp/NEWS.md | 124 +- hicp-1.0.0/hicp/R/chaining.R | 408 +++++-- hicp-1.0.0/hicp/R/coicop.r |only hicp-1.0.0/hicp/R/helper.r |only hicp-1.0.0/hicp/R/hicp.data.r | 66 - hicp-1.0.0/hicp/R/index.aggregation.r | 715 +++++++----- hicp-1.0.0/hicp/R/input.checks.R | 94 + hicp-1.0.0/hicp/R/linking.r | 240 ++-- hicp-1.0.0/hicp/R/rates.r | 241 ++-- hicp-1.0.0/hicp/R/sysdata.rda |binary hicp-1.0.0/hicp/R/tree.r |only hicp-1.0.0/hicp/R/zzz.r | 12 hicp-1.0.0/hicp/build/vignette.rds |binary hicp-1.0.0/hicp/inst/doc/hicp_intro.R | 226 ++-- hicp-1.0.0/hicp/inst/doc/hicp_intro.Rmd | 294 +++-- hicp-1.0.0/hicp/inst/doc/hicp_intro.html | 891 ++++++++-------- hicp-1.0.0/hicp/man/chaining.Rd | 76 - hicp-1.0.0/hicp/man/coicop.Rd |only hicp-1.0.0/hicp/man/countries.Rd | 2 hicp-1.0.0/hicp/man/hicp.data.Rd | 46 hicp-1.0.0/hicp/man/index.aggregation.Rd | 190 +-- hicp-1.0.0/hicp/man/linking.Rd | 30 hicp-1.0.0/hicp/man/rates.Rd | 85 - hicp-1.0.0/hicp/man/tree.Rd |only hicp-1.0.0/hicp/tests/testthat/test_chaining.R | 677 +++++++++++- hicp-1.0.0/hicp/tests/testthat/test_coicop.r |only hicp-1.0.0/hicp/tests/testthat/test_helper.r |only hicp-1.0.0/hicp/tests/testthat/test_hicp.data.r | 13 hicp-1.0.0/hicp/tests/testthat/test_index.aggregation.r | 351 ++++-- hicp-1.0.0/hicp/tests/testthat/test_input.checks.R | 116 +- hicp-1.0.0/hicp/tests/testthat/test_linking.r | 208 +++ hicp-1.0.0/hicp/tests/testthat/test_rates.r | 472 +++++++- hicp-1.0.0/hicp/tests/testthat/test_tree.r |only hicp-1.0.0/hicp/tests/testthat/testdata |only hicp-1.0.0/hicp/vignettes/data |only hicp-1.0.0/hicp/vignettes/hicp_intro.Rmd | 294 +++-- 48 files changed, 4274 insertions(+), 1697 deletions(-)
Title: Empirical Mode Decomposition for Cyclostratigraphy
Description: Tools to apply Ensemble Empirical Mode
Decomposition (EEMD) for cyclostratigraphy purposes. Mainly: a new
algorithm, extricate, that performs EEMD in seconds, a linear interpolation
algorithm using the greatest rational common divisor of depth or time,
different algorithms to compute instantaneous amplitude, frequency and
ratios of frequencies, and functions to verify and visualise the outputs.
The functions were developed during the CRASH project (Checking the
Reproducibility of Astrochronology in the Hauterivian). When using for
publication please cite Wouters, S., Crucifix, M., Sinnesael, M., Da Silva,
A.C., Zeeden, C., Zivanovic, M., Boulvain, F., Devleeschouwer, X., 2022,
"A decomposition approach to cyclostratigraphic signal processing".
Earth-Science Reviews 225 (103894).
<doi:10.1016/j.earscirev.2021.103894>.
Author: Sebastien Wouters [aut, cre]
Maintainer: Sebastien Wouters <wouterseb@gmail.com>
Diff between DecomposeR versions 1.0.6 dated 2023-02-02 and 1.0.7 dated 2025-07-28
DESCRIPTION | 12 ++++++++---- MD5 | 14 +++++++------- NEWS | 5 +++++ R/DecomposeR.R | 2 +- R/inst.ratio.R | 2 +- build/partial.rdb |binary man/DecomposeR.Rd | 2 +- man/inst.ratio.Rd | 2 +- 8 files changed, 24 insertions(+), 15 deletions(-)
Title: Equivalence Testing Functions
Description: Contains several functions for equivalence testing and practical significance testing. First, the tsti() command provides an automatic computation of three-sided testing results for a given estimate, standard error, and region of practical equivalence. For details, see Goeman, Solari, & Stijnen (2010) <doi:10.1002/sim.4002> and Isager & Fitzgerald (2024) <doi:10.31234/osf.io/8y925>. Second, the lddtest() command performs logarithmic density discontinuity equivalence testing for regression discontinuity designs. For reference, see Fitzgerald (2025) <doi:10.31222/osf.io/2dgrp_v1>.
Author: Jack Fitzgerald [aut, cre],
Peder Isager [ctb]
Maintainer: Jack Fitzgerald <j.f.fitzgerald@vu.nl>
This is a re-admission after prior archival of version 0.1.0 dated 2025-06-19
Diff between eqtesting versions 0.1.0 dated 2025-06-19 and 0.1.1 dated 2025-07-28
DESCRIPTION | 9 ++++----- MD5 | 9 ++++++--- NAMESPACE | 1 - R/DCdensity.R |only R/kernelwts.R |only README.md |only man/tst.Rd | 2 +- 7 files changed, 11 insertions(+), 10 deletions(-)
Title: Interface to Chromosome Counts Database API
Description: A programmatic interface to the Chromosome Counts Database
(<https://ccdb.tau.ac.il/>), Rice et al. (2014) <doi:10.1111/nph.13191>.
This package is part of the 'ROpenSci' suite (<https://ropensci.org>).
Author: Matthew Pennell [aut] ,
Paula Andrea Martinez [aut] ,
Karl W Broman [aut, cre]
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between chromer versions 0.8 dated 2024-03-27 and 0.10 dated 2025-07-28
DESCRIPTION | 20 +++++++++++--------- MD5 | 10 +++++----- NEWS.md | 10 +++++++++- R/ccdb_down.R | 2 +- R/counts.R | 2 +- README.md | 4 ++-- 6 files changed, 29 insertions(+), 19 deletions(-)
Title: Function Collection Related to Plotting and Hydrology
Description: Draw horizontal histograms, color scattered points by 3rd dimension,
enhance date- and log-axis plots, zoom in X11 graphics, trace errors and warnings,
use the unit hydrograph in a linear storage cascade, convert lists to data.frames and arrays,
fit multiple functions.
Author: Berry Boessenkool [aut, cre]
Maintainer: Berry Boessenkool <berry-b@gmx.de>
Diff between berryFunctions versions 1.22.5 dated 2024-02-16 and 1.22.13 dated 2025-07-28
DESCRIPTION | 18 MD5 | 60 - NAMESPACE | 4 R/bpairs.R |only R/classify.R | 2 R/colPoints.R | 6 R/count.R |only R/dataStr.R | 3 R/l2array.R | 2 R/linLogTrans.R | 3 R/lsc.R | 2 R/pal.R | 4 R/sumatraInitialize.R | 8 R/sumatraPaths.R |only R/traceCall.R | 1 R/unitHydrograph.R | 2 build/vignette.rds |binary inst/doc/berryFunctions.R | 478 +++++------ inst/doc/berryFunctions.html | 1464 +++++++++++++++++------------------ inst/extdata/SumatraPDF-settings.txt | 66 - man/berryFunctions-package.Rd | 5 man/bpairs.Rd |only man/catPal.Rd | 2 man/classify.Rd | 2 man/colPoints.Rd | 2 man/count.Rd |only man/dataStr.Rd | 2 man/l2array.Rd | 2 man/linLogTrans.Rd | 3 man/lsc.Rd | 2 man/showPal.Rd | 2 man/sumatraInitialize.Rd | 5 man/sumatraPaths.Rd |only man/unitHydrograph.Rd | 2 34 files changed, 1061 insertions(+), 1091 deletions(-)
More information about berryFunctions at CRAN
Permanent link
Title: Visualization of BART and BARP using SHAP
Description: Complex machine learning models are often difficult to interpret. Shapley values serve as a powerful tool to understand and explain why a model makes a particular prediction. This package computes variable contributions using permutation-based Shapley values for Bayesian Additive Regression Trees (BART) and its extension with Post-Stratification (BARP). The permutation-based SHAP method proposed by Strumbel and Kononenko (2014) <doi:10.1007/s10115-013-0679-x> is grounded in data obtained via MCMC sampling. Similar to the BART model introduced by Chipman, George, and McCulloch (2010) <doi:10.1214/09-AOAS285>, this package leverages Bayesian posterior samples generated during model estimation, allowing variable contributions to be computed without requiring additional sampling. The BART model is designed to work with the following R packages: 'BART' <doi:10.18637/jss.v097.i01>, 'bartMachine' <doi:10.18637/jss.v070.i04>, and 'dbarts' <https://CRAN.R-project.org/ [...truncated...]
Author: Dong-eun Lee [aut, cre],
Eun-Kyung Lee [aut]
Maintainer: Dong-eun Lee <ldongeun.leel@gmail.com>
Diff between bartXViz versions 1.0.6 dated 2025-07-18 and 1.0.8 dated 2025-07-28
DESCRIPTION | 10 - MD5 | 60 +++---- R/BARP_barp.R | 17 +- R/bartmachine_data_preprocessing.R | 2 R/decision_plot.R | 103 ++++++------ R/explain.barp.R | 36 ++-- R/explain.dbart.R | 48 +++-- R/explain_bartMachine.R | 60 ++++--- R/explain_wbart.R | 38 ++-- R/fastshap_explain_fastshap_modified.R | 36 ++-- R/plot.explainbarp.R | 201 +++++++++++++----------- R/plot_default.R | 218 ++++++++++++++------------ R/plot_explainBART.R | 268 +++++++++++++++++---------------- R/plot_explainbartMachine.R | 10 + R/plot_func.R | 28 +-- R/waterfall_plot.R | 162 +++++++++---------- data/cces_30_df.RData |only data/poststrat_30.RData |only man/Explain.barp.Rd | 2 man/Explain.bart.Rd | 16 - man/Explain.bartMachine.Rd | 16 - man/Explain.default.Rd | 5 man/Explain.wbart.Rd | 16 - man/barps.Rd | 4 man/cces_30_df.Rd |only man/census06.Rd | 4 man/decision_plot.Rd | 16 - man/plot.Explain.Rd | 5 man/plot.ExplainBART.Rd | 17 +- man/plot.Explainbarp.Rd | 5 man/plot.ExplainbartMachine.Rd | 5 man/poststrat_30.Rd |only man/waterfall_plot.Rd | 18 +- 33 files changed, 761 insertions(+), 665 deletions(-)
Title: Split-Population Duration (Cure) Regression
Description: An implementation of split-population duration regression models.
Unlike regular duration models, split-population duration models are
mixture models that accommodate the presence of a sub-population that is
not at risk for failure, e.g. cancer patients who have been cured by
treatment. This package implements Weibull and Loglogistic forms for the
duration component, and focuses on data with time-varying covariates.
These models were originally formulated in Boag (1949) and Berkson and Gage
(1952), and extended in Schmidt and Witte (1989).
Author: Andreas Beger [aut, cre] ,
Daina Chiba [aut] ,
Daniel W. Hill, Jr. [aut],
Nils W. Metternich [aut] ,
Shahryar Minhas [aut],
Michael D. Ward [aut, cph]
Maintainer: Andreas Beger <adbeger@gmail.com>
Diff between spduration versions 0.17.2 dated 2024-02-08 and 0.17.3 dated 2025-07-28
DESCRIPTION | 22 +++++++++++++--------- MD5 | 24 ++++++++++++------------ NEWS.md | 6 +++++- R/forecast.R | 2 +- README.md | 10 +++++----- build/vignette.rds |binary inst/doc/introduction.Rmd | 2 +- inst/doc/introduction.html | 31 ++++++++++++++++--------------- man/figures/README-unnamed-chunk-2-1.png |binary man/forecast.spdur.Rd | 2 +- man/spduration.Rd | 1 + vignettes/introduction.Rmd | 2 +- vignettes/spdur.bib | 2 +- 13 files changed, 57 insertions(+), 47 deletions(-)
Title: Permutation Testing Network Module Preservation Across Datasets
Description: Functions for assessing the replication/preservation of a network
module's topology across datasets through permutation testing; Ritchie et al.
(2015) <doi: 10.1016/j.cels.2016.06.012>.
Author: Scott Ritchie [aut, cre]
Maintainer: Scott Ritchie <sritchie73@gmail.com>
Diff between NetRep versions 1.2.7 dated 2023-08-19 and 1.2.8 dated 2025-07-28
ChangeLog | 14 ++ DESCRIPTION | 8 - MD5 | 44 +++--- R/check-user-input.R | 4 R/modulePreservation.R | 14 +- R/networkProperties.R | 14 +- R/orderNodes.R | 4 R/orderSamples.R | 4 R/plot-module.R | 12 - R/plot-topology.R | 32 ++-- R/pperm.R | 2 R/utils.R | 2 build/vignette.rds |binary inst/doc/NetRep.R | 128 +++++++++--------- inst/doc/NetRep.html | 314 ++++++++++++++++++++++------------------------ man/NetRep.Rd | 2 man/modulePreservation.Rd | 4 man/networkProperties.Rd | 6 man/nodeOrder.Rd | 2 man/permutationTest.Rd | 2 man/plotModule.Rd | 8 - man/plotTopology.Rd | 10 - man/sampleOrder.Rd | 2 23 files changed, 320 insertions(+), 312 deletions(-)
Title: Applies Multiclass AdaBoost.M1, SAMME and Bagging
Description: It implements Freund and Schapire's Adaboost.M1 algorithm and Breiman's Bagging
algorithm using classification trees as individual classifiers. Once these classifiers have been
trained, they can be used to predict on new data. Also, cross validation estimation of the error can
be done. Since version 2.0 the function margins() is available to calculate the margins for these
classifiers. Also a higher flexibility is achieved giving access to the rpart.control() argument
of 'rpart'. Four important new features were introduced on version 3.0, AdaBoost-SAMME (Zhu
et al., 2009) is implemented and a new function errorevol() shows the error of the ensembles as
a function of the number of iterations. In addition, the ensembles can be pruned using the option
'newmfinal' in the predict.bagging() and predict.boosting() functions and the posterior probability of
each class for observations can be obtained. Version 3.1 modifies the relative importance measure
to take into account the gain of the Gin [...truncated...]
Author: Esteban Alfaro [aut, cre],
Matias Gamez [aut],
Noelia Garcia [aut],
L. Guo [ctb],
A. Albano [ctb],
M. Sciandra [ctb],
A. Plai [ctb]
Maintainer: Esteban Alfaro <Esteban.Alfaro@uclm.es>
Diff between adabag versions 5.0 dated 2023-05-31 and 5.1 dated 2025-07-28
DESCRIPTION | 25 +++++++++++++++++++------ MD5 | 4 ++-- man/autoprune.rd | 2 +- 3 files changed, 22 insertions(+), 9 deletions(-)
Title: Spatial Stochastic Frontier Analysis
Description: Spatial Stochastic Frontier Analysis (SSFA) is an original method for controlling the spatial heterogeneity in Stochastic Frontier Analysis (SFA) models, for cross-sectional data, by splitting the inefficiency term into three terms: the first one related to spatial peculiarities of the territory in which each single unit operates, the second one related to the specific production features and the third one representing the error term.
Author: Elisa Fusco [aut, cre],
Francesco Vidoli [aut]
Maintainer: Elisa Fusco <fusco_elisa@libero.it>
Diff between ssfa versions 1.2.2 dated 2023-08-28 and 1.2.3 dated 2025-07-28
DESCRIPTION | 18 ++- MD5 | 12 +- build/vignette.rds |binary inst/doc/ssfavignette.R | 272 +++++++++++++++++++++++----------------------- inst/doc/ssfavignette.pdf |binary man/plot_moran.Rd | 88 +++++++------- man/ssfa.Rd | 150 ++++++++++++------------- 7 files changed, 274 insertions(+), 266 deletions(-)
Title: Phenology Modelling of Thaumetopoea Processionea
Description: Methods to calculate and present 'PHENTHAUproc', an early warning and decision support system for hazard assessment and control of oak processionary moth (OPM) using local and spatial temperature data. It was created by Halbig et al. 2024 (<doi:10.1016/j.foreco.2023.121525>) at FVA (<https://www.fva-bw.de/en/homepage/>) Forest Research Institute Baden-Wuerttemberg, Germany and at BOKU - University of Natural Ressources and Life Sciences, Vienna, Austria.
Author: Lorenz Bachfischer [aut, cre],
Department of Forest Protection, FVA [fnd]
Maintainer: Lorenz Bachfischer <lorenz.bachfischer@posteo.de>
Diff between PHENTHAUproc versions 1.1 dated 2024-06-12 and 1.1.1 dated 2025-07-28
PHENTHAUproc-1.1.1/PHENTHAUproc/DESCRIPTION | 8 PHENTHAUproc-1.1.1/PHENTHAUproc/MD5 | 94 +- PHENTHAUproc-1.1.1/PHENTHAUproc/NAMESPACE | 28 PHENTHAUproc-1.1.1/PHENTHAUproc/NEWS.md | 33 PHENTHAUproc-1.1.1/PHENTHAUproc/R/calc_mean.R | 50 + PHENTHAUproc-1.1.1/PHENTHAUproc/R/plot_station_step.R | 2 PHENTHAUproc-1.1.1/PHENTHAUproc/README.md | 40 - PHENTHAUproc-1.1.1/PHENTHAUproc/build/vignette.rds |binary PHENTHAUproc-1.1.1/PHENTHAUproc/inst/doc/PHENTHAUproc.html | 22 PHENTHAUproc-1.1.1/PHENTHAUproc/man/calc_baskerville.Rd | 64 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/calc_degreedays.Rd | 68 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/calc_first.Rd | 50 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/calc_last.Rd | 52 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/calc_mean.Rd | 52 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/calc_mortality.Rd | 66 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/calc_phenology.Rd | 68 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/calc_sumefftemp.Rd | 110 +- PHENTHAUproc-1.1.1/PHENTHAUproc/man/call_function.Rd | 70 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/check_data_with_params.Rd | 70 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/check_dimension_and_time.Rd | 66 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/convert_df_to_srl.Rd | 72 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/convert_doy_to_logical.Rd | 68 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/convert_dwd_to_phenthau.Rd | 64 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/convert_hour_to_meanminmax.Rd | 54 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/convert_logical_to_doy.Rd | 78 +- PHENTHAUproc-1.1.1/PHENTHAUproc/man/get_date.Rd | 68 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/get_formalArgs.Rd | 64 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/get_legend.Rd | 62 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/get_time.Rd | 70 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/load_test.Rd | 64 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/load_test_bs.Rd | 24 PHENTHAUproc-1.1.1/PHENTHAUproc/man/load_test_srl_hour.Rd | 24 PHENTHAUproc-1.1.1/PHENTHAUproc/man/local_daily.Rd | 66 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/local_hourly.Rd | 62 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/mortality.Rd | 98 +- PHENTHAUproc-1.1.1/PHENTHAUproc/man/parameter.Rd | 168 ++-- PHENTHAUproc-1.1.1/PHENTHAUproc/man/phenology.Rd | 202 ++--- PHENTHAUproc-1.1.1/PHENTHAUproc/man/phenthau.Rd | 386 +++++----- PHENTHAUproc-1.1.1/PHENTHAUproc/man/plot_date.Rd | 72 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/plot_stages.Rd | 70 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/plot_station_step.Rd | 60 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/regional.Rd | 68 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/remove_false.Rd | 64 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/set_attributes.Rd | 64 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/subset_time.Rd | 70 - PHENTHAUproc-1.1.1/PHENTHAUproc/man/timename.Rd | 68 - PHENTHAUproc-1.1/PHENTHAUproc/R/data_budswelling.R |only PHENTHAUproc-1.1/PHENTHAUproc/R/data_regional_hour.R |only PHENTHAUproc-1.1/PHENTHAUproc/man/budswelling.Rd |only PHENTHAUproc-1.1/PHENTHAUproc/man/regional_hour.Rd |only 50 files changed, 1638 insertions(+), 1605 deletions(-)
Title: Streamlined Export of Graphs and Data Tables
Description: Easily export 'R' graphs and statistical output to 'Microsoft
Office' / 'LibreOffice', 'Latex' and 'HTML' Documents, using sensible defaults
that result in publication-quality output with simple, straightforward commands.
Output to 'Microsoft Office' is in editable 'DrawingML' vector format for
graphs, and can use corporate template documents for styling. This enables
the production of standardized reports and also allows for manual tidy-up
of the layout of 'R' graphs in 'Powerpoint' before final publication. Export
of graphs is flexible, and functions enable the currently showing R graph
or the currently showing 'R' stats object to be exported, but also allow the
graphical or tabular output to be passed as objects. The package relies on package
'officer' for export to 'Office' documents,and output files are also fully compatible
with 'LibreOffice'. Base 'R', 'ggplot2' and 'lattice' plots are supported, as
well as a wide variety of 'R' stats objects, via wrappers to xtable(), broom::ti [...truncated...]
Author: Tom Wenseleers [aut, cre],
Christophe Vanderaa [aut]
Maintainer: Tom Wenseleers <tom.wenseleers@kuleuven.be>
Diff between export versions 0.3.0 dated 2022-12-07 and 0.3.1 dated 2025-07-28
export-0.3.0/export/TODO |only export-0.3.1/export/DESCRIPTION | 15 +-- export-0.3.1/export/MD5 | 27 ++--- export-0.3.1/export/NAMESPACE | 2 export-0.3.1/export/NEWS.md | 11 ++ export-0.3.1/export/R/graph2office.R | 124 +++++++++++++++------------ export-0.3.1/export/R/rgl2bitmap.R | 11 +- export-0.3.1/export/R/table2office.R | 6 - export-0.3.1/export/R/table2spreadsheet.R | 6 - export-0.3.1/export/R/table2tex.R | 2 export-0.3.1/export/README.md | 6 - export-0.3.1/export/man/graph2office.Rd | 2 export-0.3.1/export/man/table2office.Rd | 6 - export-0.3.1/export/man/table2spreadsheet.Rd | 6 - export-0.3.1/export/man/table2tex.Rd | 2 15 files changed, 123 insertions(+), 103 deletions(-)
Title: Read and Write Standard 'C' Types from Files, Connections and
Raw Vectors
Description: Interacting with binary files can be difficult because R's types
are a subset of what is generally supported by 'C'. This package provides a
suite of functions for reading and writing binary data (with files, connections,
and raw vectors) using 'C' type descriptions. These functions convert data
between 'C' types and R types while checking for values outside the
type limits, 'NA' values, etc.
Author: Mike Cheng [aut, cre, cph],
Anne Fu [ctb]
Maintainer: Mike Cheng <mikefc@coolbutuseless.com>
Diff between ctypesio versions 0.1.2 dated 2025-01-18 and 0.1.3 dated 2025-07-28
DESCRIPTION | 9 +++++---- LICENSE | 2 +- MD5 | 13 +++++++------ NEWS.md | 9 ++++++++- R/write-utf8.R | 16 ++++++++++++---- build/vignette.rds |binary man/write_utf8.Rd | 8 ++++++-- tests/testthat/test-raw-with-attributes.R |only 8 files changed, 39 insertions(+), 18 deletions(-)
Title: Simulation and Resampling Methods for Epistemic Fuzzy Data
Description: Random simulations of fuzzy numbers are still a challenging problem. The aim of this package is to provide the respective
procedures to simulate fuzzy random variables, especially in the case of the piecewise linear fuzzy numbers (PLFNs,
see Coroianua et al. (2013) <doi:10.1016/j.fss.2013.02.005> for the further details).
Additionally, the special resampling algorithms known as the epistemic bootstrap are provided (see Grzegorzewski and Romaniuk
(2022) <doi:10.34768/amcs-2022-0021>, Grzegorzewski and Romaniuk (2022) <doi:10.1007/978-3-031-08974-9_39>,
Romaniuk et al. (2024) <doi:10.32614/RJ-2024-016>)
together with the functions to apply statistical tests and estimate various characteristics based on the epistemic bootstrap.
The package also includes real-life datasets of epistemic fuzzy triangular and trapezoidal numbers.
The fuzzy numbers used in this package are consistent with the 'FuzzyNumbers' package.
Author: Maciej Romaniuk [cre, aut] ,
Przemyslaw Grzegorzewski [aut] ,
Abbas Parchami [aut] ,
Luis Carvalho [ctb, cph]
Maintainer: Maciej Romaniuk <mroman@ibspan.waw.pl>
Diff between FuzzySimRes versions 0.4.5 dated 2025-05-30 and 0.4.7 dated 2025-07-28
DESCRIPTION | 8 ++++---- MD5 | 10 ++++++---- R/data.R | 19 +++++++++++++++++++ README.md | 32 ++++++++++++++++++++++++-------- build/vignette.rds |binary data/cheeseQualityData.rda |only man/cheeseQualityData.Rd |only 7 files changed, 53 insertions(+), 16 deletions(-)
Title: Extreme Value Statistics and Quantile Estimation
Description: Fit, plot and compare several (extreme value) distribution functions.
Compute (truncated) distribution quantile estimates and plot return periods on a linear scale.
On the fitting method, see Asquith (2011): Distributional Analysis with L-moment Statistics [...] ISBN 1463508417.
Author: Berry Boessenkool [aut, cre]
Maintainer: Berry Boessenkool <berry-b@gmx.de>
Diff between extremeStat versions 1.5.9 dated 2024-01-13 and 1.5.11 dated 2025-07-28
DESCRIPTION | 16 +- MD5 | 34 ++--- R/distLquantile.R | 4 R/distLweights.R | 2 R/plotLexBoot.R | 2 R/plotLextreme.R | 2 R/plotLfit.R | 8 - R/printL.R | 2 build/vignette.rds |binary inst/doc/extremeStat.R | 30 ++--- inst/doc/extremeStat.html | 34 ++--- man/distLquantile.Rd | 4 man/distLweights.Rd | 2 man/extremeStat-package.Rd | 6 - man/plotLexBoot.Rd | 2 man/plotLextreme.Rd | 256 ++++++++++++++++++++++----------------------- man/plotLfit.Rd | 6 - man/printL.Rd | 2 18 files changed, 209 insertions(+), 203 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-11-21 1.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-06-21 1.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-09-12 1.2.7
Title: Relevant Component Analysis for Supervised Distance Metric
Learning
Description: Relevant Component Analysis (RCA) tries to find a linear
transformation of the feature space such that the effect of irrelevant
variability is reduced in the transformed space.
Author: Nan Xiao [aut, cre, cph]
Maintainer: Nan Xiao <me@nanx.me>
Diff between RECA versions 1.7 dated 2019-05-17 and 1.7.1 dated 2025-07-28
RECA-1.7.1/RECA/DESCRIPTION | 18 +-- RECA-1.7.1/RECA/MD5 | 13 +- RECA-1.7.1/RECA/NEWS.md |only RECA-1.7.1/RECA/R/rca.R | 167 +++++++++++++++++------------------- RECA-1.7.1/RECA/README.md | 19 ++-- RECA-1.7.1/RECA/man/RECA-package.Rd | 8 - RECA-1.7.1/RECA/man/figures |only RECA-1.7.1/RECA/man/rca.Rd | 60 ++++++------ RECA-1.7/RECA/LICENSE |only 9 files changed, 141 insertions(+), 144 deletions(-)
Title: Estimate Inverse Probability Weights
Description: Functions to estimate the probability to receive the observed treatment, based on
individual characteristics. The inverse of these probabilities can be used as weights when
estimating causal effects from observational data via marginal structural models. Both point
treatment situations and longitudinal studies can be analysed. The same functions can be used to
correct for informative censoring.
Author: Willem M. van der Wal [aut, cre],
Ronald B. Geskus [aut]
Maintainer: Willem M. van der Wal <willem@vanderwalresearch.com>
Diff between ipw versions 1.2.1 dated 2023-12-11 and 1.2.1.1 dated 2025-07-28
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- build/partial.rdb |binary data/basdat.rda |binary data/haartdat.rda |binary data/healthdat.rda |binary data/timedat.rda |binary inst/CITATION | 10 ++-------- man/ipwpoint.Rd | 4 ++-- man/ipwtm.Rd | 6 +++--- 10 files changed, 20 insertions(+), 26 deletions(-)