Title: sas7bdat Reverse Engineering Documentation
Description: Documentation and prototypes for the earliest (circa 2010) open-source effort to reverse engineer the sas7bdat file format. The package includes a prototype reader for sas7bdat files. However, newer packages may contain more robust readers for sas7bdat files.
Author: Matt Shotwell [aut, cre],
Clint Cummins [ctb]
Maintainer: Matt Shotwell <matt.shotwell@vanderbilt.edu>
Diff between sas7bdat versions 0.7 dated 2023-05-02 and 0.8 dated 2024-08-28
sas7bdat-0.7/sas7bdat/inst/doc/reverse-engineering.pdf |only sas7bdat-0.7/sas7bdat/vignettes/reverse-engineering.Rnw |only sas7bdat-0.8/sas7bdat/DESCRIPTION | 11 +++++------ sas7bdat-0.8/sas7bdat/MD5 | 8 +++----- sas7bdat-0.8/sas7bdat/build/vignette.rds |binary sas7bdat-0.8/sas7bdat/inst/doc/sas7bdat.pdf |binary 6 files changed, 8 insertions(+), 11 deletions(-)
Title: Tools for Storing, Restoring and Searching for R Objects
Description: Data exploration and modelling is a process in which a lot of data
artifacts are produced. Artifacts like: subsets, data aggregates, plots,
statistical models, different versions of data sets and different versions
of results. The more projects we work with the more artifacts are produced
and the harder it is to manage these artifacts. Archivist helps to store
and manage artifacts created in R. Archivist allows you to store selected
artifacts as a binary files together with their metadata and relations.
Archivist allows to share artifacts with others, either through shared
folder or github. Archivist allows to look for already created artifacts by
using it's class, name, date of the creation or other properties. Makes it
easy to restore such artifacts. Archivist allows to check if new artifact
is the exact copy that was produced some time ago. That might be useful
either for testing or caching.
Author: Przemyslaw Biecek [aut, cre],
Marcin Kosinski [aut],
Witold Chodor [ctb]
Maintainer: Przemyslaw Biecek <przemyslaw.biecek@gmail.com>
Diff between archivist versions 2.3.6 dated 2021-05-20 and 2.3.8 dated 2024-08-28
archivist-2.3.6/archivist/build |only archivist-2.3.6/archivist/inst/doc |only archivist-2.3.6/archivist/man/archivist-package.Rd |only archivist-2.3.6/archivist/vignettes |only archivist-2.3.8/archivist/DESCRIPTION | 13 - archivist-2.3.8/archivist/MD5 | 143 ++++++++----------- archivist-2.3.8/archivist/NAMESPACE | 51 ++++++ archivist-2.3.8/archivist/NEWS.md | 8 - archivist-2.3.8/archivist/R/Repository.R | 2 archivist-2.3.8/archivist/R/Tags.R | 2 archivist-2.3.8/archivist/R/addArchivistHooks.R | 8 - archivist-2.3.8/archivist/R/addTagsRepo.R | 6 archivist-2.3.8/archivist/R/ahistory.R | 8 - archivist-2.3.8/archivist/R/alink.R | 4 archivist-2.3.8/archivist/R/archivist-package.R | 6 archivist-2.3.8/archivist/R/atags.R | 2 archivist-2.3.8/archivist/R/createEmptyRepo.R | 2 archivist-2.3.8/archivist/R/createMDGallery.R | 8 - archivist-2.3.8/archivist/R/extractData.R | 76 ++++++++++ archivist-2.3.8/archivist/R/extractMiniature.R | 91 ++++++++++++ archivist-2.3.8/archivist/R/extractTags.R | 86 +++++++++++ archivist-2.3.8/archivist/R/getRemoteHook.R | 2 archivist-2.3.8/archivist/R/getTags.R | 4 archivist-2.3.8/archivist/R/loadFromRepo.R | 4 archivist-2.3.8/archivist/R/magrittr.R | 4 archivist-2.3.8/archivist/R/md5hash.R | 2 archivist-2.3.8/archivist/R/rmFromRepo.R | 6 archivist-2.3.8/archivist/R/saveToRepo.R | 6 archivist-2.3.8/archivist/R/searchInRepo.R | 2 archivist-2.3.8/archivist/R/setRepo.R | 2 archivist-2.3.8/archivist/R/shinySearchInLocalRepo.R | 2 archivist-2.3.8/archivist/R/showRepo.R | 2 archivist-2.3.8/archivist/R/splitTags.R | 2 archivist-2.3.8/archivist/man/Repository.Rd | 8 - archivist-2.3.8/archivist/man/Tags.Rd | 8 - archivist-2.3.8/archivist/man/addHooksToPrint.Rd | 14 - archivist-2.3.8/archivist/man/addTagsRepo.Rd | 8 - archivist-2.3.8/archivist/man/aformat.Rd | 8 - archivist-2.3.8/archivist/man/ahistory.Rd | 14 - archivist-2.3.8/archivist/man/alink.Rd | 10 - archivist-2.3.8/archivist/man/archivistOptions.Rd | 6 archivist-2.3.8/archivist/man/archivistPackage.Rd |only archivist-2.3.8/archivist/man/aread.Rd | 4 archivist-2.3.8/archivist/man/areadLocal.Rd | 4 archivist-2.3.8/archivist/man/asearch.Rd | 4 archivist-2.3.8/archivist/man/asearchLocal.Rd | 4 archivist-2.3.8/archivist/man/asession.Rd | 6 archivist-2.3.8/archivist/man/atrace.Rd | 6 archivist-2.3.8/archivist/man/cache.Rd | 6 archivist-2.3.8/archivist/man/copyToRepo.Rd | 6 archivist-2.3.8/archivist/man/createEmptyRepo.Rd | 20 +- archivist-2.3.8/archivist/man/createMDGallery.Rd | 14 - archivist-2.3.8/archivist/man/deleteLocalRepo.Rd | 12 - archivist-2.3.8/archivist/man/extractData.Rd |only archivist-2.3.8/archivist/man/extractMiniature.Rd |only archivist-2.3.8/archivist/man/extractTags.Rd |only archivist-2.3.8/archivist/man/getRemoteHook.Rd | 8 - archivist-2.3.8/archivist/man/getTags.Rd | 16 +- archivist-2.3.8/archivist/man/loadFromRepo.Rd | 10 - archivist-2.3.8/archivist/man/magrittr.Rd | 10 - archivist-2.3.8/archivist/man/md5hash.Rd | 8 - archivist-2.3.8/archivist/man/removeTagsRepo.Rd | 10 - archivist-2.3.8/archivist/man/restoreLibs.Rd | 6 archivist-2.3.8/archivist/man/rmFromLocalRepo.Rd | 18 +- archivist-2.3.8/archivist/man/saveToRepo.Rd | 12 - archivist-2.3.8/archivist/man/searchInRepo.Rd | 20 +- archivist-2.3.8/archivist/man/setRepo.Rd | 20 +- archivist-2.3.8/archivist/man/shinySearchInRepo.Rd | 8 - archivist-2.3.8/archivist/man/showRepo.Rd | 8 - archivist-2.3.8/archivist/man/splitTags.Rd | 8 - archivist-2.3.8/archivist/man/summaryRepo.Rd | 6 archivist-2.3.8/archivist/man/zipRepo.Rd | 12 - 72 files changed, 598 insertions(+), 298 deletions(-)
Title: Models for Data from Unmarked Animals
Description: Fits hierarchical models of animal abundance and occurrence to data collected using survey methods such as point counts, site occupancy sampling, distance sampling, removal sampling, and double observer sampling. Parameters governing the state and observation processes can be modeled as functions of covariates. References: Kellner et al. (2023) <doi:10.1111/2041-210X.14123>, Fiske and Chandler (2011) <doi:10.18637/jss.v043.i10>.
Author: Richard Chandler [aut],
Ken Kellner [cre, aut],
Ian Fiske [aut],
David Miller [aut],
Andy Royle [aut],
Jeff Hostetler [aut],
Rebecca Hutchinson [aut],
Adam Smith [aut],
Lea Pautrel [aut],
Marc Kery [ctb],
Mike Meredith [ctb],
Auriel Fournier [ctb],
A [...truncated...]
Maintainer: Ken Kellner <contact@kenkellner.com>
Diff between unmarked versions 1.4.1 dated 2024-01-09 and 1.4.2 dated 2024-08-28
unmarked-1.4.1/unmarked/vignettes/figures |only unmarked-1.4.2/unmarked/DESCRIPTION | 20 unmarked-1.4.2/unmarked/MD5 | 148 - unmarked-1.4.2/unmarked/NAMESPACE | 7 unmarked-1.4.2/unmarked/NEWS.md | 9 unmarked-1.4.2/unmarked/R/IDS.R |only unmarked-1.4.2/unmarked/R/boot.R | 3 unmarked-1.4.2/unmarked/R/deprecated_sim_power.R |only unmarked-1.4.2/unmarked/R/distsampOpen.R | 18 unmarked-1.4.2/unmarked/R/gdistsamp.R | 7 unmarked-1.4.2/unmarked/R/gmultmix.R | 2 unmarked-1.4.2/unmarked/R/multmixOpen.R | 7 unmarked-1.4.2/unmarked/R/power.R | 564 ++---- unmarked-1.4.2/unmarked/R/predict.R | 44 unmarked-1.4.2/unmarked/R/simulate.R | 680 ++----- unmarked-1.4.2/unmarked/R/unmarkedFit.R | 21 unmarked-1.4.2/unmarked/R/unmarkedFitList.R | 8 unmarked-1.4.2/unmarked/R/unmarkedFrame.R | 5 unmarked-1.4.2/unmarked/R/utils.R | 33 unmarked-1.4.2/unmarked/build/partial.rdb |binary unmarked-1.4.2/unmarked/build/vignette.rds |binary unmarked-1.4.2/unmarked/inst/doc/cap-recap.html | 3 unmarked-1.4.2/unmarked/inst/doc/contributing_to_unmarked.html | 2 unmarked-1.4.2/unmarked/inst/doc/distsamp.html | 10 unmarked-1.4.2/unmarked/inst/doc/occuMulti.html | 56 unmarked-1.4.2/unmarked/inst/doc/powerAnalysis.Rmd | 866 ++-------- unmarked-1.4.2/unmarked/inst/doc/powerAnalysis.html | 613 +------ unmarked-1.4.2/unmarked/inst/doc/simulate.R | 83 unmarked-1.4.2/unmarked/inst/doc/simulate.Rmd | 272 +-- unmarked-1.4.2/unmarked/inst/doc/simulate.html | 486 +++-- unmarked-1.4.2/unmarked/inst/doc/spp-dist.html | 10 unmarked-1.4.2/unmarked/inst/doc/unmarked.html | 4 unmarked-1.4.2/unmarked/man/IDS.Rd |only unmarked-1.4.2/unmarked/man/SSE.Rd | 1 unmarked-1.4.2/unmarked/man/fitted-methods.Rd | 2 unmarked-1.4.2/unmarked/man/gdistsamp.Rd | 109 - unmarked-1.4.2/unmarked/man/getP-methods.Rd | 2 unmarked-1.4.2/unmarked/man/nonparboot-methods.Rd | 2 unmarked-1.4.2/unmarked/man/parboot.Rd | 1 unmarked-1.4.2/unmarked/man/powerAnalysis.Rd | 130 - unmarked-1.4.2/unmarked/man/predict-methods.Rd | 1 unmarked-1.4.2/unmarked/man/ranef-methods.Rd | 1 unmarked-1.4.2/unmarked/man/simulate-methods.Rd | 176 -- unmarked-1.4.2/unmarked/man/unmarkedFit-class.Rd | 5 unmarked-1.4.2/unmarked/man/unmarkedPower-class.Rd | 52 unmarked-1.4.2/unmarked/man/unmarkedPowerList.Rd | 83 unmarked-1.4.2/unmarked/man/unmarkedRanef-class.Rd | 2 unmarked-1.4.2/unmarked/src/RcppExports.cpp | 6 unmarked-1.4.2/unmarked/src/TMB/tmb_IDS.hpp |only unmarked-1.4.2/unmarked/src/TMB/unmarked_TMBExports.cpp | 5 unmarked-1.4.2/unmarked/src/nll_gdistsamp.cpp | 34 unmarked-1.4.2/unmarked/tests/testthat/test_IDS.R |only unmarked-1.4.2/unmarked/tests/testthat/test_distsampOpen.R | 14 unmarked-1.4.2/unmarked/tests/testthat/test_fitList.R | 7 unmarked-1.4.2/unmarked/tests/testthat/test_gdistremoval.R | 15 unmarked-1.4.2/unmarked/tests/testthat/test_gdistsamp.R | 10 unmarked-1.4.2/unmarked/tests/testthat/test_gmultmix.R | 27 unmarked-1.4.2/unmarked/tests/testthat/test_multmixOpen.R | 11 unmarked-1.4.2/unmarked/tests/testthat/test_occuCOP.R | 20 unmarked-1.4.2/unmarked/tests/testthat/test_occuMS.R | 6 unmarked-1.4.2/unmarked/tests/testthat/test_occuMulti.R | 4 unmarked-1.4.2/unmarked/tests/testthat/test_parboot.R | 15 unmarked-1.4.2/unmarked/tests/testthat/test_pcountOpen.R | 13 unmarked-1.4.2/unmarked/tests/testthat/test_powerAnalysis.R | 114 - unmarked-1.4.2/unmarked/tests/testthat/test_powerAnalysis_deprecated.R |only unmarked-1.4.2/unmarked/tests/testthat/test_predict.R | 32 unmarked-1.4.2/unmarked/tests/testthat/test_simulate.R | 223 +- unmarked-1.4.2/unmarked/tests/testthat/test_simulate_deprecated.R |only unmarked-1.4.2/unmarked/vignettes/powerAnalysis-figures |only unmarked-1.4.2/unmarked/vignettes/powerAnalysis.Rmd | 866 ++-------- unmarked-1.4.2/unmarked/vignettes/powerAnalysis.Rmd.orig | 557 +----- unmarked-1.4.2/unmarked/vignettes/simulate.Rmd | 272 +-- unmarked-1.4.2/unmarked/vignettes/unmarked.bib | 10 73 files changed, 2531 insertions(+), 4278 deletions(-)
Title: Multivariate Comparative Tools for Fitting Evolutionary Models
to Morphometric Data
Description: Fits multivariate (Brownian Motion, Early Burst, ACDC, Ornstein-Uhlenbeck and Shifts) models of continuous traits evolution on trees and time series. 'mvMORPH' also proposes high-dimensional multivariate comparative tools (linear models using Generalized Least Squares and multivariate tests) based on penalized likelihood. See
Clavel et al. (2015) <DOI:10.1111/2041-210X.12420>, Clavel et al. (2019) <DOI:10.1093/sysbio/syy045>, and Clavel & Morlon (2020) <DOI:10.1093/sysbio/syaa010>.
Author: Julien Clavel [aut, cre],
with contributions from Aaron King [aut],
Emmanuel Paradis [aut]
Maintainer: Julien Clavel <julien.clavel@hotmail.fr>
Diff between mvMORPH versions 1.2.0 dated 2024-08-27 and 1.2.1 dated 2024-08-28
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS.md | 2 ++ R/zzz.r | 2 +- README.md | 4 ++-- inst/doc/How_to_use_mvMORPH.pdf |binary inst/doc/tutorial_mvMORPH.pdf |binary man/mvMORPH-package.Rd | 2 +- src/mvmorph.h | 14 +++++++------- 9 files changed, 25 insertions(+), 23 deletions(-)
Title: Interface to 'ECMWF' and 'CDS' Data Web Services
Description: Programmatic interface to the European Centre for Medium-Range
Weather Forecasts dataset web services (ECMWF; <https://www.ecmwf.int/>)
and Copernicus's Data Stores. Allows for easy downloads of weather
forecasts and climate reanalysis data in R. Data stores covered include the Climate Data Store (CDS;
<https://cds-beta.climate.copernicus.eu>), Atmosphere Data Store (ADS;
<https://ads-beta.atmosphere.copernicus.eu>) and Early Warning Data Store (CEMS;
<https://ewds-beta.climate.copernicus.eu>).
Author: Koen Hufkens [aut, cre, cph] ,
Reto Stauffer [ctb] ,
Elio Campitelli [ctb] ,
BlueGreen Labs [fnd]
Maintainer: Koen Hufkens <koen.hufkens@gmail.com>
Diff between ecmwfr versions 1.5.0 dated 2023-01-19 and 2.0.0 dated 2024-08-28
ecmwfr-1.5.0/ecmwfr/R/service-ads.R |only ecmwfr-1.5.0/ecmwfr/R/service-cds-workflow.R |only ecmwfr-1.5.0/ecmwfr/R/service-cds.R |only ecmwfr-1.5.0/ecmwfr/R/service-webapi.R |only ecmwfr-1.5.0/ecmwfr/R/wf_product_info.R |only ecmwfr-1.5.0/ecmwfr/R/wf_services.R |only ecmwfr-1.5.0/ecmwfr/R/wf_user_info.R |only ecmwfr-1.5.0/ecmwfr/inst/doc/ads_vignette.R |only ecmwfr-1.5.0/ecmwfr/inst/doc/ads_vignette.Rmd |only ecmwfr-1.5.0/ecmwfr/inst/doc/ads_vignette.html |only ecmwfr-1.5.0/ecmwfr/inst/doc/cds_vignette.R |only ecmwfr-1.5.0/ecmwfr/inst/doc/cds_vignette.Rmd |only ecmwfr-1.5.0/ecmwfr/inst/doc/cds_vignette.html |only ecmwfr-1.5.0/ecmwfr/inst/doc/cds_workflow_vignette.R |only ecmwfr-1.5.0/ecmwfr/inst/doc/cds_workflow_vignette.Rmd |only ecmwfr-1.5.0/ecmwfr/inst/doc/cds_workflow_vignette.html |only ecmwfr-1.5.0/ecmwfr/inst/doc/webapi_vignette.R |only ecmwfr-1.5.0/ecmwfr/inst/doc/webapi_vignette.Rmd |only ecmwfr-1.5.0/ecmwfr/inst/doc/webapi_vignette.html |only ecmwfr-1.5.0/ecmwfr/man/wf_product_info.Rd |only ecmwfr-1.5.0/ecmwfr/man/wf_services.Rd |only ecmwfr-1.5.0/ecmwfr/man/wf_user_info.Rd |only ecmwfr-1.5.0/ecmwfr/tests/testthat/test_ads.R |only ecmwfr-1.5.0/ecmwfr/tests/testthat/test_cds.R |only ecmwfr-1.5.0/ecmwfr/tests/testthat/test_cds_workflows.R |only ecmwfr-1.5.0/ecmwfr/tests/testthat/test_webapi.r |only ecmwfr-1.5.0/ecmwfr/vignettes/ads_vignette.Rmd |only ecmwfr-1.5.0/ecmwfr/vignettes/cds_vignette.Rmd |only ecmwfr-1.5.0/ecmwfr/vignettes/cds_workflow_vignette.Rmd |only ecmwfr-1.5.0/ecmwfr/vignettes/webapi_vignette.Rmd |only ecmwfr-2.0.0/ecmwfr/DESCRIPTION | 36 - ecmwfr-2.0.0/ecmwfr/MD5 | 97 +--- ecmwfr-2.0.0/ecmwfr/NAMESPACE | 5 ecmwfr-2.0.0/ecmwfr/R/addin.R | 98 +--- ecmwfr-2.0.0/ecmwfr/R/methods.R | 8 ecmwfr-2.0.0/ecmwfr/R/service-ds.R |only ecmwfr-2.0.0/ecmwfr/R/service.R | 11 ecmwfr-2.0.0/ecmwfr/R/wf_archetype.R | 37 - ecmwfr-2.0.0/ecmwfr/R/wf_check_request.R | 96 +--- ecmwfr-2.0.0/ecmwfr/R/wf_dataset_info.R |only ecmwfr-2.0.0/ecmwfr/R/wf_datasets.R | 120 ++--- ecmwfr-2.0.0/ecmwfr/R/wf_delete.R | 82 +-- ecmwfr-2.0.0/ecmwfr/R/wf_get_key.R | 35 - ecmwfr-2.0.0/ecmwfr/R/wf_request.R | 130 ++--- ecmwfr-2.0.0/ecmwfr/R/wf_request_batch.R | 14 ecmwfr-2.0.0/ecmwfr/R/wf_set_key.R | 53 +- ecmwfr-2.0.0/ecmwfr/R/wf_transfer.R | 168 +------ ecmwfr-2.0.0/ecmwfr/R/zzz.R | 273 ++++------- ecmwfr-2.0.0/ecmwfr/build/vignette.rds |binary ecmwfr-2.0.0/ecmwfr/inst/CITATION | 9 ecmwfr-2.0.0/ecmwfr/inst/doc/advanced_vignette.R | 103 +++- ecmwfr-2.0.0/ecmwfr/inst/doc/advanced_vignette.Rmd | 142 +++--- ecmwfr-2.0.0/ecmwfr/inst/doc/advanced_vignette.html | 303 +++++++------ ecmwfr-2.0.0/ecmwfr/inst/rstudio/addins.dcf | 9 ecmwfr-2.0.0/ecmwfr/man/print.ecmwfr_archetype.Rd |only ecmwfr-2.0.0/ecmwfr/man/wf_archetype.Rd | 36 - ecmwfr-2.0.0/ecmwfr/man/wf_check_request.Rd | 11 ecmwfr-2.0.0/ecmwfr/man/wf_dataset_info.Rd |only ecmwfr-2.0.0/ecmwfr/man/wf_datasets.Rd | 31 - ecmwfr-2.0.0/ecmwfr/man/wf_delete.Rd | 22 ecmwfr-2.0.0/ecmwfr/man/wf_get_key.Rd | 11 ecmwfr-2.0.0/ecmwfr/man/wf_request.Rd | 61 +- ecmwfr-2.0.0/ecmwfr/man/wf_set_key.Rd | 14 ecmwfr-2.0.0/ecmwfr/man/wf_transfer.Rd | 24 - ecmwfr-2.0.0/ecmwfr/tests/testthat/test_ds.R |only ecmwfr-2.0.0/ecmwfr/tests/testthat/test_helper_functions.R | 85 +-- ecmwfr-2.0.0/ecmwfr/vignettes/advanced_vignette.Rmd | 142 +++--- 67 files changed, 1064 insertions(+), 1202 deletions(-)
Title: Retrieve and Analyze Clinical Trials in Public Registers
Description: A system for querying, retrieving and analyzing
protocol- and results-related information on clinical trials from
four public registers, the 'European Union Clinical Trials Register'
('EUCTR', <https://www.clinicaltrialsregister.eu/>),
'ClinicalTrials.gov' (<https://clinicaltrials.gov/> and also
translating queries the retired classic interface), the
'ISRCTN' (<http://www.isrctn.com/>) and the
'European Union Clinical Trials Information System'
('CTIS', <https://euclinicaltrials.eu/>).
Trial information is downloaded, converted and stored in a database
('PostgreSQL', 'SQLite', 'DuckDB' or 'MongoDB'; via package 'nodbi').
Documents in registers associated with trials can also be downloaded.
Other functions identify deduplicated records,
easily find and extract variables (fields) of interest even
from complex nested data as used by the registers,
merge variables and update queries.
The package can be used for meta-analysis and trend-analysis of
the design and cond [...truncated...]
Author: Ralf Herold [aut, cre]
Maintainer: Ralf Herold <ralf.herold@mailbox.org>
Diff between ctrdata versions 1.19.1 dated 2024-07-18 and 1.19.2 dated 2024-08-28
DESCRIPTION | 6 +- MD5 | 34 ++++++------ NAMESPACE | 1 NEWS.md | 9 +++ R/ctrLoadQueryIntoDbCtgov2.R | 3 - R/ctrLoadQueryIntoDbCtis.R | 52 ++++++++----------- R/ctrdata-registers.R | 6 +- R/util_fields.R | 3 - R/util_functions.R | 14 +++-- README.md | 22 ++++---- inst/WORDLIST | 1 inst/doc/ctrdata_install.pdf |binary inst/doc/ctrdata_retrieve.pdf |binary inst/doc/ctrdata_summarise.pdf |binary inst/tinytest/ctrdata_ctis.R | 11 ++-- man/ctrdata-registers.Rd | 6 +- man/figures/README-ctrdata_across_registers.png |binary man/figures/README-ctrdata_results_neuroblastoma.png |binary 18 files changed, 88 insertions(+), 80 deletions(-)
Title: Latent Space Item Response Model
Description: Analysis of dichotomous and continuous response data using latent factor by both 1PL LSIRM and 2PL LSIRM as described in Jeon et al. (2021) <doi:10.1007/s11336-021-09762-5>. It includes original 1PL LSIRM and 2PL LSIRM provided for binary response data and its extension for continuous response data. Bayesian model selection with spike-and-slab prior and method for dealing data with missing value under missing at random, missing completely at random are also supported. Various diagnostic plots are available to inspect the latent space and summary of estimated parameters.
Author: Dongyoung Go [aut],
Gwanghee Kim [aut],
Jina Park [aut, cre],
Ickhoon Jin [ctb],
Minjeong Jeon [ctb]
Maintainer: Jina Park <pja070707@gmail.com>
Diff between lsirm12pl versions 1.3.2 dated 2024-07-29 and 1.3.3 dated 2024-08-28
DESCRIPTION | 12 MD5 | 8 R/lsirm.R | 5031 ++++++++++++++++++++++++++++---------------------------- man/lsirm1pl.Rd | 28 man/lsirm2pl.Rd | 34 5 files changed, 2562 insertions(+), 2551 deletions(-)
Title: Hydrologic Model Evaluation and Time-Series Tools
Description: Facilitates the analysis and evaluation of hydrologic model output and
time-series data with functions focused on comparison of modeled (simulated) and observed data,
period-of-record statistics, and trends.
Author: Colin Penn [aut, cre] ,
Caelan Simeone [aut] ,
Sara Levin [aut] ,
Samuel Saxe [aut] ,
Sydney Foks [aut] ,
Robert Dudley [dtc] ,
Glenn Hodgkins [dtc] ,
Timothy Hodson [aut] ,
Thomas Over [dtc] ,
Amy Russell [dtc]
Maintainer: Colin Penn <cpenn@usgs.gov>
Diff between HyMETT versions 1.1.2 dated 2023-11-22 and 1.1.3 dated 2024-08-28
DESCRIPTION | 12 MD5 | 18 NEWS.md | 5 R/HyMETT-package.R | 7 build/partial.rdb |binary build/vignette.rds |binary inst/doc/HyMETT_Basic_Workflow.html | 2 inst/docs/Reference_Manual_hymett.md | 6 inst/docs/UserManual_hymett.pdf | 5310 +++++++++++++++++------------------ man/HyMETT-package.Rd | 7 10 files changed, 2678 insertions(+), 2689 deletions(-)
Title: Model Evaluation and Analysis
Description: Analyses species distribution models and evaluates their performance. It includes functions for variation partitioning, extracting variable importance, computing several metrics of model discrimination and calibration performance, optimizing prediction thresholds based on a number of criteria, performing multivariate environmental similarity surface (MESS) analysis, and displaying various analytical plots. Initially described in Barbosa et al. (2013) <doi:10.1111/ddi.12100>.
Author: Barbosa A.M. [aut],
Brown J.A. [aut],
Jimenez-Valverde A. [aut],
Real R.z [aut],
A. Marcia Barbosa [cre]
Maintainer: A. Marcia Barbosa <ana.marcia.barbosa@gmail.com>
Diff between modEvA versions 3.17 dated 2024-06-06 and 3.18.2 dated 2024-08-28
DESCRIPTION | 30 +++++++++++++++++++---- MD5 | 20 +++++++-------- NEWS | 64 +++++++++++++++++++++++++++++++++++++++++++++++++- R/AUC.R | 8 +++++- R/mod2obspred.R | 33 ++++++++++++++++++------- R/predDensity.R | 41 +++++++++++++++++--------------- R/varImp.R | 33 +++++++++++++++++-------- man/mod2obspred.Rd | 2 - man/modEvA-package.Rd | 4 +-- man/predDensity.Rd | 16 ++++++------ man/varImp.Rd | 37 ++++++++++++++-------------- 11 files changed, 205 insertions(+), 83 deletions(-)
Title: Nested Cross Validation for the Relaxed Lasso and Other Machine
Learning Models
Description: Cross validation informed Relaxed LASSO, Artificial Neural Network (ANN), gradient boosting machine ('xgboost'), Random Forest ('RandomForestSRC'), Oblique Random Forest ('aorsf'), Recursive Partitioning ('RPART') or step wise regression models are fit. Cross validation leave out samples (leading to nested cross validation) or bootstrap out-of-bag samples are used to evaluate and compare performances between these models with results presented in tabular or graphical means. Calibration plots can also be generated, again based upon (outer nested) cross validation or bootstrap leave out (out of bag) samples.
For some datasets, for example when the design matrix is not of full rank, 'glmnet' may have very long run times when fitting the relaxed lasso model, from our experience when fitting Cox models on data with many predictors and many patients, making it difficult to get solutions from either glmnet() or cv.glmnet(). This may be remedied by using the 'path=TRUE' option when calling [...truncated...]
Author: Walter K Kremers [aut, cre] ,
Nicholas B Larson [ctb]
Maintainer: Walter K Kremers <kremers.walter@mayo.edu>
Diff between glmnetr versions 0.5-2 dated 2024-07-12 and 0.5-3 dated 2024-08-28
glmnetr-0.5-2/glmnetr/R/ObliqueRandomForest_240508.R |only glmnetr-0.5-2/glmnetr/R/nested.compare_240708.R |only glmnetr-0.5-2/glmnetr/R/nested.glmnetr_240708.R |only glmnetr-0.5-2/glmnetr/R/summary.nested.glmnetr_240708.R |only glmnetr-0.5-2/glmnetr/R/tools_240708.R |only glmnetr-0.5-2/glmnetr/inst/doc/An_Overview_of_glmnetr_240710.pdf |only glmnetr-0.5-2/glmnetr/inst/doc/An_Overview_of_glmnetr_240710.pdf.asis |only glmnetr-0.5-2/glmnetr/inst/doc/Calibration_240710.pdf |only glmnetr-0.5-2/glmnetr/inst/doc/Calibration_240710.pdf.asis |only glmnetr-0.5-2/glmnetr/inst/doc/Using_ann_tab_cv_240710.pdf |only glmnetr-0.5-2/glmnetr/inst/doc/Using_ann_tab_cv_240710.pdf.asis |only glmnetr-0.5-2/glmnetr/inst/doc/Using_stepreg_240710.pdf |only glmnetr-0.5-2/glmnetr/inst/doc/Using_stepreg_240710.pdf.asis |only glmnetr-0.5-2/glmnetr/vignettes/An_Overview_of_glmnetr_240710.Rmd |only glmnetr-0.5-2/glmnetr/vignettes/An_Overview_of_glmnetr_240710.pdf.asis |only glmnetr-0.5-2/glmnetr/vignettes/Calibration_240710.Rmd |only glmnetr-0.5-2/glmnetr/vignettes/Calibration_240710.pdf.asis |only glmnetr-0.5-2/glmnetr/vignettes/Using_ann_tab_cv_240710.Rmd |only glmnetr-0.5-2/glmnetr/vignettes/Using_ann_tab_cv_240710.pdf.asis |only glmnetr-0.5-2/glmnetr/vignettes/Using_stepreg_240710.Rmd |only glmnetr-0.5-2/glmnetr/vignettes/Using_stepreg_240710.pdf.asis |only glmnetr-0.5-3/glmnetr/DESCRIPTION | 8 glmnetr-0.5-3/glmnetr/MD5 | 85 +++++----- glmnetr-0.5-3/glmnetr/NAMESPACE | 2 glmnetr-0.5-3/glmnetr/R/ObliqueRandomForest_240822.R |only glmnetr-0.5-3/glmnetr/R/nested.compare_240826.R |only glmnetr-0.5-3/glmnetr/R/nested.glmnetr_240824.R |only glmnetr-0.5-3/glmnetr/R/summary.nested.glmnetr_240822.R |only glmnetr-0.5-3/glmnetr/R/tools_240822.R |only glmnetr-0.5-3/glmnetr/build/vignette.rds |binary glmnetr-0.5-3/glmnetr/inst/doc/An_Overview_of_glmnetr_240828.pdf |only glmnetr-0.5-3/glmnetr/inst/doc/An_Overview_of_glmnetr_240828.pdf.asis |only glmnetr-0.5-3/glmnetr/inst/doc/Calibration_240828.pdf |only glmnetr-0.5-3/glmnetr/inst/doc/Calibration_240828.pdf.asis |only glmnetr-0.5-3/glmnetr/inst/doc/Using_ann_tab_cv_240828.pdf |only glmnetr-0.5-3/glmnetr/inst/doc/Using_ann_tab_cv_240828.pdf.asis |only glmnetr-0.5-3/glmnetr/inst/doc/Using_stepreg_240828.pdf |only glmnetr-0.5-3/glmnetr/inst/doc/Using_stepreg_240828.pdf.asis |only glmnetr-0.5-3/glmnetr/man/boot.factor.foldid.Rd | 2 glmnetr-0.5-3/glmnetr/man/cox.sat.dev.Rd | 2 glmnetr-0.5-3/glmnetr/man/devrat_.Rd | 2 glmnetr-0.5-3/glmnetr/man/diff_time.Rd | 2 glmnetr-0.5-3/glmnetr/man/diff_time1.Rd | 2 glmnetr-0.5-3/glmnetr/man/factor.foldid.Rd | 2 glmnetr-0.5-3/glmnetr/man/get.foldid.Rd | 2 glmnetr-0.5-3/glmnetr/man/get.id.foldid.Rd |only glmnetr-0.5-3/glmnetr/man/glmnetr.compcv.Rd | 7 glmnetr-0.5-3/glmnetr/man/glmnetr.simdata.Rd | 13 + glmnetr-0.5-3/glmnetr/man/glmnetr_seed.Rd | 2 glmnetr-0.5-3/glmnetr/man/nested.compare.Rd | 2 glmnetr-0.5-3/glmnetr/man/nested.glmnetr.Rd | 28 ++- glmnetr-0.5-3/glmnetr/man/orf_tune.Rd | 2 glmnetr-0.5-3/glmnetr/man/print.nested.glmnetr.Rd | 2 glmnetr-0.5-3/glmnetr/man/print.orf_tune.Rd | 2 glmnetr-0.5-3/glmnetr/man/roundperf.Rd | 2 glmnetr-0.5-3/glmnetr/man/summary.nested.glmnetr.Rd | 14 - glmnetr-0.5-3/glmnetr/man/summary.orf_tune.Rd | 2 glmnetr-0.5-3/glmnetr/vignettes/An_Overview_of_glmnetr_240828.Rmd |only glmnetr-0.5-3/glmnetr/vignettes/An_Overview_of_glmnetr_240828.pdf.asis |only glmnetr-0.5-3/glmnetr/vignettes/Calibration_240828.Rmd |only glmnetr-0.5-3/glmnetr/vignettes/Calibration_240828.pdf.asis |only glmnetr-0.5-3/glmnetr/vignettes/Using_ann_tab_cv_240828.Rmd |only glmnetr-0.5-3/glmnetr/vignettes/Using_ann_tab_cv_240828.pdf.asis |only glmnetr-0.5-3/glmnetr/vignettes/Using_stepreg_240828.Rmd |only glmnetr-0.5-3/glmnetr/vignettes/Using_stepreg_240828.pdf.asis |only 65 files changed, 105 insertions(+), 80 deletions(-)
Title: Collection of Helper Functions
Description: Provides a collection of lightweight helper functions (imps) both
for interactive use and for inclusion within other packages. These include
functions for minimal input assertions, visualising colour palettes,
quoting user input, searching rows of a data frame and capturing string
tokens.
Author: Tim Taylor [aut, cre, cph] ,
R Core Team [cph] ,
Toby Hocking [cph]
Maintainer: Tim Taylor <tim.taylor@hiddenelephants.co.uk>
Diff between ympes versions 1.4.0 dated 2024-08-20 and 1.5.0 dated 2024-08-28
DESCRIPTION | 12 +++++----- MD5 | 31 +++++++++++++++----------- NEWS.md | 14 +++++++++++ R/assert.R | 5 ++-- R/cc.R | 57 ++++++++++++++++++++---------------------------- R/greprows.R | 2 + R/new_package.R | 5 ++-- R/palette.R | 2 - build |only inst/doc |only inst/tinytest/test_cc.R | 6 +++++ man/assertions.Rd | 5 ++-- man/cc.Rd | 18 ++++++--------- man/greprows.Rd | 3 -- man/new_package.Rd | 5 ++-- man/plot_palette.Rd | 2 - vignettes |only 17 files changed, 94 insertions(+), 73 deletions(-)
Title: Draw Histograms and Restricted Cubic Splines (RCS)
Description: You can use this function to easily draw a combined histogram and restricted cubic spline.
The function draws the graph through 'ggplot2'. RCS fitting requires the use of the rcs() function of the 'rms' package.
Can fit cox regression, logistic regression. This method was described by Per Kragh (2003) <doi:10.1002/sim.1497>.
Author: Qiang LIU [aut, cre]
Maintainer: Qiang LIU <dege857@163.com>
Diff between ggrcs versions 0.4.0 dated 2024-06-28 and 0.4.1 dated 2024-08-28
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/ggrcs.R | 9 +++++---- 3 files changed, 10 insertions(+), 9 deletions(-)
Title: Probabilistic Reconciliation via Conditioning
Description: Provides methods for probabilistic reconciliation of hierarchical forecasts of time series.
The available methods include analytical Gaussian reconciliation (Corani et al., 2021)
<doi:10.1007/978-3-030-67664-3_13>,
MCMC reconciliation of count time series (Corani et al., 2024)
<doi:10.1016/j.ijforecast.2023.04.003>,
Bottom-Up Importance Sampling (Zambon et al., 2024)
<doi:10.1007/s11222-023-10343-y>,
methods for the reconciliation of mixed hierarchies (Mix-Cond and TD-cond)
(Zambon et al., 2024. The 40th Conference on Uncertainty in Artificial Intelligence, accepted).
Author: Dario Azzimonti [aut, cre] ,
Nicolo Rubattu [aut] ,
Lorenzo Zambon [aut] ,
Giorgio Corani [aut]
Maintainer: Dario Azzimonti <dario.azzimonti@gmail.com>
Diff between bayesRecon versions 0.3.0 dated 2024-05-29 and 0.3.1 dated 2024-08-28
bayesRecon-0.3.0/bayesRecon/tests/testthat/dataForTests/Monthly-Gaussian_S.csv |only bayesRecon-0.3.0/bayesRecon/tests/testthat/dataForTests/Monthly-NegBin_S.csv |only bayesRecon-0.3.0/bayesRecon/tests/testthat/dataForTests/Monthly-Poisson_S.csv |only bayesRecon-0.3.0/bayesRecon/tests/testthat/dataForTests/Weekly-Gaussian_S.csv |only bayesRecon-0.3.0/bayesRecon/vignettes/bayesRecon_cache/html/hier-fore_2e65ff6a059f3ffe08f8f520ad9729bb.RData |only bayesRecon-0.3.0/bayesRecon/vignettes/bayesRecon_cache/html/hier-fore_2e65ff6a059f3ffe08f8f520ad9729bb.rdb |only bayesRecon-0.3.0/bayesRecon/vignettes/bayesRecon_cache/html/hier-fore_2e65ff6a059f3ffe08f8f520ad9729bb.rdx |only bayesRecon-0.3.1/bayesRecon/DESCRIPTION | 10 bayesRecon-0.3.1/bayesRecon/MD5 | 86 bayesRecon-0.3.1/bayesRecon/NEWS.md | 6 bayesRecon-0.3.1/bayesRecon/R/PMF.R | 10 bayesRecon-0.3.1/bayesRecon/R/hierarchy.R | 43 bayesRecon-0.3.1/bayesRecon/R/reconc_BUIS.R | 69 bayesRecon-0.3.1/bayesRecon/R/reconc_MCMC.R | 53 bayesRecon-0.3.1/bayesRecon/R/reconc_MixCond.R | 38 bayesRecon-0.3.1/bayesRecon/R/reconc_TDcond.R | 122 + bayesRecon-0.3.1/bayesRecon/R/reconc_gaussian.R | 42 bayesRecon-0.3.1/bayesRecon/R/utils.R | 60 bayesRecon-0.3.1/bayesRecon/README.md | 24 bayesRecon-0.3.1/bayesRecon/build/partial.rdb |binary bayesRecon-0.3.1/bayesRecon/build/vignette.rds |binary bayesRecon-0.3.1/bayesRecon/inst/doc/bayesRecon.R | 19 bayesRecon-0.3.1/bayesRecon/inst/doc/bayesRecon.Rmd | 897 ++++------ bayesRecon-0.3.1/bayesRecon/inst/doc/bayesRecon.html | 89 bayesRecon-0.3.1/bayesRecon/inst/doc/mixed_reconciliation.R | 9 bayesRecon-0.3.1/bayesRecon/inst/doc/mixed_reconciliation.Rmd | 13 bayesRecon-0.3.1/bayesRecon/inst/doc/mixed_reconciliation.html | 100 - bayesRecon-0.3.1/bayesRecon/inst/doc/reconciliation_properties.R | 11 bayesRecon-0.3.1/bayesRecon/inst/doc/reconciliation_properties.Rmd | 11 bayesRecon-0.3.1/bayesRecon/inst/doc/reconciliation_properties.html | 52 bayesRecon-0.3.1/bayesRecon/man/reconc_BUIS.Rd | 28 bayesRecon-0.3.1/bayesRecon/man/reconc_MCMC.Rd | 17 bayesRecon-0.3.1/bayesRecon/man/reconc_MixCond.Rd | 21 bayesRecon-0.3.1/bayesRecon/man/reconc_TDcond.Rd | 82 bayesRecon-0.3.1/bayesRecon/man/reconc_gaussian.Rd | 23 bayesRecon-0.3.1/bayesRecon/tests/testthat/dataForTests/Monthly-Gaussian_A.csv |only bayesRecon-0.3.1/bayesRecon/tests/testthat/dataForTests/Monthly-NegBin_A.csv |only bayesRecon-0.3.1/bayesRecon/tests/testthat/dataForTests/Monthly-Poisson_A.csv |only bayesRecon-0.3.1/bayesRecon/tests/testthat/dataForTests/Weekly-Gaussian_A.csv |only bayesRecon-0.3.1/bayesRecon/tests/testthat/dataForTests/generate_weeklyTestData.R | 3 bayesRecon-0.3.1/bayesRecon/tests/testthat/test-reconc_BUIS_gaussian.R | 60 bayesRecon-0.3.1/bayesRecon/tests/testthat/test-reconc_MCMC.R | 8 bayesRecon-0.3.1/bayesRecon/tests/testthat/test-reconc_MixCond.R | 11 bayesRecon-0.3.1/bayesRecon/tests/testthat/test-reconc_TDcond.R | 11 bayesRecon-0.3.1/bayesRecon/tests/testthat/test-weightswarn.R | 15 bayesRecon-0.3.1/bayesRecon/vignettes/bayesRecon.Rmd | 897 ++++------ bayesRecon-0.3.1/bayesRecon/vignettes/bayesRecon_cache/html/hier-fore_cda2bdddbd466e4088f7a13b5253816a.RData |only bayesRecon-0.3.1/bayesRecon/vignettes/bayesRecon_cache/html/hier-fore_cda2bdddbd466e4088f7a13b5253816a.rdb |only bayesRecon-0.3.1/bayesRecon/vignettes/bayesRecon_cache/html/hier-fore_cda2bdddbd466e4088f7a13b5253816a.rdx |only bayesRecon-0.3.1/bayesRecon/vignettes/mixed_reconciliation.Rmd | 13 bayesRecon-0.3.1/bayesRecon/vignettes/reconciliation_properties.Rmd | 11 51 files changed, 1529 insertions(+), 1435 deletions(-)
Title: Extract Drugs from Differential Expression Data from LINCS
Database
Description: Get Drug information from given differential expression profile. The package search for the bioactive compounds from reference databases such as LINCS containing the genome-wide gene expression signature (GES) from tens of thousands of drug and genetic perturbations (Subramanian et al. (2017) <DOI:10.1016/j.cell.2017.10.049>).
Author: Mohamed Soudy [aut, cre]
Maintainer: Mohamed Soudy <MohmedSoudy2009@gmail.com>
Diff between DFD versions 0.1.0 dated 2023-10-10 and 0.2.0 dated 2024-08-28
DESCRIPTION | 9 +++++---- MD5 | 11 ++++++++--- NAMESPACE | 19 +++++++++++++------ R/parse_drugs.R |only R/run_pipeline.R | 20 ++++++++++++++++++++ R/visualize_drugs.R |only man/get_pert_by_type.Rd |only man/parse_perts.Rd |only man/plot_activities.Rd |only 9 files changed, 46 insertions(+), 13 deletions(-)
Title: Estimate the Number of Factors in Large Nonstationary Datasets
Description: Large panel data sets are often subject to common trends. However, it can be difficult to determine the exact number of these common factors and analyse their properties.
The package implements the Barigozzi and Trapani (2022) <doi:10.1080/07350015.2021.1901719> test, which not only provides an efficient way of estimating the number of common factors in large nonstationary panel data sets, but also gives further insights on factor classes. The routine identifies the existence of (i) a factor subject to a linear trend, (ii) the number of zero-mean I(1) and (iii) zero-mean I(0) factors.
Furthermore, the package includes the Integrated Panel Criteria by Bai (2004) <doi:10.1016/j.jeconom.2003.10.022> that provide a complementary measure for the number of factors.
Author: Paul Haimerl [aut, cre]
Maintainer: Paul Haimerl <p.haimerl@student.maastrichtuniversity.nl>
Diff between BTtest versions 0.10.2 dated 2024-06-20 and 0.10.3 dated 2024-08-28
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- NEWS.md | 5 +++++ R/BTtest.R | 8 +++++--- R/RcppExports.R | 4 ++-- R/Sim.R | 1 - README.md | 14 +++++++++----- man/BTtest.Rd | 6 ++++-- src/BTtest-package.cpp | 23 ++++++++++------------- src/RcppExports.cpp | 9 +++++---- tests/testthat/test-BTtest.R | 9 ++++++++- tests/testthat/test-Sim.R | 4 +++- 12 files changed, 65 insertions(+), 46 deletions(-)
Title: Interface to the 'VIAF' ('Virtual International Authority File')
API
Description: Provides direct access to linked names for the same entity across the world's major name authority files, including national and regional variations in language, character set, and spelling. For more information go to <https://viaf.org/>.
Author: Stefanie Schneider [cre, aut]
Maintainer: Stefanie Schneider <stefanie.schneider@itg.uni-muenchen.de>
Diff between viafr versions 0.3.0 dated 2022-08-31 and 0.3.1 dated 2024-08-28
DESCRIPTION | 10 +-- MD5 | 21 +++--- NEWS.md | 6 + R/get.R | 25 ++++--- R/search.R | 27 ++++++-- R/suggest.R | 42 +++++++++--- R/utils.R | 51 ++++++++++----- README.md | 115 ++++++++--------------------------- man/get.Rd | 5 - tests/testthat/test_get.R | 1 tests/testthat/test_utils.R | 2 tests/testthat/testthat-problems.rds |only 12 files changed, 157 insertions(+), 148 deletions(-)
Title: Scatter Pie Plot
Description: Creates scatterpie plots, especially useful for plotting pies on a map.
Author: Guangchuang Yu [aut, cre] ,
Shuangbin Xu [ctb]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between scatterpie versions 0.2.3 dated 2024-06-05 and 0.2.4 dated 2024-08-28
scatterpie-0.2.3/scatterpie/man/geom_scatterpie.Rd |only scatterpie-0.2.4/scatterpie/DESCRIPTION | 11 ++-- scatterpie-0.2.4/scatterpie/MD5 | 15 +++--- scatterpie-0.2.4/scatterpie/NAMESPACE | 4 + scatterpie-0.2.4/scatterpie/NEWS.md | 4 + scatterpie-0.2.4/scatterpie/R/geom_scatterpie.R | 44 +++++++++++++++++-- scatterpie-0.2.4/scatterpie/R/zzz.R |only scatterpie-0.2.4/scatterpie/build/vignette.rds |binary scatterpie-0.2.4/scatterpie/inst/doc/scatterpie.html | 38 +++++++++------- scatterpie-0.2.4/scatterpie/man/geom-scatterpie.Rd |only 10 files changed, 84 insertions(+), 32 deletions(-)
Title: Tests of Non-Nested Models
Description: Testing non-nested models via theory supplied by Vuong (1989) <DOI:10.2307/1912557>.
Includes tests of model distinguishability and of model fit that can be applied
to both nested and non-nested models. Also includes functionality to obtain
confidence intervals associated with AIC and BIC. This material is partially based on
work supported by the National Science Foundation under Grant Number SES-1061334.
Author: Edgar Merkle [aut, cre],
Dongjun You [aut],
Lennart Schneider [ctb],
Mauricio Garnier-Villarreal [ctb],
Seongho Bae [ctb],
Phil Chalmers [ctb]
Maintainer: Edgar Merkle <merklee@missouri.edu>
Diff between nonnest2 versions 0.5-7 dated 2024-05-06 and 0.5-8 dated 2024-08-28
DESCRIPTION | 23 +++++++++++++---------- MD5 | 16 ++++++++-------- NAMESPACE | 2 ++ NEWS | 15 +++++++++++++++ R/llcont.R | 21 +++++++++++++-------- R/vuongtest.R | 43 ++++++++++++++++++++++++------------------- build/vignette.rds |binary inst/doc/nonnest2.pdf |binary man/llcont.Rd | 2 +- 9 files changed, 76 insertions(+), 46 deletions(-)
Title: Miscellaneous Functions for 'ggplot2'
Description: Useful functions and utilities for 'ggplot' object (e.g., geometric layers, themes, and utilities to edit the object).
Author: Guangchuang Yu [aut, cre, cph]
,
Shuangbin Xu [aut]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between ggfun versions 0.1.5 dated 2024-05-28 and 0.1.6 dated 2024-08-28
DESCRIPTION | 11 ++++++----- MD5 | 15 +++++++++------ NAMESPACE | 5 +++++ NEWS.md | 5 +++++ R/geom-scatter-rect.R |only R/operator.R | 26 +++++++++++++++++++++----- R/zzz.R |only build/vignette.rds |binary inst/doc/ggfun.html | 6 +++--- man/geom_scatter_rect.Rd |only 10 files changed, 49 insertions(+), 19 deletions(-)
Title: Probability Theory for Selecting Candidates in Plant Breeding
Description: Use probability theory under the Bayesian framework for calculating the risk of selecting candidates in a multi-environment context. Contained are functions used to fit a Bayesian multi-environment model (based on the available presets), extract posterior values and maximum posterior values, compute the variance components, check the model’s convergence, and calculate the probabilities. For both across and within-environments scopes, the package computes the probability of superior performance and the pairwise probability of superior performance. Furthermore, the probability of superior stability and the pairwise probability of superior stability across environments is estimated. A joint probability of superior performance and stability is also provided.
Author: Saulo Chaves [aut, cre] ,
Kaio Dias [aut, cph] ,
Matheus Krause [aut]
Maintainer: Saulo Chaves <saulo.chaves@ufv.br>
Diff between ProbBreed versions 1.0.4.1 dated 2024-07-26 and 1.0.4.2 dated 2024-08-28
DESCRIPTION | 6 MD5 | 32 +- R/bayes_met.R | 31 +- R/extr_outs.R | 38 +- R/prob_sup.R | 440 +++++++++++++++--------------- R/stanmodels.R | 4 README.md | 145 ++++----- man/bayes_met.Rd | 14 man/extr_outs.Rd | 14 man/figures/README-unnamed-chunk-10-1.png |binary man/figures/README-unnamed-chunk-11-1.png |binary man/figures/README-unnamed-chunk-12-1.png |binary man/figures/README-unnamed-chunk-6-1.png |binary man/figures/README-unnamed-chunk-9-1.png |binary man/plot.extr.Rd | 14 man/plot.probsup.Rd | 24 - man/prob_sup.Rd | 21 - 17 files changed, 407 insertions(+), 376 deletions(-)
Title: Access the Bioconductor Project Package Repository
Description: A convenient tool to install and update Bioconductor packages.
Author: Martin Morgan [aut] ,
Marcel Ramos [aut, cre]
Maintainer: Marcel Ramos <marcel.ramos@sph.cuny.edu>
Diff between BiocManager versions 1.30.24 dated 2024-08-20 and 1.30.25 dated 2024-08-28
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- NEWS | 7 +++++++ inst/doc/BiocManager.html | 8 ++++---- 4 files changed, 19 insertions(+), 12 deletions(-)
Title: Community Ecology Package
Description: Ordination methods, diversity analysis and other
functions for community and vegetation ecologists.
Author: Jari Oksanen [aut, cre],
Gavin L. Simpson [aut],
F. Guillaume Blanchet [aut],
Roeland Kindt [aut],
Pierre Legendre [aut],
Peter R. Minchin [aut],
R.B. O'Hara [aut],
Peter Solymos [aut],
M. Henry H. Stevens [aut],
Eduard Szoecs [aut],
Helene Wagner [a [...truncated...]
Maintainer: Jari Oksanen <jhoksane@gmail.com>
Diff between vegan versions 2.6-6.1 dated 2024-05-21 and 2.6-8 dated 2024-08-28
DESCRIPTION | 6 - MD5 | 127 +++++++++++++++--------------- NAMESPACE | 4 R/add1.cca.R | 3 R/adonis.R | 2 R/anova.ccabyterm.R | 12 +- R/ca.R |only R/capscale.R | 14 --- R/cca.default.R | 8 + R/cca.formula.R | 16 --- R/centroids.cca.R | 29 ++++++ R/dbrda.R | 21 +---- R/decorana.R | 2 R/decostand.R | 13 ++- R/drop1.cca.R | 3 R/identify.ordiplot.R | 2 R/isomapdist.R | 1 R/make.cepnames.R | 2 R/ordConstrained.R | 25 ++++-- R/ordiArrowTextXY.R | 8 + R/ordicluster.R | 2 R/ordihull.R | 19 ++-- R/ordiplot.R | 4 R/ordipointlabel.R | 22 +++-- R/ordispider.R | 2 R/pca.R |only R/pco.R |only R/plot.cca.R | 48 +++++------ R/plot.isomap.R | 4 R/points.ordiplot.R | 2 R/postMDS.R | 2 R/print.cca.R | 54 +++++++++---- R/rda.default.R | 7 + R/rda.formula.R | 14 --- R/scores.ordiplot.R | 4 R/simulate.rda.R | 6 - R/taxa2dist.R | 3 R/text.ordiplot.R | 4 R/treedist.R | 5 + R/veganMahatrans.R | 4 R/vegdist.R | 6 - R/vegemite.R | 7 + build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.md | 89 ++++++++++++++++++++- inst/doc/decision-vegan.pdf |binary inst/doc/diversity-vegan.pdf |binary inst/doc/intro-vegan.pdf |binary inst/doc/partitioning.pdf |binary man/adonis.Rd | 18 ++-- man/cca.Rd | 45 +++++++--- man/dbrda.Rd | 25 ++++-- man/decostand.Rd | 4 man/mantel.Rd | 23 ++--- man/mantel.correlog.Rd | 24 +++++ man/metaMDS.Rd | 2 man/mso.Rd | 16 ++- man/ordiArrowTextXY.Rd | 7 - man/permutations.Rd | 16 +-- man/permutest.betadisper.Rd | 2 man/plot.cca.Rd | 9 -- man/vegan-internal.Rd | 5 - man/vegdist.Rd | 3 tests/cca-object-tests.Rout.save | 162 ++++++++++++++++++++++++++++++++------- tests/vegan-tests.R | 6 - tests/vegan-tests.Rout.save | 130 ++++++++++++++++++++++++------- 66 files changed, 753 insertions(+), 350 deletions(-)
Title: Global Sensitivity Analysis of Model Outputs and Importance
Measures
Description: A collection of functions for sensitivity analysis of model outputs (factor screening, global sensitivity analysis and robustness analysis), for variable importance measures of data, as well as for interpretability of machine learning models. Most of the functions have to be applied on scalar output, but several functions support multi-dimensional outputs.
Author: Bertrand Iooss [aut, cre],
Sebastien Da Veiga [aut],
Alexandre Janon [aut],
Gilles Pujol [aut]
Maintainer: Bertrand Iooss <biooss@yahoo.fr>
Diff between sensitivity versions 1.30.0 dated 2024-01-21 and 1.30.1 dated 2024-08-28
DESCRIPTION | 15 +++- MD5 | 62 +++++++++--------- NAMESPACE | 3 NEWS | 5 + R/johnsonshap.R | 127 ++++++++++++++++++++----------------- man/PLIquantile_multivar.Rd | 4 - man/PLIsuperquantile.Rd | 4 - man/PLIsuperquantile_multivar.Rd | 4 - man/PoincareConstant.Rd | 52 ++++++++------- man/correlRatio.Rd | 7 +- man/johnson.Rd | 11 ++- man/johnsonshap.Rd | 132 ++++++++++++++++++++++++++++++++------- man/lmg.Rd | 6 - man/morrisMultOut.Rd | 6 + man/pcc.Rd | 8 +- man/pme.Rd | 17 ++--- man/pmvd.Rd | 6 - man/sensitivity-package.Rd | 8 +- man/shapleyLinearGaussian.Rd | 3 man/shapleyPermEx.Rd | 6 + man/shapleyPermRand.Rd | 16 ++-- man/shapleySubsetMc.Rd | 6 + man/shapleysobol_knn.Rd | 13 ++- man/sobol2002.Rd | 2 man/sobol2007.Rd | 2 man/sobolGP.Rd | 3 man/soboljansen.Rd | 2 man/sobolrank.Rd | 3 man/sobolrec.Rd | 3 man/sobolshap_knn.Rd | 12 +-- man/src.Rd | 8 +- man/testHSIC.Rd | 18 +---- 32 files changed, 354 insertions(+), 220 deletions(-)
Title: Nicely Formatted Contingency Tables and Frequency Tables
Description: Nicely formatted frequency tables and contingency tables (1-way, 2-way, 3-way and 4-way tables), that can easily be exported to HTML or 'Office' documents. Designed to work with pipes.
Author: Mans Thulin [aut, cre],
Kajsa Grind [aut],
Stefan Furne [aut]
Maintainer: Mans Thulin <mans@statistikkonsult.com>
Diff between ivo.table versions 0.4.1 dated 2024-03-19 and 0.5 dated 2024-08-28
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS.md | 4 ++-- R/ivo_tables.R | 6 ++++-- 4 files changed, 13 insertions(+), 11 deletions(-)
Title: Download Map Data from GISCO API - Eurostat
Description: Tools to download data from the GISCO (Geographic Information
System of the Commission) Eurostat database
<https://ec.europa.eu/eurostat/web/gisco>. Global and European map
data available. This package is in no way officially related to or
endorsed by Eurostat.
Author: Diego Hernangomez [aut, cre, cph]
,
EuroGeographics [cph] ,
Vincent Arel-Bundock [cph]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between giscoR versions 0.5.1 dated 2024-07-06 and 0.6.0 dated 2024-08-28
giscoR-0.5.1/giscoR/vignettes/dev |only giscoR-0.6.0/giscoR/DESCRIPTION | 6 giscoR-0.6.0/giscoR/MD5 | 46 - giscoR-0.6.0/giscoR/NEWS.md | 9 giscoR-0.6.0/giscoR/R/gisco_get_airports.R | 275 ++++------ giscoR-0.6.0/giscoR/R/gisco_get_education.R | 12 giscoR-0.6.0/giscoR/R/gisco_get_healthcare.R | 12 giscoR-0.6.0/giscoR/README.md | 2 giscoR-0.6.0/giscoR/data/gisco_db.rda |binary giscoR-0.6.0/giscoR/inst/doc/giscoR.Rmd | 6 giscoR-0.6.0/giscoR/inst/doc/giscoR.html | 242 ++++---- giscoR-0.6.0/giscoR/inst/schemaorg.json | 2 giscoR-0.6.0/giscoR/man/gisco_get.Rd | 2 giscoR-0.6.0/giscoR/man/gisco_get_airports.Rd | 3 giscoR-0.6.0/giscoR/man/gisco_get_education.Rd | 3 giscoR-0.6.0/giscoR/man/gisco_get_healthcare.Rd | 3 giscoR-0.6.0/giscoR/man/gisco_get_nuts.Rd | 2 giscoR-0.6.0/giscoR/man/gisco_get_units.Rd | 2 giscoR-0.6.0/giscoR/tests/testthat/test-gisco_bulk_download.R | 10 giscoR-0.6.0/giscoR/tests/testthat/test-gisco_get_coastallines.R | 2 giscoR-0.6.0/giscoR/tests/testthat/test-gisco_get_countries.R | 9 giscoR-0.6.0/giscoR/tests/testthat/test-gisco_get_healthcare.R | 36 - giscoR-0.6.0/giscoR/tests/testthat/test-gisco_get_nuts.R | 8 giscoR-0.6.0/giscoR/vignettes/giscoR.Rmd | 6 24 files changed, 359 insertions(+), 339 deletions(-)
Title: Climate AEMET Tools
Description: Tools to download the climatic data of the Spanish
Meteorological Agency (AEMET) directly from R using their API and
create scientific graphs (climate charts, trend analysis of climate
time series, temperature and precipitation anomalies maps, warming
stripes graphics, climatograms, etc.).
Author: Manuel Pizarro [aut, cph] ,
Diego Hernangomez [aut, cre] ,
Gema Fernandez-Aviles [aut]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between climaemet versions 1.3.0 dated 2024-06-23 and 1.4.0 dated 2024-08-28
DESCRIPTION | 17 ++-- MD5 | 84 ++++++++++++---------- NAMESPACE | 6 + NEWS.md | 12 +++ R/aemet_alert_zones.R |only R/aemet_alerts.R |only R/aemet_api_query.R | 13 +++ R/aemet_forecast_fires.R |only R/climaemet-package.R | 2 R/climaemet_news.R | 10 +- R/helpers.R | 5 - README.md | 42 +++++------ inst/WORDLIST | 2 inst/doc/climaemet.Rmd | 26 +++--- inst/doc/climaemet.html | 28 +++---- inst/doc/extending-climaemet.Rmd | 89 ++++++++++------------- inst/doc/extending-climaemet.html | 97 ++++++++++++-------------- inst/schemaorg.json | 2 man/aemet_alert_zones.Rd |only man/aemet_alerts.Rd |only man/aemet_beaches.Rd | 3 man/aemet_daily.Rd | 3 man/aemet_extremes_clim.Rd | 3 man/aemet_forecast.Rd | 4 + man/aemet_forecast_beaches.Rd | 4 + man/aemet_forecast_fires.Rd |only man/aemet_forecast_utils.Rd | 3 man/aemet_last_obs.Rd | 3 man/aemet_monthly.Rd | 3 man/aemet_normal.Rd | 3 man/aemet_stations.Rd | 3 man/climaemet_news.Rd | 10 +- man/dms2decdegrees.Rd | 4 - man/figures/README-spatial-1.png |binary tests/testthat/_snaps/aemet_alert_zones.md |only tests/testthat/_snaps/aemet_alerts.md |only tests/testthat/_snaps/aemet_beaches.md | 32 ++++---- tests/testthat/_snaps/aemet_forecast_beach.md | 24 +++--- tests/testthat/_snaps/aemet_forecast_fires.md |only tests/testthat/_snaps/helpers.md | 32 ++++++++ tests/testthat/test-aemet_alert_zones.R |only tests/testthat/test-aemet_alerts.R |only tests/testthat/test-aemet_forecast_beach.R | 73 ++++++++++--------- tests/testthat/test-aemet_forecast_fires.R |only tests/testthat/test-helpers.R | 6 + vignettes/climaemet.Rmd | 26 +++--- vignettes/example-gif.gif |binary vignettes/extending-climaemet.Rmd | 89 ++++++++++------------- vignettes/spatial-1.png |binary 49 files changed, 427 insertions(+), 336 deletions(-)
Title: Bootstrap Functions (Originally by Angelo Canty for S)
Description: Functions and datasets for bootstrapping from the
book "Bootstrap Methods and Their Application" by A. C. Davison and
D. V. Hinkley (1997, CUP), originally written by Angelo Canty for S.
Author: Angelo Canty [aut] ,
Brian Ripley [aut, trl] ,
Alessandra R. Brazzale [ctb, cre]
Maintainer: Alessandra R. Brazzale <brazzale@stat.unipd.it>
Diff between boot versions 1.3-30 dated 2024-02-25 and 1.3-31 dated 2024-08-28
ChangeLog | 4 ++++ DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/bootfuns.q | 10 +++++++++- man/catsM.Rd | 4 ++-- man/censboot.Rd | 2 +- man/motor.Rd | 4 ++-- 7 files changed, 28 insertions(+), 16 deletions(-)
Title: Runs Monte Carlo Markov Chain - With Either 'JAGS', 'nimble' or
'greta' - While Adjusting Burn-in and Thinning Parameters
Description: The function runMCMC_btadjust() returns a mcmc.list object which is the output of a
Markov Chain Monte Carlo obtained - from either 'JAGS', 'nimble' or 'greta' -
after adjusting burn-in and thinning parameters to meet pre-specified criteria
in terms of convergence & effective sample size. Used with 'nimble', runMCMC_btadjust()
allows extra calculations (e.g. information criteria for model comparison and goodness-of-fit
p-values for model diagnosis).
Author: Frederic Gosselin [cre, aut] ,
Institut national de recherche pour l'agriculture, l'alimentation et
l'environnement [cph]
Maintainer: Frederic Gosselin <frederic.gosselin@inrae.fr>
Diff between runMCMCbtadjust versions 1.1.1 dated 2024-06-05 and 1.1.2 dated 2024-08-28
runMCMCbtadjust-1.1.1/runMCMCbtadjust/inst/doc/runMCMCbtadjust_Presentation.Rmd |only runMCMCbtadjust-1.1.1/runMCMCbtadjust/inst/doc/runMCMCbtadjust_Presentation.html |only runMCMCbtadjust-1.1.1/runMCMCbtadjust/vignettes/runMCMCbtadjust_Presentation.Rmd |only runMCMCbtadjust-1.1.1/runMCMCbtadjust/vignettes/runMCMCbtadjust_Presentation.Rmd.orig |only runMCMCbtadjust-1.1.2/runMCMCbtadjust/DESCRIPTION | 8 runMCMCbtadjust-1.1.2/runMCMCbtadjust/MD5 | 63 +- runMCMCbtadjust-1.1.2/runMCMCbtadjust/NEWS.md | 20 runMCMCbtadjust-1.1.2/runMCMCbtadjust/R/findMCMC_strong_corrs.R | 9 runMCMCbtadjust-1.1.2/runMCMCbtadjust/R/runMCMC_btadjust.r | 198 ++++--- runMCMCbtadjust-1.1.2/runMCMCbtadjust/build/vignette.rds |binary runMCMCbtadjust-1.1.2/runMCMCbtadjust/inst/doc/runMCMCbtadjust_Nimble_variations.Rmd | 221 ++++--- runMCMCbtadjust-1.1.2/runMCMCbtadjust/inst/doc/runMCMCbtadjust_Nimble_variations.html | 280 +++++----- runMCMCbtadjust-1.1.2/runMCMCbtadjust/inst/doc/runMCMCbtadjust_Pres.Rmd |only runMCMCbtadjust-1.1.2/runMCMCbtadjust/inst/doc/runMCMCbtadjust_Pres.html |only runMCMCbtadjust-1.1.2/runMCMCbtadjust/inst/doc/runMCMCbtadjust_extraCalculations.Rmd | 81 +- runMCMCbtadjust-1.1.2/runMCMCbtadjust/inst/doc/runMCMCbtadjust_extraCalculations.html | 46 - runMCMCbtadjust-1.1.2/runMCMCbtadjust/man/fragments/Greta_fragment.Rmd | 2 runMCMCbtadjust-1.1.2/runMCMCbtadjust/man/fragments/Jags_fragment.Rmd | 2 runMCMCbtadjust-1.1.2/runMCMCbtadjust/man/fragments/Nimble1_alone_fragment.Rmd | 2 runMCMCbtadjust-1.1.2/runMCMCbtadjust/man/fragments/Nimble1_alone_fragment_reducedfortTest.Rmd |only runMCMCbtadjust-1.1.2/runMCMCbtadjust/man/fragments/Nimble2_removed_chain.Rmd |only runMCMCbtadjust-1.1.2/runMCMCbtadjust/man/fragments/Nimble2_removed_chain_reducedforTest.Rmd |only runMCMCbtadjust-1.1.2/runMCMCbtadjust/man/fragments/Nimble_and_Jags2_fragment.rmd | 2 runMCMCbtadjust-1.1.2/runMCMCbtadjust/man/fragments/Nimble_extraCalculations_DIC_fragment.Rmd | 10 runMCMCbtadjust-1.1.2/runMCMCbtadjust/man/fragments/Nimble_extraCalculations_DIC_parallel_fragment.Rmd | 9 runMCMCbtadjust-1.1.2/runMCMCbtadjust/man/fragments/Nimble_extraCalculations_GOF_fragment.Rmd | 6 runMCMCbtadjust-1.1.2/runMCMCbtadjust/man/fragments/Nimble_extraCalculations_GOF_parallel_fragment.Rmd | 10 runMCMCbtadjust-1.1.2/runMCMCbtadjust/man/fragments/Nimble_samplers1_fragment.Rmd | 13 runMCMCbtadjust-1.1.2/runMCMCbtadjust/man/fragments/Nimble_samplers_APT_fragment.Rmd | 6 runMCMCbtadjust-1.1.2/runMCMCbtadjust/man/fragments/Nimble_samplers_HMC_fragment.Rmd | 6 runMCMCbtadjust-1.1.2/runMCMCbtadjust/man/runMCMC_btadjust.Rd | 13 runMCMCbtadjust-1.1.2/runMCMCbtadjust/vignettes/references.bib | 12 runMCMCbtadjust-1.1.2/runMCMCbtadjust/vignettes/runMCMCbtadjust_Nimble_variations.Rmd | 221 ++++--- runMCMCbtadjust-1.1.2/runMCMCbtadjust/vignettes/runMCMCbtadjust_Nimble_variations.Rmd.orig | 6 runMCMCbtadjust-1.1.2/runMCMCbtadjust/vignettes/runMCMCbtadjust_Pres.Rmd |only runMCMCbtadjust-1.1.2/runMCMCbtadjust/vignettes/runMCMCbtadjust_Pres.Rmd.orig |only runMCMCbtadjust-1.1.2/runMCMCbtadjust/vignettes/runMCMCbtadjust_extraCalculations.Rmd | 81 +- runMCMCbtadjust-1.1.2/runMCMCbtadjust/vignettes/runMCMCbtadjust_extraCalculations.Rmd.orig | 12 38 files changed, 781 insertions(+), 558 deletions(-)
More information about runMCMCbtadjust at CRAN
Permanent link
Title: Postprocessing of Rule Classification Models Learnt on Quantized
Data
Description: Implements the Quantitative Classification-based on
Association Rules (QCBA) algorithm (<doi:10.1007/s10489-022-04370-x>).
QCBA postprocesses rule classification models making them typically smaller and in some cases more accurate.
Supported are 'CBA' implementations from 'rCBA', 'arulesCBA' and 'arc' packages, and 'CPAR', 'CMAR', 'FOIL2' and 'PRM' implementations
from 'arulesCBA' package and 'SBRL' implementation from the 'sbrl' package. The result of the post-processing is an ordered CBA-like rule list.
Author: Tomas Kliegr [aut, cre]
Maintainer: Tomas Kliegr <kliegr@gmail.com>
Diff between qCBA versions 0.5.1 dated 2020-11-19 and 1.0 dated 2024-08-28
qCBA-0.5.1/qCBA/inst/java/AC1.jar |only qCBA-0.5.1/qCBA/man/debug |only qCBA-1.0/qCBA/DESCRIPTION | 33 qCBA-1.0/qCBA/MD5 | 37 qCBA-1.0/qCBA/NAMESPACE | 8 qCBA-1.0/qCBA/NEWS | 31 qCBA-1.0/qCBA/R/rMARC.R | 453 +++++++--- qCBA-1.0/qCBA/inst/java/QCBA.jar |only qCBA-1.0/qCBA/java/build.xml |only qCBA-1.0/qCBA/java/src/eu/kliegr/ac1/R/RinterfaceExtend.java | 47 - qCBA-1.0/qCBA/java/src/eu/kliegr/ac1/Rinterface/discretization/AttributeDiscretization.java | 7 qCBA-1.0/qCBA/java/src/eu/kliegr/ac1/Rinterface/discretization/DiscretizeWithR.java | 1 qCBA-1.0/qCBA/java/src/eu/kliegr/ac1/rule/RuleMultiItem.java | 1 qCBA-1.0/qCBA/java/src/eu/kliegr/ac1/rule/parsers/GUHASerializerWithAnnotationSupport.java | 2 qCBA-1.0/qCBA/man/arulesCBA2arcCBAModel.Rd | 4 qCBA-1.0/qCBA/man/benchmarkQCBA.Rd |only qCBA-1.0/qCBA/man/customCBARuleModel-class.Rd | 6 qCBA-1.0/qCBA/man/predict.qCBARuleModel.Rd | 3 qCBA-1.0/qCBA/man/qcba.Rd | 4 qCBA-1.0/qCBA/man/rcbaModel2CBARuleModel.Rd | 11 qCBA-1.0/qCBA/man/sbrlModel2arcCBARuleModel.Rd | 148 +-- 21 files changed, 531 insertions(+), 265 deletions(-)
Title: Helpers for Model Coefficients Tibbles
Description: Provides suite of functions to work with regression model
'broom::tidy()' tibbles. The suite includes functions to group
regression model terms by variable, insert reference and header rows
for categorical variables, add variable labels, and more.
Author: Joseph Larmarange [aut, cre] ,
Daniel D. Sjoberg [aut]
Maintainer: Joseph Larmarange <joseph@larmarange.net>
Diff between broom.helpers versions 1.16.0 dated 2024-08-20 and 1.17.0 dated 2024-08-28
DESCRIPTION | 13 - MD5 | 226 ++++++++++--------- NAMESPACE | 3 NEWS.md | 26 ++ R/assert_package.R | 18 + R/broom.helpers-package.R | 8 R/custom_tidiers.R | 59 ++--- R/helpers.R | 17 - R/marginal_tidiers.R | 148 +++++++------ R/model_compute_terms_contributions.R | 3 R/model_get_assign.R | 3 R/model_get_coefficients_type.R | 3 R/model_get_contrasts.R | 3 R/model_get_model.R | 3 R/model_get_model_frame.R | 20 + R/model_get_model_matrix.R | 5 R/model_get_n.R | 3 R/model_get_nlevels.R | 3 R/model_get_offset.R | 3 R/model_get_pairwise_contrasts.R | 19 + R/model_get_response.R | 3 R/model_get_response_variable.R | 3 R/model_get_terms.R | 3 R/model_get_weights.R | 3 R/model_get_xlevels.R | 3 R/model_identify_variables.R | 3 R/model_list_contrasts.R | 3 R/model_list_higher_order_variables.R | 3 R/model_list_terms_levels.R | 14 - R/model_list_variables.R | 15 - R/reexport.R | 4 R/scope_tidy.R |only R/select_helpers.R | 93 ++------ R/select_utilities.R | 40 ++- R/tidy_add_coefficients_type.R | 12 - R/tidy_add_contrasts.R | 9 R/tidy_add_estimate_to_reference_rows.R | 17 - R/tidy_add_header_rows.R | 20 - R/tidy_add_n.R | 6 R/tidy_add_pairwise_contrasts.R | 37 +-- R/tidy_add_reference_rows.R | 20 - R/tidy_add_term_labels.R | 21 + R/tidy_add_variable_labels.R | 41 +-- R/tidy_and_attach.R | 24 -- R/tidy_disambiguate_terms.R | 9 R/tidy_identify_variables.R | 6 R/tidy_plus_plus.R | 120 ++++++---- R/tidy_remove_intercept.R | 6 R/tidy_select_variables.R | 18 - inst/doc/tidy.html | 330 ++++++++++++++--------------- man/assert_package.Rd | 18 + man/dot-clean_backticks.Rd | 11 man/dot-escape_regex.Rd | 3 man/dot-formula_list_to_named_list.Rd | 6 man/dot-generic_selector.Rd | 3 man/dot-select_to_varnames.Rd | 6 man/model_compute_terms_contributions.Rd | 3 man/model_get_assign.Rd | 3 man/model_get_coefficients_type.Rd | 3 man/model_get_contrasts.Rd | 3 man/model_get_model.Rd | 3 man/model_get_model_frame.Rd | 3 man/model_get_model_matrix.Rd | 5 man/model_get_n.Rd | 3 man/model_get_nlevels.Rd | 3 man/model_get_offset.Rd | 3 man/model_get_pairwise_contrasts.Rd | 19 + man/model_get_response.Rd | 3 man/model_get_response_variable.Rd | 3 man/model_get_terms.Rd | 3 man/model_get_weights.Rd | 3 man/model_get_xlevels.Rd | 3 man/model_identify_variables.Rd | 3 man/model_list_contrasts.Rd | 3 man/model_list_higher_order_variables.Rd | 3 man/model_list_terms_levels.Rd | 14 - man/model_list_variables.Rd | 15 - man/reexports.Rd | 3 man/scope_tidy.Rd |only man/select_helpers.Rd | 34 +- man/seq_range.Rd | 6 man/tidy_add_coefficients_type.Rd | 12 - man/tidy_add_contrasts.Rd | 9 man/tidy_add_estimate_to_reference_rows.Rd | 22 + man/tidy_add_header_rows.Rd | 23 +- man/tidy_add_n.Rd | 6 man/tidy_add_pairwise_contrasts.Rd | 54 ++-- man/tidy_add_reference_rows.Rd | 18 - man/tidy_add_term_labels.Rd | 29 +- man/tidy_add_variable_labels.Rd | 29 +- man/tidy_all_effects.Rd | 12 - man/tidy_attach_model.Rd | 35 +-- man/tidy_avg_comparisons.Rd | 14 - man/tidy_avg_slopes.Rd | 14 - man/tidy_broom.Rd | 5 man/tidy_disambiguate_terms.Rd | 14 - man/tidy_ggpredict.Rd | 12 - man/tidy_identify_variables.Rd | 11 man/tidy_marginal_contrasts.Rd | 39 ++- man/tidy_marginal_means.Rd | 14 - man/tidy_marginal_predictions.Rd | 31 +- man/tidy_margins.Rd | 12 - man/tidy_multgee.Rd | 12 - man/tidy_parameters.Rd | 12 - man/tidy_plus_plus.Rd | 122 ++++++---- man/tidy_remove_intercept.Rd | 6 man/tidy_select_variables.Rd | 12 - man/tidy_with_broom_or_parameters.Rd | 14 - man/tidy_zeroinfl.Rd | 16 - tests/testthat/test-add_variable_labels.R | 26 -- tests/testthat/test-identify_variables.R | 1 tests/testthat/test-marginal_tidiers.R | 2 tests/testthat/test-model_get_n.R | 14 + tests/testthat/test-select_helpers.R | 232 +------------------- tests/testthat/test-select_variables.R | 6 115 files changed, 1329 insertions(+), 1227 deletions(-)
Title: Utilities for Graphical Rendering and Fonts Management
Description: Tools are provided to compute metrics of formatted strings
and to check the availability of a font. Another set of functions is
provided to support the collection of fonts from 'Google Fonts' in a
cache. Their use is simple within 'R Markdown' documents and 'shiny'
applications but also with graphic productions generated with the
'ggiraph', 'ragg' and 'svglite' packages or with tabular productions
from the 'flextable' package.
Author: David Gohel [aut, cre],
Hadley Wickham [aut],
Lionel Henry [aut],
Jeroen Ooms [aut] ,
Yixuan Qiu [ctb],
R Core Team [cph] ,
ArData [cph],
RStudio [cph]
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between gdtools versions 0.3.7 dated 2024-03-05 and 0.4.0 dated 2024-08-28
gdtools-0.3.7/gdtools/NEWS |only gdtools-0.4.0/gdtools/DESCRIPTION | 51 ++++++------- gdtools-0.4.0/gdtools/MD5 | 33 ++++---- gdtools-0.4.0/gdtools/NAMESPACE | 7 - gdtools-0.4.0/gdtools/NEWS.md |only gdtools-0.4.0/gdtools/R/font-caching.R | 49 ++++++------ gdtools-0.4.0/gdtools/R/font_family_exists.R | 18 ++++ gdtools-0.4.0/gdtools/R/fontconfig.R | 14 ++- gdtools-0.4.0/gdtools/R/fonts.R | 61 +++++++++++++--- gdtools-0.4.0/gdtools/R/sysdata.rda |binary gdtools-0.4.0/gdtools/man/addGFontHtmlDependency.Rd | 2 gdtools-0.4.0/gdtools/man/check_gfonts.Rd |only gdtools-0.4.0/gdtools/man/fonts_cache_dir.Rd | 4 - gdtools-0.4.0/gdtools/man/gfontHtmlDependency.Rd | 4 - gdtools-0.4.0/gdtools/man/install_gfont_script.Rd | 2 gdtools-0.4.0/gdtools/man/installed_gfonts.Rd | 2 gdtools-0.4.0/gdtools/man/register_gfont.Rd | 2 gdtools-0.4.0/gdtools/tests/testthat/test-fonts.R |only gdtools-0.4.0/gdtools/tests/testthat/test-str_metrics.R | 25 +++++- gdtools-0.4.0/gdtools/tests/testthat/test-utils.R |only 20 files changed, 173 insertions(+), 101 deletions(-)
Title: Structural Equation Models
Description: Functions for fitting general linear structural
equation models (with observed and latent variables) using the RAM approach,
and for fitting structural equations in observed-variable models by two-stage least squares.
Author: John Fox [aut],
Zhenghua Nie [aut, cre],
Jarrett Byrnes [aut],
Michael Culbertson [ctb],
Saikat DebRoy [ctb],
Michael Friendly [ctb],
Benjamin Goodrich [ctb],
Richard H. Jones [ctb],
Adam Kramer [ctb],
Georges Monette [ctb],
Frederick Novomestky [ctb [...truncated...]
Maintainer: Zhenghua Nie <zhenghua.nie@gmail.com>
Diff between sem versions 3.1-15 dated 2022-04-10 and 3.1-16 dated 2024-08-28
sem-3.1-15/sem/data/Klein.txt.bz2 |only sem-3.1-16/sem/DESCRIPTION | 26 - sem-3.1-16/sem/MD5 | 34 - sem-3.1-16/sem/NAMESPACE | 2 sem-3.1-16/sem/NEWS | 6 sem-3.1-16/sem/R/csem.R | 4 sem-3.1-16/sem/R/pathDiagram.R | 31 - sem-3.1-16/sem/data/Bollen.rda |binary sem-3.1-16/sem/data/CNES.rda |binary sem-3.1-16/sem/data/HS.data.rda |binary sem-3.1-16/sem/data/Klein.txt.gz |only sem-3.1-16/sem/data/Tests.rda |binary sem-3.1-16/sem/inst/etc/subscripts.txt |only sem-3.1-16/sem/inst/etc/superscripts.txt |only sem-3.1-16/sem/man/information.criteria.Rd | 4 sem-3.1-16/sem/man/miSem.Rd | 12 sem-3.1-16/sem/man/pathDiagram.Rd | 596 ++++++++++++++--------------- sem-3.1-16/sem/man/specifyModel.Rd | 2 sem-3.1-16/sem/src/csem.cpp | 160 +++---- sem-3.1-16/sem/src/csemnlm.c | 200 ++++----- 20 files changed, 544 insertions(+), 533 deletions(-)
Title: Read and Write Frictionless Data Packages
Description: Read and write Frictionless Data Packages. A 'Data Package'
(<https://specs.frictionlessdata.io/data-package/>) is a simple
container format and standard to describe and package a collection of
(tabular) data. It is typically used to publish FAIR
(<https://www.go-fair.org/fair-principles/>) and open datasets.
Author: Peter Desmet [aut, cre] ),
Damiano Oldoni [aut] ),
Pieter Huybrechts [aut] ),
Sanne Govaert [aut] ),
Kyle Husmann [ctb] ,
Research Institute for Nature and Forest [cph]
,
LifeWatch Belgium [fnd] ,
Beatriz Milz [rev] ,
Joao Martins [rev]
Maintainer: Peter Desmet <peter.desmet@inbo.be>
Diff between frictionless versions 1.1.0 dated 2024-03-29 and 1.2.0 dated 2024-08-28
frictionless-1.1.0/frictionless/R/data.R |only frictionless-1.1.0/frictionless/data |only frictionless-1.1.0/frictionless/inst/CITATION |only frictionless-1.1.0/frictionless/inst/extdata/observations_1.csv |only frictionless-1.1.0/frictionless/inst/extdata/observations_2.csv |only frictionless-1.2.0/frictionless/DESCRIPTION | 65 - frictionless-1.2.0/frictionless/MD5 | 130 ++- frictionless-1.2.0/frictionless/NAMESPACE | 1 frictionless-1.2.0/frictionless/NEWS.md | 21 frictionless-1.2.0/frictionless/R/add_resource.R | 86 +- frictionless-1.2.0/frictionless/R/check_data.R | 2 frictionless-1.2.0/frictionless/R/check_package.R | 4 frictionless-1.2.0/frictionless/R/check_path.R | 12 frictionless-1.2.0/frictionless/R/check_schema.R | 2 frictionless-1.2.0/frictionless/R/col_types.R |only frictionless-1.2.0/frictionless/R/collectors.R |only frictionless-1.2.0/frictionless/R/create_package.R | 14 frictionless-1.2.0/frictionless/R/create_schema.R | 51 - frictionless-1.2.0/frictionless/R/example_package.R |only frictionless-1.2.0/frictionless/R/get_resource.R | 26 frictionless-1.2.0/frictionless/R/get_schema.R | 17 frictionless-1.2.0/frictionless/R/locale.R |only frictionless-1.2.0/frictionless/R/print.R | 12 frictionless-1.2.0/frictionless/R/read_from_path.R |only frictionless-1.2.0/frictionless/R/read_package.R | 14 frictionless-1.2.0/frictionless/R/read_resource.R | 339 --------- frictionless-1.2.0/frictionless/R/remove_resource.R | 12 frictionless-1.2.0/frictionless/R/resources.R | 4 frictionless-1.2.0/frictionless/R/utils.R | 2 frictionless-1.2.0/frictionless/R/write_package.R | 12 frictionless-1.2.0/frictionless/README.md | 7 frictionless-1.2.0/frictionless/build/vignette.rds |binary frictionless-1.2.0/frictionless/inst/doc/data-package.R |only frictionless-1.2.0/frictionless/inst/doc/data-package.Rmd |only frictionless-1.2.0/frictionless/inst/doc/data-package.html |only frictionless-1.2.0/frictionless/inst/doc/data-resource.R |only frictionless-1.2.0/frictionless/inst/doc/data-resource.Rmd |only frictionless-1.2.0/frictionless/inst/doc/data-resource.html |only frictionless-1.2.0/frictionless/inst/doc/frictionless.Rmd | 77 +- frictionless-1.2.0/frictionless/inst/doc/frictionless.html | 357 ++++------ frictionless-1.2.0/frictionless/inst/doc/table-dialect.R |only frictionless-1.2.0/frictionless/inst/doc/table-dialect.Rmd |only frictionless-1.2.0/frictionless/inst/doc/table-dialect.html |only frictionless-1.2.0/frictionless/inst/doc/table-schema.R |only frictionless-1.2.0/frictionless/inst/doc/table-schema.Rmd |only frictionless-1.2.0/frictionless/inst/doc/table-schema.html |only frictionless-1.2.0/frictionless/inst/extdata/datapackage.json | 6 frictionless-1.2.0/frictionless/inst/extdata/observations_1.tsv |only frictionless-1.2.0/frictionless/inst/extdata/observations_2.tsv |only frictionless-1.2.0/frictionless/man/add_resource.Rd | 65 + frictionless-1.2.0/frictionless/man/check_package.Rd | 6 frictionless-1.2.0/frictionless/man/create_package.Rd | 13 frictionless-1.2.0/frictionless/man/create_schema.Rd | 55 - frictionless-1.2.0/frictionless/man/example_package.Rd | 49 - frictionless-1.2.0/frictionless/man/frictionless-package.Rd | 9 frictionless-1.2.0/frictionless/man/get_schema.Rd | 21 frictionless-1.2.0/frictionless/man/print.datapackage.Rd | 4 frictionless-1.2.0/frictionless/man/read_package.Rd | 14 frictionless-1.2.0/frictionless/man/read_resource.Rd | 183 ----- frictionless-1.2.0/frictionless/man/remove_resource.Rd | 17 frictionless-1.2.0/frictionless/man/resources.Rd | 6 frictionless-1.2.0/frictionless/man/write_package.Rd | 6 frictionless-1.2.0/frictionless/tests/testthat/test-add_resource.R | 62 + frictionless-1.2.0/frictionless/tests/testthat/test-check_data.R | 3 frictionless-1.2.0/frictionless/tests/testthat/test-check_package.R | 8 frictionless-1.2.0/frictionless/tests/testthat/test-check_path.R | 26 frictionless-1.2.0/frictionless/tests/testthat/test-check_schema.R | 10 frictionless-1.2.0/frictionless/tests/testthat/test-create_package.R | 4 frictionless-1.2.0/frictionless/tests/testthat/test-print.R | 4 frictionless-1.2.0/frictionless/tests/testthat/test-read_package.R | 17 frictionless-1.2.0/frictionless/tests/testthat/test-read_resource.R | 105 +- frictionless-1.2.0/frictionless/tests/testthat/test-remove_resource.R | 13 frictionless-1.2.0/frictionless/tests/testthat/test-resources.R | 5 frictionless-1.2.0/frictionless/tests/testthat/test-write_package.R | 158 +++- frictionless-1.2.0/frictionless/vignettes/data-package.Rmd |only frictionless-1.2.0/frictionless/vignettes/data-resource.Rmd |only frictionless-1.2.0/frictionless/vignettes/frictionless.Rmd | 77 +- frictionless-1.2.0/frictionless/vignettes/frictionless.Rmd.orig | 34 frictionless-1.2.0/frictionless/vignettes/table-dialect.Rmd |only frictionless-1.2.0/frictionless/vignettes/table-schema.Rmd |only 80 files changed, 957 insertions(+), 1290 deletions(-)
Title: Create Useful Summaries of the Portal Data
Description: Download and generate summaries for the rodent,
plant, ant, and weather data from the Portal Project. Portal is a
long-term (and ongoing) experimental monitoring site in the Chihuahuan
desert. The raw data files can be found at
<https://github.com/weecology/portaldata>.
Author: Glenda M. Yenni [aut, cre] ,
Hao Ye [aut] ,
Erica M. Christensen [aut] ,
Juniper L. Simonis [aut] ,
Ellen K. Bledsoe [aut] ,
Renata M. Diaz [aut] ,
Shawn D. Taylor [aut] ,
Ethan P, White [aut] ,
S.K. Morgan Ernest [aut] ,
Weecology [cph]
Maintainer: Glenda M. Yenni <glenda@weecology.org>
Diff between portalr versions 0.4.1 dated 2023-08-23 and 0.4.2 dated 2024-08-28
portalr-0.4.1/portalr/man/figures/portalr.png |only portalr-0.4.1/portalr/tests/testthat/setup.R |only portalr-0.4.1/portalr/tests/testthat/teardown.R |only portalr-0.4.2/portalr/DESCRIPTION | 19 - portalr-0.4.2/portalr/MD5 | 61 ++---- portalr-0.4.2/portalr/NEWS.md | 14 - portalr-0.4.2/portalr/R/download_data.R | 101 +++++----- portalr-0.4.2/portalr/R/load_data.R | 3 portalr-0.4.2/portalr/R/phenocam.R | 2 portalr-0.4.2/portalr/R/process_data_utils.R | 2 portalr-0.4.2/portalr/R/utils-format-message.R | 6 portalr-0.4.2/portalr/R/zzz.R | 11 - portalr-0.4.2/portalr/README.md | 12 - portalr-0.4.2/portalr/build/vignette.rds |binary portalr-0.4.2/portalr/inst/doc/portal_researcher_examples.R | 20 - portalr-0.4.2/portalr/inst/doc/portal_researcher_examples.html | 71 ++++--- portalr-0.4.2/portalr/inst/doc/rodent-abundance-demo.R | 12 - portalr-0.4.2/portalr/inst/doc/rodent-abundance-demo.html | 37 +-- portalr-0.4.2/portalr/man/figures/logo.png |only portalr-0.4.2/portalr/man/portalr.Rd | 2 portalr-0.4.2/portalr/tests/testthat.R | 8 portalr-0.4.2/portalr/tests/testthat/_snaps |only portalr-0.4.2/portalr/tests/testthat/test-01-data-retrieval.R | 71 +++---- portalr-0.4.2/portalr/tests/testthat/test-02-data-processing.R | 22 +- portalr-0.4.2/portalr/tests/testthat/test-03-summarize-rodents.R | 35 +-- portalr-0.4.2/portalr/tests/testthat/test-04-weather.R | 24 +- portalr-0.4.2/portalr/tests/testthat/test-05-individual-stake-data.R | 14 - portalr-0.4.2/portalr/tests/testthat/test-06-summarize-plants.R | 2 portalr-0.4.2/portalr/tests/testthat/test-07-seasons.R | 2 portalr-0.4.2/portalr/tests/testthat/test-08-NDVI.R | 18 - portalr-0.4.2/portalr/tests/testthat/test-09-get-future-moons.R | 4 portalr-0.4.2/portalr/tests/testthat/test-10-summarize_ants.R | 2 portalr-0.4.2/portalr/tests/testthat/test-11-phenocam.R | 14 - portalr-0.4.2/portalr/tests/testthat/test-99-regression.R | 10 34 files changed, 325 insertions(+), 274 deletions(-)
More information about FishProxCompAnalyzer at CRAN
Permanent link
Title: Detect and Parse Historic Dates
Description: Automatically converts language-specific verbal information, e.g., "1st half of the 19th century," to its standardized numerical counterparts, e.g., "1801-01-01/1850-12-31." It follows the recommendations of the 'MIDAS' ('Marburger Informations-, Dokumentations- und Administrations-System'), see <doi:10.11588/artdok.00003770>.
Author: Stefanie Schneider [cre, aut]
Maintainer: Stefanie Schneider <stefanie.schneider@itg.uni-muenchen.de>
Diff between unstruwwel versions 0.2.0 dated 2022-08-31 and 0.2.1 dated 2024-08-28
DESCRIPTION | 10 +++++----- MD5 | 26 +++++++++++++------------- NEWS.md | 6 ++++++ R/accessors-century.R | 4 ++-- R/accessors-decade.R | 4 ++-- R/accessors-period.R | 4 ++-- R/accessors-year.R | 6 +++--- R/unstruwwel.R | 2 +- README.md | 18 ++++++++++-------- man/Century.Rd | 4 ++-- man/Decade.Rd | 4 ++-- man/Periods.Rd | 4 ++-- man/Year.Rd | 6 +++--- man/unstruwwel.Rd | 2 +- 14 files changed, 54 insertions(+), 46 deletions(-)
Title: Spatial Modeling on Stream Networks
Description: Spatial statistical modeling and prediction for data on stream networks, including models based on in-stream distance (Ver Hoef, J.M. and Peterson, E.E., (2010) <DOI:10.1198/jasa.2009.ap08248>.) Models are created using moving average constructions. Spatial linear models, including explanatory variables, can be fit with (restricted) maximum likelihood. Mapping and other graphical functions are included.
Author: Michael Dumelle [aut, cre] ,
Jay M. Ver Hoef [aut],
Erin Peterson [aut],
Alan Pearse [ctb],
Dan Isaak [ctb]
Maintainer: Michael Dumelle <Dumelle.Michael@epa.gov>
Diff between SSN2 versions 0.2.0 dated 2024-07-26 and 0.2.1 dated 2024-08-28
DESCRIPTION | 6 MD5 | 126 +- NEWS.md | 7 R/SSN2.R | 46 - R/Torgegram.R | 352 +++---- R/cov_betahat_adjust.R | 42 R/cov_initial_search.R | 386 ++++---- R/cov_initial_search_glm.R | 402 ++++---- R/cov_matrix.R | 628 ++++++------- R/cov_vector.R | 544 ++++++------ R/createBinaryID.R | 134 +- R/create_netgeom.R | 286 +++--- R/get.rid.fc.R | 30 R/getObsRelationshipsDF.R | 134 +- R/getPredRelationshipsDF.R | 88 - R/get_Torgegram_initial_object.R | 66 - R/get_anisotropy_corrected.R | 84 - R/get_cholprods.R | 110 +- R/get_cov_matrix.R | 192 ++-- R/get_cov_vector.R | 132 +- R/get_data_object.R | 490 +++++----- R/get_data_object_glm.R | 550 ++++++------ R/get_dist_object.R | 688 +++++++-------- R/get_dist_predbk_object.R | 310 +++--- R/get_eigenprods.R | 154 +-- R/get_model_stats.R | 594 ++++++------- R/get_model_stats_glm.R | 970 ++++++++++----------- R/gloglik.R | 70 - R/gloglik_products.R | 168 +-- R/initial.R | 630 ++++++------- R/initial_NA.R | 434 ++++----- R/laploglik.R | 80 - R/laploglik_products.R | 826 +++++++++--------- R/local.R | 336 +++---- R/loocv.R | 590 ++++++------- R/loocv_glm.R | 452 +++++----- R/optim.R | 240 ++--- R/optim2orig.R | 178 +-- R/orig2optim.R | 468 +++++----- R/params.R | 906 ++++++++++---------- R/partition.R | 108 +- R/predict_glm.R | 828 +++++++++--------- R/print.SSN.R | 82 - R/random.R | 400 ++++---- R/restruct_ssn_missing.R | 36 R/transform_anis.R | 62 - R/use_gloglik.R | 242 ++--- R/use_laploglik.R | 226 ++--- R/utils.R | 164 +-- README.md | 23 build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 52 - inst/doc/introduction.Rmd | 1582 +++++++++++++++++------------------ inst/doc/introduction.html | 22 inst/references.bib | 1012 +++++++++++----------- man/reexports.Rd | 2 tests/testthat/helper-data.R | 32 tests/testthat/test-Torgegram.R | 90 - tests/testthat/test-dist_objects.R | 254 ++--- tests/testthat/test-extras-ssn_glm.R | 328 +++---- tests/testthat/test-extras-ssn_lm.R | 166 +-- tests/testthat/test-ssn-object.R | 228 ++--- vignettes/introduction.Rmd | 1582 +++++++++++++++++------------------ 64 files changed, 10240 insertions(+), 10210 deletions(-)