Title: Generate Samples from Multivariate Truncated Normal
Distributions
Description: Efficient sampling from high-dimensional truncated Gaussian
distributions, or multivariate truncated normal (MTN). Techniques include
zigzag Hamiltonian Monte Carlo as in Akihiko Nishimura, Zhenyu Zhang and
Marc A. Suchard (2024) <doi:10.1080/01621459.2024.2395587>, and harmonic Monte Carlo in Ari Pakman
and Liam Paninski (2014) <doi:10.1080/10618600.2013.788448>.
Author: Zhenyu Zhang [aut, cre],
Andrew Chin [aut],
Akihiko Nishimura [aut],
Marc A. Suchard [aut],
John W. Ratcliff et al. [cph, ctb]
Maintainer: Zhenyu Zhang <zhangzhenyusa@gmail.com>
Diff between hdtg versions 0.2.3 dated 2025-10-28 and 0.3.3 dated 2026-01-25
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Title: Difference-in-Differences with Unpoolable Data
Description: A framework for estimating difference-in-differences with
unpoolable data, based on Karim, Webb, Austin, and Strumpf (2025)
<doi:10.48550/arXiv.2403.15910>. Supports common or staggered adoption, multiple
groups, and the inclusion of covariates. Also computes p-values for the
aggregate average treatment effect on the treated via the
randomization inference procedure described in MacKinnon and Webb (2020)
<doi:10.1016/j.jeconom.2020.04.024>.
Author: Eric Jamieson [aut, cre, cph]
Maintainer: Eric Jamieson <ericbrucejamieson@gmail.com>
Diff between undidR versions 2.0.0 dated 2025-05-31 and 3.0.0 dated 2026-01-25
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Title: Spacekime Analytics, Time Complexity and Inferential Uncertainty
Description: Provide the core functionality to transform longitudinal data to
complex-time (kime) data using analytic and numerical techniques, visualize the original
time-series and reconstructed kime-surfaces, perform model based (e.g., tensor-linear regression)
and model-free classification and clustering methods in the book Dinov, ID and Velev, MV. (2021)
"Data Science: Time Complexity, Inferential Uncertainty, and Spacekime Analytics", De Gruyter STEM Series,
ISBN 978-3-11-069780-3. <https://www.degruyter.com/view/title/576646>.
The package includes 18 core functions which can be separated into three groups.
1) draw longitudinal data, such as Functional magnetic resonance imaging(fMRI) time-series, and forecast or transform the time-series data.
2) simulate real-valued time-series data, e.g., fMRI time-courses, detect the activated areas,
report the corresponding p-values, and visualize the p-values in the 3D brain space.
3) Laplace transform and kimesurface reconstructions of the fMRI d [...truncated...]
Author: Yongkai Qiu [aut],
Zhe Yin [aut],
Jinwen Cao [aut],
Yupeng Zhang [aut],
Yuyao Liu [aut],
Rongqian Zhang [aut],
Yueyang Shen [aut, cre],
Rouben Rostamian [ctb],
Ranjan Maitra [ctb],
Daniel Rowe [ctb],
Daniel Adrian [ctb] ,
Yunjie Guo [aut],
Ivo Dinov [...truncated...]
Maintainer: Yueyang Shen <petersyy@umich.edu>
Diff between TCIU versions 1.2.7 dated 2024-09-14 and 1.2.8 dated 2026-01-25
DESCRIPTION | 8 MD5 | 14 R/fmri_image.R | 178 ++ build/vignette.rds |binary inst/doc/tciu-LT-kimesurface.R | 362 ++--- inst/doc/tciu-LT-kimesurface.html | 2636 ++++++++++++++++++++++++++++++++++---- inst/doc/tciu-fMRI-analytics.R | 112 - inst/doc/tciu-fMRI-analytics.html | 410 ++--- 8 files changed, 2961 insertions(+), 759 deletions(-)
Title: Optimization Toolkit for Pharmacokinetic-Pharmacodynamic Models
Description: A port of the Scarabee toolkit originally written as a
Matlab-based application. scaRabee provides a framework for simulation and optimization
of pharmacokinetic-pharmacodynamic models at the individual and population level.
It is built on top of the neldermead package, which provides the direct search
algorithm proposed by Nelder and Mead for model optimization.
Author: Sebastien Bihorel [aut, cre]
Maintainer: Sebastien Bihorel <sb.pmlab@gmail.com>
Diff between scaRabee versions 1.1-4 dated 2022-02-04 and 1.1-5 dated 2026-01-25
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scaRabee-1.1-5/scaRabee/R/scarabee.read.model.R | 2 scaRabee-1.1-5/scaRabee/R/scarabee.read.parms.R | 14 scaRabee-1.1-5/scaRabee/R/simulation.plot.R | 2 scaRabee-1.1-5/scaRabee/R/simulation.report.R | 2 scaRabee-1.1-5/scaRabee/R/weighting.R | 2 scaRabee-1.1-5/scaRabee/build/vignette.rds |binary scaRabee-1.1-5/scaRabee/data/example1.data.rda |binary scaRabee-1.1-5/scaRabee/data/example1.initials.rda |binary scaRabee-1.1-5/scaRabee/data/example2.data.rda |binary scaRabee-1.1-5/scaRabee/data/example2.initials.rda |binary scaRabee-1.1-5/scaRabee/data/example3.data.rda |binary scaRabee-1.1-5/scaRabee/data/example3.initials.rda |binary scaRabee-1.1-5/scaRabee/data/example4.data.rda |binary scaRabee-1.1-5/scaRabee/data/example4.initials.rda |binary scaRabee-1.1-5/scaRabee/data/example6.data.rda |binary scaRabee-1.1-5/scaRabee/data/example6.initials.rda |binary scaRabee-1.1-5/scaRabee/data/example8.data.rda |binary scaRabee-1.1-5/scaRabee/data/example8.initials.rda |binary 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Title: Convenient Access to NYC Open Data API Endpoints
Description: Provides a unified set of helper functions to access datasets
from the NYC Open Data platform <https://opendata.cityofnewyork.us/>.
Functions return results as tidy tibbles and support optional filtering,
sorting, and row limits via the Socrata API. The package includes endpoints
for 311 service requests, DOB job applications, juvenile justice metrics,
school safety, environmental data, event permitting, and additional citywide datasets. The
package is utilized as a primary pedagogical tool for teaching data acquisition in 'Reproducible Research Using R'.
Author: Christian Martinez [aut, cre]
Maintainer: Christian Martinez <c.martinez0@outlook.com>
Diff between nycOpenData versions 0.1.4 dated 2026-01-21 and 0.1.5 dated 2026-01-25
DESCRIPTION | 18 +- MD5 | 166 +++++++++++---------- NEWS.md | 32 ++-- R/nyc_2015_2018_school_discharge_report.R | 7 R/nyc_311.R | 5 R/nyc_311_2010_2019.R |only R/nyc_borough_community_report.R | 5 R/nyc_cause_of_death.R | 7 R/nyc_city_record.R | 7 R/nyc_civil_service_list.R | 7 R/nyc_daily_attendance_2018_2019.R | 7 R/nyc_detention_admissions.R | 7 R/nyc_dhs_daily_report.R | 7 R/nyc_dob_job_applications.R | 8 - R/nyc_dob_permit_issuance.R | 7 R/nyc_domestic_violence_annual_report.R | 7 R/nyc_dop_Juvenile_cases.R | 7 R/nyc_dop_juvenile_rearrest_rate.R | 7 R/nyc_film_permits.R | 7 R/nyc_for_hire_vehicles.R | 7 R/nyc_homeless_drop_in_centers.R | 7 R/nyc_homeless_population_by_year.R | 7 R/nyc_medallion_drivers_active.R | 7 R/nyc_medallion_drivers_authorized.R | 7 R/nyc_motor_vehicle_collisions_crashes.R | 7 R/nyc_museum_locations.R | 7 R/nyc_nypd_hate_crimes.R | 7 R/nyc_open_parking_camera_violations.R | 3 R/nyc_period_attendance_reporting.R | 7 R/nyc_permit_events_historic.R | 22 +- R/nyc_pets_in_shelters.R | 7 R/nyc_restaurant_inspection_results.R | 7 R/nyc_runaway_and_homeless_youth_daily_census.R | 7 R/nyc_school_discharge.R | 7 R/nyc_school_discharge_report_2013_2015.R | 7 R/nyc_street_hail_livery_active.R | 7 R/nyc_tlc_new_driver_app_status.R | 7 R/nyc_tree_census_2015.R | 5 R/nyc_urban_park_animal_condition.R | 7 R/nyc_violent_disruptive_school_incidents.R | 7 README.md | 49 ++++-- build |only inst |only man/figures |only man/nyc_311.Rd | 5 man/nyc_311_2010_2019.Rd |only man/nyc_borough_community_report.Rd | 5 man/nyc_cause_of_death.Rd | 7 man/nyc_city_record.Rd | 7 man/nyc_civil_service_list.Rd | 7 man/nyc_daily_attendance_2018_2019.Rd | 7 man/nyc_detention_admissions.Rd | 7 man/nyc_dhs_daily_report.Rd | 7 man/nyc_dob_job_applications.Rd | 8 - man/nyc_dob_permit_issuance.Rd | 7 man/nyc_domestic_violence_annual_report.Rd | 7 man/nyc_dop_Juvenile_cases.Rd | 7 man/nyc_dop_juvenile_rearrest_rate.Rd | 7 man/nyc_film_permits.Rd | 7 man/nyc_for_hire_vehicles.Rd | 7 man/nyc_homeless_drop_in_centers.Rd | 7 man/nyc_homeless_population_by_year.Rd | 7 man/nyc_medallion_drivers_active.Rd | 7 man/nyc_medallion_drivers_authorized.Rd | 7 man/nyc_motor_vehicle_collisions_crashes.Rd | 7 man/nyc_museum_locations.Rd | 7 man/nyc_nypd_hate_crimes.Rd | 7 man/nyc_open_parking_camera_violations.Rd | 3 man/nyc_period_attendance_reporting.Rd | 7 man/nyc_permit_events_historic.Rd | 22 +- man/nyc_pets_in_shelters.Rd | 7 man/nyc_restaurant_inspection_results.Rd | 7 man/nyc_runaway_and_homeless_youth_daily_census.Rd | 7 man/nyc_school_discharge.Rd | 7 man/nyc_school_discharge_report_2013_2015.Rd | 7 man/nyc_school_discharge_report_2015_2018.Rd | 7 man/nyc_street_hail_livery_active.Rd | 7 man/nyc_tlc_new_driver_app_status.Rd | 7 man/nyc_tree_census_2015.Rd | 5 man/nyc_urban_park_animal_condition.Rd | 7 man/nyc_violent_disruptive_school_incidents.Rd | 7 tests |only vignettes |only 83 files changed, 391 insertions(+), 390 deletions(-)
Title: Fast AR and ARMA Noise Whitening for Functional MRI (fMRI)
Design and Data
Description: Lightweight utilities to estimate autoregressive (AR) and
autoregressive moving average (ARMA) noise models from residuals and apply
matched generalized least squares to whiten functional magnetic resonance
imaging (fMRI) design and data matrices. The ARMA estimator follows a
classic 1982 approach <doi:10.1093/biomet/69.1.81>, and a restricted AR
family mirrors workflows described by Cox (2012)
<doi:10.1016/j.neuroimage.2011.08.056>.
Author: Bradley Buchsbaum [aut, cre]
Maintainer: Bradley Buchsbaum <brad.buchsbaum@gmail.com>
Diff between fmriAR versions 0.2.0 dated 2025-11-03 and 0.3.1 dated 2026-01-25
DESCRIPTION | 8 - MD5 | 19 ++-- NEWS.md |only R/fit_and_apply.R | 108 ++++++++++++++++++++++--- inst/doc/fmriAR-introduction.R | 29 ++++++ inst/doc/fmriAR-introduction.Rmd | 38 +++++++- inst/doc/fmriAR-introduction.html | 164 +++++++++++++++++++++++--------------- man/fit_noise.Rd | 8 + man/fmriAR-package.Rd | 4 tests/testthat/test-whitening.R | 86 +++++++++++++++++++ vignettes/fmriAR-introduction.Rmd | 38 +++++++- 11 files changed, 399 insertions(+), 103 deletions(-)
Title: In-Silico Knockout Experiments from Single-Cell Gene Regulatory
Networks
Description: A workflow based on 'scTenifoldNet' to perform in-silico knockout experiments using single-cell RNA sequencing (scRNA-seq) data from wild-type (WT) control samples as input. First, the package constructs a single-cell gene regulatory network (scGRN) and knocks out a target gene from the adjacency matrix of the WT scGRN by setting the gene’s outdegree edges to zero. Then, it compares the knocked out scGRN with the WT scGRN to identify differentially regulated genes, called virtual-knockout perturbed genes, which are used to assess the impact of the gene knockout and reveal the gene’s function in the analyzed cells.
Author: Daniel Osorio [aut, cre] ,
Yan Zhong [aut, ctb],
Guanxun Li [aut, ctb],
Qian Xu [aut, ctb],
Yongjuan Yang [aut, ctb],
Yanan Tian [aut, ctb],
Robert Chapkin [aut, ctb],
Jianhua Huang [aut, ctb],
James J. Cai [aut, ctb, ths]
Maintainer: Daniel Osorio <dcosorioh@gmail.com>
Diff between scTenifoldKnk versions 1.0.1 dated 2021-01-22 and 1.0.3 dated 2026-01-25
DESCRIPTION | 33 +++---- MD5 | 22 ++-- NAMESPACE | 45 +++++---- R/dRegulation.R | 121 +++++++++++++------------ R/plotKO.R |only R/qFilter.R | 12 +- R/scQC.R | 69 +++++++------- R/scTenifoldKnk.R | 174 ++++++++++++++++++++++--------------- R/strictDirection.R | 14 +- README.md | 122 ++++++++++++++----------- inst/single-cell/example.csv | 202 +++++++++++++++++++++---------------------- man/plotKO.Rd |only man/scTenifoldKnk.Rd | 153 +++++++++++++++++--------------- 13 files changed, 519 insertions(+), 448 deletions(-)
Title: Mechanistic Metacommunity Simulator
Description: Flexible, mechanistic, and spatially explicit simulator of
metacommunities. It extends our previous package - 'rangr' (see
<https://github.com/ropensci/rangr>), which implemented a mechanistic
virtual species simulator integrating population dynamics and
dispersal. The 'mrangr' package adds the ability to simulate multiple
species interacting through an asymmetric matrix of pairwise
relationships, allowing users to model all types of biotic
interactions — competitive, facilitative, or neutral — within
spatially explicit virtual environments. This work was supported by
the National Science Centre, Poland, grant no. 2018/29/B/NZ8/00066 and
the Poznań Supercomputing and Networking Centre (grant no. pl0090-01).
Author: Katarzyna Markowska [aut, cre, cph],
Lechoslaw Kuczynski [aut, cph]
Maintainer: Katarzyna Markowska <katarzyna.markowska@amu.edu.pl>
Diff between mrangr versions 1.0.0 dated 2026-01-19 and 1.0.1 dated 2026-01-25
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Title: Missing Value Imputation in Parallel
Description: A framework that boosts the imputation of 'missForest' by Stekhoven, D.J. and Bühlmann, P. (2012) <doi:10.1093/bioinformatics/btr597> by harnessing parallel processing and through the fast Gradient Boosted Decision Trees (GBDT) implementation 'LightGBM' by Ke, Guolin et al.(2017) <https://papers.nips.cc/paper/6907-lightgbm-a-highly-efficient-gradient-boosting-decision>. 'misspi' has the following main advantages: 1. Allows embrassingly parallel imputation on large scale data. 2. Accepts a variety of machine learning models as methods with friendly user portal. 3. Supports multiple initializations methods. 4. Supports early stopping that prohibits unnecessary iterations.
Author: Zhongli Jiang [aut, cre]
Maintainer: Zhongli Jiang <happycatstat@gmail.com>
Diff between misspi versions 0.1.0 dated 2023-10-17 and 0.1.1 dated 2026-01-25
DESCRIPTION | 20 +++++++-------- MD5 | 18 ++++++++------ NEWS.md |only R/evaliq.R | 3 +- R/missar.R | 3 -- R/misspi-package.R |only R/misspi.R | 63 +++++++++++++++++++++++++++++++++++--------------- README.md |only man/evaliq.Rd | 3 +- man/missar.Rd | 3 -- man/misspi-package.Rd |only man/misspi.Rd | 6 ++-- 12 files changed, 74 insertions(+), 45 deletions(-)
Title: Data Sets from Mixed-Effects Models in S
Description: Data sets and sample analyses from Pinheiro and Bates,
"Mixed-effects Models in S and S-PLUS" (Springer, 2000).
Author: Douglas Bates [aut] ,
Martin Maechler [aut] ,
Ben Bolker [cre, aut] ,
Steven Walker [aut]
Maintainer: Ben Bolker <bolker@mcmaster.ca>
This is a re-admission after prior archival of version 0.9-3 dated 2019-02-08
Diff between MEMSS versions 0.9-3 dated 2019-02-08 and 0.9-4 dated 2026-01-25
DESCRIPTION | 31 +++++++++++++++++++++---------- MD5 | 4 ++-- man/Soybean.Rd | 4 ++-- 3 files changed, 25 insertions(+), 14 deletions(-)
Title: Matrix Computation Based Identification of Prime Implicants
Description: Computes the prime implicants or a minimal disjunctive normal form for a
logic expression presented by a truth table or a logic tree. Has been particularly
developed for logic expressions resulting from a logic regression analysis, i.e.
logic expressions typically consisting of up to 16 literals, where the prime implicants
are typically composed of a maximum of 4 or 5 literals.
Author: Holger Schwender [aut, cre]
Maintainer: Holger Schwender <holger.schw@gmx.de>
Diff between mcbiopi versions 1.1.6 dated 2018-10-06 and 1.1.7 dated 2026-01-25
DESCRIPTION | 12 +++++++----- MD5 | 2 +- 2 files changed, 8 insertions(+), 6 deletions(-)
Title: Database Interface to 'Elasticsearch' and 'OpenSearch'
Description: Connect to 'Elasticsearch' and 'OpenSearch', 'NoSQL' databases
built on the 'Java' Virtual Machine and using the 'Apache' 'Lucene' library.
Interacts with the 'Elasticsearch' 'HTTP' API'
(<https://www.elastic.co/elasticsearch/>) and the
'OpenSearch' 'HTTP' 'API' (<https://opensearch.org/>).
Includes functions for setting connection details to 'Elasticsearch' and
'OpenSearch' instances, loading bulk data, searching for documents with
both 'HTTP' query variables and 'JSON' based body requests.
In addition, 'elastic' provides functions for interacting with APIs
for 'indices', documents, nodes, clusters, an interface to the cat API,
and more.
Author: Ralf Herold [cre] ,
Scott Chamberlain [aut]
Maintainer: Ralf Herold <ralf.herold@mailbox.org>
This is a re-admission after prior archival of version 1.2.0 dated 2021-03-16
Diff between elastic versions 1.2.0 dated 2021-03-16 and 1.2.2 dated 2026-01-25
elastic-1.2.0/elastic/inst/ignore/notes1.r |only elastic-1.2.0/elastic/inst/ignore/notes2.r |only elastic-1.2.0/elastic/inst/ignore/notes3.r |only elastic-1.2.0/elastic/inst/ignore/notes4.r |only elastic-1.2.0/elastic/inst/ignore/notes5.r |only elastic-1.2.0/elastic/tests/other |only elastic-1.2.2/elastic/DESCRIPTION | 55 elastic-1.2.2/elastic/MD5 | 238 elastic-1.2.2/elastic/NAMESPACE | 2 elastic-1.2.2/elastic/NEWS.md | 14 elastic-1.2.2/elastic/R/Elasticsearch.R | 10 elastic-1.2.2/elastic/R/alias.R | 38 elastic-1.2.2/elastic/R/bulk_ci_generator.R | 8 elastic-1.2.2/elastic/R/bulk_df_fun_generator.R | 14 elastic-1.2.2/elastic/R/cat.r | 6 elastic-1.2.2/elastic/R/count.r | 16 elastic-1.2.2/elastic/R/docs_bulk.r | 86 elastic-1.2.2/elastic/R/docs_bulk_create.R | 28 elastic-1.2.2/elastic/R/docs_bulk_delete.R | 12 elastic-1.2.2/elastic/R/docs_bulk_index.R | 32 elastic-1.2.2/elastic/R/docs_bulk_prep.R | 36 elastic-1.2.2/elastic/R/docs_bulk_update.R | 14 elastic-1.2.2/elastic/R/docs_bulk_utils.R | 33 elastic-1.2.2/elastic/R/docs_create.R | 2 elastic-1.2.2/elastic/R/docs_delete.R | 14 elastic-1.2.2/elastic/R/docs_delete_by_query.R | 82 elastic-1.2.2/elastic/R/docs_get.r | 24 elastic-1.2.2/elastic/R/docs_mget.r | 6 elastic-1.2.2/elastic/R/docs_update_by_query.R | 3 elastic-1.2.2/elastic/R/elastic-package.r | 14 elastic-1.2.2/elastic/R/explain.R | 4 elastic-1.2.2/elastic/R/field_caps.R | 16 elastic-1.2.2/elastic/R/field_stats.R | 46 elastic-1.2.2/elastic/R/fielddata.R | 56 elastic-1.2.2/elastic/R/index.R | 16 elastic-1.2.2/elastic/R/index_templates.R | 28 elastic-1.2.2/elastic/R/ingest.R | 32 elastic-1.2.2/elastic/R/mapping.R | 36 elastic-1.2.2/elastic/R/mtermvectors.R | 40 elastic-1.2.2/elastic/R/nodes.R | 6 elastic-1.2.2/elastic/R/parsers.r | 6 elastic-1.2.2/elastic/R/percolater.R | 56 elastic-1.2.2/elastic/R/reindex.R | 28 elastic-1.2.2/elastic/R/scroll.R | 16 elastic-1.2.2/elastic/R/search_shards.R | 24 elastic-1.2.2/elastic/R/search_template.R | 34 elastic-1.2.2/elastic/R/searchapis.R | 8 elastic-1.2.2/elastic/R/tasks.R | 24 elastic-1.2.2/elastic/R/termvectors.R | 10 elastic-1.2.2/elastic/R/tokenizer_set.R | 10 elastic-1.2.2/elastic/inst/WORDLIST |only elastic-1.2.2/elastic/inst/examples/bar.json | 12 elastic-1.2.2/elastic/inst/examples/foo.json | 12 elastic-1.2.2/elastic/inst/examples/gbif_data.json | 602 elastic-1.2.2/elastic/inst/examples/gbif_geo.json | 602 elastic-1.2.2/elastic/inst/examples/gbif_geopoint.json | 722 elastic-1.2.2/elastic/inst/examples/gbif_geoshape.json | 564 elastic-1.2.2/elastic/inst/examples/gbif_geosmall.json | 12 elastic-1.2.2/elastic/inst/examples/msearch_eg1.json | 4 elastic-1.2.2/elastic/inst/examples/msearch_eg2.json | 10 elastic-1.2.2/elastic/inst/examples/omdb.json | 358 elastic-1.2.2/elastic/inst/examples/plos_data.json | 2000 +- elastic-1.2.2/elastic/inst/examples/shakespeare_data.json |10000 +++++------ elastic-1.2.2/elastic/inst/examples/shakespeare_data_.json |10000 +++++------ elastic-1.2.2/elastic/inst/ignore/docs_bulk_plugins.R | 4 elastic-1.2.2/elastic/man/Search.Rd | 66 elastic-1.2.2/elastic/man/Search_template.Rd | 2 elastic-1.2.2/elastic/man/Search_uri.Rd | 4 elastic-1.2.2/elastic/man/alias.Rd | 6 elastic-1.2.2/elastic/man/cat.Rd | 2 elastic-1.2.2/elastic/man/count.Rd | 4 elastic-1.2.2/elastic/man/docs_bulk.Rd | 12 elastic-1.2.2/elastic/man/docs_bulk_create.Rd | 6 elastic-1.2.2/elastic/man/docs_bulk_delete.Rd | 9 elastic-1.2.2/elastic/man/docs_bulk_index.Rd | 10 elastic-1.2.2/elastic/man/docs_bulk_prep.Rd | 14 elastic-1.2.2/elastic/man/docs_bulk_update.Rd | 10 elastic-1.2.2/elastic/man/docs_create.Rd | 2 elastic-1.2.2/elastic/man/docs_delete.Rd | 4 elastic-1.2.2/elastic/man/docs_delete_by_query.Rd | 18 elastic-1.2.2/elastic/man/docs_get.Rd | 4 elastic-1.2.2/elastic/man/docs_mget.Rd | 2 elastic-1.2.2/elastic/man/docs_update_by_query.Rd | 5 elastic-1.2.2/elastic/man/elastic.Rd | 11 elastic-1.2.2/elastic/man/explain.Rd | 2 elastic-1.2.2/elastic/man/field_caps.Rd | 2 elastic-1.2.2/elastic/man/field_stats.Rd | 6 elastic-1.2.2/elastic/man/fielddata.Rd | 6 elastic-1.2.2/elastic/man/index_template.Rd | 2 elastic-1.2.2/elastic/man/indices.Rd | 10 elastic-1.2.2/elastic/man/ingest.Rd | 8 elastic-1.2.2/elastic/man/mapping.Rd | 14 elastic-1.2.2/elastic/man/mtermvectors.Rd | 4 elastic-1.2.2/elastic/man/nodes.Rd | 2 elastic-1.2.2/elastic/man/percolate.Rd | 6 elastic-1.2.2/elastic/man/reindex.Rd | 2 elastic-1.2.2/elastic/man/search_shards.Rd | 2 elastic-1.2.2/elastic/man/searchapis.Rd | 2 elastic-1.2.2/elastic/man/tasks.Rd | 2 elastic-1.2.2/elastic/man/termvectors.Rd | 2 elastic-1.2.2/elastic/man/tokenizer_set.Rd | 4 elastic-1.2.2/elastic/tests/test-all.R |only elastic-1.2.2/elastic/tests/testthat/teardown.R | 3 elastic-1.2.2/elastic/tests/testthat/test-alias.R | 6 elastic-1.2.2/elastic/tests/testthat/test-cat.R | 10 elastic-1.2.2/elastic/tests/testthat/test-count.R | 11 elastic-1.2.2/elastic/tests/testthat/test-docs.R | 38 elastic-1.2.2/elastic/tests/testthat/test-docs_bulk.R | 37 elastic-1.2.2/elastic/tests/testthat/test-docs_bulk_prep.R | 50 elastic-1.2.2/elastic/tests/testthat/test-docs_bulk_update.R | 22 elastic-1.2.2/elastic/tests/testthat/test-explain.R | 2 elastic-1.2.2/elastic/tests/testthat/test-indices.R | 24 elastic-1.2.2/elastic/tests/testthat/test-ingest.R | 20 elastic-1.2.2/elastic/tests/testthat/test-mappings.R | 33 elastic-1.2.2/elastic/tests/testthat/test-msearch.R | 6 elastic-1.2.2/elastic/tests/testthat/test-mtermvectors.R | 7 elastic-1.2.2/elastic/tests/testthat/test-nodes.R | 4 elastic-1.2.2/elastic/tests/testthat/test-scroll.R | 18 elastic-1.2.2/elastic/tests/testthat/test-search.r | 113 elastic-1.2.2/elastic/tests/testthat/test-search_template.R | 30 elastic-1.2.2/elastic/tests/testthat/test-search_uri.R | 28 elastic-1.2.2/elastic/tests/testthat/test-termvectors.R | 16 elastic-1.2.2/elastic/tests/testthat/test-type_remover.R | 15 elastic-1.2.2/elastic/tests/testthat/test-validate.R | 11 124 files changed, 13522 insertions(+), 13434 deletions(-)
Title: Camera Trap Data Management and Analysis Framework
Description: Management and analysis of camera trap wildlife data through
an integrated workflow. Provides functions for image/video
organization and metadata extraction, species/individual
identification. Creates detection histories for occupancy and spatial
capture-recapture analyses, with support for multi-season studies.
Includes tools for fitting community occupancy models in JAGS and
NIMBLE, and an interactive dashboard for survey data visualization and
analysis. Features visualization of species distributions and activity
patterns, plus export capabilities for GIS and reports. Emphasizes
automation and reproducibility while maintaining flexibility for
different study designs.
Author: Juergen Niedballa [aut, cre] ,
Alexandre Courtiol [aut] ,
Rahel Sollmann [aut] ,
John Mathai [ctb],
Seth Timothy Wong [ctb] ,
An The Truong Nguyen [ctb] ,
Azlan bin Mohamed [ctb] ,
Andrew Tilker [ctb] ,
Roshan Guharajan [ctb] ,
Ioannis Alexiou [ctb] [...truncated...]
Maintainer: Juergen Niedballa <camtrapr@gmail.com>
Diff between camtrapR versions 3.0.0 dated 2025-09-28 and 3.0.2 dated 2026-01-25
camtrapR-3.0.0/camtrapR/tests/testthat/test_surveyReport.R |only camtrapR-3.0.2/camtrapR/DESCRIPTION | 92 +- camtrapR-3.0.2/camtrapR/MD5 | 68 + camtrapR-3.0.2/camtrapR/NAMESPACE | 1 camtrapR-3.0.2/camtrapR/NEWS.md | 14 camtrapR-3.0.2/camtrapR/R/cameraOperation.R | 7 camtrapR-3.0.2/camtrapR/R/communityModel.R | 10 camtrapR-3.0.2/camtrapR/R/createCovariates.R | 14 camtrapR-3.0.2/camtrapR/R/detectionHistory.R | 7 camtrapR-3.0.2/camtrapR/R/detectionMaps.R | 2 camtrapR-3.0.2/camtrapR/R/filterRecordTable.R | 12 camtrapR-3.0.2/camtrapR/R/plot.R | 55 - camtrapR-3.0.2/camtrapR/R/recordTableIndividual.R | 15 camtrapR-3.0.2/camtrapR/R/surveyDashboard.R | 2 camtrapR-3.0.2/camtrapR/R/surveyReport.R | 21 camtrapR-3.0.2/camtrapR/R/variousOtherHelperFunctions.R | 401 +--------- camtrapR-3.0.2/camtrapR/README.md | 10 camtrapR-3.0.2/camtrapR/build/vignette.rds |binary camtrapR-3.0.2/camtrapR/inst/doc/camtrapr1.pdf |binary camtrapR-3.0.2/camtrapR/inst/doc/camtrapr2.pdf |binary camtrapR-3.0.2/camtrapR/inst/doc/camtrapr5.html | 395 +++++---- camtrapR-3.0.2/camtrapR/inst/pictures/sample_images_species_dir/StationA/PBE/20251112_100312.mp4 |only camtrapR-3.0.2/camtrapR/man/aggregateStations.Rd | 148 +-- camtrapR-3.0.2/camtrapR/man/cameraOperation.Rd | 7 camtrapR-3.0.2/camtrapR/man/surveyReport.Rd | 12 camtrapR-3.0.2/camtrapR/tests/testthat/fixtures |only camtrapR-3.0.2/camtrapR/tests/testthat/test-activity_plots.R |only camtrapR-3.0.2/camtrapR/tests/testthat/test-checkSpeciesIdentification.R |only camtrapR-3.0.2/camtrapR/tests/testthat/test-checkSpeciesNames.R |only camtrapR-3.0.2/camtrapR/tests/testthat/test-communityModels.R |only camtrapR-3.0.2/camtrapR/tests/testthat/test-detectionMaps.R |only camtrapR-3.0.2/camtrapR/tests/testthat/test-filterRecordTable.R |only camtrapR-3.0.2/camtrapR/tests/testthat/test-image_management_functions.R |only camtrapR-3.0.2/camtrapR/tests/testthat/test-readWildlifeInsights.R |only camtrapR-3.0.2/camtrapR/tests/testthat/test-readcamtrapDP.R |only camtrapR-3.0.2/camtrapR/tests/testthat/test-recordTableIndividual.R |only camtrapR-3.0.2/camtrapR/tests/testthat/test-spatialDetectionHistory.R |only camtrapR-3.0.2/camtrapR/tests/testthat/test-speciesAccum.R |only camtrapR-3.0.2/camtrapR/tests/testthat/test-surveyDashboard.R |only camtrapR-3.0.2/camtrapR/tests/testthat/test-surveyReport.R |only camtrapR-3.0.2/camtrapR/tests/testthat/test_createCovariates.R |only camtrapR-3.0.2/camtrapR/tests/testthat/test_recordTable.R | 9 42 files changed, 541 insertions(+), 761 deletions(-)
Title: Analysis of High-Dimensional Categorical Data Such as SNP Data
Description: Tools for the analysis of high-dimensional data developed/implemented
at the group "Statistical Complexity Reduction In Molecular Epidemiology" (SCRIME).
Main focus is on SNP data. But most of the functions can also be applied to other
types of categorical data.
Author: Holger Schwender [aut, cre],
Arno Fritsch [ctb]
Maintainer: Holger Schwender <holger.schw@gmx.de>
Diff between scrime versions 1.3.5 dated 2018-12-01 and 1.3.7 dated 2026-01-25
DESCRIPTION | 14 +++++++++----- MD5 | 4 ++-- man/simulateSNPs.Rd | 4 ++-- 3 files changed, 13 insertions(+), 9 deletions(-)
Title: Apply Unsupervised Segmentation Algorithms from 'OTB'
Description: Apply unsupervised segmentation algorithms included in 'Orfeo ToolBox' software (<https://www.orfeo-toolbox.org/>), such as mean shift or watershed segmentation.
Author: Adrian Cidre Gonzalez [aut, cre]
Maintainer: Adrian Cidre Gonzalez <adrian.cidre@gmail.com>
Diff between OTBsegm versions 0.1.0 dated 2025-05-06 and 0.1.2 dated 2026-01-25
DESCRIPTION | 6 +- MD5 | 14 ++-- NEWS.md | 22 ++++++- R/LSMS.R | 3 - R/algorithms.R | 18 +++++- README.md | 9 +-- man/segm_lsms.Rd | 4 - tests/testthat/test-algorithms.R | 110 ++++++++++++++++++++------------------- 8 files changed, 106 insertions(+), 80 deletions(-)
Title: Calibrated Model Fusion Approach to Combine Surrogate Markers
Description: Uses a calibrated model fusion approach to optimally combine multiple surrogate markers. Specifically, two initial estimates of optimal composite scores of the markers are obtained; the optimal calibrated combination of the two estimated scores is then constructed which ensures both validity of the final combined score and optimality with respect to the proportion of treatment effect explained (PTE) by the final combined score. The primary function, pte.estimate.multiple(), estimates the PTE of the identified combination of multiple surrogate markers. Details are described in Wang et al (2022) <doi:10.1111/biom.13677>. A tutorial for the package is available at <https://www.laylaparast.com/cmfsurrogate> and a Shiny App is available at <https://parastlab.shinyapps.io/CMFsurrogateApp/>.
Author: Xuan Wang [aut],
Layla Parast [cre]
Maintainer: Layla Parast <parast@austin.utexas.edu>
Diff between CMFsurrogate versions 1.0 dated 2022-09-23 and 1.1 dated 2026-01-25
DESCRIPTION | 12 ++++++------ MD5 | 6 +++--- NAMESPACE | 1 + R/funs.R | 59 ++++++++++++++++++++++++++++++++++++++++++++++++++--------- 4 files changed, 60 insertions(+), 18 deletions(-)
Title: Multivariate Statistical Methods
Description: Algorithms to build set partitions and commutator matrices and their use in the
construction of multivariate d-Hermite polynomials; estimation and derivation of theoretical vector moments and vector
cumulants of multivariate distributions; conversion formulae for multivariate moments and cumulants. Applications to
estimation and derivation of multivariate measures of skewness and kurtosis; estimation and derivation of asymptotic
covariances for d-variate Hermite polynomials, multivariate moments and cumulants and measures of skewness and kurtosis.
The formulae implemented are discussed in Terdik (2021, ISBN:9783030813925), "Multivariate Statistical Methods".
Author: Gyorgy Terdik [aut],
Emanuele Taufer [aut, cre]
Maintainer: Emanuele Taufer <emanuele.taufer@unitn.it>
Diff between MultiStatM versions 2.0.0 dated 2024-07-26 and 2.1.0 dated 2026-01-25
DESCRIPTION | 17 +- MD5 | 92 +++++++---- NAMESPACE | 58 +++++++ NEWS.md | 18 ++ R/Approximations.r |only R/CallFcts.R | 44 +++-- R/Commutators.R | 12 - R/Deprecated.r |only R/Distributions.R | 384 ++++++++++++++++++++++++++++++++++++++++++++++++- R/Estimation.r | 106 +------------ R/Hermite.r | 52 ++++++ R/RcppExports.R |only R/RecursionF.r |only R/SupportFun.r | 147 ++++++++++-------- R/zzz.r |only build/vignette.rds |binary inst/doc/Overview.R | 4 inst/doc/Overview.Rmd | 12 - inst/doc/Overview.html | 323 ++++++++++++++++++++--------------------- man/CommutatorIndx.Rd | 9 - man/CommutatorMatr.Rd | 2 man/Cum2Mom.Rd | 4 man/EVSKGenHyp.Rd |only man/EVSKSkewNorm.Rd | 6 man/EVSKSkewt.Rd |only man/EVSKUniS.Rd | 11 - man/Edgeworth.Rd |only man/EliminIndx.Rd | 4 man/EliminMatr.Rd | 4 man/GramCharlier.Rd |only man/IntEdgeworth.Rd |only man/IntGramCharlier.Rd |only man/IntHermiteN.Rd |only man/MTCE.Rd |only man/MargMomCum.Rd |only man/Mom2Cum.Rd | 4 man/MomCumCFUSN.Rd | 4 man/MomCumGenHyp.Rd |only man/MomCumMVt.Rd |only man/MomCumSkewNorm.Rd | 4 man/MomCumUniS.Rd | 4 man/MomCumZabs.Rd | 4 man/QplicIndx.Rd | 4 man/QplicMatr.Rd | 4 man/SampleEVSK.Rd | 4 man/SampleEdg.Rd |only man/SampleGC.Rd | 38 ---- man/SampleHermiteN.Rd | 23 -- man/SampleSkew.Rd | 7 man/SymIndx.Rd | 4 man/SymMatr.Rd | 4 man/UnivMomCum.Rd | 40 ----- man/rUniS.Rd | 4 src |only vignettes/Overview.Rmd | 12 - 55 files changed, 951 insertions(+), 522 deletions(-)
Title: Process Stream Temperature, Intermittency, and Conductivity
(STIC) Sensor Data
Description: A collection of functions for processing raw data from Stream Temperature, Intermittency, and Conductivity (STIC) loggers. 'STICr' (pronounced "sticker") includes functions for tidying, calibrating, classifying, and doing quality checks on data from STIC sensors. Some package functionality is described in Wheeler/Zipper et al. (2023) <doi:10.31223/X5636K>.
Author: Sam Zipper [aut, cre, cph] ,
Christopher T. Wheeler [aut] ,
Stephen Cook [ctb] ,
Delaney Peterson [ctb] ,
Sarah Godsey [ctb]
Maintainer: Sam Zipper <samzipper@ku.edu>
Diff between STICr versions 1.1.1 dated 2025-05-02 and 1.1.2 dated 2026-01-25
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 4 ++++ R/classify_wetdry.R | 2 +- README.md | 1 + build/vignette.rds |binary inst/doc/intro-to-STICr.html | 10 +++++----- 7 files changed, 20 insertions(+), 15 deletions(-)
Title: Ordination Methods for the Analysis of Beta-Diversity Indices
Description: The analysis of different aspects of biodiversity requires specific algorithms. For example, in regionalisation analyses, the high frequency of ties and zero values in dissimilarity matrices produced by Beta-diversity turnover produces hierarchical cluster dendrograms whose topology and bootstrap supports are affected by the order of rows in the original matrix. Moreover, visualisation of biogeographical regionalisation can be facilitated by a combination of hierarchical clustering and multi-dimensional scaling. The recluster package provides robust techniques to visualise and analyse pattern of biodiversity and to improve occurrence data for cryptic taxa.
Author: Leonardo Dapporto [aut, cre],
Matteo Ramazzotti [aut],
Simone Fattorini [aut],
Roger Vila [aut],
Gerard Talavera [aut],
Roger H.L. Dennis [aut]
Maintainer: Leonardo Dapporto <leondap@gmail.com>
Diff between recluster versions 2.9 dated 2020-07-26 and 3.4 dated 2026-01-25
DESCRIPTION | 49 ++++++++++------ MD5 | 47 ++++++++++----- NAMESPACE | 34 +++++++---- R/ah2sf.R |only R/ape_internal.R |only R/biodecrypt.R |only R/biodecrypt.cross.R |only R/biodecrypt.optimise.R |only R/biodecrypt.plot.R |only R/biodecrypt.view.R |only R/biodecrypt.wrap.R |only R/recluster.boot.R | 4 - R/recluster.cons.R | 11 +-- R/recluster.expl.R | 19 ++---- R/recluster.expl.diss.R | 79 ++++++++++++-------------- R/recluster.fst.R | 2 R/recluster.node.strength.R | 4 - R/recluster.plot.pie.R | 8 +- R/recluster.region.R | 132 ++++++++++++++++++++++---------------------- README.md |only man/biodecrypt.Rd |only man/biodecrypt.cross.Rd |only man/biodecrypt.optimise.Rd |only man/biodecrypt.plot.Rd |only man/biodecrypt.view.Rd |only man/biodecrypt.wrap.Rd |only man/recluster.Rd | 20 +++++- man/recluster.boot.Rd | 5 - man/recluster.cons.Rd | 6 -- man/recluster.expl.Rd | 4 - man/recluster.expl.diss.Rd | 15 +++-- man/recluster.region.Rd | 18 ++++-- 32 files changed, 252 insertions(+), 205 deletions(-)
Title: Interface for the 'QuickJS-NG' Lightweight 'JavaScript' Engine
Description: An 'R' interface to the 'QuickJS' portable 'JavaScript'
engine. The engine and all 'R' to 'JavaScript' interoperability is bundled
within the package, requiring no dependencies beyond a 'C' compiler.
Author: Andrew R. Johnson [aut, cre] ,
QuickJS Authors [cph] ,
QuickJS-NG Authors [cph]
Maintainer: Andrew R. Johnson <andrew.johnson@arjohnsonau.com>
Diff between QuickJSR versions 1.8.1 dated 2025-09-20 and 1.9.0 dated 2026-01-25
QuickJSR-1.8.1/QuickJSR/R/utils.R |only QuickJSR-1.8.1/QuickJSR/inst/include |only QuickJSR-1.8.1/QuickJSR/src/quickjs/CMakeLists.txt |only QuickJSR-1.8.1/QuickJSR/src/quickjs/LICENSE |only QuickJSR-1.8.1/QuickJSR/src/quickjs/README.md |only QuickJSR-1.8.1/QuickJSR/src/quickjs/amalgam.js |only QuickJSR-1.8.1/QuickJSR/src/quickjs/api-test.c |only QuickJSR-1.8.1/QuickJSR/src/quickjs/builtin-array-fromasync.js |only QuickJSR-1.8.1/QuickJSR/src/quickjs/ctest.c |only QuickJSR-1.8.1/QuickJSR/src/quickjs/cxxtest.cc |only QuickJSR-1.8.1/QuickJSR/src/quickjs/dirent_compat.h |only QuickJSR-1.8.1/QuickJSR/src/quickjs/fuzz.c |only QuickJSR-1.8.1/QuickJSR/src/quickjs/meson.build |only QuickJSR-1.8.1/QuickJSR/src/quickjs/meson_options.txt |only QuickJSR-1.8.1/QuickJSR/src/quickjs/qjs.c |only QuickJSR-1.8.1/QuickJSR/src/quickjs/qjsc.c |only QuickJSR-1.8.1/QuickJSR/src/quickjs/repl.js |only QuickJSR-1.8.1/QuickJSR/src/quickjs/run-test262.c |only QuickJSR-1.8.1/QuickJSR/src/quickjs/standalone.js |only QuickJSR-1.8.1/QuickJSR/src/quickjs/test262-fast.conf |only QuickJSR-1.8.1/QuickJSR/src/quickjs/test262.conf |only QuickJSR-1.8.1/QuickJSR/src/quickjs/test262_errors.txt |only QuickJSR-1.8.1/QuickJSR/src/quickjs/tests.conf |only QuickJSR-1.8.1/QuickJSR/src/quickjs/unicode_download.sh |only QuickJSR-1.8.1/QuickJSR/src/quickjs/unicode_gen.c |only QuickJSR-1.8.1/QuickJSR/src/quickjs/unicode_gen_def.h |only QuickJSR-1.8.1/QuickJSR/src/quickjs/xsum.c |only QuickJSR-1.8.1/QuickJSR/src/quickjs/xsum.h |only QuickJSR-1.9.0/QuickJSR/DESCRIPTION | 7 QuickJSR-1.9.0/QuickJSR/LICENSE | 4 QuickJSR-1.9.0/QuickJSR/MD5 | 187 QuickJSR-1.9.0/QuickJSR/NAMESPACE | 16 QuickJSR-1.9.0/QuickJSR/NEWS.md | 182 QuickJSR-1.9.0/QuickJSR/R/JSContext.R | 338 - QuickJSR-1.9.0/QuickJSR/R/qjs.R | 158 QuickJSR-1.9.0/QuickJSR/R/quickjsr-package.R | 20 QuickJSR-1.9.0/QuickJSR/R/zzz.R | 8 QuickJSR-1.9.0/QuickJSR/README.md | 260 QuickJSR-1.9.0/QuickJSR/build/vignette.rds |binary QuickJSR-1.9.0/QuickJSR/inst/doc/working_with_js_types.R | 80 QuickJSR-1.9.0/QuickJSR/inst/doc/working_with_js_types.Rmd | 224 QuickJSR-1.9.0/QuickJSR/inst/doc/working_with_js_types.html | 1044 +-- QuickJSR-1.9.0/QuickJSR/inst/tinytest/test_JSContext.R | 91 QuickJSR-1.9.0/QuickJSR/inst/tinytest/test_data_conversion.R | 144 QuickJSR-1.9.0/QuickJSR/inst/tinytest/test_qjs_eval.R | 16 QuickJSR-1.9.0/QuickJSR/inst/tinytest/test_to_json_asis.R | 20 QuickJSR-1.9.0/QuickJSR/inst/tinytest/test_to_json_dataframe.R | 32 QuickJSR-1.9.0/QuickJSR/inst/tinytest/test_to_json_date.R | 28 QuickJSR-1.9.0/QuickJSR/inst/tinytest/test_to_json_factor.R | 12 QuickJSR-1.9.0/QuickJSR/inst/tinytest/test_to_json_matrix.R | 22 QuickJSR-1.9.0/QuickJSR/man/JSContext-method-assign.Rd | 64 QuickJSR-1.9.0/QuickJSR/man/JSContext-method-call.Rd | 66 QuickJSR-1.9.0/QuickJSR/man/JSContext-method-get.Rd | 60 QuickJSR-1.9.0/QuickJSR/man/JSContext-method-source.Rd | 70 QuickJSR-1.9.0/QuickJSR/man/JSContext-method-validate.Rd | 58 QuickJSR-1.9.0/QuickJSR/man/JSContext.Rd | 42 QuickJSR-1.9.0/QuickJSR/man/QuickJSR-package.Rd | 58 QuickJSR-1.9.0/QuickJSR/man/from_json.Rd | 34 QuickJSR-1.9.0/QuickJSR/man/qjs_eval.Rd | 56 QuickJSR-1.9.0/QuickJSR/man/quickjs_version.Rd | 28 QuickJSR-1.9.0/QuickJSR/man/to_json.Rd | 38 QuickJSR-1.9.0/QuickJSR/src/Makevars | 10 QuickJSR-1.9.0/QuickJSR/src/include |only QuickJSR-1.9.0/QuickJSR/src/libquickjs.c | 2 QuickJSR-1.9.0/QuickJSR/src/quickjs/builtin-array-fromasync.h | 38 QuickJSR-1.9.0/QuickJSR/src/quickjs/cutils.c | 258 QuickJSR-1.9.0/QuickJSR/src/quickjs/cutils.h | 14 QuickJSR-1.9.0/QuickJSR/src/quickjs/dtoa.c |only QuickJSR-1.9.0/QuickJSR/src/quickjs/dtoa.h |only QuickJSR-1.9.0/QuickJSR/src/quickjs/quickjs-atom.h | 2 QuickJSR-1.9.0/QuickJSR/src/quickjs/quickjs-libc.c | 298 QuickJSR-1.9.0/QuickJSR/src/quickjs/quickjs-libc.h | 54 QuickJSR-1.9.0/QuickJSR/src/quickjs/quickjs.c | 3261 +++++----- QuickJSR-1.9.0/QuickJSR/src/quickjs/quickjs.h | 46 QuickJSR-1.9.0/QuickJSR/src/quickjsr.cpp | 131 QuickJSR-1.9.0/QuickJSR/tests/tinytest.R | 10 QuickJSR-1.9.0/QuickJSR/vignettes/working_with_js_types.Rmd | 224 77 files changed, 4151 insertions(+), 3664 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-01-30 0.1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-10-22 1.0.1
2025-05-30 1.0.0
Title: Zero-Inflated and Hurdle INAR(1) Models
Description: Provides tools for estimating Zero-Inflated INAR(1)
(ZI-INAR(1)) and Hurdle INAR(1) (H-INAR(1)) models using 'Stan'.
It allows users to simulate time series data for these models,
estimate parameters, and evaluate model fit using various criteria.
Functions include model estimation, simulation, and likelihood-based metrics.
Author: Fusheng Yang [aut, cre],
Victor Hugo Lachos Davila [aut]
Maintainer: Fusheng Yang <fusheng.yang@uconn.edu>
Diff between ZIHINAR1 versions 0.1.0 dated 2025-10-16 and 0.2.0 dated 2026-01-25
DESCRIPTION | 8 MD5 | 37 +- NAMESPACE | 1 R/data_simu.R | 112 +++++--- R/get_est.R | 9 R/get_mol_sel.R | 28 +- R/get_pred.R | 138 +++++----- R/get_stanfit.R | 40 +-- R/mod_sel_criteria.R | 486 +++++++++++++++++++++----------------- README.md | 117 +++++---- build/partial.rdb |binary inst/stan/ZIIGP-INAR1.stan |only man/data_simu.Rd | 29 +- man/figures/README-example1-1.png |binary man/figures/README-example1-2.png |only man/figures/README-example1-3.png |only man/figures/README-example1-4.png |only man/figures/README-example1-5.png |only man/get_est.Rd | 4 man/get_mod_sel.Rd | 4 man/get_pred.Rd | 2 man/get_stanfit.Rd | 8 22 files changed, 581 insertions(+), 442 deletions(-)
Title: The Skew-Normal and Related Distributions Such as the Skew-t and
the SUN
Description: Build and manipulate probability distributions of the skew-normal
family and some related ones, notably the skew-t and the SUN families.
For the skew-normal and the skew-t distributions, statistical methods are
provided for data fitting and model diagnostics, in the univariate and the
multivariate case.
Author: Adelchi Azzalini [aut, cre]
Maintainer: Adelchi Azzalini <adelchi.azzalini@unipd.it>
Diff between sn versions 2.1.1 dated 2023-04-04 and 2.1.2 dated 2026-01-25
DESCRIPTION | 11 ++++---- MD5 | 40 +++++++++++++++---------------- NAMESPACE | 2 + R/sn-funct.R | 55 +++++++++++++++++++++++++------------------ R/sn_S4.R | 4 +-- build/partial.rdb |binary build/vignette.rds |binary data/ais.rda |binary data/barolo.rda |binary data/frontier.rda |binary data/wines.rda |binary inst/CITATION | 2 - inst/NEWS.Rd | 8 ++++++ man/SUNdistr-base.Rd | 26 ++++++++++++++++---- man/dmst.Rd | 16 ++++++++++-- man/dp2cp.Rd | 26 ++++++++++---------- man/dst.Rd | 18 +++++++++----- man/plot.fitdistr.grouped.Rd | 2 + man/plot.selm.Rd | 6 ++-- man/summary.SECdistr.Rd | 5 +++ man/zeta.Rd | 2 - 21 files changed, 140 insertions(+), 83 deletions(-)
Title: XML-RPC Interface to NEOS
Description: Within this package the XML-RPC API to NEOS <https://neos-server.org/neos/> is implemented. This enables the user to pass optimization problems to NEOS and retrieve results within R.
Author: Bernhard Pfaff [aut, cre],
Duncan Temple Lang [ctb]
Maintainer: Bernhard Pfaff <bernhard@pfaffikus.de>
Diff between rneos versions 0.4-0 dated 2020-04-23 and 0.4-1 dated 2026-01-25
DESCRIPTION | 12 ++--- MD5 | 46 ++++++++++----------- R/CreateNeosComm.R | 19 ++++++-- R/CreateXmlString.R | 10 ++-- R/NemailHelp.R | 20 +++++---- R/NgetFinalResults.R | 44 +++++++++++--------- R/NgetFinalResultsNonBlocking.R | 44 +++++++++++--------- R/NgetIntermediateResults.R | 69 +++++++++++++++++--------------- R/NgetIntermediateResultsNonBlocking.R | 70 +++++++++++++++++---------------- R/NgetJobInfo.R | 28 +++++++------ R/NgetJobStatus.R | 28 +++++++------ R/NgetSolverTemplate.R | 32 ++++++++------- R/Nhelp.R | 20 +++++---- R/NkillJob.R | 42 ++++++++++--------- R/NlistAllSolvers.R | 24 ++++++----- R/NlistCategories.R | 26 ++++++------ R/NlistSolversInCategory.R | 42 +++++++++++-------- R/Nping.R | 20 +++++---- R/NprintQueue.R | 20 +++++---- R/NsubmitJob.R | 30 ++++++++------ R/Nversion.R | 20 +++++---- R/Nwelcome.R | 20 +++++---- man/NeosComm-class.Rd | 6 +- man/NlistServersInCategory.Rd | 2 24 files changed, 383 insertions(+), 311 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 0.4-12.5 dated 2025-07-28 and 0.4-12.6 dated 2026-01-25
RecordLinkage-0.4-12.5/RecordLinkage/inst/doc/BigData.pdf |only RecordLinkage-0.4-12.5/RecordLinkage/inst/doc/BigData.rnw |only RecordLinkage-0.4-12.5/RecordLinkage/inst/doc/EVT.pdf |only RecordLinkage-0.4-12.5/RecordLinkage/inst/doc/EVT.rnw |only RecordLinkage-0.4-12.5/RecordLinkage/inst/doc/Supervised.pdf |only RecordLinkage-0.4-12.5/RecordLinkage/inst/doc/Supervised.rnw |only RecordLinkage-0.4-12.5/RecordLinkage/inst/doc/WeightBased.pdf |only RecordLinkage-0.4-12.5/RecordLinkage/inst/doc/WeightBased.rnw |only RecordLinkage-0.4-12.5/RecordLinkage/man/RLBigData-class.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/RLBigDataDedup-class.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/RLBigDataLinkage-class.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/RLResult-class.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/RecLinkClassif-class.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/RecLinkResult-class.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/append-methods.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/classifySupv.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/classifyUnsup.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/clone.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/deleteNULLs.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/editMatch.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/emClassify.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/emWeights.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/epiClassify.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/epiWeights.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/ff_vector-class.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/genSamples.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/getExpectedSize.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/getFrequencies-methods.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/getMinimalTrain.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/getPairsBackend.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/getParetoThreshold.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/getTable-methods.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/gpdEst.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/internals.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/isFALSE.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/makeBlockingPairs.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/mrl.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/mygllm.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/optimalThreshold.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/phonetics.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/resample.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/show.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/splitData.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/subset.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/texSummary.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/trainSupv.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/man/unorderedPairs.Rd |only RecordLinkage-0.4-12.5/RecordLinkage/vignettes/BigData.rnw |only RecordLinkage-0.4-12.5/RecordLinkage/vignettes/EVT.rnw |only RecordLinkage-0.4-12.5/RecordLinkage/vignettes/Supervised.rnw |only RecordLinkage-0.4-12.5/RecordLinkage/vignettes/WeightBased.rnw |only RecordLinkage-0.4-12.6/RecordLinkage/DESCRIPTION | 10 RecordLinkage-0.4-12.6/RecordLinkage/MD5 | 126 +++++----- RecordLinkage-0.4-12.6/RecordLinkage/NAMESPACE | 2 RecordLinkage-0.4-12.6/RecordLinkage/R/classify.r | 2 RecordLinkage-0.4-12.6/RecordLinkage/R/classifySupv-methods.r | 4 RecordLinkage-0.4-12.6/RecordLinkage/R/getPairs-methods.r | 6 RecordLinkage-0.4-12.6/RecordLinkage/R/summary.r | 4 RecordLinkage-0.4-12.6/RecordLinkage/build/vignette.rds |binary RecordLinkage-0.4-12.6/RecordLinkage/inst/doc/BigData.R | 47 +-- RecordLinkage-0.4-12.6/RecordLinkage/inst/doc/BigData.Rmd |only RecordLinkage-0.4-12.6/RecordLinkage/inst/doc/BigData.html |only RecordLinkage-0.4-12.6/RecordLinkage/inst/doc/EVT.R | 44 +-- RecordLinkage-0.4-12.6/RecordLinkage/inst/doc/EVT.Rmd |only RecordLinkage-0.4-12.6/RecordLinkage/inst/doc/EVT.html |only RecordLinkage-0.4-12.6/RecordLinkage/inst/doc/Supervised.R | 59 ++-- RecordLinkage-0.4-12.6/RecordLinkage/inst/doc/Supervised.Rmd |only RecordLinkage-0.4-12.6/RecordLinkage/inst/doc/Supervised.html |only RecordLinkage-0.4-12.6/RecordLinkage/inst/doc/WeightBased.R | 42 +-- RecordLinkage-0.4-12.6/RecordLinkage/inst/doc/WeightBased.Rmd |only RecordLinkage-0.4-12.6/RecordLinkage/inst/doc/WeightBased.html |only RecordLinkage-0.4-12.6/RecordLinkage/man/RLBigData-class.rd |only RecordLinkage-0.4-12.6/RecordLinkage/man/RLBigDataDedup-class.rd |only RecordLinkage-0.4-12.6/RecordLinkage/man/RLBigDataLinkage-class.rd |only RecordLinkage-0.4-12.6/RecordLinkage/man/RLResult-class.rd |only RecordLinkage-0.4-12.6/RecordLinkage/man/RLdata.rd | 2 RecordLinkage-0.4-12.6/RecordLinkage/man/RecLinkClassif-class.rd |only 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RecordLinkage-0.4-12.6/RecordLinkage/man/texSummary.rd |only RecordLinkage-0.4-12.6/RecordLinkage/man/trainSupv.rd |only RecordLinkage-0.4-12.6/RecordLinkage/man/unorderedPairs.rd |only RecordLinkage-0.4-12.6/RecordLinkage/vignettes/BigData.Rmd |only RecordLinkage-0.4-12.6/RecordLinkage/vignettes/EVT.Rmd |only RecordLinkage-0.4-12.6/RecordLinkage/vignettes/Supervised.Rmd |only RecordLinkage-0.4-12.6/RecordLinkage/vignettes/WeightBased.Rmd |only 115 files changed, 171 insertions(+), 177 deletions(-)
Title: Financial Risk Modelling and Portfolio Optimisation with R
Description: Accompanying package of the book 'Financial Risk Modelling
and Portfolio Optimisation with R', second edition. The data sets used in the book are contained in this package.
Author: Bernhard Pfaff [aut, cre]
Maintainer: Bernhard Pfaff <bernhard@pfaffikus.de>
Diff between FRAPO versions 0.4-1 dated 2016-12-11 and 0.4-2 dated 2026-01-25
DESCRIPTION | 13 +++----- MD5 | 74 ++++++++++++++++++++++++------------------------ R/methods-PortDD.R | 6 +-- data/ESCBFX.rda |binary data/EuroStoxx50.rda |binary data/FTSE100.rda |binary data/INDTRACK1.rda |binary data/INDTRACK2.rda |binary data/INDTRACK3.rda |binary data/INDTRACK4.rda |binary data/INDTRACK5.rda |binary data/INDTRACK6.rda |binary data/MIBTEL.rda |binary data/MultiAsset.rda |binary data/NASDAQ.rda |binary data/SP500.rda |binary data/StockIndex.rda |binary data/StockIndexAdj.rda |binary data/StockIndexAdjD.rda |binary inst/CITATION | 6 +-- man/DivRatios.Rd | 2 - man/ESCBFX.Rd | 2 - man/EuroStoxx50.Rd | 3 - man/FTSE100.Rd | 3 - man/INDTRACK1.Rd | 4 +- man/INDTRACK2.Rd | 4 +- man/INDTRACK3.Rd | 4 +- man/INDTRACK4.Rd | 4 +- man/INDTRACK5.Rd | 4 +- man/INDTRACK6.Rd | 4 +- man/MIBTEL.Rd | 3 - man/MultiAsset.Rd | 4 +- man/NASDAQ.Rd | 3 - man/PMD.Rd | 2 - man/SP500.Rd | 3 - man/StockIndex.Rd | 2 - man/StockIndexAdj.Rd | 2 - man/StockIndexAdjD.Rd | 2 - 38 files changed, 73 insertions(+), 81 deletions(-)
Title: Easily Apply Formats to Data
Description: Contains a set of functions that can be used to apply
formats to data frames or vectors. The package aims to provide
functionality similar to that of SAS® formats. Formats are assigned to
the format attribute on data frame columns. Then when the fdata()
function is called, a new data frame is created with the column data
formatted as specified. The package also contains a value() function
to create a user-defined format, similar to a SAS® user-defined format.
Author: David Bosak [aut, cre],
Chen Ling [aut]
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between fmtr versions 1.7.1 dated 2026-01-21 and 1.7.2 dated 2026-01-25
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- NEWS.md | 4 ++++ inst/doc/fmtr-convenience.html | 4 ++-- inst/doc/fmtr-fapply.html | 4 ++-- inst/doc/fmtr-fapply2.html | 4 ++-- inst/doc/fmtr-fcat.html | 4 ++-- inst/doc/fmtr-fdata.html | 4 ++-- inst/doc/fmtr-helpers.html | 4 ++-- tests/testthat/test-timewd.R | 12 +++++++++++- 10 files changed, 39 insertions(+), 25 deletions(-)