Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-10-18 1.0.1
2024-10-10 1.0.0
Title: Data Wrangling and Automated Reports from 'SIVIGILA' Source
Description: Data wrangling, pre-processing, and generating automated reports
from Colombia's epidemiological surveillance system,
'SIVIGILA' <https://portalsivigila.ins.gov.co/>. It provides a
customizable R Markdown template for analysis and automatic
generation of epidemiological reports that can be adapted to local,
regional, and national contexts. This tool offers a standardized and
reproducible workflow that helps to reduce manual labor and potential
errors in report generation, improving their efficiency and consistency.
Author: Geraldine Gomez-Millan [aut, cre, ctb]
,
Zulma M. Cucunuba [aut, ctb] ,
Jennifer A. Mendez-Romero [aut, ctb]
,
Claudia Huguett-Aragon [aut, ctb]
,
Hugo Gruson [ctb] ,
Juanita Romero-Garces [ctb] ,
Jaime Pavlich-Mariscal [ctb] ,
Laura Gomez Bermeo [ct [...truncated...]
Maintainer: Geraldine Gomez-Millan <geralidine.gomez@javeriana.edu.co>
Diff between sivirep versions 1.0.0 dated 2024-11-14 and 1.0.1 dated 2024-12-03
sivirep-1.0.0/sivirep/inst/video |only sivirep-1.0.0/sivirep/tests/report_example.Rmd |only sivirep-1.0.1/sivirep/DESCRIPTION | 13 sivirep-1.0.1/sivirep/MD5 | 47 -- sivirep-1.0.1/sivirep/NEWS.md | 15 sivirep-1.0.1/sivirep/R/checking_data.R | 46 +- sivirep-1.0.1/sivirep/R/import_data.R | 12 sivirep-1.0.1/sivirep/R/plotting.R | 38 + sivirep-1.0.1/sivirep/README.md | 92 ---- sivirep-1.0.1/sivirep/inst/doc/sivirep.Rmd | 14 sivirep-1.0.1/sivirep/inst/doc/sivirep.html | 15 sivirep-1.0.1/sivirep/inst/rmarkdown/templates/reports/template.yaml | 2 sivirep-1.0.1/sivirep/man/calcular_incidencia.Rd | 194 ++++---- sivirep-1.0.1/sivirep/man/calcular_incidencia_geo.Rd | 140 +++--- sivirep-1.0.1/sivirep/man/calcular_incidencia_sex.Rd | 170 +++---- sivirep-1.0.1/sivirep/man/import_data_event.Rd | 94 ++-- sivirep-1.0.1/sivirep/man/import_pob_incidencia.Rd | 110 ++-- sivirep-1.0.1/sivirep/man/import_pob_proyecciones.Rd | 67 +-- sivirep-1.0.1/sivirep/man/import_pob_riesgo.Rd | 73 +-- sivirep-1.0.1/sivirep/man/plot_map.Rd | 222 +++++----- sivirep-1.0.1/sivirep/man/plot_mpios.Rd | 2 sivirep-1.0.1/sivirep/man/plot_sex_semanaepi.Rd | 2 sivirep-1.0.1/sivirep/man/plot_tipo_caso.Rd | 2 sivirep-1.0.1/sivirep/man/plot_years.Rd | 2 sivirep-1.0.1/sivirep/vignettes/sivirep.Rmd | 14 25 files changed, 679 insertions(+), 707 deletions(-)
Title: Generate Simulated Datasets
Description: Generate simulated datasets from an initial underlying
distribution and apply transformations to obtain realistic data. Implements
the 'NORTA' (Normal-to-anything) approach from Cario and Nelson (1997)
and other data generating mechanisms. Simple network visualization tools
are provided to facilitate communicating the simulation setup.
Author: Michael Kammer [aut, cre]
Maintainer: Michael Kammer <michael.kammer@meduniwien.ac.at>
Diff between simdata versions 0.4.0 dated 2024-07-01 and 0.4.1 dated 2024-12-03
DESCRIPTION | 10 - MD5 | 18 +-- NEWS.md | 4 R/utilities.R | 4 inst/doc/Demo.html | 40 +++---- inst/doc/NORTA_demo.R | 48 ++++---- inst/doc/NORTA_demo.Rmd | 67 ++++++------ inst/doc/NORTA_demo.html | 189 +++++++++++++++++----------------- inst/doc/Technical_documentation.html | 151 +++++++++++++-------------- vignettes/NORTA_demo.Rmd | 67 ++++++------ 10 files changed, 308 insertions(+), 290 deletions(-)
Title: Import, Recompute and Analyze Data from Portable Gas Analyzers
Description: The gasanalyzer R package offers methods for importing, preprocessing,
and analyzing data related to photosynthetic characteristics (gas exchange,
chlorophyll fluorescence and isotope ratios). It translates variable names
into a standard format, and can recalculate derived, physiological
quantities using imported or predefined equations. The package also allows
users to assess the sensitivity of their results to different assumptions
used in the calculations.
See also Tholen (2024) <doi:10.1093/aobpla/plae035>.
Author: Danny Tholen [aut, cre]
Maintainer: Danny Tholen <thalecress+p@gmail.com>
Diff between gasanalyzer versions 0.4.1 dated 2024-06-21 and 0.4.2 dated 2024-12-03
DESCRIPTION | 10 MD5 | 19 - NEWS.md | 6 R/equations.R | 3 R/read_6800.R | 13 build/vignette.rds |binary inst/WORDLIST | 1 inst/doc/gasanalyzer.R | 6 inst/doc/gasanalyzer.html | 648 ++++++++++++++++++++-------------------- inst/extdata/lowo2recalc.xlsx |only tests/testthat/test-equations.R | 7 11 files changed, 364 insertions(+), 349 deletions(-)
Title: Time Aware Tibbles
Description: Built on top of the 'tibble' package, 'tibbletime' is an extension
that allows for the creation of time aware tibbles. Some immediate
advantages of this include: the ability to perform time-based subsetting
on tibbles, quickly summarising and aggregating results by time periods,
and creating columns that can be used as 'dplyr' time-based groups.
Author: Davis Vaughan [aut, cre],
Matt Dancho [aut]
Maintainer: Davis Vaughan <davis@posit.co>
Diff between tibbletime versions 0.1.8 dated 2023-01-24 and 0.1.9 dated 2024-12-03
DESCRIPTION | 12 - MD5 | 38 ++-- NAMESPACE | 42 ++++ NEWS.md | 4 R/index-based-generics.R | 28 ++ R/seq.R | 3 R/to_posixct_numeric.R | 11 + build/vignette.rds |binary inst/doc/TT-01-time-based-filtering.R | 2 inst/doc/TT-01-time-based-filtering.html | 112 +++++------ inst/doc/TT-02-changing-time-periods.R | 2 inst/doc/TT-02-changing-time-periods.html | 72 +++---- inst/doc/TT-03-rollify-for-rolling-analysis.R | 2 inst/doc/TT-03-rollify-for-rolling-analysis.html | 216 +++++++++++------------ inst/doc/TT-04-use-with-dplyr.R | 2 inst/doc/TT-04-use-with-dplyr.html | 194 ++++++++++---------- man/ceiling_index.Rd | 9 man/floor_index.Rd | 9 man/tibbletime.Rd | 4 tests/testthat/test_create_series.R | 4 20 files changed, 430 insertions(+), 336 deletions(-)
Title: Causal Inference with Spatio-Temporal Data
Description: Spatio-temporal causal inference based on point process data.
You provide the raw data of locations and timings of treatment and
outcome events, specify counterfactual scenarios, and the package
estimates causal effects over specified spatial and temporal windows.
See Papadogeorgou, et al. (2022) <doi:10.1111/rssb.12548> and
Mukaigawara, et al. (2024) <doi:10.31219/osf.io/5kc6f>.
Author: Mitsuru Mukaigawara [cre, aut]
,
Lingxiao Zhou [aut],
Georgia Papadogeorgou [aut] ,
Jason Lyall [aut] ,
Kosuke Imai [aut]
Maintainer: Mitsuru Mukaigawara <mitsuru_mukaigawara@g.harvard.edu>
Diff between geocausal versions 0.3.2 dated 2024-07-19 and 0.3.3 dated 2024-12-03
DESCRIPTION | 12 +- MD5 | 60 ++++++++------ NAMESPACE | 65 ++++++++++++--- NEWS.md | 5 + R/get_cate.R | 23 +---- R/get_distexp.R | 154 ++++-------------------------------- R/get_estimates.R | 2 R/get_obs_dens.R | 2 R/get_var_bound.R | 33 +------ R/get_weighted_surf.R | 15 +++ R/plot.cflist.R |only R/plot.distlist.R |only R/plot.est.R | 13 ++- R/plot.hyperframe.R | 21 ++-- R/plot.imlist.R |only R/plot.obs.R | 207 +++++++++++++++++++++++++++---------------------- R/plot.powerlist.R |only R/plot.ppplist.R |only R/print.cate.R |only R/print.est.R |only R/sim_cf_dens.R | 94 +++------------------- R/sim_power_dens.R | 80 +----------------- README.md | 18 ++-- man/get_cate.Rd | 3 man/get_distexp.Rd | 8 - man/get_var_bound.Rd | 12 -- man/plot.cflist.Rd |only man/plot.distlist.Rd |only man/plot.est.Rd | 4 man/plot.hyperframe.Rd | 7 + man/plot.imlist.Rd |only man/plot.obs.Rd | 13 ++- man/plot.powerlist.Rd |only man/plot.ppplist.Rd |only man/print.cate.Rd |only man/print.est.Rd |only man/sim_cf_dens.Rd | 15 --- man/sim_power_dens.Rd | 16 --- 38 files changed, 354 insertions(+), 528 deletions(-)
Title: SQLite Interface for R
Description: Embeds the SQLite database engine in R and provides an
interface compliant with the DBI package. The source for the SQLite
engine and for various extensions in a recent version is included.
System libraries will never be consulted because this package relies
on static linking for the plugins it includes; this also ensures a
consistent experience across all installations.
Author: Kirill Mueller [aut, cre] ,
Hadley Wickham [aut],
David A. James [aut],
Seth Falcon [aut],
D. Richard Hipp [ctb] ,
Dan Kennedy [ctb] ,
Joe Mistachkin [ctb] ,
SQLite Authors [ctb] ,
Liam Healy [ctb] ,
R Consortium [fnd],
RStudio [cph]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between RSQLite versions 2.3.8 dated 2024-11-17 and 2.3.9 dated 2024-12-03
DESCRIPTION | 8 +- MD5 | 18 ++-- NEWS.md | 13 +++ build/vignette.rds |binary src/import-file.c | 18 ++++ src/vendor/extensions/regexp.c | 3 src/vendor/extensions/series.c | 8 +- src/vendor/sqlite3/sqlite3.c | 118 ++++++++++++++++++++++--------- src/vendor/sqlite3/sqlite3.h | 15 +++ tests/testthat/test-regularExpressions.R | 1 10 files changed, 148 insertions(+), 54 deletions(-)
Title: A Unified Time Series Event Detection Framework
Description: By analyzing time series, it is possible to observe significant changes in the behavior of observations that frequently characterize events. Events present themselves as anomalies, change points, or motifs. In the literature, there are several methods for detecting events. However, searching for a suitable time series method is a complex task, especially considering that the nature of events is often unknown. This work presents Harbinger, a framework for integrating and analyzing event detection methods. Harbinger contains several state-of-the-art methods described in Salles et al. (2020) <doi:10.5753/sbbd.2020.13626>.
Author: Eduardo Ogasawara [aut, ths, cre]
,
Antonio Castro [aut],
Antonio Mello [aut],
Ellen Paixao [aut],
Fernando Fraga [aut],
Heraldo Borges [aut],
Janio Lima [aut],
Jessica Souza [aut],
Lais Baroni [aut],
Lucas Tavares [aut],
Rebecca Salles [aut],
Diego [...truncated...]
Maintainer: Eduardo Ogasawara <eogasawara@ieee.org>
Diff between harbinger versions 1.0.787 dated 2024-05-13 and 1.1.707 dated 2024-12-03
harbinger-1.0.787/harbinger/R/hmo_discord.R |only harbinger-1.0.787/harbinger/man/hmo_discord.Rd |only harbinger-1.1.707/harbinger/DESCRIPTION | 8 - harbinger-1.1.707/harbinger/MD5 | 64 +++++++------- harbinger-1.1.707/harbinger/NAMESPACE | 7 - harbinger-1.1.707/harbinger/R/han_autoencoder.R | 19 ++-- harbinger-1.1.707/harbinger/R/hanc_ml.R | 15 ++- harbinger-1.1.707/harbinger/R/hanct_dtw.R | 8 - harbinger-1.1.707/harbinger/R/hanct_kmeans.R | 8 - harbinger-1.1.707/harbinger/R/hanr_arima.R | 8 - harbinger-1.1.707/harbinger/R/hanr_emd.R | 25 ----- harbinger-1.1.707/harbinger/R/hanr_fbiad.R | 19 ++-- harbinger-1.1.707/harbinger/R/hanr_fft.R | 11 +- harbinger-1.1.707/harbinger/R/hanr_garch.R | 8 - harbinger-1.1.707/harbinger/R/hanr_ml.R | 8 - harbinger-1.1.707/harbinger/R/hanr_red.R | 4 harbinger-1.1.707/harbinger/R/hanr_remd.R | 14 ++- harbinger-1.1.707/harbinger/R/hanr_wavelet.R | 8 - harbinger-1.1.707/harbinger/R/har_ensemble.R |only harbinger-1.1.707/harbinger/R/har_eval_soft.R | 5 + harbinger-1.1.707/harbinger/R/harbinger.R | 93 +++------------------ harbinger-1.1.707/harbinger/R/harbinger_utils.R |only harbinger-1.1.707/harbinger/R/hcp_cf_arima.R | 15 +-- harbinger-1.1.707/harbinger/R/hcp_cf_ets.R | 15 +-- harbinger-1.1.707/harbinger/R/hcp_cf_lr.R | 15 +-- harbinger-1.1.707/harbinger/R/hcp_garch.R | 6 - harbinger-1.1.707/harbinger/R/hcp_red.R | 24 +++-- harbinger-1.1.707/harbinger/R/hcp_scp.R | 13 ++ harbinger-1.1.707/harbinger/R/hmo_xsax.R | 52 +++++++---- harbinger-1.1.707/harbinger/R/hmu_pca.R | 22 +--- harbinger-1.1.707/harbinger/README.md | 10 -- harbinger-1.1.707/harbinger/man/detect.Rd | 15 --- harbinger-1.1.707/harbinger/man/han_autoencoder.Rd | 11 ++ harbinger-1.1.707/harbinger/man/har_ensemble.Rd |only harbinger-1.1.707/harbinger/man/harbinger.Rd | 15 --- harbinger-1.1.707/harbinger/man/harutils.Rd |only 36 files changed, 250 insertions(+), 295 deletions(-)
Title: Inference on Predicted Data
Description: Performs valid statistical inference on predicted data (IPD) using recent methods, where for a subset of the data, the outcomes have been predicted by an algorithm. Provides a wrapper function with specified defaults for the type of model and method to be used for estimation and inference. Further provides methods for tidying and summarizing results. Salerno et al., (2024) <doi:10.48550/arXiv.2410.09665>.
Author: Stephen Salerno [aut, cre, cph]
,
Jiacheng Miao [aut],
Awan Afiaz [aut],
Kentaro Hoffman [aut],
Anna Neufeld [aut],
Qiongshi Lu [aut],
Tyler H McCormick [aut],
Jeffrey T Leek [aut]
Maintainer: Stephen Salerno <ssalerno@fredhutch.org>
Diff between ipd versions 0.1.2 dated 2024-10-24 and 0.1.3 dated 2024-12-03
DESCRIPTION | 8 MD5 | 9 NEWS.md |only R/ipd.R | 999 ++++++++++++++++++++++++++++++--------------------------- inst/doc/ipd.R | 16 man/ipd.Rd | 10 6 files changed, 567 insertions(+), 475 deletions(-)
Title: Fitting Deep Conditional Transformation Models
Description: Allows for the specification of deep conditional transformation
models (DCTMs) and ordinal neural network transformation models, as
described in Baumann et al (2021) <doi:10.1007/978-3-030-86523-8_1> and
Kook et al (2022) <doi:10.1016/j.patcog.2021.108263>. Extensions such as
autoregressive DCTMs (Ruegamer et al, 2023, <doi:10.1007/s11222-023-10212-8>)
and transformation ensembles (Kook et al, 2022, <doi:10.48550/arXiv.2205.12729>)
are implemented. The software package is described in Kook et al (2024,
<doi:10.18637/jss.v111.i10>).
Author: Lucas Kook [aut, cre],
Philipp Baumann [aut],
David Ruegamer [aut]
Maintainer: Lucas Kook <lucasheinrich.kook@gmail.com>
Diff between deeptrafo versions 0.1-1 dated 2022-11-22 and 1.0-0 dated 2024-12-03
deeptrafo-0.1-1/deeptrafo/R/callbacks.R |only deeptrafo-0.1-1/deeptrafo/inst/python/distributions/__pycache__ |only deeptrafo-0.1-1/deeptrafo/inst/python/layers |only deeptrafo-0.1-1/deeptrafo/tests/testthat/Rplots.pdf |only deeptrafo-1.0-0/deeptrafo/DESCRIPTION | 22 deeptrafo-1.0-0/deeptrafo/MD5 | 87 - deeptrafo-1.0-0/deeptrafo/NAMESPACE | 19 deeptrafo-1.0-0/deeptrafo/R/alias-deeptrafo.R | 100 +- deeptrafo-1.0-0/deeptrafo/R/controls.R | 56 - deeptrafo-1.0-0/deeptrafo/R/ensembles.R | 115 ++ deeptrafo-1.0-0/deeptrafo/R/helperfuns.R | 88 + deeptrafo-1.0-0/deeptrafo/R/main.R | 297 +++-- deeptrafo-1.0-0/deeptrafo/R/methods.R | 353 ++++--- deeptrafo-1.0-0/deeptrafo/R/processor.R | 23 deeptrafo-1.0-0/deeptrafo/R/trafo_ensembles.R |only deeptrafo-1.0-0/deeptrafo/build |only deeptrafo-1.0-0/deeptrafo/inst/CITATION |only deeptrafo-1.0-0/deeptrafo/inst/python/dtlayers |only deeptrafo-1.0-0/deeptrafo/man/BoxCoxNN.Rd | 8 deeptrafo-1.0-0/deeptrafo/man/ColrNN.Rd | 8 deeptrafo-1.0-0/deeptrafo/man/CoxphNN.Rd | 8 deeptrafo-1.0-0/deeptrafo/man/LehmanNN.Rd | 8 deeptrafo-1.0-0/deeptrafo/man/LmNN.Rd | 10 deeptrafo-1.0-0/deeptrafo/man/PolrNN.Rd | 10 deeptrafo-1.0-0/deeptrafo/man/SurvregNN.Rd | 10 deeptrafo-1.0-0/deeptrafo/man/cotramNN.Rd | 10 deeptrafo-1.0-0/deeptrafo/man/dctm.Rd | 8 deeptrafo-1.0-0/deeptrafo/man/deeptrafo.Rd | 75 + deeptrafo-1.0-0/deeptrafo/man/ensemble.deeptrafo.Rd | 4 deeptrafo-1.0-0/deeptrafo/man/from_preds_to_trafo.Rd | 5 deeptrafo-1.0-0/deeptrafo/man/methodTrafo.Rd | 61 - deeptrafo-1.0-0/deeptrafo/man/nll.Rd | 4 deeptrafo-1.0-0/deeptrafo/man/ontram.Rd | 10 deeptrafo-1.0-0/deeptrafo/man/plot.deeptrafo.Rd |only deeptrafo-1.0-0/deeptrafo/man/trafo_control.Rd | 6 deeptrafo-1.0-0/deeptrafo/man/trafoensemble.Rd |only deeptrafo-1.0-0/deeptrafo/man/weighted_logLik.Rd |only deeptrafo-1.0-0/deeptrafo/tests/testthat.R | 8 deeptrafo-1.0-0/deeptrafo/tests/testthat/test-funs.R | 21 deeptrafo-1.0-0/deeptrafo/tests/testthat/test_alias.R | 363 +++---- deeptrafo-1.0-0/deeptrafo/tests/testthat/test_ensembles.R | 416 ++++++-- deeptrafo-1.0-0/deeptrafo/tests/testthat/test_helper.R | 180 +-- deeptrafo-1.0-0/deeptrafo/tests/testthat/test_main.R | 496 ++++------ deeptrafo-1.0-0/deeptrafo/tests/testthat/test_residuals.R |only 44 files changed, 1710 insertions(+), 1179 deletions(-)
Title: Fast Spatial and Spatio-Temporal Regression using Moran
Eigenvectors
Description: A collection of functions for estimating spatial and spatio-temporal regression models. Moran eigenvectors are used as spatial basis functions to efficiently approximate spatially dependent Gaussian processes (i.e., random effects eigenvector spatial filtering; see Murakami and Griffith 2015 <doi: 10.1007/s10109-015-0213-7>). The implemented models include linear regression with residual spatial dependence, spatially/spatio-temporally varying coefficient models (Murakami et al., 2017, 2024; <doi:10.1016/j.spasta.2016.12.001>,<doi:10.48550/arXiv.2410.07229>), spatially filtered unconditional quantile regression (Murakami and Seya, 2019 <doi:10.1002/env.2556>), Gaussian and non-Gaussian spatial mixed models through compositionally-warping (Murakami et al. 2021, <doi:10.1016/j.spasta.2021.100520>).
Author: Daisuke Murakami [aut, cre]
Maintainer: Daisuke Murakami <dmuraka@ism.ac.jp>
Diff between spmoran versions 0.3.1 dated 2024-10-12 and 0.3.2 dated 2024-12-03
DESCRIPTION | 10 MD5 | 14 R/addlearn_local.R | 4582 +++++++++++++++++++++++++------------------------- R/predict0.R | 3275 +++++++++++++++++------------------ R/resf.R | 398 ++-- R/resf_vc.R | 30 man/addlearn_local.Rd | 16 man/weigen.Rd | 5 8 files changed, 4215 insertions(+), 4115 deletions(-)
Title: Tools for Approximate Bayesian Computation (ABC)
Description: Implements several ABC algorithms for
performing parameter estimation, model selection, and goodness-of-fit.
Cross-validation tools are also available for measuring the
accuracy of ABC estimates, and to calculate the
misclassification probabilities of different models.
Author: Csillery Katalin [aut],
Lemaire Louisiane [aut],
Francois Olivier [aut],
Blum Michael [aut, cre]
Maintainer: Blum Michael <michael.blum.temp@gmail.com>
Diff between abc versions 2.2.1 dated 2022-05-19 and 2.2.2 dated 2024-12-03
CHANGES | 7 ++++ DESCRIPTION | 8 ++--- MD5 | 26 ++++++++--------- build/vignette.rds |binary inst/CITATION | 22 ++++++++------ inst/doc/abcvignette.R | 68 +++++++++++++++++++++++++--------------------- inst/doc/abcvignette.Rnw | 16 +++++----- inst/doc/abcvignette.pdf |binary man/abc.Rd | 24 ++++++++-------- man/cv4abc.Rd | 10 +++--- man/cv4postpr.Rd | 10 +++--- man/plot.abc.Rd | 4 +- man/postpr.Rd | 12 ++++---- vignettes/abcvignette.Rnw | 16 +++++----- 14 files changed, 120 insertions(+), 103 deletions(-)
Title: Stan-Based Fit to Gastric Emptying Curves
Description: Stan-based curve-fitting function
for use with package 'breathtestcore' by the same author.
Stan functions are refactored here for easier testing.
Author: Dieter Menne [aut, cre],
Menne Biomed Consulting Tuebingen [cph],
Benjamin Misselwitz [fnd],
Mark Fox [fnd],
University Hospital of Zurich, Dep. Gastroenterology [fnd, dtc]
Maintainer: Dieter Menne <dieter.menne@menne-biomed.de>
Diff between breathteststan versions 0.8.5 dated 2024-01-13 and 0.8.8 dated 2024-12-03
breathteststan-0.8.5/breathteststan/src/Makevars |only breathteststan-0.8.5/breathteststan/src/Makevars.win |only breathteststan-0.8.8/breathteststan/DESCRIPTION | 16 breathteststan-0.8.8/breathteststan/MD5 | 22 breathteststan-0.8.8/breathteststan/NAMESPACE | 2 breathteststan-0.8.8/breathteststan/R/breathteststan-package.R | 4 breathteststan-0.8.8/breathteststan/R/stan_fit.R | 8 breathteststan-0.8.8/breathteststan/README.md | 6 breathteststan-0.8.8/breathteststan/man/figures |only breathteststan-0.8.8/breathteststan/man/stan_fit.Rd | 2 breathteststan-0.8.8/breathteststan/src/stanExports_breath_test_1.h | 1791 +++++----- breathteststan-0.8.8/breathteststan/tests/testthat.R | 5 breathteststan-0.8.8/breathteststan/tools |only 13 files changed, 956 insertions(+), 900 deletions(-)
More information about breathteststan at CRAN
Permanent link
Title: Discrete Bayesian Additive Regression Trees Sampler
Description: Fits Bayesian additive regression trees (BART; Chipman, George, and McCulloch (2010) <doi:10.1214/09-AOAS285>) while allowing the updating of predictors or response so that BART can be incorporated as a conditional model in a Gibbs/Metropolis-Hastings sampler. Also serves as a drop-in replacement for package 'BayesTree'.
Author: Vincent Dorie [aut, cre] ,
Hugh Chipman [aut],
Robert McCulloch [aut],
Armon Dadgar [ctb] ,
R Core Team [ctb] ,
Guido U Draheim [ctb] ,
Maarten Bosmans [ctb] ,
Christophe Tournayre [ctb] ,
Michael Petch [ctb] ,
Rafael de Lucena Valle [ctb] ,
Steven G [...truncated...]
Maintainer: Vincent Dorie <vdorie@gmail.com>
Diff between dbarts versions 0.9-28 dated 2024-05-01 and 0.9-30 dated 2024-12-03
DESCRIPTION | 8 MD5 | 24 R/dbarts.R | 9 R/utility.R | 4 build/vignette.rds |binary configure | 2078 ++++++++++++++++++------------- configure.ac | 3 inst/NEWS.Rd | 11 inst/doc/gibbs_sampler_mixture_model.pdf |binary inst/doc/working_with_saved_trees.pdf |binary src/config.hpp.in | 28 src/guessNumCores.cpp | 4 src/include/external/stats.h | 22 13 files changed, 1327 insertions(+), 864 deletions(-)
Title: Core Functions to Read and Fit 13c Time Series from Breath Tests
Description: Reads several formats of 13C data (IRIS/Wagner,
BreathID) and CSV. Creates artificial sample data for testing. Fits
Maes/Ghoos, Bluck-Coward self-correcting formula using 'nls', 'nlme'.
Methods to fit breath test curves with Bayesian Stan methods are
refactored to package 'breathteststan'. For a Shiny GUI, see package
'dmenne/breathtestshiny' on github.
Author: Dieter Menne [aut, cre],
Menne Biomed Consulting Tuebingen [cph],
Benjamin Misselwitz [fnd],
Mark Fox [fnd],
Andreas Steingoetter [dtc],
University Hospital of Zurich, Dep. Gastroenterology [fnd, dtc]
Maintainer: Dieter Menne <dieter.menne@menne-biomed.de>
Diff between breathtestcore versions 0.8.7 dated 2024-01-24 and 0.8.8 dated 2024-12-03
DESCRIPTION | 17 ++++------ MD5 | 45 +++++++++++++------------- R/breathtestcore-package.R |only R/coef_diff_by_group.R | 13 +++---- R/exp_beta.R | 2 - R/nlme_fit.R | 2 - R/plot_breathtestfit.R | 8 ++-- R/read_iris.R | 2 - R/read_iris_csv.R | 2 - build/vignette.rds |binary inst/doc/data_formats.Rmd | 4 -- inst/doc/data_formats.html | 43 ++++++++++--------------- inst/doc/methods_and_concepts.R | 24 +++++++------- inst/doc/methods_and_concepts.Rmd | 20 +++++------ inst/doc/methods_and_concepts.html | 52 +++++++++++++------------------ man/exp_beta.Rd | 2 - man/nlme_fit.Rd | 2 - man/plot.breathtestfit.Rd | 4 +- man/read_iris.Rd | 2 - man/read_iris_csv.Rd | 2 - tests/test-all.R | 4 +- tests/testthat/test_coef_diff_by_group.R | 3 + vignettes/data_formats.Rmd | 4 -- vignettes/methods_and_concepts.Rmd | 20 +++++------ 24 files changed, 132 insertions(+), 145 deletions(-)
More information about breathtestcore at CRAN
Permanent link
Title: Functions to Analyze Single System Data
Description: Functions to visually and statistically analyze single system data.
Author: Charles Auerbach [aut, cre],
Wendy Zeitlin [aut]
Maintainer: Charles Auerbach <auerbach@yu.edu>
Diff between SSDforR versions 1.5.35 dated 2024-08-29 and 1.5.36 dated 2024-12-03
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/CDCabove.R | 4 ++-- R/CDCbelow.R | 4 ++-- R/RobustCDCabove.R | 4 ++-- R/RobustCDCbelow.R | 2 +- 6 files changed, 16 insertions(+), 16 deletions(-)
Title: Header-Only C++ Mathematical Optimization Library for
'Armadillo'
Description: 'Ensmallen' is a templated C++ mathematical optimization library
(by the 'MLPACK' team) that provides a simple set of abstractions for writing an
objective function to optimize. Provided within are various standard and
cutting-edge optimizers that include full-batch gradient descent techniques,
small-batch techniques, gradient-free optimizers, and constrained optimization.
The 'RcppEnsmallen' package includes the header files from the 'Ensmallen' library
and pairs the appropriate header files from 'armadillo' through the
'RcppArmadillo' package. Therefore, users do not need to install 'Ensmallen' nor
'Armadillo' to use 'RcppEnsmallen'. Note that 'Ensmallen' is licensed under
3-Clause BSD, 'Armadillo' starting from 7.800.0 is licensed under Apache License 2,
'RcppArmadillo' (the 'Rcpp' bindings/bridge to 'Armadillo') is licensed under
the GNU GPL version 2 or later. Thus, 'RcppEnsmallen' is also licensed under
similar terms. Note that 'Ensmallen' requires a compiler that supports
'C++14 [...truncated...]
Author: James Joseph Balamuta [aut, cre, cph]
,
Dirk Eddelbuettel [aut, cph]
Maintainer: James Joseph Balamuta <balamut2@illinois.edu>
Diff between RcppEnsmallen versions 0.2.21.1.1 dated 2024-02-16 and 0.2.22.1.1 dated 2024-12-03
ChangeLog | 25 ++++++ DESCRIPTION | 12 +-- MD5 | 58 ++++++++++------ NEWS.md | 23 ++++++ build/vignette.rds |binary inst/doc/package-usage.html | 2 inst/doc/using-rcppensmallen.R | 4 - inst/doc/using-rcppensmallen.html | 22 +++--- inst/include/ensmallen.hpp | 30 +++++--- inst/include/ensmallen_bits/agemoea |only inst/include/ensmallen_bits/cmaes/cmaes.hpp | 6 + inst/include/ensmallen_bits/cmaes/cmaes_impl.hpp | 3 inst/include/ensmallen_bits/cmaes/pop_cmaes.hpp |only inst/include/ensmallen_bits/cmaes/pop_cmaes_impl.hpp |only inst/include/ensmallen_bits/config.hpp | 16 ---- inst/include/ensmallen_bits/ens_version.hpp | 8 +- inst/include/ensmallen_bits/function/arma_traits.hpp | 8 -- inst/include/ensmallen_bits/function/sfinae_utility.hpp | 8 +- inst/include/ensmallen_bits/fw/atoms.hpp | 3 inst/include/ensmallen_bits/fw/constr_lpball.hpp | 4 - inst/include/ensmallen_bits/nsga2/nsga2.hpp | 2 inst/include/ensmallen_bits/problems/dtlz |only inst/include/ensmallen_bits/problems/maf |only inst/include/ensmallen_bits/problems/problems.hpp | 13 +++ inst/include/ensmallen_bits/utility/arma_traits.hpp | 29 ++------ inst/include/ensmallen_bits/utility/indicators/igd.hpp |only man/RcppEnsmallen-package.Rd | 2 27 files changed, 170 insertions(+), 108 deletions(-)
Title: Classes and Methods for Fast Memory-Efficient Boolean Selections
Description: Provided are classes for boolean and skewed boolean vectors,
fast boolean methods, fast unique and non-unique integer sorting,
fast set operations on sorted and unsorted sets of integers, and
foundations for ff (range index, compression, chunked processing).
Author: Jens Oehlschlaegel [aut, cre],
Brian Ripley [ctb]
Maintainer: Jens Oehlschlaegel <Jens.Oehlschlaegel@truecluster.com>
Diff between bit versions 4.5.0 dated 2024-09-20 and 4.5.0.1 dated 2024-12-03
DESCRIPTION | 6 +++--- MD5 | 4 ++-- src/bit.c | 24 ++++++++++++------------ 3 files changed, 17 insertions(+), 17 deletions(-)
Title: Construct Process Maps Using Event Data
Description: Visualize event logs using directed graphs, i.e. process maps. Part of the 'bupaR' framework.
Author: Gert Janssenswillen [aut, cre],
Gerard van Hulzen [ctb],
Benoît Depaire [ctb],
Felix Mannhardt [ctb],
Thijs Beuving [ctb],
urvikalia [ctb],
Hasselt University [cph]
Maintainer: Gert Janssenswillen <gert.janssenswillen@uhasselt.be>
Diff between processmapR versions 0.5.5 dated 2024-08-30 and 0.5.6 dated 2024-12-03
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NAMESPACE | 1 + R/precedence_matrix.plot.R | 6 +++--- R/processmapR.R | 2 +- build/vignette.rds |binary inst/doc/processmapr.html | 4 ++-- man/export_graph.Rd | 21 ++++++++++++--------- man/processmapR.Rd | 1 - tests/testthat/test_dotted_chart_helpers.R | 2 ++ 10 files changed, 34 insertions(+), 29 deletions(-)
Title: Reading and Writing Open Data Format Files
Description: The Open Data Format (ODF) is a new, non-proprietary, multilingual, metadata enriched, and zip-compressed data format with metadata structured in the Data Documentation Initiative (DDI) Codebook standard. This package allows reading and writing of data files in the Open Data Format (ODF) in R, and displaying metadata in different languages. For further information on the Open Data Format, see <https://opendataformat.github.io/>.
Author: Tom Hartl [aut, cre] ,
Claudia Saalbach [ctb]
Maintainer: Tom Hartl <thartl@diw.de>
Diff between opendataformat versions 2.0.0 dated 2024-11-19 and 2.1.0 dated 2024-12-03
DESCRIPTION | 6 +- MD5 | 7 +- R/docu_odf.R | 18 ++++++- inst/doc/opendataformat.html | 74 ++++++++++++++++--------------- vignettes/opendataformat-tom-D15S-2.html |only 5 files changed, 62 insertions(+), 43 deletions(-)
More information about opendataformat at CRAN
Permanent link
Title: Classifications and Codelists for Statistics Norway
Description: Functions to search, retrieve, apply and update classifications
and codelists using Statistics Norway's API <https://www.ssb.no/klass>
from the system 'KLASS'. Retrieves classifications by date with options
to choose language, hierarchical level and formatting.
Author: Susie Jentoft [aut, cre],
Diana-Cristina Iancu [aut],
Lisa Li [aut],
Oeyvind I. Berntsen [aut],
Statistics Norway [cph]
Maintainer: Susie Jentoft <susie.jentoft@ssb.no>
Diff between klassR versions 1.0.0 dated 2024-11-15 and 1.0.1 dated 2024-12-03
DESCRIPTION | 8 +- MD5 | 74 +++++++++++++------------- NAMESPACE | 7 -- R/Hent_data.R | 4 - R/KLASS.R | 59 +++++++++++--------- R/Klass_list.R | 17 +----- R/UpdateKlass-graph-build.R | 14 ++++ R/UpdateKlass-graph-navigate.R | 9 ++- R/UpdateKlass.R | 1 data/klass_131_1964_graph.RData |binary data/klass_131_2020_graph.RData |binary data/klass_131_graph.RData |binary man/apply_klass.Rd | 14 ++-- man/correspond_list.Rd | 3 - man/count_neighbors.Rd | 1 man/find_dates.Rd | 1 man/find_name.Rd | 1 man/find_variant_from.Rd | 1 man/find_variant_to.Rd | 1 man/get_family.Rd | 3 - man/get_klass.Rd | 3 - man/get_klass_changes.Rd | 1 man/get_name.Rd | 1 man/get_version.Rd | 3 - man/is_combined.Rd | 1 man/is_split.Rd | 1 man/klass_131_1964_graph.Rd | 32 +++++------ man/klass_131_2020_graph.Rd | 32 +++++------ man/klass_131_graph.Rd | 32 +++++------ man/klass_graph.Rd | 76 +++++++++++++------------- man/klass_node.Rd | 80 ++++++++++++++-------------- man/list_family.Rd | 1 man/list_klass.Rd | 1 man/search_klass.Rd | 1 man/update_code.Rd | 1 man/update_klass_node.Rd | 71 ++++++++++++------------- tests/testthat/test_ApplyKlass.R | 110 ++++++++++++++++++++++----------------- tests/testthat/test_GetKlass.R | 18 ++++-- 38 files changed, 360 insertions(+), 323 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-05-03 0.32.10
2023-02-14 0.32.8
2023-01-11 0.32.7
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 0.1.7 dated 2024-10-23 and 0.1.8 dated 2024-12-03
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 4 ++++ R/utilities.R | 11 ++++++++++- build/vignette.rds |binary inst/doc/ggfun.R | 8 ++++---- inst/doc/ggfun.html | 14 +++++++------- 7 files changed, 34 insertions(+), 21 deletions(-)
Title: Bayesian Analysis of the Network Autocorrelation Model
Description: The network autocorrelation model (NAM) can be used for studying the degree of social influence
regarding an outcome variable based on one or more known networks.
The degree of social influence is quantified via the network autocorrelation parameters. In case of a single
network, the Bayesian methods of Dittrich, Leenders, and Mulder
(2017) <DOI:10.1016/j.socnet.2016.09.002> and Dittrich, Leenders, and Mulder (2019)
<DOI:10.1177/0049124117729712> are implemented using a normal, flat, or independence
Jeffreys prior for the network autocorrelation. In the case of multiple
networks, the Bayesian methods of Dittrich, Leenders, and Mulder (2020)
<DOI:10.1177/0081175020913899> are implemented using a multivariate normal prior for
the network autocorrelation parameters. Flat priors are implemented
for estimating the coefficients. For Bayesian testing of equality and order-constrained
hypotheses, the default Bayes factor of Gu, Mulder, and Hoijtink, (2018)
<DOI:10.1111/bms [...truncated...]
Author: Joris Mulder [aut, cre],
Dino Dittrich [aut, ctb],
Roger Leenders [aut, ctb]
Maintainer: Joris Mulder <j.mulder3@tilburguniversity.edu>
Diff between BANAM versions 0.2.1 dated 2024-06-20 and 0.2.2 dated 2024-12-03
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- tests/testthat/test_banam.R | 4 ++-- 3 files changed, 8 insertions(+), 8 deletions(-)
Title: A Graph Based Particle Simulator Based on D3-Force
Description: Simulating particle movement in 2D space has many
application. The 'particles' package implements a particle simulator
based on the ideas behind the 'd3-force' 'JavaScript' library.
'particles' implements all forces defined in 'd3-force' as well as
others such as vector fields, traps, and attractors.
Author: Thomas Lin Pedersen [aut, cre]
,
Andrei Kashcha [ctb]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Diff between particles versions 0.2.3 dated 2022-08-19 and 0.2.4 dated 2024-12-03
DESCRIPTION | 48 ++-- MD5 | 26 +- NAMESPACE | 12 + NEWS.md | 6 R/constraint.R | 6 R/force.R | 6 README.md | 41 ++-- build/vignette.rds |binary inst/doc/intro.R | 10 - inst/doc/intro.html | 306 ++++++++++++++++--------------- man/figures/README-unnamed-chunk-3-1.png |binary man/particles-package.Rd | 3 src/collision.cpp | 8 src/quadTree.h | 1 14 files changed, 258 insertions(+), 215 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-12-16 1.0
2022-10-14 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-03-17 0.0.2
2020-11-18 0.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-05-03 1.4-3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-02-28 0.5.0
2021-01-30 0.4.1
2021-01-13 0.4.0
2020-09-10 0.3.0
2020-05-02 0.2.0
2020-02-06 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-09-07 0.3-3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-09-08 1.0.0
2022-12-15 0.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-05-21 0.2.0
Title: Nonparametric Tests for Incomplete Clustered Data
Description: Nonparametric tests for clustered data in pre-post intervention design documented in Cui and Harrar (2021) <doi:10.1002/bimj.201900310> and Harrar and Cui (2022) <doi:10.1016/j.jspi.2022.05.009>. Other than the main test results mentioned in the reference paper, this package also provides a function to calculate the sample size allocations for the input long format data set, and also a function for adjusted/unadjusted confidence intervals calculations. There are also functions to visualize the distribution of data across different intervention groups over time, and also the adjusted/unadjusted confidence intervals.
Author: Yue Cui [aut, cre] ,
Solomon W. Harrar [aut]
Maintainer: Yue Cui <YueCui@MissouriState.edu>
Diff between npclust versions 0.1.0 dated 2023-04-12 and 0.1.1 dated 2024-12-03
DESCRIPTION | 13 +++++++------ MD5 | 4 ++-- R/ncda.R | 4 ++-- 3 files changed, 11 insertions(+), 10 deletions(-)
Title: Analysis of Korean National Forest Inventory Database
Description: Understanding the current status of forest resources is essential for monitoring changes
in forest ecosystems and generating related statistics. In South Korea, the National Forest
Inventory (NFI) surveys over 4,500 sample plots nationwide every five years and records 70 items,
including forest stand, forest resource, and forest vegetation surveys. Many researchers use NFI
as the primary data for research, such as biomass estimation or analyzing the importance value of
each species over time and space, depending on the research purpose. However, the large volume
of accumulated forest survey data from across the country can make it challenging to manage and
utilize such a vast dataset. To address this issue, we developed an R package that efficiently
handles large-scale NFI data across time and space. The package offers a comprehensive
workflow for NFI data analysis. It starts with data processing, where read_nfi() function
reconstructs NFI data according to the researcher's needs while [...truncated...]
Author: Sinyoung Park [aut, cre] ,
Wonhee Cho [aut, ctb] ,
Inyoo Kim [aut, ctb] ,
Wontaek Lim [aut, ctb] ,
Dongwook W. Ko [aut, ths]
Maintainer: Sinyoung Park <youngsin0306@kookmin.ac.kr>
Diff between knfi versions 1.0.1 dated 2024-11-20 and 1.0.1.9 dated 2024-12-03
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 4 ++++ R/biomass_nfi.R | 20 +++++++++++--------- 4 files changed, 21 insertions(+), 15 deletions(-)
Title: Protein Quantification in Mass Spectrometry-Based Proteomics
Description: An implementation of the MaxLFQ algorithm by
Cox et al. (2014) <doi:10.1074/mcp.M113.031591> in a comprehensive
pipeline for processing proteomics data in data-independent acquisition mode
(Pham et al. 2020 <doi:10.1093/bioinformatics/btz961>).
It offers additional options for protein quantification using
the N most intense fragment ions, using all fragment ions, and
a wrapper for the median polish algorithm by Tukey (1977, ISBN:0201076160).
In general, the tool can be used to integrate multiple
proportional observations into a single quantitative value.
Author: Thang Pham [aut, cre, cph, ctb]
,
Alex Henneman [ctb]
Maintainer: Thang Pham <t.pham@amsterdamumc.nl>
Diff between iq versions 1.9.12 dated 2023-12-06 and 1.10 dated 2024-12-03
iq-1.10/iq/DESCRIPTION | 6 iq-1.10/iq/LICENSE | 2 iq-1.10/iq/MD5 | 28 iq-1.10/iq/R/iq-fast.R | 128 ++++ iq-1.10/iq/R/iq.R | 26 iq-1.10/iq/build/vignette.rds |binary iq-1.10/iq/inst/doc/iq-fast.Rmd | 340 ++++++++++- iq-1.10/iq/inst/doc/iq-fast.html | 1031 +++++++++++++++++----------------- iq-1.10/iq/inst/doc/iq.Rmd | 108 ++- iq-1.10/iq/inst/doc/iq.html | 766 +++++++++++++++---------- iq-1.10/iq/man/preprocess.Rd | 4 iq-1.10/iq/man/process_long_format.Rd | 9 iq-1.10/iq/vignettes/iq-fast.Rmd | 340 ++++++++++- iq-1.10/iq/vignettes/iq.Rmd | 108 ++- iq-1.9.12/iq/inst/doc/iq-fast.R |only iq-1.9.12/iq/inst/doc/iq.R |only 16 files changed, 1931 insertions(+), 965 deletions(-)
Title: Flexible Bayes Factor Testing of Scientific Expectations
Description: Implementation of default Bayes factors
for testing statistical hypotheses under various statistical models. The package is
intended for applied quantitative researchers in the
social and behavioral sciences, medical research,
and related fields. The Bayes factor tests can be
executed for statistical models such as
univariate and multivariate normal linear models,
correlation analysis, generalized linear models, special cases of
linear mixed models, survival models, relational
event models. Parameters that can be tested are
location parameters (e.g., group means, regression coefficients),
variances (e.g., group variances), and measures of
association (e.g,. polychoric/polyserial/biserial/tetrachoric/product
moments correlations), among others.
The statistical underpinnings are
described in
Mulder and Xin (2022) <DOI:10.1080/00273171.2021.1904809>,
Mulder and Gelissen (2019) <DOI:10.1080/02664763.2021.1992360>,
Mulder (2016) <DOI:10.1016/j.jmp.2014.09.004>,
Mulder and [...truncated...]
Author: Joris Mulder [aut, cre],
Caspar van Lissa [aut, ctb],
Donald R. Williams [aut, ctb],
Xin Gu [aut, ctb],
Anton Olsson-Collentine [aut, ctb],
Florian Boeing-Messing [aut, ctb],
Jean-Paul Fox [aut, ctb],
Janosch Menke [ctb],
Robbie van Aert [ctb],
Barry [...truncated...]
Maintainer: Joris Mulder <j.mulder3@tilburguniversity.edu>
Diff between BFpack versions 1.3.0 dated 2024-06-19 and 1.4.0 dated 2024-12-03
BFpack-1.3.0/BFpack/R/mvt_test.R |only BFpack-1.4.0/BFpack/DESCRIPTION | 20 BFpack-1.4.0/BFpack/MD5 | 98 BFpack-1.4.0/BFpack/NAMESPACE | 8 BFpack-1.4.0/BFpack/R/BF.coeftest.R | 3 BFpack-1.4.0/BFpack/R/BF.cortest.R | 321 +- BFpack-1.4.0/BFpack/R/BF.coxph.R | 2 BFpack-1.4.0/BFpack/R/BF.ergm.R | 11 BFpack-1.4.0/BFpack/R/BF.gaussian.R | 16 BFpack-1.4.0/BFpack/R/BF.glm.R | 3 BFpack-1.4.0/BFpack/R/BF.hetcor.R | 9 BFpack-1.4.0/BFpack/R/BF.icc.R | 14 BFpack-1.4.0/BFpack/R/BF.lm.R | 199 - BFpack-1.4.0/BFpack/R/BF.meta.R | 1289 ++++++---- BFpack-1.4.0/BFpack/R/BF.methods.R | 55 BFpack-1.4.0/BFpack/R/BF.mvt_test.R |only BFpack-1.4.0/BFpack/R/BF.polr.R | 2 BFpack-1.4.0/BFpack/R/BF.print.R | 4 BFpack-1.4.0/BFpack/R/BF.summary.R | 4 BFpack-1.4.0/BFpack/R/BF.survreg.R | 2 BFpack-1.4.0/BFpack/R/BF.ttest.R | 145 - BFpack-1.4.0/BFpack/R/BF.var.R | 15 BFpack-1.4.0/BFpack/R/cor_test.print.R | 32 BFpack-1.4.0/BFpack/R/get_estimates_unique_to_BFpack.R | 8 BFpack-1.4.0/BFpack/R/helper_functions.R | 12 BFpack-1.4.0/BFpack/R/zzz.R |only BFpack-1.4.0/BFpack/inst/doc/vignette_BFpack.Rmd | 242 + BFpack-1.4.0/BFpack/inst/doc/vignette_BFpack.html | 416 ++- BFpack-1.4.0/BFpack/man/BF.Rd | 90 BFpack-1.4.0/BFpack/man/cor_test.Rd | 38 BFpack-1.4.0/BFpack/man/mvt_test.Rd | 2 BFpack-1.4.0/BFpack/src/BFpack_init.c | 4 BFpack-1.4.0/BFpack/src/bct_mixedordinal.f90 | 36 BFpack-1.4.0/BFpack/tests/testthat/test_BFcortest.R | 43 BFpack-1.4.0/BFpack/tests/testthat/test_BFcoxph.R | 4 BFpack-1.4.0/BFpack/tests/testthat/test_BFergm.R | 6 BFpack-1.4.0/BFpack/tests/testthat/test_BFglm.R | 2 BFpack-1.4.0/BFpack/tests/testthat/test_BFmeta.R | 25 BFpack-1.4.0/BFpack/tests/testthat/test_BFmlm.R | 12 BFpack-1.4.0/BFpack/tests/testthat/test_BFregression.R | 20 BFpack-1.4.0/BFpack/tests/testthat/test_BFzeroinfl.R | 2 BFpack-1.4.0/BFpack/tests/testthat/test_anova_manova.R | 2 BFpack-1.4.0/BFpack/tests/testthat/test_application1_BF.bain_ttest.R | 6 BFpack-1.4.0/BFpack/tests/testthat/test_application2_BF.lm.R | 4 BFpack-1.4.0/BFpack/tests/testthat/test_application4_BF.mlm_regression.R | 32 BFpack-1.4.0/BFpack/tests/testthat/test_application5_BF.glm_BF_Gaussian.R | 2 BFpack-1.4.0/BFpack/tests/testthat/test_application6_BF.mlm_correlations.R | 34 BFpack-1.4.0/BFpack/tests/testthat/test_hetcor.R | 2 BFpack-1.4.0/BFpack/tests/testthat/test_metafor.R | 11 BFpack-1.4.0/BFpack/tests/testthat/test_ttest.R | 40 BFpack-1.4.0/BFpack/vignettes/rsconnect |only BFpack-1.4.0/BFpack/vignettes/vignette_BFpack.Rmd | 242 + 52 files changed, 2189 insertions(+), 1400 deletions(-)
Title: Utility Functions for Production R Code
Description: A suite of utility functions providing functionality commonly
needed for production level projects such as logging, error handling,
cache management and date-time parsing. Functions for date-time parsing and
formatting require that time zones be specified explicitly, avoiding a common
source of error when working with environmental time series.
Author: Jonathan Callahan [aut, cre],
Eli Grosman [ctb],
Spencer Pease [ctb],
Thomas Bergamaschi [ctb]
Maintainer: Jonathan Callahan <jonathan.s.callahan@gmail.com>
Diff between MazamaCoreUtils versions 0.5.2 dated 2024-02-08 and 0.5.3 dated 2024-12-03
MazamaCoreUtils-0.5.2/MazamaCoreUtils/R/MazamaCoreUtils.R |only MazamaCoreUtils-0.5.2/MazamaCoreUtils/man/MazamaCoreUtils.Rd |only MazamaCoreUtils-0.5.3/MazamaCoreUtils/DESCRIPTION | 8 MazamaCoreUtils-0.5.3/MazamaCoreUtils/MD5 | 64 +-- MazamaCoreUtils-0.5.3/MazamaCoreUtils/NEWS.md | 6 MazamaCoreUtils-0.5.3/MazamaCoreUtils/R/MazamaCoreUtils-package.R |only MazamaCoreUtils-0.5.3/MazamaCoreUtils/R/createLocationID.R | 1 MazamaCoreUtils-0.5.3/MazamaCoreUtils/R/functionArgument_lintRules.R | 36 ++ MazamaCoreUtils-0.5.3/MazamaCoreUtils/R/loadDataFile.R | 164 +++++++--- MazamaCoreUtils-0.5.3/MazamaCoreUtils/R/parseDatetime.R | 2 MazamaCoreUtils-0.5.3/MazamaCoreUtils/R/timeStamp.R | 2 MazamaCoreUtils-0.5.3/MazamaCoreUtils/R/utils-location.R | 4 MazamaCoreUtils-0.5.3/MazamaCoreUtils/README.md | 12 MazamaCoreUtils-0.5.3/MazamaCoreUtils/inst/doc/cache-management.R | 3 MazamaCoreUtils-0.5.3/MazamaCoreUtils/inst/doc/cache-management.Rmd | 2 MazamaCoreUtils-0.5.3/MazamaCoreUtils/inst/doc/cache-management.html | 2 MazamaCoreUtils-0.5.3/MazamaCoreUtils/inst/doc/date-parsing.Rmd | 2 MazamaCoreUtils-0.5.3/MazamaCoreUtils/inst/doc/date-parsing.html | 2 MazamaCoreUtils-0.5.3/MazamaCoreUtils/inst/doc/error-handling.html | 12 MazamaCoreUtils-0.5.3/MazamaCoreUtils/inst/doc/logging.R | 6 MazamaCoreUtils-0.5.3/MazamaCoreUtils/inst/doc/logging.Rmd | 6 MazamaCoreUtils-0.5.3/MazamaCoreUtils/inst/doc/logging.html | 47 +- MazamaCoreUtils-0.5.3/MazamaCoreUtils/man/APIKeys.Rd | 2 MazamaCoreUtils-0.5.3/MazamaCoreUtils/man/MazamaCoreUtils-package.Rd |only MazamaCoreUtils-0.5.3/MazamaCoreUtils/man/createLocationID.Rd | 1 MazamaCoreUtils-0.5.3/MazamaCoreUtils/man/getAPIKey.Rd | 2 MazamaCoreUtils-0.5.3/MazamaCoreUtils/man/loadDataFile.Rd | 46 ++ MazamaCoreUtils-0.5.3/MazamaCoreUtils/man/parseDatetime.Rd | 2 MazamaCoreUtils-0.5.3/MazamaCoreUtils/man/setAPIKey.Rd | 2 MazamaCoreUtils-0.5.3/MazamaCoreUtils/man/showAPIKeys.Rd | 2 MazamaCoreUtils-0.5.3/MazamaCoreUtils/man/timeStamp.Rd | 2 MazamaCoreUtils-0.5.3/MazamaCoreUtils/man/timezoneLintRules.Rd | 37 ++ MazamaCoreUtils-0.5.3/MazamaCoreUtils/vignettes/cache-management.Rmd | 2 MazamaCoreUtils-0.5.3/MazamaCoreUtils/vignettes/date-parsing.Rmd | 2 MazamaCoreUtils-0.5.3/MazamaCoreUtils/vignettes/logging.Rmd | 6 35 files changed, 346 insertions(+), 141 deletions(-)
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