Title: The 'shiny' App for Test Analysis and Visualization
Description: This application enables exploratory factor analysis, confirmatory factor analysis, classical measurement theory analysis, unidimensional item response theory, multidimensional item response theory, and continuous item response model analysis, through the 'shiny' interactive interface. It also facilitates the visualization of the results. Users can easily download the analysis results from the interactive interface. Additionally, users can download a concise report about items and test quality on the interactive interface.
Author: Youxiang Jiang [cre, aut] ,
Hongbo Wen [ctb, ths]
Maintainer: Youxiang Jiang <jiangyouxiang34@163.com>
Diff between TestAnaAPP versions 0.1.3 dated 2023-10-27 and 0.1.4 dated 2023-11-20
DESCRIPTION | 14 ++-------- MD5 | 10 +++---- R/server.R | 53 +++++++++++++++++++++++++------------- R/ui.R | 44 ++++++++++++++++++++++++++++++- inst/rmd/IRT_Analysis_Report.Rmd | 34 ++++++++++++------------ inst/rmd/MIRT_Analysis_Report.Rmd | 20 ++------------ 6 files changed, 107 insertions(+), 68 deletions(-)
Title: Basic Calculations for PK/PD Modeling
Description: Essentials for PK/PD (pharmacokinetics/pharmacodynamics) such as area under the curve, (geometric) coefficient of variation, and other calculations that are not part of base R. This is not a noncompartmental analysis (NCA) package.
Author: Philip Delff [aut, cre]
Maintainer: Philip Delff <philip@delff.dk>
Diff between NMcalc versions 0.0.1 dated 2022-09-26 and 0.0.2 dated 2023-11-20
DESCRIPTION | 8 ++++---- MD5 | 30 ++++++++++++++++++------------ NAMESPACE | 2 ++ NEWS.md |only R/CV.R | 2 +- R/logit.R |only R/means.R | 5 ++++- R/quantbin.R | 2 ++ R/seqlog.R | 4 +++- man/CV.Rd | 2 +- man/invlogit.Rd |only man/logit.Rd |only man/means.Rd | 4 ++++ man/quantbin.Rd | 2 ++ man/seqlog.Rd | 4 +++- tests/testthat/testReference/logit_01.rds |only tests/testthat/test_logit.R |only tests/testthat/test_means.R | 2 ++ tests/testthat/test_quantbin.R | 1 + 19 files changed, 47 insertions(+), 21 deletions(-)
Title: 'CASMI'-Based Functions
Description: Contains Coverage Adjusted Standardized Mutual Information ('CASMI')-based functions. 'CASMI' is a fundamental concept of a series of methods. For more information about 'CASMI' and 'CASMI'-related methods, please refer to the corresponding publications (for example, a feature selection method, Shi, J., Zhang, J., & Ge, Y. (2019) <doi:10.3390/e21121179>, and a dataset quality measurement method, Shi, J., Zhang, J., & Ge, Y. (2019) <doi:10.1109/ICHI.2019.8904553>) or contact the package author.
Author: Jingyi Shi [aut, cre, cph],
Jialin Zhang [ctb]
Maintainer: Jingyi (Catherine) Shi <jshi@math.msstate.edu>
Diff between CASMI versions 1.1.1 dated 2023-09-26 and 1.2.0 dated 2023-11-20
DESCRIPTION | 6 MD5 | 10 R/AutoBin_Binary.R | 38 ++- R/FeatureSelection.R | 462 ++++++++++++++++++++++++++++++-------------- man/CASMI.selectFeatures.Rd | 20 + man/autoBin.binary.Rd | 6 6 files changed, 375 insertions(+), 167 deletions(-)
Title: Covariate Balance Tables and Plots
Description: Generate balance tables and plots for covariates of groups preprocessed through
matching, weighting or subclassification, for example, using propensity scores. Includes
integration with 'MatchIt', 'twang', 'Matching', 'optmatch', 'CBPS', 'ebal', 'WeightIt',
'cem', 'sbw', and 'designmatch' for assessing balance on the output of their preprocessing
functions. Users can also specify data for balance assessment not generated through
the above packages. Also included are methods for assessing balance in clustered or
multiply imputed data sets or data sets with multi-category, continuous, or longitudinal treatments.
Author: Noah Greifer [aut, cre]
Maintainer: Noah Greifer <noah.greifer@gmail.com>
Diff between cobalt versions 4.5.1 dated 2023-04-28 and 4.5.2 dated 2023-11-20
DESCRIPTION | 6 MD5 | 39 - NEWS.md | 10 R/SHARED.R | 118 ++-- R/bal.compute.R | 735 +++++++++++++++--------------- R/bal.tab.ps.R | 4 R/balance-statistics.R | 4 R/class-bal.tab.cluster.R | 2 R/functions_for_processing.R | 124 +++-- R/set.cobalt.options.R | 12 R/x2base.R | 117 +--- build/cobalt.pdf |binary build/stage23.rdb |only build/vignette.rds |binary inst/doc/cobalt.html | 947 +++++++++++++++++++-------------------- inst/doc/longitudinal-treat.html | 86 +-- inst/doc/love.plot.html | 275 +++++------ inst/doc/optimizing-balance.html | 433 +++++++++-------- inst/doc/other-packages.html | 347 +++++++------- inst/doc/segmented-data.html | 96 +-- man/bal.tab.ps.Rd | 2 21 files changed, 1708 insertions(+), 1649 deletions(-)
Title: Convert R Objects from One Structure to Another
Description: Offers a suite of functions for converting to and from
(atomic) vectors, matrices, data.frames, and (3D+) arrays as well
as lists of these objects. It is an alternative to the base R
as.<str>.<method>() functions (e.g., as.data.frame.array()) that
provides more useful and/or flexible restructuring of R objects.
To do so, it only works with common structuring of R objects (e.g.,
data.frames with only atomic vector columns).
Author: David Disabato [aut, cre]
Maintainer: David Disabato <ddisab01@gmail.com>
Diff between str2str versions 0.2.1 dated 2021-09-05 and 1.0.0 dated 2023-11-20
str2str-0.2.1/str2str/man/str2str.Rd |only str2str-1.0.0/str2str/DESCRIPTION | 8 str2str-1.0.0/str2str/MD5 | 27 +-- str2str-1.0.0/str2str/NAMESPACE | 3 str2str-1.0.0/str2str/R/str2str_functions.R | 238 ++++++++++++++++++++++++--- str2str-1.0.0/str2str/man/Join.Rd | 13 - str2str-1.0.0/str2str/man/all_diff.Rd | 1 str2str-1.0.0/str2str/man/all_same.Rd | 1 str2str-1.0.0/str2str/man/d2ld.Rd |only str2str-1.0.0/str2str/man/is.avector.Rd | 31 +++ str2str-1.0.0/str2str/man/is.dummy.Rd |only str2str-1.0.0/str2str/man/laynames.Rd |only str2str-1.0.0/str2str/man/rbind-set.Rd | 21 +- str2str-1.0.0/str2str/man/sn.Rd | 6 str2str-1.0.0/str2str/man/str2str-package.Rd |only str2str-1.0.0/str2str/man/t_list.Rd | 9 + str2str-1.0.0/str2str/man/v2lv.Rd | 2 17 files changed, 299 insertions(+), 61 deletions(-)
Title: Interface to the US EPA Air Quality System (AQS) API
Description: Offers functions for fetching JSON data from the US EPA Air Quality
System (AQS) API with options to comply with the API rate limits.
See <https://aqs.epa.gov/aqsweb/documents/data_api.html> for
details of the AQS API.
Author: Jaehyun Joo [aut, cre],
Blanca Himes [aut]
Maintainer: Jaehyun Joo <jaehyunjoo@outlook.com>
Diff between raqs versions 1.0.1 dated 2023-09-23 and 1.0.2 dated 2023-11-20
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- NEWS.md | 4 ++++ 3 files changed, 10 insertions(+), 6 deletions(-)
Title: Processing Hemispherical Canopy Images
Description: Import and classify canopy fish-eye images, estimate angular gap fraction and derive canopy attributes like leaf area index and openness. Additional information is provided in the study by Chianucci F., Macek M. (2023) <doi:10.1016/j.agrformet.2023.109470>.
Author: Francesco Chianucci [aut, cre]
,
Martin Macek [aut]
Maintainer: Francesco Chianucci <fchianucci@gmail.com>
Diff between hemispheR versions 1.0.1 dated 2023-11-02 and 1.1.0 dated 2023-11-20
DESCRIPTION | 6 +++--- MD5 | 7 ++++--- NEWS.md | 3 +++ R/gapfrac_fisheye.R | 22 ++++++++++++---------- man/figures/README-Gell-1.png |only 5 files changed, 22 insertions(+), 16 deletions(-)
Title: Regularized Linear Modeling with Tidy Data
Description: An extension to the 'R' tidy data environment for automated machine learning. The package allows fitting and cross validation of linear regression and classification algorithms on grouped data.
Author: Johann Pfitzinger [aut, cre]
Maintainer: Johann Pfitzinger <johann.pfitzinger@gmail.com>
Diff between tidyfit versions 0.6.4 dated 2023-05-20 and 0.6.5 dated 2023-11-20
DESCRIPTION | 14 +- MD5 | 104 +++++++-------- NAMESPACE | 1 NEWS.md | 13 + R/check_method.R | 21 ++- R/check_package_name.R |only R/classify.R | 7 - R/coef_methods.R | 22 --- R/eval_metrics.R | 2 R/fit.genetic.R | 11 - R/fit.gets.R | 10 + R/fit.glmm.R | 10 + R/fit.mrmr.R | 12 - R/fit.quantile.R | 81 ++++++++++- R/fit.quantile_rf.R |only R/fit.rf.R | 27 ++- R/fit.robust.R | 5 R/fit.subset.R | 5 R/fit.svm.R | 74 ++++++++++ R/fit.tvp.R | 4 R/fit_groups.R | 6 R/m.R | 3 R/model_definition.R | 23 ++- R/post_process.R | 6 R/predict_methods.R | 57 -------- R/regress.R | 7 - R/utils.R | 16 ++ README.md | 19 ++ build/partial.rdb |binary build/vignette.rds |binary inst/doc/Accessing_Fitted_Model_Objects.R | 6 inst/doc/Accessing_Fitted_Model_Objects.html | 20 +- inst/doc/Bootstrapping_Confidence_Intervals.R | 16 +- inst/doc/Bootstrapping_Confidence_Intervals.html | 12 + inst/doc/Feature_Selection.R | 10 - inst/doc/Feature_Selection.html | 18 +- inst/doc/Flowchart.R | 2 inst/doc/Multinomial_Classification.R | 8 - inst/doc/Multinomial_Classification.html | 7 - inst/doc/Predicting_Boston_House_Prices.R | 18 +- inst/doc/Predicting_Boston_House_Prices.html | 6 inst/doc/Rolling_Window_Time_Series_Regression.R | 24 +-- inst/doc/Rolling_Window_Time_Series_Regression.html | 17 +- inst/doc/Time-varying_parameters_vs_rolling_windows.R | 10 - inst/doc/Time-varying_parameters_vs_rolling_windows.html | 7 - man/classify.Rd | 4 man/dot-fit.mrmr.Rd | 12 - man/dot-fit.quantile.Rd | 5 man/dot-fit.quantile_rf.Rd |only man/dot-fit.robust.Rd | 5 man/dot-fit.tvp.Rd | 4 man/figures/README-unnamed-chunk-14-1.png |binary man/regress.Rd | 4 tests/testthat/test-glmm.R |only tests/testthat/test-quantile_rf.R |only tests/testthat/test-rf.R |only 56 files changed, 475 insertions(+), 300 deletions(-)
Title: Reshape Data Tree
Description: A series of utility functions to help with
reshaping hierarchy of data tree, and reform the structure of data tree.
Author: Jiena McLellan [aut, cre] ,
Michael Condouris [ctb] ,
Sai Im [ctb]
Maintainer: Jiena McLellan <jienagu90@gmail.com>
Diff between forestry versions 0.1.0 dated 2020-06-25 and 0.1.1 dated 2023-11-20
DESCRIPTION | 6 MD5 | 9 - NEWS.md |only R/node.R | 2 build/vignette.rds |binary inst/doc/intro-forestry.html | 363 +++++++++++++++++++++++++++---------------- 6 files changed, 237 insertions(+), 143 deletions(-)
Title: Bayesian Change-Point Detection for Process Monitoring with
Fault Detection
Description: Bayes Watch fits an array of Gaussian Graphical Mixture Models to groupings of homogeneous data in time, called regimes, which are modeled as the observed states of a Markov process with unknown transition probabilities. In doing so, Bayes Watch defines a posterior distribution on a vector of regime assignments, which gives meaningful expressions on the probability of every possible change-point. Bayes Watch also allows for an effective and efficient fault detection system that assesses what features in the data where the most responsible for a given change-point. For further details, see: Alexander C. Murph et al. (2023) <arXiv:2310.02940>.
Author: Alexander C. Murph [aut, cre] ,
Reza Mohammadi [ctb, cph] ,
Alex Lenkoski [ctb, cph]
Maintainer: Alexander C. Murph <murph290@gmail.com>
Diff between bayesWatch versions 0.1.1 dated 2023-11-05 and 0.1.2 dated 2023-11-20
DESCRIPTION | 6 +++--- MD5 | 2 +- 2 files changed, 4 insertions(+), 4 deletions(-)
Title: Clinical Graphs and Tables Adhering to Graphical Principles
Description: To enable fit-for-purpose, reusable clinical and medical
research focused visualizations and tables with sensible defaults and
based on graphical principles as described in: "Vandemeulebroecke et
al. (2018)" <doi:10.1002/pst.1912>, "Vandemeulebroecke et al. (2019)"
<doi:10.1002/psp4.12455>, and "Morris et al. (2019)"
<doi:10.1136/bmjopen-2019-030215>.
Author: Mark Baillie [aut, cre, cph],
Diego Saldana [aut],
Charlotta Fruechtenicht [aut],
Marc Vandemeulebroecke [aut],
Thanos Siadimas [aut],
Pawel Kawski [aut],
Steven Haesendonckx [aut],
James Black [aut],
Pelagia Alexandra Papadopoulou [aut],
Tim Treis [ [...truncated...]
Maintainer: Mark Baillie <bailliem@gmail.com>
Diff between visR versions 0.3.1 dated 2022-08-17 and 0.4.0 dated 2023-11-20
visR-0.3.1/visR/vignettes/interactive_tte_tutorial |only visR-0.4.0/visR/DESCRIPTION | 21 visR-0.4.0/visR/MD5 | 33 visR-0.4.0/visR/NEWS.md | 4 visR-0.4.0/visR/R/estimate_KM.R | 7 visR-0.4.0/visR/R/visr.R | 36 visR-0.4.0/visR/build/partial.rdb |binary visR-0.4.0/visR/build/vignette.rds |binary visR-0.4.0/visR/inst/doc/CDISC_ADaM.html | 1921 ++-- visR-0.4.0/visR/inst/doc/Consort_flow_diagram.html | 165 visR-0.4.0/visR/inst/doc/Styling_KM_plots.html | 263 visR-0.4.0/visR/inst/doc/Time_to_event_analysis.html | 7704 +++++++++---------- visR-0.4.0/visR/man/estimate_KM.Rd | 2 visR-0.4.0/visR/man/stat_stepribbon.Rd | 14 visR-0.4.0/visR/man/visr.Rd | 23 15 files changed, 5060 insertions(+), 5133 deletions(-)
Title: Periodically Correlated and Periodically Integrated Time Series
Description: Classes and methods for modelling and simulation of
periodically correlated (PC) and periodically integrated time
series. Compute theoretical periodic autocovariances and related
properties of PC autoregressive moving average models. Some original
methods including Boshnakov & Iqelan (2009)
<doi:10.1111/j.1467-9892.2009.00617.x>, Boshnakov (1996)
<doi:10.1111/j.1467-9892.1996.tb00281.x>.
Author: Georgi N. Boshnakov [aut, cre]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between pcts versions 0.15.5 dated 2022-10-24 and 0.15.6 dated 2023-11-20
pcts-0.15.5/pcts/data/ex1f.R |only pcts-0.15.6/pcts/DESCRIPTION | 8 pcts-0.15.6/pcts/MD5 | 24 +- pcts-0.15.6/pcts/NAMESPACE | 1 pcts-0.15.6/pcts/NEWS.md | 5 pcts-0.15.6/pcts/R/classCycle.R | 6 pcts-0.15.6/pcts/build/partial.rdb |binary pcts-0.15.6/pcts/build/vignette.rds |binary pcts-0.15.6/pcts/data/ex1f.rda |only pcts-0.15.6/pcts/inst/doc/pcts_data.html | 287 ++++++++++++++++-------------- pcts-0.15.6/pcts/man/Pctime.Rd | 2 pcts-0.15.6/pcts/man/fit_trigPAR_optim.Rd | 2 pcts-0.15.6/pcts/man/pcTest-methods.Rd | 7 pcts-0.15.6/pcts/man/pcarma_solve.Rd | 8 14 files changed, 188 insertions(+), 162 deletions(-)
Title: Multivariate Stochastic Linear Ornstein-Uhlenbeck Models for
Phylogenetic Comparative Hypotheses
Description: Fits multivariate Ornstein-Uhlenbeck types of models to continues trait data from species related by a common evolutionary history. See K. Bartoszek, J, Pienaar, P. Mostad, S. Andersson, T. F. Hansen (2012) <doi:10.1016/j.jtbi.2012.08.005>. The suggested PCMBaseCpp package (which significantly speeds up the likelihood calculations) can be obtained from <https://github.com/venelin/PCMBaseCpp/>.
Author: Krzysztof Bartoszek [cre, aut],
John Clarke [ctb],
Jesualdo Fuentes-Gonzalez [ctb],
Jason Pienaar [ctb]
Maintainer: Krzysztof Bartoszek <krzbar@protonmail.ch>
Diff between mvSLOUCH versions 2.7.5 dated 2022-08-17 and 2.7.6 dated 2023-11-20
DESCRIPTION | 8 ++-- MD5 | 46 ++++++++++++------------ R/simulclustphyl.R | 6 ++- R/wrappers.R | 9 +++- build/vignette.rds |binary inst/CITATION | 49 ++++++++++++-------------- inst/doc/mvSLOUCH_Carnivorans.html | 27 +++++++++++--- man/BrownianMotionModel.Rd | 10 ++--- man/OU_RSS.Rd | 10 ++--- man/OU_phylreg.Rd | 12 +++--- man/OU_xVz.Rd | 10 ++--- man/SummarizeBM.Rd | 10 ++--- man/SummarizeMVSLOUCH.Rd | 10 ++--- man/SummarizeOUCH.Rd | 10 ++--- man/estimate.evolutionary.model.Rd | 21 ++++++----- man/generate.model.setups.Rd | 2 - man/mvSLOUCH-package.Rd | 67 +++++++++++++++++++++++++++++++----- man/mvslouchModel.Rd | 10 ++--- man/ouchModel.Rd | 10 ++--- man/parametric.bootstrap.Rd | 10 ++--- man/simulBMProcPhylTree.Rd | 15 ++++---- man/simulMVSLOUCHProcPhylTree.Rd | 15 ++++---- man/simulOUCHProcPhylTree.Rd | 15 ++++---- man/simulate_clustered_phylogeny.Rd | 2 - 24 files changed, 230 insertions(+), 154 deletions(-)
Title: Methods for Analysing 'EQ-5D' Data and Calculating 'EQ-5D' Index
Scores
Description: EQ-5D is a popular health related quality of life instrument used
in the clinical and economic evaluation of health care. Developed by the
EuroQol group <https://euroqol.org/>, the instrument consists of two
components: health state description and evaluation. For the description
component a subject self-rates their health in terms of five dimensions;
mobility, self-care, usual activities, pain/discomfort, and
anxiety/depression using either a three-level (EQ-5D-3L,
<https://euroqol.org/eq-5d-instruments/eq-5d-3l-about/>) or a five-level
(EQ-5D-5L, <https://euroqol.org/eq-5d-instruments/eq-5d-5l-about/>)
scale. Frequently the scores on these five dimensions are converted to a
single utility index using country specific value sets, which can be used
in the clinical and economic evaluation of health care as well as in
population health surveys. The eq5d package provides methods to calculate
index scores from a subject's dimension scores. 30 TTO and 11 VAS EQ-5D-3L
value [...truncated...]
Author: Fraser Morton [aut, cre],
Jagtar Singh Nijjar [aut]
Maintainer: Fraser Morton <fraser.morton@glasgow.ac.uk>
Diff between eq5d versions 0.15.0 dated 2023-07-17 and 0.15.1 dated 2023-11-20
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NEWS.md | 4 ++++ R/data.R | 1 + R/sysdata.rda |binary inst/doc/eq5d.R | 2 +- inst/doc/eq5d.html | 4 ++-- man/TTO.Rd | 3 ++- man/eq5d-package.Rd | 2 +- tests/testthat/test-eq5d3l.R | 8 ++++++++ 10 files changed, 32 insertions(+), 18 deletions(-)
Title: Tools for Phonetic and Acoustic Analyses
Description: Contains tools for the organization, display, and analysis of the sorts of data frequently encountered in phonetics research and experimentation, including the easy creation of IPA vowel plots, and the creation and manipulation of WAVE audio files.
Author: Santiago Barreda
Maintainer: Santiago Barreda <sbarreda@ucdavis.edu>
Diff between phonTools versions 0.2-2.1 dated 2015-07-30 and 0.2-2.2 dated 2023-11-20
DESCRIPTION | 9 +- MD5 | 144 +++++++++++++++++++++++------------------------ R/FIRfilter.R | 4 - R/Ffilter.R | 4 - R/PSTM.R | 2 R/fastacf.R | 2 R/findformants.R | 4 - R/formanttrack.R | 4 - R/ldaclassify.R | 2 R/lpc.R | 4 - R/pitchtrack.R | 4 - R/playsound.R | 2 R/plot.sound.R | 6 - R/powertrack.R | 4 - R/preemphasis.R | 4 - R/pwelch.R | 4 - R/resample.R | 4 - R/selectslice.R | 2 R/snip.R | 6 - R/spectralslice.R | 4 - R/spectrogram.R | 4 - R/synthfilter.R | 4 - R/territorialmap.R | 2 R/writesound.R | 4 - inst/CITATION | 24 ++----- man/PSTM.Rd | 18 ++--- man/a96.Rd | 4 - man/b95.Rd | 4 - man/createtemplate.Rd | 12 +-- man/errorbars.Rd | 6 - man/f73.Rd | 4 - man/f99.Rd | 4 - man/findformants.Rd | 6 - man/formanttrack.Rd | 7 -- man/freqresponse.Rd | 16 ++--- man/h95.Rd | 6 - man/hotelling.test.Rd | 22 +++---- man/imputeformants.Rd | 16 ++--- man/interpolate.Rd | 8 +- man/ldboundary.Rd | 12 +-- man/ldclassify.Rd | 14 ++-- man/lpc.Rd | 6 - man/makeFIR.Rd | 10 +-- man/normalize.Rd | 36 +++++------ man/normalize.compare.Rd | 20 +++--- man/p73.Rd | 4 - man/pb52.Rd | 4 - man/peakfind.Rd | 8 +- man/phasor.Rd | 12 +-- man/pitchtrack.Rd | 4 - man/polezero.Rd | 12 +-- man/powertrack.Rd | 8 +- man/preemphasis.Rd | 6 - man/pwelch.Rd | 10 +-- man/rcr.Rd | 16 ++--- man/resample.Rd | 2 man/rmvtnorm.Rd | 26 ++++---- man/rotate.Rd | 8 +- man/sdellipse.Rd | 36 +++++------ man/sinc.Rd | 12 +-- man/sinusoid.Rd | 8 +- man/snip.Rd | 2 man/spectralslice.Rd | 10 +-- man/spectrogram.Rd | 4 - man/synthfilter.Rd | 4 - man/t07.Rd | 6 - man/voweldata.Rd | 2 man/vowelplot.Rd | 18 ++--- man/vowelsynth.Rd | 2 man/vplot.Rd | 32 +++++----- man/windowfunc.Rd | 10 +-- man/writesound.Rd | 10 +-- man/y96.Rd | 4 - 73 files changed, 380 insertions(+), 388 deletions(-)
Title: Hyperparameter Optimization for 'mlr3'
Description: Hyperparameter optimization package of the 'mlr3' ecosystem. It
features highly configurable search spaces via the 'paradox' package and
finds optimal hyperparameter configurations for any 'mlr3' learner.
'mlr3tuning' works with several optimization algorithms e.g. Random
Search, Iterated Racing, Bayesian Optimization (in 'mlr3mbo') and
Hyperband (in 'mlr3hyperband'). Moreover, it can automatically optimize
learners and estimate the performance of optimized models with nested
resampling.
Author: Marc Becker [cre, aut] ,
Michel Lang [aut] ,
Jakob Richter [aut] ,
Bernd Bischl [aut] ,
Daniel Schalk [aut]
Maintainer: Marc Becker <marcbecker@posteo.de>
Diff between mlr3tuning versions 0.19.0 dated 2023-06-26 and 0.19.1 dated 2023-11-20
DESCRIPTION | 12 +- MD5 | 30 +++---- NEWS.md | 6 + R/ObjectiveTuning.R | 46 +++++++--- R/TuningInstanceSingleCrit.R | 2 R/tune_nested.R | 1 R/zzz.R | 3 README.md | 34 ++++---- build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 3 inst/doc/extending.html | 134 +++++++++++++++++++++++--------- man/ObjectiveTuning.Rd | 3 tests/testthat/test_ObjectiveTuning.R | 4 tests/testthat/test_TunerDesignPoints.R | 1 tests/testthat/test_mlr_callbacks.R | 1 16 files changed, 188 insertions(+), 92 deletions(-)
Title: Access to the Global Inventory of Floras and Traits (GIFT)
Description: Retrieving regional plant checklists, species traits and
distributions, and environmental data from the Global Inventory of Floras and
Traits (GIFT). More information about the GIFT database can be found at
<https://gift.uni-goettingen.de/about> and the map of available floras can be
visualized at <https://gift.uni-goettingen.de/map>. The API and associated
queries can be accessed according the following scheme:
<https://gift.uni-goettingen.de/api/extended/index2.0.php?query=env_raster>.
Author: Pierre Denelle [aut, cre] ,
Patrick Weigelt [aut]
Maintainer: Pierre Denelle <pierre.denelle@gmail.com>
Diff between GIFT versions 1.2.0 dated 2023-08-17 and 1.3.0 dated 2023-11-20
DESCRIPTION | 6 MD5 | 122 +++++------ NEWS.md | 8 R/GIFT_checklists.R | 388 +++++++++++++++++++------------------- R/GIFT_checklists_conditional.R | 342 +++++++++++++++++---------------- R/GIFT_checklists_raw.R | 352 +++++++++++++++++----------------- R/GIFT_coverage.R | 100 +++++---- R/GIFT_env.R | 231 +++++++++++----------- R/GIFT_env_meta_misc.R | 46 ++-- R/GIFT_env_meta_raster.R | 44 ++-- R/GIFT_lists.R | 30 +- R/GIFT_no_overlap.R | 168 ++++++++-------- R/GIFT_overlap.R | 42 ++-- R/GIFT_phylogeny.R | 184 +++++++++--------- R/GIFT_references.R | 34 +-- R/GIFT_regions.R | 26 +- R/GIFT_richness.R | 53 ++--- R/GIFT_shapes.R | 140 +++++++------ R/GIFT_spatial.R | 338 ++++++++++++++++----------------- R/GIFT_species.R | 36 +-- R/GIFT_species_distribution.R | 345 +++++++++++++++++---------------- R/GIFT_species_lookup.R | 153 +++++++------- R/GIFT_taxgroup.R | 166 ++++++++-------- R/GIFT_taxonomy.R | 28 +- R/GIFT_traits.R | 302 +++++++++++++++-------------- R/GIFT_traits_meta.R | 28 +- R/GIFT_traits_raw.R | 219 +++++++++++---------- R/GIFT_traits_tax.R | 300 +++++++++++++++-------------- R/GIFT_versions.R | 16 + R/check_functions.R | 18 + README.md | 8 inst/doc/GIFT.R | 90 ++++---- inst/doc/GIFT.Rmd | 13 - inst/doc/GIFT.html | 17 - inst/doc/GIFT_API.R | 8 inst/doc/GIFT_API.Rmd | 11 - inst/doc/GIFT_API.html | 17 - inst/doc/GIFT_advanced_users.R | 50 ++-- inst/doc/GIFT_advanced_users.Rmd | 11 - inst/doc/GIFT_advanced_users.html | 75 ++++--- man/GIFT_coverage.Rd | 176 ++++++++--------- man/GIFT_env.Rd | 168 ++++++++-------- man/GIFT_env_meta_misc.Rd | 104 +++++----- man/GIFT_env_meta_raster.Rd | 110 +++++----- man/GIFT_lists.Rd | 114 +++++------ man/GIFT_no_overlap.Rd | 140 ++++++------- man/GIFT_overlap.Rd | 118 +++++------ man/GIFT_phylogeny.Rd | 139 ++++++------- man/GIFT_references.Rd | 124 ++++++------ man/GIFT_regions.Rd | 106 +++++----- man/GIFT_richness.Rd | 118 +++++------ man/GIFT_spatial.Rd | 174 ++++++++--------- man/GIFT_species.Rd | 102 ++++----- man/GIFT_species_distribution.Rd | 258 ++++++++++++------------- man/GIFT_species_lookup.Rd | 180 ++++++++--------- man/GIFT_taxgroup.Rd | 134 ++++++------- man/GIFT_taxonomy.Rd | 110 +++++----- man/GIFT_traits_meta.Rd | 106 +++++----- man/GIFT_traits_tax.Rd | 4 vignettes/GIFT.Rmd | 13 - vignettes/GIFT_API.Rmd | 11 - vignettes/GIFT_advanced_users.Rmd | 11 - 62 files changed, 3666 insertions(+), 3419 deletions(-)
Title: Power Analysis for IRT Models Using the Wald, LR, Score, and
Gradient Statistics
Description: Implementation of analytical and sampling-based power analyses for
the Wald, likelihood ratio (LR), score, and gradient tests. Can be applied
to item response theory (IRT) models that are fitted using marginal maximum
likelihood estimation. The methods are described in our paper
(Zimmer et al. (2022) <doi:10.1007/s11336-022-09883-5>).
Author: Felix Zimmer [aut, cre] ,
Rudolf Debelak [aut] ,
Jan Radek [ctb]
Maintainer: Felix Zimmer <felix.zimmer@mail.de>
Diff between irtpwr versions 1.0.2 dated 2023-09-29 and 1.0.3 dated 2023-11-20
DESCRIPTION | 6 +++--- MD5 | 11 ++++++----- NEWS.md | 4 ++++ R/calc.pvalues.R |only R/helper.R | 3 ++- inst/doc/adding_hypotheses.html | 8 ++++---- inst/doc/demo.html | 2 +- 7 files changed, 20 insertions(+), 14 deletions(-)
Title: Generate Code Lists for the OMOP Common Data Model
Description: Generate a candidate code list for the Observational Medical Outcomes Partnership (OMOP) common data model based on string matching. For a given search strategy, a candidate code list will be returned.
Author: Edward Burn [aut, cre] ,
Marti Catala [ctb]
Maintainer: Edward Burn <edward.burn@ndorms.ox.ac.uk>
Diff between CodelistGenerator versions 2.1.0 dated 2023-11-17 and 2.1.1 dated 2023-11-20
DESCRIPTION | 6 ++--- MD5 | 10 ++++---- R/summariseCodeUse.R | 3 ++ inst/doc/a01_Introduction_to_CodelistGenerator.html | 20 ++++++++-------- inst/doc/a02_Candidate_codes_OA.html | 24 ++++++++++---------- inst/doc/a03_Options_for_CodelistGenerator.html | 4 +-- 6 files changed, 35 insertions(+), 32 deletions(-)
More information about CodelistGenerator at CRAN
Permanent link
Title: Open Source OCR Engine
Description: Bindings to 'Tesseract':
a powerful optical character recognition (OCR) engine that supports over 100 languages.
The engine is highly configurable in order to tune the detection algorithms and
obtain the best possible results.
Author: Jeroen Ooms [aut, cre]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between tesseract versions 5.2.0 dated 2023-09-26 and 5.2.1 dated 2023-11-20
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NEWS | 3 +++ build/vignette.rds |binary configure | 2 +- inst/doc/intro.R | 6 +++--- inst/doc/intro.Rmd | 2 +- inst/doc/intro.html | 17 ++++++++--------- vignettes/intro.Rmd | 2 +- 9 files changed, 28 insertions(+), 26 deletions(-)
Title: Population Fisher Information Matrix
Description: Evaluate or optimize designs for nonlinear mixed effects models using the Fisher Information matrix. Methods used in the package refer to
Mentré F, Mallet A, Baccar D (1997) <doi:10.1093/biomet/84.2.429>,
Retout S, Comets E, Samson A, Mentré F (2007) <doi:10.1002/sim.2910>,
Bazzoli C, Retout S, Mentré F (2009) <doi:10.1002/sim.3573>,
Le Nagard H, Chao L, Tenaillon O (2011) <doi:10.1186/1471-2148-11-326>,
Combes FP, Retout S, Frey N, Mentré F (2013) <doi:10.1007/s11095-013-1079-3> and
Seurat J, Tang Y, Mentré F, Nguyen TT (2021) <doi:10.1016/j.cmpb.2021.106126>.
Author: France Mentre [aut],
Romain Leroux [aut, cre],
Jeremy Seurat [aut],
Lucie Fayette [aut],
Emmanuelle Comets [ctb],
Sylvie Retout [ctb]
Maintainer: Romain Leroux <romain.leroux@inserm.fr>
Diff between PFIM versions 6.0 dated 2023-11-07 and 6.0.1 dated 2023-11-20
PFIM-6.0.1/PFIM/DESCRIPTION | 12 PFIM-6.0.1/PFIM/MD5 | 504 +-- PFIM-6.0.1/PFIM/NAMESPACE | 295 +- PFIM-6.0.1/PFIM/R/Administration.R | 150 - PFIM-6.0.1/PFIM/R/AdministrationConstraints.R | 55 PFIM-6.0.1/PFIM/R/Arm.R | 224 - PFIM-6.0.1/PFIM/R/BayesianFim.R | 601 ++-- PFIM-6.0.1/PFIM/R/Combined1.R | 65 PFIM-6.0.1/PFIM/R/Constant.R | 91 PFIM-6.0.1/PFIM/R/Design.R | 230 + PFIM-6.0.1/PFIM/R/Distribution.R | 48 PFIM-6.0.1/PFIM/R/Evaluation.R | 163 - PFIM-6.0.1/PFIM/R/FedorovWynnAlgorithm.R | 147 - PFIM-6.0.1/PFIM/R/Fim.R | 513 +-- PFIM-6.0.1/PFIM/R/GenericMethods.R | 105 PFIM-6.0.1/PFIM/R/IndividualFim.R | 784 ++--- PFIM-6.0.1/PFIM/R/LibraryOfModels.R | 70 PFIM-6.0.1/PFIM/R/LibraryOfPDModels.R | 8 PFIM-6.0.1/PFIM/R/LibraryOfPKModels.R | 8 PFIM-6.0.1/PFIM/R/LibraryOfPKPDModels.R | 18 PFIM-6.0.1/PFIM/R/LogNormal.R | 35 PFIM-6.0.1/PFIM/R/Model.R | 332 +- PFIM-6.0.1/PFIM/R/ModelAnalytic.R | 80 PFIM-6.0.1/PFIM/R/ModelAnalyticBolus.R | 63 PFIM-6.0.1/PFIM/R/ModelAnalyticBolusSteadyState.R | 71 PFIM-6.0.1/PFIM/R/ModelAnalyticInfusion.R | 78 PFIM-6.0.1/PFIM/R/ModelAnalyticInfusionSteadyState.R | 116 PFIM-6.0.1/PFIM/R/ModelAnalyticSteadyState.R | 80 PFIM-6.0.1/PFIM/R/ModelBolus.R | 81 PFIM-6.0.1/PFIM/R/ModelError.R | 136 PFIM-6.0.1/PFIM/R/ModelInfusion.R | 106 PFIM-6.0.1/PFIM/R/ModelODEBolus.R | 6 PFIM-6.0.1/PFIM/R/ModelODEDoseInEquations.R | 9 PFIM-6.0.1/PFIM/R/ModelODEDoseNotInEquations.R | 9 PFIM-6.0.1/PFIM/R/ModelODEInfusionDoseInEquations.R | 12 PFIM-6.0.1/PFIM/R/ModelParameter.R | 98 PFIM-6.0.1/PFIM/R/MultiplicativeAlgorithm.R | 232 - PFIM-6.0.1/PFIM/R/Normal.R | 38 PFIM-6.0.1/PFIM/R/Optimization.R | 305 +- PFIM-6.0.1/PFIM/R/OptimizationAlgorithm.R | 77 PFIM-6.0.1/PFIM/R/PFIM-package.R | 24 PFIM-6.0.1/PFIM/R/PFIMProject.R | 99 PFIM-6.0.1/PFIM/R/PGBOAlgorithm.R | 222 - PFIM-6.0.1/PFIM/R/PSOAlgorithm.R | 212 - PFIM-6.0.1/PFIM/R/PlotEvaluation.R | 24 PFIM-6.0.1/PFIM/R/PopulationFim.R | 50 PFIM-6.0.1/PFIM/R/Proportional.R | 63 PFIM-6.0.1/PFIM/R/SamplingTimeConstraints.R | 129 PFIM-6.0.1/PFIM/R/SamplingTimes.R | 46 PFIM-6.0.1/PFIM/R/SimplexAlgorithm.R | 179 - PFIM-6.0.1/PFIM/inst/doc/Example01.R | 3 PFIM-6.0.1/PFIM/inst/doc/Example01.Rmd | 3 PFIM-6.0.1/PFIM/inst/doc/Example02.R | 3 PFIM-6.0.1/PFIM/inst/doc/Example02.Rmd | 3 PFIM-6.0.1/PFIM/man/EvaluateArm.Rd | 5 PFIM-6.0.1/PFIM/man/EvaluateDesign.Rd | 5 PFIM-6.0.1/PFIM/man/EvaluateErrorModelDerivatives.Rd | 3 PFIM-6.0.1/PFIM/man/EvaluateFisherMatrix.Rd | 12 PFIM-6.0.1/PFIM/man/EvaluateModel.Rd | 30 PFIM-6.0.1/PFIM/man/EvaluateVarianceFIM.Rd | 8 PFIM-6.0.1/PFIM/man/EvaluateVarianceModel.Rd | 3 PFIM-6.0.1/PFIM/man/LibraryOfPDModels.Rd |only PFIM-6.0.1/PFIM/man/LibraryOfPKModels.Rd |only PFIM-6.0.1/PFIM/man/PFIM-package.Rd | 1376 +++++----- PFIM-6.0.1/PFIM/man/Report.Rd | 8 PFIM-6.0.1/PFIM/man/addModel.Rd | 3 PFIM-6.0.1/PFIM/man/addModels.Rd | 3 PFIM-6.0.1/PFIM/man/checkSamplingTimeConstraintsForContinuousOptimization.Rd | 8 PFIM-6.0.1/PFIM/man/checkValiditySamplingConstraint.Rd | 5 PFIM-6.0.1/PFIM/man/convertPKModelAnalyticToPKModelODE.Rd | 12 PFIM-6.0.1/PFIM/man/defineModel.Rd | 3 PFIM-6.0.1/PFIM/man/defineModelFromLibraryOfModels.Rd | 3 PFIM-6.0.1/PFIM/man/defineModelType.Rd | 3 PFIM-6.0.1/PFIM/man/defineModelUserDefined.Rd | 3 PFIM-6.0.1/PFIM/man/definePKModel.Rd | 23 PFIM-6.0.1/PFIM/man/definePKPDModel.Rd | 38 PFIM-6.0.1/PFIM/man/fun.amoeba.Rd | 1 PFIM-6.0.1/PFIM/man/generateFimsFromConstraints.Rd | 3 PFIM-6.0.1/PFIM/man/generateReportEvaluation.Rd | 30 PFIM-6.0.1/PFIM/man/generateReportOptimization.Rd | 49 PFIM-6.0.1/PFIM/man/generateSamplingsFromSamplingConstraints.Rd | 3 PFIM-6.0.1/PFIM/man/generateTables.Rd | 8 PFIM-6.0.1/PFIM/man/getAdjustedGradient.Rd | 10 PFIM-6.0.1/PFIM/man/getAdministration.Rd | 5 PFIM-6.0.1/PFIM/man/getAdministrationConstraint.Rd | 5 PFIM-6.0.1/PFIM/man/getAdministrations.Rd | 5 PFIM-6.0.1/PFIM/man/getAdministrationsConstraints.Rd | 5 PFIM-6.0.1/PFIM/man/getArms.Rd | 9 PFIM-6.0.1/PFIM/man/getColumnAndParametersNamesFIM.Rd | 12 PFIM-6.0.1/PFIM/man/getColumnAndParametersNamesFIMInLatex.Rd | 16 PFIM-6.0.1/PFIM/man/getConditionNumberFixedEffects.Rd | 3 PFIM-6.0.1/PFIM/man/getConditionNumberVarianceEffects.Rd | 8 PFIM-6.0.1/PFIM/man/getContent.Rd | 3 PFIM-6.0.1/PFIM/man/getCorrelationMatrix.Rd | 3 PFIM-6.0.1/PFIM/man/getDataFrameResults.Rd | 3 PFIM-6.0.1/PFIM/man/getDcriterion.Rd | 3 PFIM-6.0.1/PFIM/man/getDelta.Rd | 3 PFIM-6.0.1/PFIM/man/getDerivatives.Rd | 3 PFIM-6.0.1/PFIM/man/getDescription.Rd | 3 PFIM-6.0.1/PFIM/man/getDesigns.Rd | 3 PFIM-6.0.1/PFIM/man/getDeterminant.Rd | 3 PFIM-6.0.1/PFIM/man/getDistribution.Rd | 3 PFIM-6.0.1/PFIM/man/getDose.Rd | 10 PFIM-6.0.1/PFIM/man/getEigenValues.Rd | 3 PFIM-6.0.1/PFIM/man/getElementaryProtocols.Rd | 3 PFIM-6.0.1/PFIM/man/getEquation.Rd | 3 PFIM-6.0.1/PFIM/man/getEquations.Rd | 3 PFIM-6.0.1/PFIM/man/getEquationsAfterInfusion.Rd | 3 PFIM-6.0.1/PFIM/man/getEquationsDuringInfusion.Rd | 3 PFIM-6.0.1/PFIM/man/getEvaluationFIMResults.Rd | 3 PFIM-6.0.1/PFIM/man/getEvaluationInitialDesignResults.Rd | 3 PFIM-6.0.1/PFIM/man/getFim.Rd | 18 PFIM-6.0.1/PFIM/man/getFisherMatrix.Rd | 3 PFIM-6.0.1/PFIM/man/getFixedEffects.Rd | 3 PFIM-6.0.1/PFIM/man/getFixedMu.Rd | 3 PFIM-6.0.1/PFIM/man/getFixedOmega.Rd | 3 PFIM-6.0.1/PFIM/man/getFixedParameters.Rd | 3 PFIM-6.0.1/PFIM/man/getFixedTimes.Rd | 3 PFIM-6.0.1/PFIM/man/getInitialConditions.Rd | 10 PFIM-6.0.1/PFIM/man/getIterationAndCriteria.Rd | 3 PFIM-6.0.1/PFIM/man/getLambda.Rd | 3 PFIM-6.0.1/PFIM/man/getLibraryPDModels.Rd | 3 PFIM-6.0.1/PFIM/man/getLibraryPKModels.Rd | 3 PFIM-6.0.1/PFIM/man/getMinSampling.Rd | 3 PFIM-6.0.1/PFIM/man/getModel.Rd | 3 PFIM-6.0.1/PFIM/man/getModelEquations.Rd | 3 PFIM-6.0.1/PFIM/man/getModelError.Rd | 8 PFIM-6.0.1/PFIM/man/getModelErrorParametersValues.Rd | 3 PFIM-6.0.1/PFIM/man/getModelFromLibrary.Rd | 3 PFIM-6.0.1/PFIM/man/getModelParameters.Rd | 3 PFIM-6.0.1/PFIM/man/getModelParametersValues.Rd | 3 PFIM-6.0.1/PFIM/man/getMu.Rd | 11 PFIM-6.0.1/PFIM/man/getName.Rd | 23 PFIM-6.0.1/PFIM/man/getNames.Rd | 5 PFIM-6.0.1/PFIM/man/getNumberOfArms.Rd | 5 PFIM-6.0.1/PFIM/man/getNumberOfIterations.Rd | 3 PFIM-6.0.1/PFIM/man/getNumberOfParameters.Rd | 3 PFIM-6.0.1/PFIM/man/getNumberOfTimesByWindows.Rd | 3 PFIM-6.0.1/PFIM/man/getNumberOfsamplingsOptimisable.Rd | 3 PFIM-6.0.1/PFIM/man/getOdeSolverParameters.Rd | 10 PFIM-6.0.1/PFIM/man/getOmega.Rd | 9 PFIM-6.0.1/PFIM/man/getOptimalDesign.Rd | 3 PFIM-6.0.1/PFIM/man/getOptimalWeights.Rd | 3 PFIM-6.0.1/PFIM/man/getOptimizationResults.Rd | 3 PFIM-6.0.1/PFIM/man/getOptimizer.Rd | 3 PFIM-6.0.1/PFIM/man/getOptimizerParameters.Rd | 3 PFIM-6.0.1/PFIM/man/getOutcome.Rd | 21 PFIM-6.0.1/PFIM/man/getOutcomes.Rd | 8 PFIM-6.0.1/PFIM/man/getOutcomesEvaluation.Rd | 5 PFIM-6.0.1/PFIM/man/getOutcomesForEvaluation.Rd | 3 PFIM-6.0.1/PFIM/man/getOutcomesGradient.Rd | 2 PFIM-6.0.1/PFIM/man/getPDModel.Rd | 3 PFIM-6.0.1/PFIM/man/getPKModel.Rd | 3 PFIM-6.0.1/PFIM/man/getPKPDModel.Rd | 3 PFIM-6.0.1/PFIM/man/getParameters.Rd | 12 PFIM-6.0.1/PFIM/man/getProportionsOfSubjects.Rd | 3 PFIM-6.0.1/PFIM/man/getRSE.Rd | 12 PFIM-6.0.1/PFIM/man/getSE.Rd | 3 PFIM-6.0.1/PFIM/man/getSamplingTime.Rd | 5 PFIM-6.0.1/PFIM/man/getSamplingTimeConstraint.Rd | 5 PFIM-6.0.1/PFIM/man/getSamplingTimes.Rd | 5 PFIM-6.0.1/PFIM/man/getSamplingTimesConstraints.Rd | 5 PFIM-6.0.1/PFIM/man/getSamplings.Rd | 9 PFIM-6.0.1/PFIM/man/getSamplingsWindows.Rd | 3 PFIM-6.0.1/PFIM/man/getShrinkage.Rd | 12 PFIM-6.0.1/PFIM/man/getSigmaInter.Rd | 3 PFIM-6.0.1/PFIM/man/getSigmaSlope.Rd | 3 PFIM-6.0.1/PFIM/man/getSize.Rd | 10 PFIM-6.0.1/PFIM/man/getTau.Rd | 5 PFIM-6.0.1/PFIM/man/getTimeDose.Rd | 5 PFIM-6.0.1/PFIM/man/getTinf.Rd | 3 PFIM-6.0.1/PFIM/man/getVarianceEffects.Rd | 3 PFIM-6.0.1/PFIM/man/getcError.Rd | 3 PFIM-6.0.1/PFIM/man/isDoseInEquations.Rd | 3 PFIM-6.0.1/PFIM/man/isModelAnalytic.Rd | 3 PFIM-6.0.1/PFIM/man/isModelBolus.Rd | 3 PFIM-6.0.1/PFIM/man/isModelInfusion.Rd | 3 PFIM-6.0.1/PFIM/man/isModelODE.Rd | 3 PFIM-6.0.1/PFIM/man/isModelSteadyState.Rd | 3 PFIM-6.0.1/PFIM/man/optimize.Rd | 19 PFIM-6.0.1/PFIM/man/parametersForComputingGradient.Rd | 3 PFIM-6.0.1/PFIM/man/plot.Rd | 3 PFIM-6.0.1/PFIM/man/plotOutcomesEvaluation.Rd | 5 PFIM-6.0.1/PFIM/man/plotOutcomesGradient.Rd | 5 PFIM-6.0.1/PFIM/man/plotRSE.Rd | 3 PFIM-6.0.1/PFIM/man/plotSE.Rd | 3 PFIM-6.0.1/PFIM/man/plotShrinkage.Rd | 3 PFIM-6.0.1/PFIM/man/plotWeights.Rd | 9 PFIM-6.0.1/PFIM/man/reportTablesAdministration.Rd | 5 PFIM-6.0.1/PFIM/man/reportTablesDesign.Rd | 5 PFIM-6.0.1/PFIM/man/reportTablesFIM.Rd | 12 PFIM-6.0.1/PFIM/man/reportTablesModelError.Rd | 3 PFIM-6.0.1/PFIM/man/reportTablesModelParameters.Rd | 3 PFIM-6.0.1/PFIM/man/reportTablesPlot.Rd | 5 PFIM-6.0.1/PFIM/man/reportTablesSamplingConstraints.Rd | 5 PFIM-6.0.1/PFIM/man/resizeFisherMatrix.Rd | 3 PFIM-6.0.1/PFIM/man/run.Rd | 8 PFIM-6.0.1/PFIM/man/setAdministrations.Rd | 5 PFIM-6.0.1/PFIM/man/setArm.Rd | 5 PFIM-6.0.1/PFIM/man/setArms.Rd | 9 PFIM-6.0.1/PFIM/man/setContent.Rd | 3 PFIM-6.0.1/PFIM/man/setDerivatives.Rd | 3 PFIM-6.0.1/PFIM/man/setDescription.Rd | 3 PFIM-6.0.1/PFIM/man/setDesigns.Rd | 3 PFIM-6.0.1/PFIM/man/setDistribution.Rd | 3 PFIM-6.0.1/PFIM/man/setDose.Rd | 3 PFIM-6.0.1/PFIM/man/setEquation.Rd | 3 PFIM-6.0.1/PFIM/man/setEquations.Rd | 3 PFIM-6.0.1/PFIM/man/setEquationsAfterInfusion.Rd | 3 PFIM-6.0.1/PFIM/man/setEquationsDuringInfusion.Rd | 3 PFIM-6.0.1/PFIM/man/setEvaluationFIMResults.Rd | 3 PFIM-6.0.1/PFIM/man/setEvaluationInitialDesignResults.Rd | 3 PFIM-6.0.1/PFIM/man/setFim.Rd | 5 PFIM-6.0.1/PFIM/man/setFimTypeToString.Rd | 3 PFIM-6.0.1/PFIM/man/setFisherMatrix.Rd | 3 PFIM-6.0.1/PFIM/man/setFixedEffects.Rd | 3 PFIM-6.0.1/PFIM/man/setFixedMu.Rd | 3 PFIM-6.0.1/PFIM/man/setFixedOmega.Rd | 3 PFIM-6.0.1/PFIM/man/setInitialConditions.Rd | 14 PFIM-6.0.1/PFIM/man/setIterationAndCriteria.Rd | 3 PFIM-6.0.1/PFIM/man/setModel.Rd | 3 PFIM-6.0.1/PFIM/man/setModelError.Rd | 3 PFIM-6.0.1/PFIM/man/setModelFromLibrary.Rd | 3 PFIM-6.0.1/PFIM/man/setMu.Rd | 9 PFIM-6.0.1/PFIM/man/setName.Rd | 12 PFIM-6.0.1/PFIM/man/setNumberOfArms.Rd | 5 PFIM-6.0.1/PFIM/man/setOdeSolverParameters.Rd | 3 PFIM-6.0.1/PFIM/man/setOmega.Rd | 9 PFIM-6.0.1/PFIM/man/setOptimalDesign.Rd | 3 PFIM-6.0.1/PFIM/man/setOptimalWeights.Rd | 3 PFIM-6.0.1/PFIM/man/setOptimizationResults.Rd | 3 PFIM-6.0.1/PFIM/man/setOutcome.Rd | 11 PFIM-6.0.1/PFIM/man/setOutcomes.Rd | 3 PFIM-6.0.1/PFIM/man/setOutcomesEvaluation.Rd | 5 PFIM-6.0.1/PFIM/man/setOutcomesForEvaluation.Rd | 3 PFIM-6.0.1/PFIM/man/setOutcomesGradient.Rd | 5 PFIM-6.0.1/PFIM/man/setParameters.Rd | 25 PFIM-6.0.1/PFIM/man/setSamplingConstraintForOptimization.Rd | 5 PFIM-6.0.1/PFIM/man/setSamplingTime.Rd | 5 PFIM-6.0.1/PFIM/man/setSamplingTimes.Rd | 5 PFIM-6.0.1/PFIM/man/setSamplingTimesConstraints.Rd | 5 PFIM-6.0.1/PFIM/man/setSamplings.Rd | 3 PFIM-6.0.1/PFIM/man/setShrinkage.Rd | 12 PFIM-6.0.1/PFIM/man/setSigmaInter.Rd | 3 PFIM-6.0.1/PFIM/man/setSigmaSlope.Rd | 3 PFIM-6.0.1/PFIM/man/setSize.Rd | 10 PFIM-6.0.1/PFIM/man/setTau.Rd | 5 PFIM-6.0.1/PFIM/man/setTimeDose.Rd | 5 PFIM-6.0.1/PFIM/man/setTinf.Rd | 3 PFIM-6.0.1/PFIM/man/setVarianceEffects.Rd | 3 PFIM-6.0.1/PFIM/man/setcError.Rd | 3 PFIM-6.0.1/PFIM/man/show.Rd |only PFIM-6.0.1/PFIM/vignettes/Example01.Rmd | 3 PFIM-6.0.1/PFIM/vignettes/Example02.Rmd | 3 PFIM-6.0/PFIM/R/globals.R |only 255 files changed, 5666 insertions(+), 3969 deletions(-)
Title: Client for 'jq', a 'JSON' Processor
Description: Client for 'jq', a 'JSON' processor (<https://jqlang.github.io/jq/>),
written in C. 'jq' allows the following with 'JSON' data: index into, parse,
do calculations, cut up and filter, change key names and values, perform
conditionals and comparisons, and more.
Author: Rich FitzJohn [aut],
Jeroen Ooms [aut, cre],
Scott Chamberlain [aut],
Stefan Milton Bache [aut]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between jqr versions 1.3.1 dated 2023-10-16 and 1.3.2 dated 2023-11-20
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 5 +++++ configure | 2 +- 4 files changed, 12 insertions(+), 7 deletions(-)
Title: Various R Programming Tools
Description: Functions to assist in R programming, including:
- assist in developing, updating, and maintaining R and R packages ('ask', 'checkRVersion',
'getDependencies', 'keywords', 'scat'),
- calculate the logit and inverse logit transformations ('logit', 'inv.logit'),
- test if a value is missing, empty or contains only NA and NULL values ('invalid'),
- manipulate R's .Last function ('addLast'),
- define macros ('defmacro'),
- detect odd and even integers ('odd', 'even'),
- convert strings containing non-ASCII characters (like single quotes) to plain ASCII ('ASCIIfy'),
- perform a binary search ('binsearch'),
- sort strings containing both numeric and character components ('mixedsort'),
- create a factor variable from the quantiles of a continuous variable ('quantcut'),
- enumerate permutations and combinations ('combinations', 'permutation'),
- calculate and convert between fold-change and log-ratio ('foldchange',
'logratio2foldchange', 'foldchange2logratio'),
- calculate probabilities and ge [...truncated...]
Author: Gregory R. Warnes [aut],
Ben Bolker [aut, cre] ,
Thomas Lumley [aut],
Arni Magnusson [aut],
Bill Venables [aut],
Genei Ryodan [aut],
Steffen Moeller [aut],
Ian Wilson [ctb],
Mark Davis [ctb],
Nitin Jain [ctb],
Scott Chamberlain [ctb]
Maintainer: Ben Bolker <bolker@mcmaster.ca>
Diff between gtools versions 3.9.4 dated 2022-11-27 and 3.9.5 dated 2023-11-20
DESCRIPTION | 38 +++++++++++++++++++++++++++----------- MD5 | 33 +++++++++++++++++---------------- NEWS.md | 9 +++++++-- R/ASCIIfy.R | 32 ++++++++++++++++++++------------ R/asc.R | 2 +- R/capwords.R | 2 +- R/checkRVersion.R | 21 ++++++++++++--------- R/gtools-package.R | 3 ++- R/melt_array.R |only R/stat_mode.R | 2 ++ inst/NEWS.md | 9 +++++++-- man/ASCIIfy.Rd | 16 ++++++++-------- man/asc.Rd | 2 +- man/capwords.Rd | 2 +- man/checkRVersion.Rd | 11 +++++------ man/gtools.Rd | 32 ++++++++++++++++++++++++++++++++ man/stat_mode.Rd | 3 +++ tests/test_setTCPNoDelay.R | 30 ++++++++++++++++++------------ 18 files changed, 164 insertions(+), 83 deletions(-)
Title: Perform Factorial Analysis from 'FactoMineR' with a Shiny
Application
Description: Perform factorial analysis with a menu and draw graphs interactively thanks to 'FactoMineR' and a Shiny application.
Author: Pauline Vaissie, Astrid Monge, Francois Husson
Maintainer: Francois Husson <francois.husson@institut-agro.fr>
Diff between Factoshiny versions 2.4 dated 2021-02-03 and 2.5 dated 2023-11-20
DESCRIPTION | 14 +++++++------- MD5 | 42 +++++++++++++++++++++--------------------- build/vignette.rds |binary inst/FactoFAMDapp2/server.R | 2 +- inst/FactoHCPCapp2/server.R | 4 ++++ inst/FactoMCAapp2/server.R | 1 + inst/FactoMFAapp2/global.R | 12 ++++++------ inst/FactoMFAapp2/server.R | 2 +- inst/FactoPCAapp2/server.R | 8 ++++---- inst/doc/Factoshiny.Rnw | 2 +- inst/doc/Factoshiny.pdf |binary man/CAshiny.Rd | 2 +- man/FAMDshiny.Rd | 2 +- man/Factoshiny-package.Rd | 17 ++++------------- man/HCPCshiny.Rd | 2 +- man/MCAshiny.Rd | 2 +- man/MFAshiny.Rd | 4 ++-- man/PCAshiny.Rd | 2 +- man/catdesshiny.Rd | 2 +- man/condesshiny.Rd | 2 +- po/R-Fr.po | 2 +- vignettes/Factoshiny.Rnw | 2 +- 22 files changed, 61 insertions(+), 65 deletions(-)
Title: Tools for Descriptive Statistics
Description: A collection of miscellaneous basic statistic functions and convenience wrappers for efficiently describing data. The author's intention was to create a toolbox, which facilitates the (notoriously time consuming) first descriptive tasks in data analysis, consisting of calculating descriptive statistics, drawing graphical summaries and reporting the results. The package contains furthermore functions to produce documents using MS Word (or PowerPoint) and functions to import data from Excel. Many of the included functions can be found scattered in other packages and other sources written partly by Titans of R. The reason for collecting them here, was primarily to have them consolidated in ONE instead of dozens of packages (which themselves might depend on other packages which are not needed at all), and to provide a common and consistent interface as far as function and arguments naming, NA handling, recycling rules etc. are concerned. Google style guides were used as naming rules (in ab [...truncated...]
Author: Andri Signorell [aut, cre],
Ken Aho [ctb],
Andreas Alfons [ctb],
Nanina Anderegg [ctb],
Tomas Aragon [ctb],
Chandima Arachchige [ctb],
Antti Arppe [ctb],
Adrian Baddeley [ctb],
Kamil Barton [ctb],
Ben Bolker [ctb],
Hans W. Borchers [ctb],
Frederico C [...truncated...]
Maintainer: Andri Signorell <andri@signorell.net>
Diff between DescTools versions 0.99.50 dated 2023-09-06 and 0.99.51 dated 2023-11-20
DESCRIPTION | 12 ++--- MD5 | 51 ++++++++++++----------- NAMESPACE | 17 +++++-- NEWS | 35 +++++++++++++++ R/Desc.R | 103 +++++++++++++---------------------------------- R/DescTools.r | 39 +++++++++++++++-- R/RcppExports.R | 8 +-- R/StatsAndCIs.r | 101 ++++++++++++++++++++++++++++++++++++---------- R/Tests.r | 2 R/TwoGroups.R |only build/vignette.rds |binary demo/DescTools.R | 6 +- man/EX.Rd |only man/GiniSimpson.Rd | 10 +++- man/Label.Rd | 7 +++ man/LeveneTest.Rd | 2 man/Mgsub.Rd |only man/PlotFaces.Rd | 30 ++++++------- man/PlotFdist.Rd | 2 man/PlotQQ.Rd | 2 man/SD.Rd | 5 +- man/Stamp.Rd | 2 man/StuartMaxwellTest.Rd | 6 ++ man/TwoGroups.Rd | 34 +++++++++++---- man/Var.Rd | 6 ++ src/RcppExports.cpp | 24 +++++----- src/aux_fct.cpp | 34 ++++++++++----- tests/misc.R | 19 ++++++++ 28 files changed, 357 insertions(+), 200 deletions(-)
Title: Climate Services' Indicators Based on Sub-Seasonal to Decadal
Predictions
Description: Set of generalised tools for the flexible computation of climate
related indicators defined by the user. Each method represents a specific
mathematical approach which is combined with the possibility to select an
arbitrary time period to define the indicator. This enables a wide range of
possibilities to tailor the most suitable indicator for each particular climate
service application (agriculture, food security, energy, water management, ...).
This package is intended for sub-seasonal, seasonal and decadal climate
predictions, but its methods are also applicable to other time-scales,
provided the dimensional structure of the input is maintained. Additionally,
the outputs of the functions in this package are compatible with 'CSTools'.
This package is described in 'Pérez-Zanón et al. (2023)
<doi:10.1016/j.cliser.2023.100393>' and it was developed in the context of
'H2020 MED-GOLD' (776467) and 'S2S4E' (776787) projects. See 'Lledó et al. (2019)
<doi:10.1016/j.renene.2019.04.13 [...truncated...]
Author: Eva Rifa [cre],
Nuria Perez-Zanon [aut] ,
Chou Chihchung [aut],
Llorenc Lledo [aut],
Gonzalez-Reviriego Nube [ctb],
Marcos Rauel [ctb],
Palma Lluis [ctb],
An-Chi Ho [ctb],
BSC-CNS [cph]
Maintainer: Eva Rifa <eva.rifarovira@bsc.es>
Diff between CSIndicators versions 1.0.1 dated 2023-05-18 and 1.1.0 dated 2023-11-20
DESCRIPTION | 21 - MD5 | 108 +++--- NAMESPACE | 32 + NEWS.md | 31 + R/AbsToProbs.R | 24 - R/AccumulationExceedingThreshold.R | 147 +++++--- R/MergeRefToExp.R | 460 ++++++++++++++++++---------- R/PeriodAccumulation.R | 294 ++++++++++++++--- R/PeriodMax.R |only R/PeriodMean.R | 146 ++++++-- R/PeriodMin.R |only R/PeriodPET.R |only R/PeriodStandardization.R |only R/PeriodVariance.R |only R/QThreshold.R | 69 ++-- R/SelectPeriodOnData.R | 28 - R/SelectPeriodOnDates.R | 6 R/Threshold.R | 47 +- R/TotalSpellTimeExceedingThreshold.R | 112 +++++- R/TotalTimeExceedingThreshold.R | 139 +++++--- R/WindCapacityFactor.R | 63 ++- R/WindPowerDensity.R | 64 ++- R/zzz.R | 77 ++-- README.md | 13 build/partial.rdb |only inst/doc/AgriculturalIndicators.Rmd | 327 +++++++++++++------ inst/doc/AgriculturalIndicators.html | 359 +++++++++++++++------ man/AbsToProbs.Rd | 10 man/AccumulationExceedingThreshold.Rd | 22 - man/CST_AbsToProbs.Rd | 14 man/CST_AccumulationExceedingThreshold.Rd | 35 +- man/CST_MergeRefToExp.Rd | 102 ++++-- man/CST_PeriodAccumulation.Rd | 90 ++++- man/CST_PeriodMax.Rd |only man/CST_PeriodMean.Rd | 43 +- man/CST_PeriodMin.Rd |only man/CST_PeriodPET.Rd |only man/CST_PeriodStandardization.Rd |only man/CST_PeriodVariance.Rd |only man/CST_QThreshold.Rd | 20 - man/CST_SelectPeriodOnData.Rd | 12 man/CST_Threshold.Rd | 13 man/CST_TotalSpellTimeExceedingThreshold.Rd | 29 + man/CST_TotalTimeExceedingThreshold.Rd | 42 +- man/CST_WindCapacityFactor.Rd | 17 - man/CST_WindPowerDensity.Rd | 21 - man/MergeRefToExp.Rd | 107 ++++-- man/PeriodAccumulation.Rd | 60 ++- man/PeriodMax.Rd |only man/PeriodMean.Rd | 29 + man/PeriodMin.Rd |only man/PeriodPET.Rd |only man/PeriodStandardization.Rd |only man/PeriodVariance.Rd |only man/QThreshold.Rd | 22 - man/SelectPeriodOnData.Rd | 8 man/SelectPeriodOnDates.Rd | 6 man/Threshold.Rd | 10 man/TotalSpellTimeExceedingThreshold.Rd | 32 + man/TotalTimeExceedingThreshold.Rd | 45 +- man/WindCapacityFactor.Rd | 23 + man/WindPowerDensity.Rd | 21 - vignettes/AgriculturalIndicators.Rmd | 327 +++++++++++++------ 63 files changed, 2575 insertions(+), 1152 deletions(-)
Title: Composite Indicators Functions
Description: A collection of functions to calculate Composite Indicators methods, focusing, in particular, on the normalisation and weighting-aggregation steps, as described in OECD Handbook on constructing composite indicators: methodology and user guide <https://www.oecd-ilibrary.org/economics/handbook-on-constructing-composite-indicators-methodology-and-user-guide_9789264043466-en>, 'Vidoli' and 'Fusco' and 'Mazziotta' <doi:10.1007/s11205-014-0710-y>, 'Mazziotta' and 'Pareto' (2016) <doi:10.1007/s11205-015-0998-2>, 'Van Puyenbroeck and 'Rogge' <doi:10.1016/j.ejor.2016.07.038> and other authors.
Author: Francesco Vidoli, Elisa Fusco
Maintainer: Francesco Vidoli <fvidoli@gmail.com>
Diff between Compind versions 2.9 dated 2023-11-15 and 2.9.1 dated 2023-11-20
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/ci_ampi.R | 22 ++++++++++++++-------- inst/doc/Compind_vignette.pdf |binary man/ci_ampi.Rd | 9 ++++++--- 5 files changed, 28 insertions(+), 19 deletions(-)
Title: Perform Batch Balanced KNN in R
Description: A fast and intuitive batch effect removal tool for single-cell data. BBKNN is originally used in the 'scanpy' python package, and now can be used with 'Seurat' seamlessly.
Author: Yuchen Li [aut, cre]
Maintainer: Yuchen Li <ycli1995@outlook.com>
Diff between bbknnR versions 1.0.2 dated 2022-09-22 and 1.1.0 dated 2023-11-20
bbknnR-1.0.2/bbknnR/R/utils.R |only bbknnR-1.1.0/bbknnR/DESCRIPTION | 20 bbknnR-1.1.0/bbknnR/MD5 | 34 - bbknnR-1.1.0/bbknnR/NAMESPACE | 34 + bbknnR-1.1.0/bbknnR/R/AllGenerics.R |only bbknnR-1.1.0/bbknnR/R/RcppExports.R | 20 bbknnR-1.1.0/bbknnR/R/bbknn.R | 477 +++++++++++----------- bbknnR-1.1.0/bbknnR/R/bbknnR-package.R | 3 bbknnR-1.1.0/bbknnR/R/ridge_regression.R | 109 ++--- bbknnR-1.1.0/bbknnR/README.md | 4 bbknnR-1.1.0/bbknnR/build/vignette.rds |binary bbknnR-1.1.0/bbknnR/data/panc8_small.rda |binary bbknnR-1.1.0/bbknnR/inst/doc/bbknnR-tutorial.R | 2 bbknnR-1.1.0/bbknnR/inst/doc/bbknnR-tutorial.html | 124 +++-- bbknnR-1.1.0/bbknnR/man/RidgeRegression.Rd | 35 - bbknnR-1.1.0/bbknnR/man/RunBBKNN.Rd | 99 ++-- bbknnR-1.1.0/bbknnR/man/bbknnR-package.Rd | 2 bbknnR-1.1.0/bbknnR/src/RcppExports.cpp | 50 +- bbknnR-1.1.0/bbknnR/src/data_manipulation.cpp | 16 19 files changed, 564 insertions(+), 465 deletions(-)
Title: R Interface to a 'PostGIS' Database
Description: Provides an interface between R and 'PostGIS'-enabled
'PostgreSQL' databases to transparently transfer spatial
data. Both vector (points, lines, polygons) and raster data are
supported in read and write modes. Also provides convenience
functions to execute common procedures in 'PostgreSQL/PostGIS'.
Author: Mathieu Basille [aut] ,
David Bucklin [aut],
Adrian Cidre Gonzalez [aut, cre]
Maintainer: Adrian Cidre Gonzalez <adrian.cidre@gmail.com>
Diff between rpostgis versions 1.5.0 dated 2023-10-12 and 1.5.1 dated 2023-11-20
DESCRIPTION | 17 +++---- MD5 | 46 ++++++++++---------- NEWS.md | 16 +++++++ R/all_db_wrapper_fns.R | 24 +++++----- R/pgGetGeom.R | 112 ++++++++++++++++++++++++------------------------- R/pgGetRast.R | 11 +++- R/pgMakePts.R | 2 R/pgPostGIS.R | 90 +++++++++++++++++++-------------------- R/rpostgis-package.R | 4 - R/startup.R | 4 - README.md | 8 +-- man/dbAddKey.Rd | 2 man/dbAsDate.Rd | 2 man/dbColumn.Rd | 4 - man/dbComment.Rd | 2 man/dbDrop.Rd | 4 - man/dbIndex.Rd | 4 - man/dbSchema.Rd | 4 - man/dbVacuum.Rd | 2 man/pgGetGeom.Rd | 28 ++++++------ man/pgGetGeomQ.Rd | 2 man/pgMakePts.Rd | 2 man/pgPostGIS.Rd | 2 man/rpostgis.Rd | 2 24 files changed, 209 insertions(+), 185 deletions(-)
Title: A Modern and Easy-to-Use Crypto Library
Description: Bindings to 'libsodium' <https://doc.libsodium.org/>: a modern,
easy-to-use software library for encryption, decryption, signatures, password
hashing and more. Sodium uses curve25519, a state-of-the-art Diffie-Hellman
function by Daniel Bernstein, which has become very popular after it was
discovered that the NSA had backdoored Dual EC DRBG.
Author: Jeroen Ooms [aut, cre]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between sodium versions 1.3.0 dated 2023-09-26 and 1.3.1 dated 2023-11-20
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NEWS | 3 +++ build/vignette.rds |binary configure | 2 +- inst/doc/crypto101.R | 2 +- inst/doc/crypto101.html | 14 +++++++------- inst/doc/intro.R | 2 +- inst/doc/intro.html | 12 ++++++------ 9 files changed, 30 insertions(+), 27 deletions(-)
Title: Streamline Data Import, Cleaning and Recoding from 'Excel'
Description: A small group of functions to read in a data dictionary and the
corresponding data table from 'Excel' and to automate the cleaning, re-coding
and creation of simple calculated variables. This package was designed to
be a companion to the macro-enabled 'Excel' template available
on the GitHub site, but works with any similarly-formatted 'Excel' data.
Author: Lisa Avery [aut, cre, cph]
Maintainer: Lisa Avery <lisa.avery@uhn.ca>
Diff between exceldata versions 0.1.1.2 dated 2022-04-04 and 0.1.1.3 dated 2023-11-20
DESCRIPTION | 10 +- MD5 | 28 ++--- NAMESPACE | 1 R/main.R | 218 +++++++++++++++++++++++++++++--------------- README.md | 21 ++-- man/addFactorVariables.Rd | 10 +- man/checkData.Rd | 9 + man/createCalculated.Rd | 12 +- man/createCategorisedVar.Rd | 6 - man/createRecodedVar.Rd | 12 +- man/createSurvVar.Rd | 9 + man/importExcelData.Rd | 43 +++++--- man/plotVariables.Rd | 6 - man/readDataDict.Rd | 7 - man/readExcelData.Rd | 24 +++- 15 files changed, 262 insertions(+), 154 deletions(-)
Title: Procedures Based on Item Response Theory Models for the
Development of Short Test Forms
Description: Implement different Item Response Theory (IRT) based procedures for the development of static short test forms (STFs) from a test. Two main procedures are considered, specifically the typical IRT-based procedure for the development of STF, and a recently introduced procedure (Epifania, Anselmi & Robusto, 2022 <doi:10.1007/978-3-031-27781-8_7>).
The procedures differ in how the most informative items are selected for the inclusion in the STF, either by considering their item information functions without considering any specific level of the latent trait (typical procedure) or by considering their informativeness with respect to specific levels of the latent trait, denoted as theta targets (the newly introduced procedure). Regarding the latter procedure, three methods are implemented for the definition of the theta targets: (i) theta targets are defined by segmenting the latent trait in equal intervals and considering the midpoint of each interval (equal interval procedure, ei [...truncated...]
Author: Ottavia M. Epifania [aut, cre, cph]
Pasquale Anselmi [aut, ctb]
Egidio Robusto [ctb]
Maintainer: Ottavia M. Epifania <ottavia.epifania@unipd.it>
Diff between shortIRT versions 0.1.0 dated 2023-11-02 and 0.1.2 dated 2023-11-20
DESCRIPTION | 6 +++--- MD5 | 15 ++++++++------- NEWS.md |only R/diff_theta.R | 14 +++++++------- README.md | 27 ++++++++++++++------------- man/diff_theta.Rd | 6 +++--- man/figures/README-unnamed-chunk-3-1.png |binary man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-6-1.png |binary 9 files changed, 35 insertions(+), 33 deletions(-)
Title: Sassy 'UML' Diagrams
Description: A tool for drawing sassy 'UML' (Unified Modeling Language) diagrams
based on a simple syntax, see <https://www.nomnoml.com>. Supports styling,
R Markdown and exporting diagrams in the PNG format. Note: you need a chromium based
browser installed on your system.
Author: Andrie de Vries [aut, cre],
Javier Luraschi [aut],
Daniel Kallin [cph] ,
RStudio [cph, fnd]
Maintainer: Andrie de Vries <apdevries@gmail.com>
Diff between nomnoml versions 0.2.7 dated 2023-06-29 and 0.3.0 dated 2023-11-20
nomnoml-0.2.7/nomnoml/inst/htmlwidgets/lib/graphre.js |only nomnoml-0.2.7/nomnoml/inst/htmlwidgets/lib/nomnoml.js |only nomnoml-0.3.0/nomnoml/DESCRIPTION | 17 nomnoml-0.3.0/nomnoml/MD5 | 41 nomnoml-0.3.0/nomnoml/NEWS.md | 7 nomnoml-0.3.0/nomnoml/R/knit.R | 15 nomnoml-0.3.0/nomnoml/R/nomnoml.R | 6 nomnoml-0.3.0/nomnoml/R/validate.R | 2 nomnoml-0.3.0/nomnoml/R/zzz.R | 11 nomnoml-0.3.0/nomnoml/README.md | 23 nomnoml-0.3.0/nomnoml/inst/htmlwidgets/lib/graphre/graphre.js | 3972 -------- nomnoml-0.3.0/nomnoml/inst/htmlwidgets/lib/nomnoml/nomnoml.js | 4874 +++------- nomnoml-0.3.0/nomnoml/inst/htmlwidgets/nomnoml.yaml | 2 nomnoml-0.3.0/nomnoml/man/figures/readme/nomnoml-decorator-2.png |binary nomnoml-0.3.0/nomnoml/man/figures/readme/nomnoml-multiline-3.png |binary nomnoml-0.3.0/nomnoml/man/figures/readme/nomnoml-simple-1.png |binary nomnoml-0.3.0/nomnoml/man/figures/readme/nomnoml-svg-1.png |binary nomnoml-0.3.0/nomnoml/man/figures/readme/nomnoml-vertical-2.png |binary nomnoml-0.3.0/nomnoml/tests/testthat/example_knitr.Rmd | 4 nomnoml-0.3.0/nomnoml/tests/testthat/example_knitr.html |only nomnoml-0.3.0/nomnoml/tests/testthat/test-knitr.R | 9 nomnoml-0.3.0/nomnoml/tests/testthat/test-shiny.R | 1 nomnoml-0.3.0/nomnoml/tests/testthat/test-validate.R | 2 23 files changed, 1807 insertions(+), 7179 deletions(-)
Title: Generates Raven-Like Matrices According to Rules
Description: Generates Raven like matrices according to different rules and the response list associated to the matrix. The package can generate matrices composed of 4 or 9 cells, along with a response list of 11 elements (the correct response + 10 incorrect responses). The matrices can be generated according to both logical rules (i.e., the relationships between the elements in the matrix are manipulated to create the matrix) and visual-spatial rules (i.e., the visual or spatial characteristics of the elements are manipulated to generate the matrix).
The graphical elements of this package are based on the 'DescTools' package.
Author: Andrea Brancaccio [aut, ctb, cph],
Ottavia M. Epifania [aut, ctb, com],
Debora de Chiusole [ctb]
Maintainer: Andrea Brancaccio <andrea.brancaccio@unipd.it>
Diff between matRiks versions 0.1.0 dated 2023-10-31 and 0.1.1 dated 2023-11-20
DESCRIPTION | 12 ++++++------ MD5 | 15 ++++++++------- NEWS.md |only R/other_figures.R | 2 +- R/rules.R | 4 ++-- README.md | 5 +++-- inst/doc/generate_matriks.Rmd | 10 +++++----- inst/doc/generate_matriks.html | 16 ++++++++-------- vignettes/generate_matriks.Rmd | 10 +++++----- 9 files changed, 38 insertions(+), 36 deletions(-)
Title: Add the 'dann' Model and the 'sub_dann' Model to the Tidymodels
Ecosystem
Description: Provides model specifications, tuning parameters for models in
'dann' package. Models based on Hastie (1996)
<https://web.stanford.edu/~hastie/Papers/dann_IEEE.pdf>.
Author: Greg McMahan [aut, cre]
Maintainer: Greg McMahan <gmcmacran@gmail.com>
Diff between tidydann versions 0.1.0 dated 2023-09-27 and 1.0.0 dated 2023-11-20
tidydann-0.1.0/tidydann/R/print.R |only tidydann-0.1.0/tidydann/R/tidy_dann-data.R |only tidydann-0.1.0/tidydann/R/tidy_dann.R |only tidydann-0.1.0/tidydann/R/tidy_sub_dann-data.R |only tidydann-0.1.0/tidydann/R/tidy_sub_dann.R |only tidydann-0.1.0/tidydann/man/epsilon.Rd |only tidydann-0.1.0/tidydann/man/print._dann.Rd |only tidydann-0.1.0/tidydann/man/print._sub_dann.Rd |only tidydann-0.1.0/tidydann/man/print.tidy_dann.Rd |only tidydann-0.1.0/tidydann/man/print.tidy_sub_dann.Rd |only tidydann-0.1.0/tidydann/man/tidy_dann.Rd |only tidydann-0.1.0/tidydann/man/tidy_sub_dann.Rd |only tidydann-0.1.0/tidydann/man/tunable.tidy_dann.Rd |only tidydann-0.1.0/tidydann/man/tunable.tidy_sub_dann.Rd |only tidydann-0.1.0/tidydann/man/update.tidy_dann.Rd |only tidydann-0.1.0/tidydann/man/update.tidy_sub_dann.Rd |only tidydann-0.1.0/tidydann/tests/testthat/test_A_tidy_dann.R |only tidydann-0.1.0/tidydann/tests/testthat/test_B_tidy_sub_dann.R |only tidydann-0.1.0/tidydann/tests/testthat/test_C_tunable.R |only tidydann-0.1.0/tidydann/tests/testthat/test_D_print.R |only tidydann-0.1.0/tidydann/tests/testthat/test_E_ecosystem.R |only tidydann-1.0.0/tidydann/DESCRIPTION | 10 - tidydann-1.0.0/tidydann/MD5 | 49 +++---- tidydann-1.0.0/tidydann/NAMESPACE | 15 -- tidydann-1.0.0/tidydann/NEWS.md | 4 tidydann-1.0.0/tidydann/R/nearest_neighbor_adaptive-data.R |only tidydann-1.0.0/tidydann/R/nearest_neighbor_adaptive-sub_dann.R |only tidydann-1.0.0/tidydann/R/nearest_neighbor_adaptive.R |only tidydann-1.0.0/tidydann/R/tunable.R | 62 +++------- tidydann-1.0.0/tidydann/R/zzz.R | 30 ++-- tidydann-1.0.0/tidydann/README.md | 44 ++----- tidydann-1.0.0/tidydann/man/matrix_diagonal.Rd |only tidydann-1.0.0/tidydann/man/nearest_neighbor_adaptive.Rd |only tidydann-1.0.0/tidydann/man/neighborhood.Rd | 11 + tidydann-1.0.0/tidydann/man/sphere.Rd | 4 tidydann-1.0.0/tidydann/man/tunable.nearest_neighbor_adaptive.Rd |only tidydann-1.0.0/tidydann/man/update.nearest_neighbor_adaptive.Rd |only tidydann-1.0.0/tidydann/man/weighted.Rd | 2 tidydann-1.0.0/tidydann/tests/testthat/test_A_nearest_neighbor_adaptive.R |only tidydann-1.0.0/tidydann/tests/testthat/test_B_tunable.R |only tidydann-1.0.0/tidydann/tests/testthat/test_C_ecosystem.R |only 41 files changed, 96 insertions(+), 135 deletions(-)
Title: Cleans and Normalizes FLUOstar DBF and DAT Files
Description: Cleans and Normalizes FLUOstar DBF and DAT Files obtained from liposome flux assays. Users should verify extended usage of the package on files from other assay types.
Author: Tingwei Adeck [aut, cre],
normfluodbf authors [cph]
Maintainer: Tingwei Adeck <awesome.tingwei@outlook.com>
Diff between normfluodbf versions 1.5.0 dated 2023-11-11 and 1.5.1 dated 2023-11-20
DESCRIPTION | 6 MD5 | 70 +- NEWS.md | 65 +- R/clean_odd_cc.R | 76 +- R/clean_odddat_optimus.R | 99 ++- R/dat_col_names_horizontal.R | 146 ++--- R/dat_col_names_optimus.R | 302 +++++----- R/dat_col_names_prime.R | 154 ++--- R/dat_col_names_rigid.R | 288 +++++----- R/fluor_threshold_check.R | 308 +++++------ R/ggplot_tnp.R | 82 +- R/normfluodat.R | 1058 +++++++++++++++++++++----------------- R/normfluordat.R | 114 ++-- R/resample_dat.R | 95 +-- R/resample_dat_alt.R | 95 +-- R/resample_dat_scale.R | 105 +-- R/resample_dat_scale_alt.R | 111 ++- R/resample_dat_scale_optimus.R | 117 ++-- README.md | 16 inst/doc/normfluodbf.Rmd | 179 +++--- inst/doc/normfluodbf.html | 12 man/dat_col_names_horizontal.Rd | 2 man/dat_col_names_optimus.Rd | 2 man/dat_col_names_prime.Rd | 2 man/dat_col_names_rigid.Rd | 2 man/fluor_threshold_check.Rd | 2 man/fluor_threshold_check_na.Rd | 2 man/fluor_threshold_check_raw.Rd | 2 man/normfluodat.Rd | 2 man/normfluordat.Rd | 2 man/resample_dat.Rd | 2 man/resample_dat_alt.Rd | 5 man/resample_dat_scale.Rd | 2 man/resample_dat_scale_alt.Rd | 2 man/resample_dat_scale_optimus.Rd | 2 vignettes/normfluodbf.Rmd | 179 +++--- 36 files changed, 1960 insertions(+), 1748 deletions(-)
Title: Tools for the Analysis of Epidemiological Data
Description: Tools for the analysis of epidemiological and surveillance data. Contains functions for directly and indirectly adjusting measures of disease frequency, quantifying measures of association on the basis of single or multiple strata of count data presented in a contingency table, computation of confidence intervals around incidence risk and incidence rate estimates and sample size calculations for cross-sectional, case-control and cohort studies. Surveillance tools include functions to calculate an appropriate sample size for 1- and 2-stage representative freedom surveys, functions to estimate surveillance system sensitivity and functions to support scenario tree modelling analyses.
Author: Mark Stevenson [aut, cre] ,
Evan Sergeant [aut],
Cord Heuer [ctb],
Telmo Nunes [ctb],
Cord Heuer [ctb],
Jonathon Marshall [ctb],
Javier Sanchez [ctb],
Ron Thornton [ctb],
Jeno Reiczigel [ctb],
Jim Robison-Cox [ctb],
Paola Sebastiani [ctb],
Peter Soly [...truncated...]
Maintainer: Mark Stevenson <mark.stevenson1@unimelb.edu.au>
Diff between epiR versions 2.0.65 dated 2023-09-28 and 2.0.66 dated 2023-11-20
epiR-2.0.65/epiR/NEWS |only epiR-2.0.65/epiR/vignettes/epiR-manual.pdf |only epiR-2.0.65/epiR/vignettes/index.html |only epiR-2.0.66/epiR/DESCRIPTION | 12 epiR-2.0.66/epiR/MD5 | 48 epiR-2.0.66/epiR/inst/doc/epiR_descriptive.Rmd | 42 epiR-2.0.66/epiR/inst/doc/epiR_descriptive.html | 23 epiR-2.0.66/epiR/inst/doc/epiR_measures_of_association.Rmd | 2 epiR-2.0.66/epiR/inst/doc/epiR_measures_of_association.html | 19 epiR-2.0.66/epiR/inst/doc/epiR_sample_size.Rmd | 2 epiR-2.0.66/epiR/inst/doc/epiR_sample_size.html | 11 epiR-2.0.66/epiR/inst/doc/epiR_surveillance.Rmd | 2 epiR-2.0.66/epiR/inst/doc/epiR_surveillance.html | 22 epiR-2.0.66/epiR/man/epi.2by2.Rd | 1072 ++++++------ epiR-2.0.66/epiR/man/epi.about.Rd | 2 epiR-2.0.66/epiR/man/epi.occc.Rd | 33 epiR-2.0.66/epiR/man/epi.realrisk.Rd | 4 epiR-2.0.66/epiR/man/epi.sscompb.Rd | 4 epiR-2.0.66/epiR/man/epi.sscompc.Rd | 4 epiR-2.0.66/epiR/man/epi.sscomps.Rd | 4 epiR-2.0.66/epiR/man/figures |only epiR-2.0.66/epiR/vignettes/epiR_descriptive.Rmd | 42 epiR-2.0.66/epiR/vignettes/epiR_measures_of_association.Rmd | 2 epiR-2.0.66/epiR/vignettes/epiR_sample_size.Rmd | 2 epiR-2.0.66/epiR/vignettes/epiR_surveillance.Rmd | 2 25 files changed, 695 insertions(+), 659 deletions(-)
Title: Choice Models with Economic Foundation
Description: Implements choice models based on economic theory, including estimation using Markov chain Monte Carlo (MCMC), prediction, and more. Its usability is inspired by ideas from 'tidyverse'. Models include versions of the Hierarchical Multinomial Logit and Multiple Discrete-Continous (Volumetric) models with and without screening. The foundations of these models are described in Allenby, Hardt and Rossi (2019) <doi:10.1016/bs.hem.2019.04.002>. Models with conjunctive screening are described in Kim, Hardt, Kim and Allenby (2022) <doi:10.1016/j.ijresmar.2022.04.001>. Models with set-size variation are described in Hardt and Kurz (2020) <doi:10.2139/ssrn.3418383>.
Author: Nino Hardt [aut, cre]
Maintainer: Nino Hardt <me@ninohardt.com>
Diff between echoice2 versions 0.2.3 dated 2023-03-12 and 0.2.4 dated 2023-11-20
echoice2-0.2.3/echoice2/R/package.R |only echoice2-0.2.3/echoice2/man/echoice2.Rd |only echoice2-0.2.4/echoice2/DESCRIPTION | 8 echoice2-0.2.4/echoice2/MD5 | 72 echoice2-0.2.4/echoice2/NEWS.md | 4 echoice2-0.2.4/echoice2/R/echoice2-package.R |only echoice2-0.2.4/echoice2/R/echoice2.R | 87 echoice2-0.2.4/echoice2/build/vignette.rds |binary echoice2-0.2.4/echoice2/inst/doc/Importing_lol_data.html | 434 ++-- echoice2-0.2.4/echoice2/inst/doc/Modeling_volumetric_demand.html | 874 +++++----- echoice2-0.2.4/echoice2/man/dd_dem.Rd | 7 echoice2-0.2.4/echoice2/man/dd_dem_sr.Rd | 4 echoice2-0.2.4/echoice2/man/dd_est_hmnl_screen.Rd | 2 echoice2-0.2.4/echoice2/man/ec_boxplot_MU.Rd | 4 echoice2-0.2.4/echoice2/man/ec_boxplot_screen.Rd | 4 echoice2-0.2.4/echoice2/man/ec_dem_aggregate.Rd | 6 echoice2-0.2.4/echoice2/man/ec_dem_eval.Rd | 2 echoice2-0.2.4/echoice2/man/ec_dem_summarise.Rd | 2 echoice2-0.2.4/echoice2/man/ec_demcurve.Rd | 2 echoice2-0.2.4/echoice2/man/ec_demcurve_cond_dem.Rd | 2 echoice2-0.2.4/echoice2/man/ec_demcurve_inci.Rd | 2 echoice2-0.2.4/echoice2/man/ec_draws_MU.Rd | 2 echoice2-0.2.4/echoice2/man/ec_draws_screen.Rd | 2 echoice2-0.2.4/echoice2/man/ec_gen_err_ev1.Rd | 2 echoice2-0.2.4/echoice2/man/ec_gen_err_normal.Rd | 8 echoice2-0.2.4/echoice2/man/ec_lmd_NR.Rd | 2 echoice2-0.2.4/echoice2/man/ec_lol_tidy1.Rd | 2 echoice2-0.2.4/echoice2/man/ec_screen_summarise.Rd | 4 echoice2-0.2.4/echoice2/man/ec_screenprob_sr.Rd | 4 echoice2-0.2.4/echoice2/man/ec_trace_MU.Rd | 4 echoice2-0.2.4/echoice2/man/ec_trace_screen.Rd | 5 echoice2-0.2.4/echoice2/man/echoice2-package.Rd |only echoice2-0.2.4/echoice2/man/icecream.Rd | 4 echoice2-0.2.4/echoice2/man/icecream_discrete.Rd | 4 echoice2-0.2.4/echoice2/man/pizza.Rd | 4 echoice2-0.2.4/echoice2/man/vd_add_prodid.Rd | 6 echoice2-0.2.4/echoice2/man/vd_dem_summarise.Rd | 2 echoice2-0.2.4/echoice2/man/vd_thin_draw.Rd | 5 echoice2-0.2.4/echoice2/tests/testthat/test-echoice2.R | 2 39 files changed, 810 insertions(+), 768 deletions(-)
Title: Plot Stacked Areas and Confidence Bands as Filled Polygons
Description: Plot stacked areas and confidence bands as filled polygons, or add
polygons to existing plots. A variety of input formats are supported,
including vectors, matrices, data frames, formulas, etc.
Author: Arni Magnusson [aut, cre]
Maintainer: Arni Magnusson <thisisarni@gmail.com>
Diff between areaplot versions 2.0.0 dated 2023-05-21 and 2.1.1 dated 2023-11-20
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NAMESPACE | 1 + NEWS.md | 7 +++++++ R/areaplot.R | 56 ++++++++++++++++++++++++++++++++++++-------------------- man/areaplot.Rd | 12 +++++++----- 6 files changed, 60 insertions(+), 34 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-11-24 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-06-24 1.0.3
2022-05-20 1.0.2
2022-05-17 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-09-18 0.99.1
2021-11-19 0.99.0
Title: 1d Water Level Interpolation along the Rivers Elbe and Rhine
Description: An S4 class and several functions which utilize internally stored
datasets and gauging data enable 1d water level interpolation. The S4 class
(WaterLevelDataFrame) structures the computation and visualisation
of 1d water level information along the German federal waterways Elbe and
Rhine. 'hyd1d' delivers 1d water level data - extracted from the 'FLYS'
database - and validated gauging data - extracted from the hydrological
database 'HyDaBa' - package-internally. For computations near real time
gauging data are queried externally from the 'PEGELONLINE REST API'
<https://pegelonline.wsv.de/webservice/dokuRestapi>.
Author: Arnd Weber [aut, cre] ,
Marcus Hatz [aut],
Wolfgang Stuermer [ctb],
Wilfried Wiechmann [ctb],
Benjamin Eberhardt [ctb]
Maintainer: Arnd Weber <arnd.weber@bafg.de>
Diff between hyd1d versions 0.5.0 dated 2023-10-30 and 0.5.1 dated 2023-11-20
DESCRIPTION | 15 +++-- MD5 | 31 +++++------ NEWS.md | 5 + R/hyd1d.R | 6 +- R/plotShiny.R | 117 ++++++++++++++++++++++++++++++++++--------- README.md | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/hyd1d.R | 17 +++--- inst/doc/hyd1d.Rmd | 19 ++++--- inst/doc/hyd1d.html | 82 +++++++----------------------- inst/doc/vignette_DE.R | 122 ++++++++++++++++++++++++--------------------- inst/doc/vignette_DE.Rmd | 124 +++++++++++++++++++++++++--------------------- inst/doc/vignette_DE.html | 76 ++++++---------------------- man/figures/logo.png |only vignettes/hyd1d.Rmd | 19 ++++--- vignettes/vignette_DE.Rmd | 124 +++++++++++++++++++++++++--------------------- 17 files changed, 403 insertions(+), 356 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-09-14 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-06-14 1.0.6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-03-25 0.8.4
2022-08-23 0.8.3
Title: Biodiversity Data from the GBIF Node Network
Description: The Global Biodiversity Information Facility
('GBIF', <https://www.gbif.org>) sources data from an international network
of data providers, known as 'nodes'. Several of these nodes - the "living
atlases" (<https://living-atlases.gbif.org>) - maintain their own web
services using software originally developed by the Atlas of Living
Australia ('ALA', <https://www.ala.org.au>). 'galah' enables the R community
to directly access data and resources hosted by 'GBIF' and its partner nodes.
Author: Martin Westgate [aut, cre],
Matilda Stevenson [aut],
Dax Kellie [aut],
Peggy Newman [aut]
Maintainer: Martin Westgate <martin.westgate@csiro.au>
Diff between galah versions 1.5.4 dated 2023-10-14 and 2.0.0 dated 2023-11-20
galah-1.5.4/galah/R/clear_cached_files.R |only galah-1.5.4/galah/R/count.R |only galah-1.5.4/galah/R/filter.R |only galah-1.5.4/galah/R/galah_down_to.R |only galah-1.5.4/galah/R/galah_internal_cache.R |only galah-1.5.4/galah/R/group_by.R |only galah-1.5.4/galah/R/grouped_counts_GBIF.R |only galah-1.5.4/galah/R/grouped_counts_LA.R |only galah-1.5.4/galah/R/identify.R |only galah-1.5.4/galah/R/occurrences_GBIF.R |only galah-1.5.4/galah/R/occurrences_LA.R |only galah-1.5.4/galah/R/search_identifiers.R |only galah-1.5.4/galah/R/search_media.R |only galah-1.5.4/galah/R/search_taxa.R |only galah-1.5.4/galah/R/select.R |only galah-1.5.4/galah/R/st_crop.R |only galah-1.5.4/galah/R/url_GET.R |only galah-1.5.4/galah/R/url_POST.R |only galah-1.5.4/galah/R/url_download.R |only galah-1.5.4/galah/R/url_paginate.R |only galah-1.5.4/galah/R/url_queue.R |only galah-1.5.4/galah/R/validate_fields.R |only galah-1.5.4/galah/man/clear_cached_files.Rd |only galah-1.5.4/galah/man/collect_occurrences.Rd |only galah-1.5.4/galah/man/deprecated.Rd |only galah-1.5.4/galah/man/galah_bbox.Rd |only galah-1.5.4/galah/man/galah_down_to.Rd |only galah-1.5.4/galah/man/galah_polygon.Rd |only galah-1.5.4/galah/man/group_by.data_request.Rd |only galah-1.5.4/galah/man/identify.data_request.Rd |only galah-1.5.4/galah/man/search_identifiers.Rd |only galah-1.5.4/galah/man/search_media.Rd |only galah-1.5.4/galah/man/search_taxa.Rd |only galah-1.5.4/galah/man/select.data_request.Rd |only galah-1.5.4/galah/man/slice_head.data_request.Rd |only galah-1.5.4/galah/tests/fixtures |only galah-1.5.4/galah/tests/testthat/setup-galah.R |only galah-1.5.4/galah/tests/testthat/test-clear_cached_files.R |only galah-1.5.4/galah/tests/testthat/test-collect_media.R |only galah-1.5.4/galah/tests/testthat/test-collect_occurrences.R |only galah-1.5.4/galah/tests/testthat/test-deprecated_functions.R |only galah-1.5.4/galah/tests/testthat/test-show_all_cached_files.R |only galah-1.5.4/galah/tests/testthat/test-utilities_internal.R |only galah-1.5.4/galah/vignettes/atlases_plot.png |only galah-1.5.4/galah/vignettes/eolophus_roseicapilla.csv |only galah-1.5.4/galah/vignettes/rabbits_guatemala.rds |only galah-2.0.0/galah/DESCRIPTION | 40 galah-2.0.0/galah/MD5 | 478 ++---- galah-2.0.0/galah/NAMESPACE | 166 +- galah-2.0.0/galah/NEWS.md | 33 galah-2.0.0/galah/R/arrange.R |only galah-2.0.0/galah/R/atlas_citation.R | 50 galah-2.0.0/galah/R/atlas_counts.R | 312 ---- galah-2.0.0/galah/R/atlas_media.R | 235 +-- galah-2.0.0/galah/R/atlas_occurrences.R | 121 - galah-2.0.0/galah/R/atlas_species.R | 144 -- galah-2.0.0/galah/R/atlas_taxonomy.R | 343 ++-- galah-2.0.0/galah/R/build.R |only galah-2.0.0/galah/R/build_predicates.R | 21 galah-2.0.0/galah/R/check.R |only galah-2.0.0/galah/R/check_internal_cache.R |only galah-2.0.0/galah/R/check_queue.R |only galah-2.0.0/galah/R/collapse.R |only galah-2.0.0/galah/R/collapse_media.R |only galah-2.0.0/galah/R/collapse_metadata.R |only galah-2.0.0/galah/R/collapse_occurrences.R |only galah-2.0.0/galah/R/collapse_occurrences_count.R |only galah-2.0.0/galah/R/collapse_occurrences_doi.R |only galah-2.0.0/galah/R/collapse_species.R |only galah-2.0.0/galah/R/collapse_species_count.R |only galah-2.0.0/galah/R/collapse_taxa.R |only galah-2.0.0/galah/R/collapse_unnest.R |only galah-2.0.0/galah/R/collect.R |only galah-2.0.0/galah/R/collect_media.R | 245 +-- galah-2.0.0/galah/R/collect_metadata.R |only galah-2.0.0/galah/R/collect_occurrences.R | 302 ++-- galah-2.0.0/galah/R/collect_occurrences_count.R |only galah-2.0.0/galah/R/collect_species.R |only galah-2.0.0/galah/R/collect_species_count.R |only galah-2.0.0/galah/R/collect_taxa.R |only galah-2.0.0/galah/R/collect_unnest.R |only galah-2.0.0/galah/R/compute.R |only galah-2.0.0/galah/R/compute_metadata.R |only galah-2.0.0/galah/R/compute_occurrences.R |only galah-2.0.0/galah/R/compute_occurrences_count.R |only galah-2.0.0/galah/R/compute_species.R |only galah-2.0.0/galah/R/compute_species_count.R |only galah-2.0.0/galah/R/compute_unnest.R |only galah-2.0.0/galah/R/deprecated_functions.R | 336 ---- galah-2.0.0/galah/R/galah-package.R | 127 - 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