Title: Efficient Best Subset Selection for GLMs via Branch and Bound
Algorithms
Description: Performs efficient and scalable glm best
subset selection using a novel implementation of a branch and bound algorithm.
To speed up the model fitting process, a range of optimization
methods are implemented in 'RcppArmadillo'. Parallel computation
is available using 'OpenMP'.
Author: Jacob Seedorff [aut, cre]
Maintainer: Jacob Seedorff <jacob-seedorff@uiowa.edu>
Diff between BranchGLM versions 3.0.0 dated 2024-08-21 and 3.0.1 dated 2024-09-27
DESCRIPTION | 8 ++++---- MD5 | 21 +++++++++++---------- R/BranchGLM-package.R | 2 ++ R/VariableImportance.R | 3 +++ R/VariableImportance.boot.R | 2 ++ build/partial.rdb |only inst/doc/BranchGLM-Vignette.html | 8 ++++---- inst/doc/VariableImportance-Vignette.html | 8 ++++---- inst/doc/VariableSelection-Vignette.html | 20 ++++++++++---------- man/BranchGLM-package.Rd | 4 ++++ man/VariableImportance.Rd | 4 ++++ man/VariableImportance.boot.Rd | 4 ++++ 12 files changed, 52 insertions(+), 32 deletions(-)
Title: Transformation Models
Description: Formula-based user-interfaces to specific transformation models
implemented in package 'mlt'. Available models include Cox models, some parametric
survival models (Weibull, etc.), models for ordered categorical variables,
normal and non-normal (Box-Cox type) linear models, and continuous outcome logistic regression
(Lohse et al., 2017, <DOI:10.12688/f1000research.12934.1>). The underlying theory
is described in Hothorn et al. (2018) <DOI:10.1111/sjos.12291>. An extension to
transformation models for clustered data is provided (Barbanti and Hothorn, 2022,
<DOI:10.1093/biostatistics/kxac048>). Multivariate conditional transformation models
(Klein et al, 2022, <DOI:10.1111/sjos.12501>) and shift-scale transformation models (Siegfried et al, 2023,
<DOI:10.1080/00031305.2023.2203177>) can be fitted as well.
Author: Torsten Hothorn [aut, cre] ,
Luisa Barbanti [aut] ,
Sandra Siegfried [aut] ,
Brian Ripley [ctb],
Bill Venables [ctb],
Douglas M. Bates [ctb],
Nadja Klein [ctb]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between tram versions 1.1-0 dated 2024-09-26 and 1.1-1 dated 2024-09-27
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- inst/NEWS.Rd | 6 ++++++ inst/doc/mtram.pdf |binary inst/doc/tram.pdf |binary tests/mmlt-interface.R | 2 +- 6 files changed, 16 insertions(+), 10 deletions(-)
Title: Exploratory Graph Analysis – a Framework for Estimating the
Number of Dimensions in Multivariate Data using Network
Psychometrics
Description: Implements the Exploratory Graph Analysis (EGA) framework for dimensionality
and psychometric assessment. EGA estimates the number of dimensions in
psychological data using network estimation methods and community detection
algorithms. A bootstrap method is provided to assess the stability of dimensions
and items. Fit is evaluated using the Entropy Fit family of indices. Unique
Variable Analysis evaluates the extent to which items are locally dependent (or
redundant). Network loadings provide similar information to factor loadings and
can be used to compute network scores. A bootstrap and permutation approach are
available to assess configural and metric invariance. Hierarchical structures
can be detected using Hierarchical EGA. Time series and intensive longitudinal
data can be analyzed using Dynamic EGA, supporting individual, group, and
population level assessments.
Author: Hudson Golino [aut, cre] ,
Alexander Christensen [aut] ,
Robert Moulder [ctb] ,
Luis E. Garrido [ctb] ,
Laura Jamison [ctb] ,
Dingjing Shi [ctb]
Maintainer: Hudson Golino <hfg9s@virginia.edu>
Diff between EGAnet versions 2.0.7 dated 2024-09-02 and 2.0.8 dated 2024-09-27
DESCRIPTION | 8 - MD5 | 53 ++++---- NAMESPACE | 1 NEWS | 7 + R/EBICglasso.qgraph.R | 21 ++- R/EGA.R | 6 R/EGA.estimate.R | 6 R/EGA.fit.R | 4 R/TMFG.R | 6 R/auto.correlate.R | 13 +- R/bootEGA.R | 6 R/cosine.R |only R/helpers.R | 8 - R/net.loads.R | 28 ++++ R/network.estimation.R | 278 +++++++++++++++++++++++----------------------- R/riEGA.R | 6 R/simEGM.R |only inst/CITATION | 15 +- man/EBICglasso.qgraph.Rd | 21 ++- man/EGA.Rd | 4 man/EGA.estimate.Rd | 4 man/EGA.fit.Rd | 4 man/TMFG.Rd | 4 man/auto.correlate.Rd | 4 man/bootEGA.Rd | 4 man/cosine.Rd |only man/network.estimation.Rd | 16 +- man/riEGA.Rd | 4 src/polychoric_matrix.c | 18 ++ 29 files changed, 325 insertions(+), 224 deletions(-)
Title: Discrete-Event Simulation for R
Description: A process-oriented and trajectory-based Discrete-Event Simulation
(DES) package for R. It is designed as a generic yet powerful framework. The
architecture encloses a robust and fast simulation core written in 'C++' with
automatic monitoring capabilities. It provides a rich and flexible R API that
revolves around the concept of trajectory, a common path in the simulation
model for entities of the same type. Documentation about 'simmer' is provided
by several vignettes included in this package, via the paper by Ucar, Smeets
& Azcorra (2019, <doi:10.18637/jss.v090.i02>), and the paper by Ucar,
Hernández, Serrano & Azcorra (2018, <doi:10.1109/MCOM.2018.1700960>);
see 'citation("simmer")' for details.
Author: Inaki Ucar [aut, cph, cre] ,
Bart Smeets [aut, cph]
Maintainer: Inaki Ucar <iucar@fedoraproject.org>
Diff between simmer versions 4.4.6.4 dated 2024-07-05 and 4.4.7 dated 2024-09-27
DESCRIPTION | 8 MD5 | 84 - NAMESPACE | 2 NEWS.md | 14 R/RcppExports.R | 4 R/simmer-methods.R | 38 R/simmer.R | 5 R/trajectory-methods.R | 17 inst/doc/simmer-01-introduction.html | 160 +- inst/doc/simmer-02-jss.pdf |binary inst/doc/simmer-03-trajectories.html | 84 - inst/doc/simmer-04-bank-1.R | 20 inst/doc/simmer-04-bank-1.Rmd | 20 inst/doc/simmer-04-bank-1.html | 1014 ++++++------- inst/doc/simmer-04-bank-2.R | 24 inst/doc/simmer-04-bank-2.Rmd | 24 inst/doc/simmer-04-bank-2.html | 1300 ++++++++--------- inst/doc/simmer-05-simpy.html | 4 inst/doc/simmer-06-queueing.R | 3 inst/doc/simmer-06-queueing.Rmd | 3 inst/doc/simmer-06-queueing.html | 81 - inst/doc/simmer-07-ctmc.html | 4 inst/doc/simmer-08-philosophers.html | 4 inst/doc/simmer-aa-5G.html | 4 inst/include/simmer/process/arrival.h | 19 inst/include/simmer/process/datasrc.h | 58 inst/include/simmer/process/generator.h | 20 inst/include/simmer/process/source.h | 34 inst/include/simmer/resource.h | 14 man/Extract.trajectory.Rd | 4 man/get_n_generated.Rd | 17 man/simmer.Rd | 5 src/RcppExports.cpp | 12 src/process.cpp | 9 tests/testthat/test-simmer-dataframe.R | 32 tests/testthat/test-simmer-generator.R | 30 tests/testthat/test-simmer-resource.R | 27 tests/testthat/test-trajectory-clone-synchronize.R | 25 tests/testthat/test-trajectory-set-trajectory-source.R | 29 tests/testthat/test-trajectory.R | 10 vignettes/simmer-04-bank-1.Rmd | 20 vignettes/simmer-04-bank-2.Rmd | 24 vignettes/simmer-06-queueing.Rmd | 3 43 files changed, 1722 insertions(+), 1591 deletions(-)
Title: Dynamic Survey Sampling Solutions
Description: A robust solution employing the SRS (Simple Random Sampling),
systematic and PPS (Probability Proportional to Size) sampling
methods, ensuring a methodical and representative selection of data.
Seamlessly allocate predetermined allocations to smaller levels.
Author: Choerul Afifanto [aut, cre, cph]
Maintainer: Choerul Afifanto <choerulafifanto@gmail.com>
Diff between samplingin versions 1.1.0 dated 2024-05-11 and 1.1.1 dated 2024-09-27
DESCRIPTION | 6 MD5 | 14 +- NEWS.md | 8 - R/samplingin.R | 4 inst/doc/samplingin-example.R | 17 ++ inst/doc/samplingin-example.Rmd | 17 ++ inst/doc/samplingin-example.html | 252 +++++++++++++++++++++------------------ vignettes/samplingin-example.Rmd | 17 ++ 8 files changed, 205 insertions(+), 130 deletions(-)
Title: Vertical Profiles of Biological Signals in Weather Radar Data
Description: 'R' implementation of the 'vol2bird' software for generating vertical profiles
of birds and other biological signals in weather radar data. See Dokter et al.
(2011) <doi:10.1098/rsif.2010.0116> for a paper describing the methodology.
Author: Anders Henja [aut] ,
Adriaan M. Dokter [aut, cre] ,
Alexander Tedeschi [ctb] ,
Tsung-Yu Lin [ctb] ,
Subranshu Maji [ctb] ,
Daniel Sheldon [ctb] ,
Bart Kranstauber [ctb] ,
Jurriaan H. Spaaks [ctb] ,
Lourens Veen [ctb] ,
Iwan Holleman [ctb] ,
Hidde Lei [...truncated...]
Maintainer: Adriaan M. Dokter <vol2birdr@cornell.edu>
Diff between vol2birdR versions 1.0.4 dated 2024-08-22 and 1.0.5 dated 2024-09-27
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS.md | 12 +++++++++--- inst/COPYRIGHTS | 2 +- inst/doc/vol2birdR.html | 14 +++++++------- man/rsl2odim.Rd | 2 +- man/vol2bird.Rd | 2 +- src/Makevars.win | 9 +++++++++ src/libvol2bird/libvol2bird.c | 7 ++++++- 9 files changed, 46 insertions(+), 26 deletions(-)
Title: Tool-Kit for Dynamic Materials Model and Thermal Processing Maps
Description: Provides a simple approach for constructing dynamic materials
modeling suggested by Prasad and Gegel (1984) <doi:10.1007/BF02664902>. It
can easily generate various processing-maps based on this model as well. The
calculation result in this package contains full materials constants, information
about power dissipation efficiency factor, and rheological properties, can
be exported completely also, through which further analysis and customized
plots will be applicable as well.
Author: Chen, Zhang [aut, cre, cph] ,
Huakang, Bian [ctb],
Kenta, Yamanaka [ths] ,
Akihiko, Chiba [ths]
Maintainer: "Chen, Zhang" <chen.zhang_06sept@foxmail.com>
Diff between TPMplt versions 0.1.4 dated 2024-01-19 and 0.1.5 dated 2024-09-27
DESCRIPTION | 26 +++++++++++++------------- MD5 | 8 ++++---- R/TMZtester.API.R | 2 +- inst/doc/TPMplt-vignette.html | 4 ++-- man/API4TMZ.Rd | 2 +- 5 files changed, 21 insertions(+), 21 deletions(-)
Title: Cleans and Normalizes FLUOstar DBF and DAT Files from 'Liposome'
Flux Assays
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, cph] ,
Tesla Adeck [cph],
Amina Adeck [cph]
Maintainer: Tingwei Adeck <awesome.tingwei@outlook.com>
Diff between normfluodbf versions 1.5.2 dated 2023-11-28 and 2.0.0 dated 2024-09-27
normfluodbf-1.5.2/normfluodbf/R/actual_cols_used.R |only normfluodbf-1.5.2/normfluodbf/R/check_dirs.R |only normfluodbf-1.5.2/normfluodbf/R/clean_odd_cc.R |only normfluodbf-1.5.2/normfluodbf/R/clean_odddat_optimus.R |only normfluodbf-1.5.2/normfluodbf/R/comma_cleaner.R |only normfluodbf-1.5.2/normfluodbf/R/dat_col_names_horizontal.R |only normfluodbf-1.5.2/normfluodbf/R/dat_col_names_optimus.R |only normfluodbf-1.5.2/normfluodbf/R/dat_col_names_prime.R |only normfluodbf-1.5.2/normfluodbf/R/dat_col_names_rigid.R |only normfluodbf-1.5.2/normfluodbf/R/fluor_threshold_check.R |only normfluodbf-1.5.2/normfluodbf/R/ggplot_tnp.R |only normfluodbf-1.5.2/normfluodbf/R/norm_tidy_dbf.R |only normfluodbf-1.5.2/normfluodbf/R/normfluodat.R |only normfluodbf-1.5.2/normfluodbf/R/normfluodatfull.R |only normfluodbf-1.5.2/normfluodbf/R/normfluodatlite.R |only normfluodbf-1.5.2/normfluodbf/R/normfluordat.R |only normfluodbf-1.5.2/normfluodbf/R/normfluordbf.R |only normfluodbf-1.5.2/normfluodbf/R/ntdbf_subordinates.R |only normfluodbf-1.5.2/normfluodbf/R/resample_dat.R |only normfluodbf-1.5.2/normfluodbf/R/resample_dat_alt.R |only normfluodbf-1.5.2/normfluodbf/R/resample_dat_scale.R |only normfluodbf-1.5.2/normfluodbf/R/resample_dat_scale_alt.R |only normfluodbf-1.5.2/normfluodbf/R/resample_dat_scale_alt_bf.R |only normfluodbf-1.5.2/normfluodbf/R/resample_dat_scale_optimus.R |only normfluodbf-1.5.2/normfluodbf/R/time_attribute.R |only normfluodbf-1.5.2/normfluodbf/man/actual_cols_used.Rd |only normfluodbf-1.5.2/normfluodbf/man/check_dat.Rd |only normfluodbf-1.5.2/normfluodbf/man/check_dbf.Rd |only normfluodbf-1.5.2/normfluodbf/man/clean_odd_cc.Rd |only normfluodbf-1.5.2/normfluodbf/man/clean_odddat_optimus.Rd |only normfluodbf-1.5.2/normfluodbf/man/decimal_scaling.Rd |only normfluodbf-1.5.2/normfluodbf/man/fluor_threshold_check.Rd |only normfluodbf-1.5.2/normfluodbf/man/fluor_threshold_check_na.Rd |only normfluodbf-1.5.2/normfluodbf/man/fluor_threshold_check_raw.Rd |only normfluodbf-1.5.2/normfluodbf/man/generic_identifier.Rd |only normfluodbf-1.5.2/normfluodbf/man/ggplot_tnp.Rd |only normfluodbf-1.5.2/normfluodbf/man/log_transformation.Rd |only normfluodbf-1.5.2/normfluodbf/man/min_max_norm.Rd |only normfluodbf-1.5.2/normfluodbf/man/min_max_norm_percent.Rd |only normfluodbf-1.5.2/normfluodbf/man/norm_applier.Rd |only normfluodbf-1.5.2/normfluodbf/man/norm_tidy_dbf.Rd |only normfluodbf-1.5.2/normfluodbf/man/norm_z.Rd |only normfluodbf-1.5.2/normfluodbf/man/normfluodat.Rd |only normfluodbf-1.5.2/normfluodbf/man/normfluodatfull.Rd |only normfluodbf-1.5.2/normfluodbf/man/normfluodatlite.Rd |only normfluodbf-1.5.2/normfluodbf/man/normfluordat.Rd |only normfluodbf-1.5.2/normfluodbf/man/normfluordbf.Rd |only normfluodbf-1.5.2/normfluodbf/man/resample_dat.Rd |only normfluodbf-1.5.2/normfluodbf/man/resample_dat_alt.Rd |only normfluodbf-1.5.2/normfluodbf/man/resample_dat_scale.Rd |only normfluodbf-1.5.2/normfluodbf/man/resample_dat_scale_alt.Rd |only normfluodbf-1.5.2/normfluodbf/man/resample_dat_scale_alt_bf_na.Rd |only normfluodbf-1.5.2/normfluodbf/man/resample_dat_scale_alt_bfv.Rd |only normfluodbf-1.5.2/normfluodbf/man/resample_dat_scale_alt_na.Rd |only normfluodbf-1.5.2/normfluodbf/man/resample_dat_scale_naretainer.Rd |only normfluodbf-1.5.2/normfluodbf/man/resample_dat_scale_optimus.Rd |only normfluodbf-1.5.2/normfluodbf/man/resample_dat_scale_optimus_backend.Rd |only normfluodbf-1.5.2/normfluodbf/man/resample_dat_scale_optimus_na.Rd |only normfluodbf-1.5.2/normfluodbf/man/roundfluor.Rd |only normfluodbf-1.5.2/normfluodbf/man/time_attribute.Rd |only normfluodbf-1.5.2/normfluodbf/man/unique_identifier.Rd |only normfluodbf-1.5.2/normfluodbf/tests/testthat/test-liposomes_214.R |only normfluodbf-1.5.2/normfluodbf/tests/testthat/test-liposomes_215.R |only normfluodbf-2.0.0/normfluodbf/DESCRIPTION | 33 normfluodbf-2.0.0/normfluodbf/LICENSE | 4 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|only normfluodbf-2.0.0/normfluodbf/R/plate_utils.R |only normfluodbf-2.0.0/normfluodbf/R/plate_xy_variables.R |only normfluodbf-2.0.0/normfluodbf/R/plot.R |only normfluodbf-2.0.0/normfluodbf/R/plot_utils.R |only normfluodbf-2.0.0/normfluodbf/R/print_plate.R |only normfluodbf-2.0.0/normfluodbf/R/resample.R |only normfluodbf-2.0.0/normfluodbf/R/set_plate_type.R |only normfluodbf-2.0.0/normfluodbf/R/shiny.R |only normfluodbf-2.0.0/normfluodbf/R/source.R |only normfluodbf-2.0.0/normfluodbf/R/subset.R |only normfluodbf-2.0.0/normfluodbf/R/subset_utils.R |only normfluodbf-2.0.0/normfluodbf/R/utils.R |only normfluodbf-2.0.0/normfluodbf/R/wrangle_dat.R |only normfluodbf-2.0.0/normfluodbf/R/zzz.R |only normfluodbf-2.0.0/normfluodbf/README.md | 1230 ++++---- normfluodbf-2.0.0/normfluodbf/build/vignette.rds |binary normfluodbf-2.0.0/normfluodbf/inst/doc/normfluodbf.R | 38 normfluodbf-2.0.0/normfluodbf/inst/doc/normfluodbf.html | 820 ++--- normfluodbf-2.0.0/normfluodbf/inst/doc/test_file.R | 560 ++-- normfluodbf-2.0.0/normfluodbf/inst/doc/test_file.html | 1368 +++++----- normfluodbf-2.0.0/normfluodbf/inst/extdata/dat_1.dat | 720 ++--- normfluodbf-2.0.0/normfluodbf/inst/extdata/dat_2.dat | 720 ++--- normfluodbf-2.0.0/normfluodbf/inst/extdata/dat_3.dat | 720 ++--- normfluodbf-2.0.0/normfluodbf/inst/extdata/dat_4.dat | 718 ++--- normfluodbf-2.0.0/normfluodbf/inst/extdata/dat_5.dat | 236 - normfluodbf-2.0.0/normfluodbf/inst/extdata/dat_6.dat | 236 - normfluodbf-2.0.0/normfluodbf/inst/extdata/dat_7.dat | 236 - normfluodbf-2.0.0/normfluodbf/inst/sample_data |only normfluodbf-2.0.0/normfluodbf/inst/tutorials/install_normfluodbf/Quiz_normfluodbf.Rmd | 166 - normfluodbf-2.0.0/normfluodbf/man/Cache.Rd |only normfluodbf-2.0.0/normfluodbf/man/add_package_namespace.Rd |only normfluodbf-2.0.0/normfluodbf/man/analyze.Rd |only normfluodbf-2.0.0/normfluodbf/man/average_fluorescence_by_row_cycle.Rd |only normfluodbf-2.0.0/normfluodbf/man/capitalize.Rd |only 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normfluodbf-2.0.0/normfluodbf/man/liposomes_215.Rd | 32 normfluodbf-2.0.0/normfluodbf/man/liposomes_216.Rd | 32 normfluodbf-2.0.0/normfluodbf/man/liposomes_218.Rd | 32 normfluodbf-2.0.0/normfluodbf/man/liposomes_221.Rd | 32 normfluodbf-2.0.0/normfluodbf/man/liposomes_227.Rd | 32 normfluodbf-2.0.0/normfluodbf/man/loadplatedata.Rd |only normfluodbf-2.0.0/normfluodbf/man/loadplatemeta.Rd |only normfluodbf-2.0.0/normfluodbf/man/modifyplatedata.Rd |only normfluodbf-2.0.0/normfluodbf/man/move_file.Rd |only normfluodbf-2.0.0/normfluodbf/man/multiplot.Rd |only normfluodbf-2.0.0/normfluodbf/man/normalize.Rd |only normfluodbf-2.0.0/normfluodbf/man/normalize_liposome_fluor_dats.Rd |only normfluodbf-2.0.0/normfluodbf/man/normalizebywell.Rd |only normfluodbf-2.0.0/normfluodbf/man/normalizingagents.Rd |only normfluodbf-2.0.0/normfluodbf/man/normfluodbf-package.Rd |only normfluodbf-2.0.0/normfluodbf/man/normfluodbf_utils.Rd |only normfluodbf-2.0.0/normfluodbf/man/normfluodbfcomms.Rd |only normfluodbf-2.0.0/normfluodbf/man/normfluodbfplots.Rd |only normfluodbf-2.0.0/normfluodbf/man/parenttype.Rd |only normfluodbf-2.0.0/normfluodbf/man/plate.Rd |only normfluodbf-2.0.0/normfluodbf/man/plate_data_summary.Rd |only normfluodbf-2.0.0/normfluodbf/man/plate_types.Rd |only normfluodbf-2.0.0/normfluodbf/man/platedata.Rd |only normfluodbf-2.0.0/normfluodbf/man/platemeta.Rd |only normfluodbf-2.0.0/normfluodbf/man/platename.Rd |only normfluodbf-2.0.0/normfluodbf/man/plotutils.Rd |only normfluodbf-2.0.0/normfluodbf/man/printer.Rd |only normfluodbf-2.0.0/normfluodbf/man/quiet.Rd |only normfluodbf-2.0.0/normfluodbf/man/remove_leading_zero.Rd |only normfluodbf-2.0.0/normfluodbf/man/removeoutliers.Rd |only normfluodbf-2.0.0/normfluodbf/man/replace_word_in_file.Rd |only normfluodbf-2.0.0/normfluodbf/man/resample.Rd |only normfluodbf-2.0.0/normfluodbf/man/resamplescale.Rd |only normfluodbf-2.0.0/normfluodbf/man/sampledata.Rd |only normfluodbf-2.0.0/normfluodbf/man/saveloadutils.Rd |only normfluodbf-2.0.0/normfluodbf/man/set_assiette_type.Rd |only normfluodbf-2.0.0/normfluodbf/man/set_plate_type.Rd |only normfluodbf-2.0.0/normfluodbf/man/set_plate_version.Rd |only normfluodbf-2.0.0/normfluodbf/man/setparams.Rd |only normfluodbf-2.0.0/normfluodbf/man/setsteps.Rd |only normfluodbf-2.0.0/normfluodbf/man/source_files.Rd |only normfluodbf-2.0.0/normfluodbf/man/status.Rd |only normfluodbf-2.0.0/normfluodbf/man/stepspipeline.Rd |only normfluodbf-2.0.0/normfluodbf/man/stepsutils.Rd |only normfluodbf-2.0.0/normfluodbf/man/subset.Rd |only normfluodbf-2.0.0/normfluodbf/man/subsetutils.Rd |only normfluodbf-2.0.0/normfluodbf/man/testthatutils.Rd |only normfluodbf-2.0.0/normfluodbf/man/type.Rd |only normfluodbf-2.0.0/normfluodbf/man/uploadplatedata.Rd |only normfluodbf-2.0.0/normfluodbf/man/xycoordinates.Rd |only normfluodbf-2.0.0/normfluodbf/tests/testthat.R | 24 normfluodbf-2.0.0/normfluodbf/tests/testthat/test_normfluodat.R |only normfluodbf-2.0.0/normfluodbf/tests/testthat/test_normfluodbf.R |only normfluodbf-2.0.0/normfluodbf/tests/testthat/test_normfluordbf.R |only normfluodbf-2.0.0/normfluodbf/tests/testthat/test_pipeline.R |only normfluodbf-2.0.0/normfluodbf/tests/testthat/test_plot.R |only normfluodbf-2.0.0/normfluodbf/tests/testthat/test_plot_dev.R |only normfluodbf-2.0.0/normfluodbf/tests/testthat/test_there_operator.R |only normfluodbf-2.0.0/normfluodbf/tests/testthat/test_update_steps_status.R |only 212 files changed, 4768 insertions(+), 4453 deletions(-)
Title: Mixed Models for Repeated Measures
Description: Mixed models for repeated measures (MMRM) are a popular
choice for analyzing longitudinal continuous outcomes in randomized
clinical trials and beyond; see Cnaan, Laird and Slasor (1997)
<doi:10.1002/(SICI)1097-0258(19971030)16:20%3C2349::AID-SIM667%3E3.0.CO;2-E>
for a tutorial and Mallinckrodt, Lane, Schnell, Peng and Mancuso
(2008) <doi:10.1177/009286150804200402> for a review. This package
implements MMRM based on the marginal linear model without random
effects using Template Model Builder ('TMB') which enables fast and
robust model fitting. Users can specify a variety of covariance
matrices, weight observations, fit models with restricted or standard
maximum likelihood inference, perform hypothesis testing with
Satterthwaite or Kenward-Roger adjustment, and extract least square
means estimates by using 'emmeans'.
Author: Daniel Sabanes Bove [aut, cre]
,
Liming Li [aut],
Julia Dedic [aut],
Doug Kelkhoff [aut],
Kevin Kunzmann [aut],
Brian Matthew Lang [aut],
Christian Stock [aut],
Ya Wang [aut],
Craig Gower-Page [ctb],
Dan James [aut],
Jonathan Sidi [aut],
Daniel Leibo [...truncated...]
Maintainer: Daniel Sabanes Bove <daniel.sabanes_bove@rconis.com>
Diff between mmrm versions 0.3.13 dated 2024-09-23 and 0.3.14 dated 2024-09-27
mmrm-0.3.13/mmrm/man/h_tmb_warn_optimization.Rd |only mmrm-0.3.14/mmrm/DESCRIPTION | 13 ++++--- mmrm-0.3.14/mmrm/MD5 | 32 +++++++++---------- mmrm-0.3.14/mmrm/NEWS.md | 7 ++++ mmrm-0.3.14/mmrm/R/fit.R | 1 mmrm-0.3.14/mmrm/R/tmb.R | 2 - mmrm-0.3.14/mmrm/R/utils.R | 23 ++++++++----- mmrm-0.3.14/mmrm/build/partial.rdb |binary mmrm-0.3.14/mmrm/inst/WORDLIST | 1 mmrm-0.3.14/mmrm/inst/doc/between_within.html | 32 +++++++++---------- mmrm-0.3.14/mmrm/inst/doc/hypothesis_testing.html | 2 - mmrm-0.3.14/mmrm/inst/doc/introduction.html | 2 - mmrm-0.3.14/mmrm/inst/doc/mmrm_review_methods.html | 18 +++++----- mmrm-0.3.14/mmrm/man/h_tmb_warn_non_deterministic.Rd |only mmrm-0.3.14/mmrm/man/mmrm-package.Rd | 1 mmrm-0.3.14/mmrm/tests/testthat/helper-examples.R | 4 +- mmrm-0.3.14/mmrm/tests/testthat/test-fit.R | 18 ++++++++-- mmrm-0.3.14/mmrm/tests/testthat/test-utils.R | 15 ++++---- 18 files changed, 100 insertions(+), 71 deletions(-)
Title: Maximum Approximate Bernstein/Beta Likelihood Estimation
Description: Fit data from a continuous population with a smooth density on finite interval by an approximate Bernstein polynomial model which is a mixture of certain beta distributions and find maximum approximate Bernstein likelihood estimator of the unknown coefficients. Consequently, maximum likelihood estimates of the unknown density, distribution functions, and more can be obtained. If the support of the density is not the unit interval then transformation can be applied. This is an implementation of the methods proposed by the author of this package published in the Journal of Nonparametric Statistics: Guan (2016) <doi:10.1080/10485252.2016.1163349> and Guan (2017) <doi:10.1080/10485252.2017.1374384>. For data with covariates, under some semiparametric regression models such as Cox proportional hazards model and the accelerated failure time model, the baseline survival function can be estimated smoothly based on general interval censored data.
Author: Zhong Guan [aut, cre]
Maintainer: Zhong Guan <zguan@iu.edu>
Diff between mable versions 3.1.3 dated 2023-08-24 and 4.1.0 dated 2024-09-27
mable-3.1.3/mable/vignettes/chpt.bib |only mable-3.1.3/mable/vignettes/por-model.bib |only mable-3.1.3/mable/vignettes/wieand.bib |only mable-4.1.0/mable/DESCRIPTION | 21 mable-4.1.0/mable/MD5 | 103 mable-4.1.0/mable/NAMESPACE | 48 mable-4.1.0/mable/R/bivariate-copula.r |only mable-4.1.0/mable/R/mable-aft-model.r | 120 mable-4.1.0/mable/R/mable-copula.r |only mable-4.1.0/mable/R/mable-decon.r | 3 mable-4.1.0/mable/R/mable-dr.r | 18 mable-4.1.0/mable/R/mable-multivar.r | 245 - mable-4.1.0/mable/R/mable-ph-model.r | 1609 +++---- mable-4.1.0/mable/R/mable-po-model.r |only mable-4.1.0/mable/R/mable.r | 167 mable-4.1.0/mable/R/made.r |only mable-4.1.0/mable/build/vignette.rds |binary mable-4.1.0/mable/inst/doc/mable.R | 337 + mable-4.1.0/mable/inst/doc/mable.Rmd | 471 +- mable-4.1.0/mable/inst/doc/mable.pdf |binary mable-4.1.0/mable/man/chpt.exp.Rd |only mable-4.1.0/mable/man/copula2d.Rd |only mable-4.1.0/mable/man/copula2d.cond.Rd |only mable-4.1.0/mable/man/corr.hellinger.Rd |only mable-4.1.0/mable/man/dmixbeta.Rd | 2 mable-4.1.0/mable/man/dmixmvbeta.Rd | 98 mable-4.1.0/mable/man/dtmixbeta.Rd | 2 mable-4.1.0/mable/man/mable.Rd | 12 mable-4.1.0/mable/man/mable.aft.Rd | 23 mable-4.1.0/mable/man/mable.copula.Rd |only mable-4.1.0/mable/man/mable.ctrl.Rd | 2 mable-4.1.0/mable/man/mable.decon.Rd | 2 mable-4.1.0/mable/man/mable.dr.Rd | 4 mable-4.1.0/mable/man/mable.dr.group.Rd | 2 mable-4.1.0/mable/man/mable.group.Rd | 266 - mable-4.1.0/mable/man/mable.hellcorr.Rd |only mable-4.1.0/mable/man/mable.ic.Rd | 2 mable-4.1.0/mable/man/mable.mvar.Rd | 40 mable-4.1.0/mable/man/mable.ph.Rd | 15 mable-4.1.0/mable/man/mable.po.Rd |only mable-4.1.0/mable/man/mable.reg.Rd | 15 mable-4.1.0/mable/man/made.copula.Rd |only mable-4.1.0/mable/man/made.density.Rd |only mable-4.1.0/mable/man/made.mvar.Rd |only mable-4.1.0/mable/man/madem.copula.Rd |only mable-4.1.0/mable/man/madem.density.Rd |only mable-4.1.0/mable/man/maple.aft.Rd | 21 mable-4.1.0/mable/man/maple.dr.Rd | 4 mable-4.1.0/mable/man/maple.dr.group.Rd | 4 mable-4.1.0/mable/man/maple.ph.Rd | 287 - mable-4.1.0/mable/man/maple.po.Rd |only mable-4.1.0/mable/man/momodem.Rd | 2 mable-4.1.0/mable/man/mvecdf.Rd |only mable-4.1.0/mable/man/mvpbeta.Rd |only mable-4.1.0/mable/man/optimable.Rd | 6 mable-4.1.0/mable/man/plot.mable.Rd | 5 mable-4.1.0/mable/man/plot.mable_reg.Rd | 2 mable-4.1.0/mable/man/summary.mable.Rd | 6 mable-4.1.0/mable/man/umc.mat.Rd |only mable-4.1.0/mable/man/weib.gpo.Rd |only mable-4.1.0/mable/src/mable.c | 6726 +++++++++++++++++++----------- mable-4.1.0/mable/src/mable_init.c | 89 mable-4.1.0/mable/vignettes/bernstein.bib | 2628 +++++++++++ mable-4.1.0/mable/vignettes/mable.Rmd | 471 +- mable-4.1.0/mable/vignettes/mable.html |only 65 files changed, 9744 insertions(+), 4134 deletions(-)
Title: Procedures for Gaussian and Non Gaussian Geostatistical (Large)
Data Analysis
Description: Functions for Gaussian and Non Gaussian (bivariate) spatial and spatio-temporal data analysis are provided for a) (fast) simulation of random fields, b) inference for random fields using standard likelihood and a likelihood approximation method called weighted composite likelihood based on pairs and b) prediction using (local) best linear unbiased prediction. Weighted composite likelihood can be very efficient for estimating massive datasets. Both regression and spatial (temporal) dependence analysis can be jointly performed. Flexible covariance models for spatial and spatial-temporal data on Euclidean domains and spheres are provided. There are also many useful functions for plotting and performing diagnostic analysis. Different non Gaussian random fields can be considered in the analysis. Among them, random fields with marginal distributions such as Skew-Gaussian, Student-t, Tukey-h, Sin-Arcsin, Two-piece, Weibull, Gamma, Log-Gaussian, Binomial, Negative Binomial and Poisson. Se [...truncated...]
Author: Moreno Bevilacqua [aut, cre] ,
Victor Morales-Onate [aut] ,
Christian Caamano-Carrillo [aut]
Maintainer: Moreno Bevilacqua <moreno.bevilacqua89@gmail.com>
Diff between GeoModels versions 2.0.4 dated 2024-07-09 and 2.0.5 dated 2024-09-27
DESCRIPTION | 8 MD5 | 92 ++--- NAMESPACE | 2 R/GeoCV.R | 187 +++++++++-- R/GeoCompositeLik2.R | 140 +------- R/GeoCorrFct.r | 11 R/GeoCovDisplay.R | 4 R/GeoCovariogram.r | 180 +++++++---- R/GeoCovmatrix.r | 95 ++--- R/GeoFit.r | 14 R/GeoFit2.R | 10 R/GeoKrig.r | 7 R/GeoLik.r | 80 ++++- R/GeoNeighIndex.R | 2 R/GeoQQ.R | 45 ++ R/GeoScatterplot.R | 2 R/GeoSimCopula.R | 45 ++ R/GeoSimapprox.r | 157 --------- R/GeoVariogram.r | 160 +++++----- R/SimCE.R | 61 +++ R/TB.R |only R/Utility.r | 5 R/zzz.R |only data/Jamaicatemp.RData |binary data/anomalies.rda |binary data/austemp.rda |binary data/madagascarph.rda |binary data/spanish_wind.rda |binary data/winds.coords.rda |binary data/winds.rda |binary man/GeoCV.Rd | 2 man/GeoCorrFct.Rd | 16 - man/GeoSimCopula.Rd | 7 src/CompositeLikelihood2.c | 529 +++++++++++++++------------------ src/CompositeLikelihood2_ani.c | 156 ++++----- src/CompositeLikelihoodCond2.c | 428 ++++++++++++-------------- src/CompositeLikelihoodCond2_ani.c | 203 ++++-------- src/CorrelationFunction.c | 272 +++++++++-------- src/Distributions.c | 592 ++++++++++++++++--------------------- src/GeoModels_init.c | 5 src/Godambe.c | 194 ++++++------ src/Gradient.c | 142 ++++---- src/TB.c | 225 ++++++++++++-- src/Utility.c | 3 src/header.h | 32 -- src/mvndstpack.f | 9 src/specfun.f | 35 +- src/weightedleastsquare.c | 95 ++--- 48 files changed, 2192 insertions(+), 2060 deletions(-)
Title: Tidy Flowchart Generator
Description: Creates participant flow diagrams directly from a dataframe. Representing the flow of participants through each stage of a study, especially in clinical trials, is essential to assess the generalisability and validity of the results. This package provides a set of functions that can be combined with a pipe operator to create all kinds of flowcharts from a data frame in an easy way.
Author: Pau Satorra [aut, cre] ,
Joao Carmezim [aut] ,
Natalia Pallares [aut] ,
Cristian Tebe [aut]
Maintainer: Pau Satorra <psatorra@igtp.cat>
Diff between flowchart versions 0.5.0 dated 2024-09-26 and 0.5.1 dated 2024-09-27
flowchart-0.5.0/flowchart/LICENSE |only flowchart-0.5.1/flowchart/DESCRIPTION | 8 ++++---- flowchart-0.5.1/flowchart/MD5 | 7 +++---- flowchart-0.5.1/flowchart/NEWS.md | 5 +++++ flowchart-0.5.1/flowchart/README.md | 4 ++-- 5 files changed, 14 insertions(+), 10 deletions(-)
Title: Supplementary Tools for R Packages Developers
Description: Supplementary utils for CRAN maintainers and R packages developers.
Validating the library, packages and lock files.
Exploring a complexity of a specific package like evaluating its size in bytes with all dependencies.
The shiny app complexity could be explored too.
Assessing the life duration of a specific package version.
Checking a CRAN package check page status for any errors and warnings.
Retrieving a DESCRIPTION or NAMESPACE file for any package version.
Comparing DESCRIPTION or NAMESPACE files between different package versions.
Getting a list of all releases for a specific package.
The Bioconductor is partly supported.
Author: Maciej Nasinski [aut, cre]
Maintainer: Maciej Nasinski <nasinski.maciej@gmail.com>
Diff between pacs versions 0.5.1 dated 2023-08-18 and 0.6.0 dated 2024-09-27
DESCRIPTION | 8 - MD5 | 62 ++++--- NAMESPACE | 2 NEWS.md | 9 + R/check.R | 26 ++- R/comapre.R | 89 ++++++++++- R/deps.R | 7 R/deps_timemachine.R | 6 R/description.R | 11 - R/namespace.R | 10 - R/news.R |only R/read_cran_file.R |only R/read_github_file.R |only R/template_args.R | 1 R/utils.R | 44 ----- R/utils_validate.R |only build/vignette.rds |binary inst/doc/GettingStarted.R | 2 inst/doc/GettingStarted.html | 272 +++++++++++++++++------------------ inst/doc/tinyverse.R | 2 inst/doc/tinyverse.Rmd | 44 ++--- inst/doc/tinyverse.html | 90 +++++------ man/pac_compare_news.Rd |only man/pac_news.Rd |only man/read_cran_file.Rd |only man/read_github_file.Rd |only man/standard_args.Rd | 2 man/validate_compare_input.Rd |only man/validate_pac_input.Rd |only tests/testthat/test-check.R | 6 tests/testthat/test-compare.R | 15 + tests/testthat/test-deps.R | 6 tests/testthat/test-description.R | 11 - tests/testthat/test-namespace.R | 4 tests/testthat/test-news.R |only tests/testthat/test-read_cran.R |only tests/testthat/test-read_github.R |only tests/testthat/test-validate_input.R |only vignettes/tinyverse.Rmd | 44 ++--- 39 files changed, 419 insertions(+), 354 deletions(-)
Title: Generalized Dissimilarity Modeling
Description: A toolkit with functions to fit, plot, summarize, and apply Generalized Dissimilarity Models. Mokany K, Ware C, Woolley SNC, Ferrier S, Fitzpatrick MC (2022) <doi:10.1111/geb.13459> Ferrier S, Manion G, Elith J, Richardson K (2007) <doi:10.1111/j.1472-4642.2007.00341.x>.
Author: Matt Fitzpatrick [aut, cre] ,
Karel Mokany [aut] ,
Glenn Manion [aut],
Diego Nieto-Lugilde [aut] ,
Simon Ferrier [aut] ,
Roozbeh Valavi [ctb],
Matthew Lisk [ctb],
Chris Ware [ctb],
Skip Woolley [ctb],
Tom Harwood [ctb]
Maintainer: Matt Fitzpatrick <mfitzpatrick@umces.edu>
Diff between gdm versions 1.6.0-1 dated 2024-09-10 and 1.6.0-2 dated 2024-09-27
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 8 ++++++-- R/gdm.crossvalidation.R | 26 +++++++++++++++----------- R/gdm.fit.R | 2 +- R/gdm.single.crossvalidation.R | 18 +++++++++++++----- man/gdm.crossvalidation.Rd | 14 +++++++------- 7 files changed, 52 insertions(+), 36 deletions(-)
Title: Extraction and Analysis of Data from the Bitcoin Cash (BCH)
Blockchain
Description: Issues RPC-JSON calls to 'bitcoind', the daemon of Bitcoin Cash (BCH), to
extract transaction data from the blockchain. BCH is a fork of Bitcoin that permits
a greater number of transactions per second. A BCH daemon is available under an MIT
license from the Bitcoin Unlimited website <https://www.bitcoinunlimited.info>.
Author: Rucknium [cre, aut, cph] ,
Bernhard Pfaff [aut, cph]
Maintainer: Rucknium <Rucknium@protonmail.com>
Diff between rbch versions 0.1-1 dated 2022-01-10 and 0.1-2 dated 2024-09-27
DESCRIPTION | 12 ++++----- MD5 | 54 +++++++++++++++++++++---------------------- R/BlockchainRpcs.R | 3 -- R/EllipticCurves.R | 10 +++---- R/RawTransactions.R | 3 -- man/decodescript.Rd | 4 +-- man/ecoperators-methods.Rd | 10 +++---- man/getbestblockhash.Rd | 4 +-- man/getblock.Rd | 12 +++------ man/getblockchaininfo.Rd | 4 +-- man/getblockcount.Rd | 4 +-- man/getblockhash.Rd | 4 +-- man/getblockheader.Rd | 4 +-- man/getchaintips.Rd | 4 +-- man/getchaintxstats.Rd | 4 +-- man/getdifficulty.Rd | 4 +-- man/getmempoolancestors.Rd | 4 +-- man/getmempooldescendants.Rd | 4 +-- man/getmempoolentry.Rd | 4 +-- man/getmempoolinfo.Rd | 4 +-- man/getrawmempool.Rd | 4 +-- man/getrawtransaction.Rd | 8 ++---- man/gettxout.Rd | 2 - man/gettxoutproof.Rd | 4 +-- man/gettxoutsetinfo.Rd | 4 +-- man/pruneblockchain.Rd | 4 +-- man/verifychain.Rd | 4 +-- man/verifytxoutproof.Rd | 4 +-- 28 files changed, 92 insertions(+), 98 deletions(-)
Title: Interface to the 'PubChem' Database for Chemical Data Retrieval
Description: Provides an interface to the 'PubChem' database via the PUG REST <https://pubchem.ncbi.nlm.nih.gov/docs/pug-rest> and
PUG View <https://pubchem.ncbi.nlm.nih.gov/docs/pug-view> services. This package allows users to automatically
access chemical and biological data from 'PubChem', including compounds, substances, assays, and various other data types.
Functions are available to retrieve data in different formats, perform searches, and access detailed annotations.
Author: Selcuk Korkmaz [aut, cre] ,
Bilge Eren Yamasan [aut] ,
Dincer Goksuluk [aut]
Maintainer: Selcuk Korkmaz <selcukorkmaz@gmail.com>
Diff between PubChemR versions 2.0.1 dated 2024-08-21 and 2.1 dated 2024-09-27
DESCRIPTION | 6 MD5 | 68 R/get_aids.R | 62 R/get_all_sources.R | 15 R/get_assays.R | 73 R/get_cids.R | 62 R/get_compounds.R | 100 R/get_json.R | 59 R/get_properties.R | 78 R/get_pubchem.R | 111 R/get_pug_rest.R | 171 R/get_pug_view.R | 68 R/get_sdf.R | 76 R/get_sids.R | 64 R/get_substances.R | 73 R/get_synonyms.R | 66 inst/doc/Enhancing_Chemical_Data_Access_with_PubChemR.html | 501 -- inst/doc/Exploring_Chemical_Data_with_PubChemR.html | 2273 ++++++------ inst/doc/Working_with_PubChemR_to_Access_Chemical_Data.R | 40 inst/doc/Working_with_PubChemR_to_Access_Chemical_Data.Rmd | 8 inst/doc/Working_with_PubChemR_to_Access_Chemical_Data.html | 1576 ++++---- man/get_aids.Rd | 58 man/get_all_sources.Rd | 14 man/get_assays.Rd | 74 man/get_cids.Rd | 58 man/get_compounds.Rd | 76 man/get_properties.Rd | 75 man/get_pug_rest.Rd | 167 man/get_pug_view.Rd | 70 man/get_sdf.Rd | 74 man/get_sids.Rd | 60 man/get_substances.Rd | 74 man/get_synonyms.Rd | 62 tests/testthat/test-get_properties.R | 14 vignettes/Working_with_PubChemR_to_Access_Chemical_Data.Rmd | 8 35 files changed, 3881 insertions(+), 2553 deletions(-)
Title: Produces an Odds Ratio Plot from a Logistic Regression Model
Description: Produces an Odds Ratio (OR) Plot to visualise the result of a
logistic regression analysis.
Provide it with a binomial regression model produced by 'glm()' and it will
convert the estimates to odds ratios with a 95% confidence interval and
plot the results using 'ggplot2'.
Author: Craig Parylo [aut, cre, cph]
Maintainer: Craig Parylo <craig.parylo2@nhs.net>
Diff between plotor versions 0.4.1 dated 2024-06-18 and 0.5.1 dated 2024-09-27
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 9 ++++----- R/plot_or.R | 15 ++++++++++----- README.md | 1 + build/vignette.rds |binary inst/doc/using_plotor.html | 16 ++++++++-------- 7 files changed, 33 insertions(+), 28 deletions(-)
Title: Bayesian Longitudinal Regularized Quantile Mixed Model
Description: In longitudinal studies, the same subjects are measured repeatedly over time, leading to correlations among the repeated measurements. Properly accounting for the intra-cluster correlations in the presence of data heterogeneity and long tailed distributions of the disease phenotype is challenging, especially in the context of high dimensional regressions. Here, we aim at developing novel Bayesian regularized quantile mixed effect models to tackle these challenges. We have proposed a Bayesian variable selection in the mixed effect models for longitudinal genomics studies. To dissect important gene - environment interactions, our model can simultaneously identify important main and interaction effects on the individual and group level, which have been facilitated by imposing the spike- and -slab priors through Laplacian shrinkage in the Bayesian quantile hierarchical models. The within - subject dependence among data can be accommodated by incorporating the random effects. An efficient G [...truncated...]
Author: Kun Fan [aut, cre],
Cen Wu [aut]
Maintainer: Kun Fan <kfan@ksu.edu>
Diff between mixedBayes versions 0.1.2 dated 2024-02-16 and 0.1.3 dated 2024-09-27
mixedBayes-0.1.2/mixedBayes/R/LONBGLSS1.R |only mixedBayes-0.1.2/mixedBayes/R/LONRBGLSS1.R |only mixedBayes-0.1.2/mixedBayes/src/BGL1.cpp |only mixedBayes-0.1.2/mixedBayes/src/BGLSS1.cpp |only mixedBayes-0.1.2/mixedBayes/src/BL1.cpp |only mixedBayes-0.1.2/mixedBayes/src/BLSS1.cpp |only mixedBayes-0.1.2/mixedBayes/src/RBGL1.cpp |only mixedBayes-0.1.2/mixedBayes/src/RBGLSS1.cpp |only mixedBayes-0.1.2/mixedBayes/src/RBL1.cpp |only mixedBayes-0.1.2/mixedBayes/src/RBLSS1.cpp |only mixedBayes-0.1.3/mixedBayes/DESCRIPTION | 10 mixedBayes-0.1.3/mixedBayes/MD5 | 52 - mixedBayes-0.1.3/mixedBayes/R/LONBGLSS.R | 37 - mixedBayes-0.1.3/mixedBayes/R/LONRBGLSS.R | 118 +-- mixedBayes-0.1.3/mixedBayes/R/RcppExports.R | 64 - mixedBayes-0.1.3/mixedBayes/R/data.R | 10 mixedBayes-0.1.3/mixedBayes/R/mixedBayes-package.R | 4 mixedBayes-0.1.3/mixedBayes/R/mixedBayes.R | 21 mixedBayes-0.1.3/mixedBayes/build/partial.rdb |binary mixedBayes-0.1.3/mixedBayes/data/data.rda |binary mixedBayes-0.1.3/mixedBayes/man/data.Rd | 10 mixedBayes-0.1.3/mixedBayes/man/mixedBayes-package.Rd | 3 mixedBayes-0.1.3/mixedBayes/man/mixedBayes.Rd | 18 mixedBayes-0.1.3/mixedBayes/src/BGL.cpp | 383 ++++------- mixedBayes-0.1.3/mixedBayes/src/BGLSS.cpp | 456 +++++--------- mixedBayes-0.1.3/mixedBayes/src/BL.cpp | 365 ++++------- mixedBayes-0.1.3/mixedBayes/src/BLSS.cpp | 443 +++++-------- mixedBayes-0.1.3/mixedBayes/src/RBGL.cpp | 301 +++------ mixedBayes-0.1.3/mixedBayes/src/RBGLSS.cpp | 292 +++------ mixedBayes-0.1.3/mixedBayes/src/RBL.cpp | 305 +++------ mixedBayes-0.1.3/mixedBayes/src/RBLSS.cpp | 306 +++------ mixedBayes-0.1.3/mixedBayes/src/RcppExports.cpp | 578 ++++-------------- 32 files changed, 1347 insertions(+), 2429 deletions(-)
Title: Linear Model with Breakpoint
Description: Exact significance tests for a changepoint in linear or multiple linear regression.
Confidence regions with exact coverage probabilities for the changepoint. Based on
Knowles, Siegmund and Zhang (1991) <doi:10.1093/biomet/78.1.15>.
Author: Marc Adams [aut, cre],
authors of R function 'lm' [ctb] ,
authors of 'lm.gls' [ctb] ,
U.S. NIST [ctb]
Maintainer: Marc Adams <lm.br.pkg@gmail.com>
Diff between lm.br versions 2.9.7 dated 2024-02-17 and 2.9.8 dated 2024-09-27
DESCRIPTION | 8 ++-- MD5 | 40 +++++++++++------------ build/vignette.rds |binary inst/doc/lm.br.pdf |binary man/lm.br_internal.Rd | 7 ++-- src/R_interface.cpp | 16 ++++----- src/bisect.cpp | 2 - src/ci.cpp | 8 ++-- src/cr.cpp | 10 ++--- src/geo.cpp | 24 ++++++------- src/initialize.cpp | 86 +++++++++++++++++++++++++------------------------- src/lmbr.cpp | 60 +++++++++++++++++----------------- src/pre_calc.cpp | 26 +++++++-------- src/set_Q.cpp | 12 +++--- src/set_Sigma.cpp | 14 ++++---- src/set_sy.cpp | 8 ++-- src/set_theta0.cpp | 14 ++++---- src/set_y.cpp | 4 +- src/sl.cpp | 4 +- src/sl_geo.cpp | 6 +-- src/tnt_vector.h | 4 +- 21 files changed, 177 insertions(+), 176 deletions(-)
Title: Detecting Influence Paths with Information Theory
Description: Traces information spread through interactions between features, utilising information theory measures and a higher-order generalisation of the concept of widest paths in graphs.
In particular, 'vistla' can be used to better understand the results of high-throughput biomedical experiments, by organising the effects of the investigated intervention in a tree-like hierarchy from direct to indirect ones, following the plausible information relay circuits.
Due to its higher-order nature, 'vistla' can handle multi-modality and assign multiple roles to a single feature.
Author: Miron B. Kursa [aut, cre]
Maintainer: Miron B. Kursa <m@mbq.me>
Diff between vistla versions 2.0.2 dated 2024-06-06 and 2.0.3 dated 2024-09-27
DESCRIPTION | 6 +++--- MD5 | 34 +++++++++++++++++----------------- R/data.R | 10 ++++++---- R/ensemble.R | 2 +- R/flow.R | 8 ++++---- R/paths.R | 2 +- R/vistla.R | 2 +- data/junction.rda |binary inst/NEWS | 7 +++++++ man/ensemble.Rd | 2 +- man/junction.Rd | 10 ++++++---- src/convert.h | 6 +++--- src/heap.h | 32 ++++++++++++++++---------------- src/ht.h | 8 ++++---- src/ingest.h | 20 ++++++++++---------- src/shared.h | 10 +++++----- src/trie.h | 22 +++++++++++----------- src/vistla.h | 4 ++-- 18 files changed, 98 insertions(+), 87 deletions(-)
Title: Analyzing Gastric Emptying from MRI or Scintigraphy
Description: Fits gastric emptying time series from MRI or 'scintigraphic' measurements
using nonlinear mixed-model population fits with 'nlme' and Bayesian methods with
Stan; computes derived parameters such as t50 and AUC.
Author: Dieter Menne [aut, cre]
Maintainer: Dieter Menne <dieter.menne@menne-biomed.de>
Diff between gastempt versions 0.5.5 dated 2022-05-02 and 0.6.1 dated 2024-09-27
gastempt-0.5.5/gastempt/src/Makevars |only gastempt-0.5.5/gastempt/src/Makevars.win |only gastempt-0.5.5/gastempt/tools |only gastempt-0.6.1/gastempt/DESCRIPTION | 22 gastempt-0.6.1/gastempt/MD5 | 48 gastempt-0.6.1/gastempt/R/simulate_gastempt.R | 2 gastempt-0.6.1/gastempt/README.md | 7 gastempt-0.6.1/gastempt/build/vignette.rds |binary gastempt-0.6.1/gastempt/inst/doc/gastempt.html | 18 gastempt-0.6.1/gastempt/inst/shiny/global.R | 29 gastempt-0.6.1/gastempt/inst/shiny/server.R | 41 gastempt-0.6.1/gastempt/inst/shiny/ui.R | 67 gastempt-0.6.1/gastempt/inst/stan/linexp_gastro_1b.stan | 4 gastempt-0.6.1/gastempt/inst/stan/linexp_gastro_2b.stan | 4 gastempt-0.6.1/gastempt/inst/stan/powexp_gastro_1b.stan | 4 gastempt-0.6.1/gastempt/inst/stan/powexp_gastro_2c.stan | 2 gastempt-0.6.1/gastempt/man/simulate_gastempt.Rd | 2 gastempt-0.6.1/gastempt/src/stanExports_linexp_gastro_1b.h | 1225 +++--- gastempt-0.6.1/gastempt/src/stanExports_linexp_gastro_2b.h | 1825 +++++----- gastempt-0.6.1/gastempt/src/stanExports_powexp_gastro_1b.h | 1224 +++--- gastempt-0.6.1/gastempt/src/stanExports_powexp_gastro_2c.h | 1814 +++++---- gastempt-0.6.1/gastempt/tests/testthat/_snaps/graphics/nlme-gastempt.svg | 657 +-- gastempt-0.6.1/gastempt/tests/testthat/test-fitnlme.R | 16 gastempt-0.6.1/gastempt/tests/testthat/test-fitparams.R | 24 gastempt-0.6.1/gastempt/tests/testthat/test-graphics.R | 3 gastempt-0.6.1/gastempt/tests/testthat/test-stan.R | 23 26 files changed, 3764 insertions(+), 3297 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-12 2.0.1
2021-04-07 2.0.0
2017-06-08 1.3
2016-06-21 1.2
2016-05-04 1.1
2016-04-26 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-09-19 0.1-1
Title: Modular Cohort-Building Framework for Analytical Dashboards
Description: You can easily add advanced cohort-building component
to your analytical dashboard or simple 'Shiny' app.
Then you can instantly start building cohorts using multiple
filters of different types, filtering datasets, and filtering steps.
Filters can be complex and data-specific, and together
with multiple filtering steps you can use complex filtering rules.
The cohort-building sidebar panel allows you to easily
work with filters, add and remove filtering steps.
It helps you with handling missing values during filtering,
and provides instant filtering feedback with filter feedback plots.
The GUI panel is not only compatible with native shiny
bookmarking, but also provides reproducible R code.
Author: Krystian Igras [cre, aut],
Kamil Wais [aut],
Adam Forys [ctb]
Maintainer: Krystian Igras <krystian8207@gmail.com>
Diff between shinyCohortBuilder versions 0.2.1 dated 2023-08-28 and 0.3.0 dated 2024-09-27
DESCRIPTION | 20 ++++--- MD5 | 73 ++++++++++++++------------- NAMESPACE | 5 + NEWS.md | 15 +++++ R/actions.R | 99 ++++++++++++++++++++++++------------- R/app.R | 61 +++++++++++++++-------- R/filter_date_range.R | 2 R/filter_discrete.R | 69 ++++++++------------------ R/filter_discrete_text.R | 31 ++++++++--- R/filter_multi_discrete.R | 37 +++++--------- R/filter_query.R |only R/filter_range.R | 2 R/renders.R | 70 ++++++++++++++------------ R/shinyCohortBuilder-package.R | 12 ++-- R/source_tblist.R | 15 +++-- R/ui_utils.R | 103 ++++++++++++++++++++++++++++++++++++--- README.md | 2 inst/doc/custom-gui-layer.R | 22 ++++---- inst/doc/gui-filter-layer.R | 36 ++++++------- inst/doc/package-options.R | 2 inst/doc/package-options.Rmd | 21 +++++++ inst/doc/package-options.html | 23 ++++++++ inst/doc/shinyCohortBuilder.R | 10 +-- inst/doc/shinyCohortBuilder.html | 10 +-- inst/doc/updating-source.R | 6 +- inst/www/scb.css | 69 ++++++++++++++++++++------ inst/www/scb.js | 13 +++- inst/www/scb.min.css | 2 inst/www/scb.min.js | 2 man/cb_changed.Rd |only man/demo_app.Rd | 13 +++- man/gui-filter-layer.Rd | 17 +++--- man/gui.Rd | 2 man/rendering-step-attrition.Rd | 4 - man/scb_chart_palette.Rd |only man/scb_icons.Rd |only man/scb_labels.Rd |only man/source-gui-layer.Rd | 12 ++-- man/trigger-action.Rd | 24 ++++----- vignettes/package-options.Rmd | 21 +++++++ 40 files changed, 599 insertions(+), 326 deletions(-)
More information about shinyCohortBuilder at CRAN
Permanent link
Title: Confirmatory Adaptive Clinical Trial Design and Analysis
Description: Design and analysis of confirmatory adaptive clinical trials with continuous, binary, and survival endpoints according to the methods described in the monograph by Wassmer and Brannath (2016) <doi:10.1007/978-3-319-32562-0>. This includes classical group sequential as well as multi-stage adaptive hypotheses tests that are based on the combination testing principle.
Author: Gernot Wassmer [aut] ,
Friedrich Pahlke [aut, cre] ,
Till Jensen [ctb],
Stephen Schueuerhuis [ctb],
Tobias Muetze [ctb]
Maintainer: Friedrich Pahlke <friedrich.pahlke@rpact.com>
Diff between rpact versions 4.0.0 dated 2024-05-31 and 4.1.0 dated 2024-09-27
rpact-4.0.0/rpact/man/SimulationResultsBaseCountData.Rd |only rpact-4.1.0/rpact/DESCRIPTION | 12 rpact-4.1.0/rpact/MD5 | 370 rpact-4.1.0/rpact/NAMESPACE | 15 rpact-4.1.0/rpact/NEWS.md | 23 rpact-4.1.0/rpact/R/class_analysis_dataset.R | 160 rpact-4.1.0/rpact/R/class_analysis_results.R | 263 rpact-4.1.0/rpact/R/class_analysis_stage_results.R | 75 rpact-4.1.0/rpact/R/class_core_parameter_set.R | 613 - rpact-4.1.0/rpact/R/class_core_plot_settings.R | 8 rpact-4.1.0/rpact/R/class_design.R | 147 rpact-4.1.0/rpact/R/class_design_plan.R | 104 rpact-4.1.0/rpact/R/class_design_power_and_asn.R | 16 rpact-4.1.0/rpact/R/class_design_set.R | 248 rpact-4.1.0/rpact/R/class_dictionary.R | 12 rpact-4.1.0/rpact/R/class_event_probabilities.R | 119 rpact-4.1.0/rpact/R/class_simulation_results.R | 22 rpact-4.1.0/rpact/R/class_summary.R | 1799 +-- rpact-4.1.0/rpact/R/class_time.R | 26 rpact-4.1.0/rpact/R/f_analysis_base.R | 314 rpact-4.1.0/rpact/R/f_analysis_base_means.R | 545 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rpact-4.1.0/rpact/man/knit_print.FieldSet.Rd |only rpact-4.1.0/rpact/man/knit_print.ParameterSet.Rd | 31 rpact-4.1.0/rpact/man/knit_print.SummaryFactory.Rd | 30 rpact-4.1.0/rpact/man/length.TrialDesignSet.Rd | 2 rpact-4.1.0/rpact/man/mvstud.Rd | 2 rpact-4.1.0/rpact/man/names.TrialDesignSet.Rd | 2 rpact-4.1.0/rpact/man/plot.Dataset.Rd | 4 rpact-4.1.0/rpact/man/plot.EventProbabilities.Rd | 2 rpact-4.1.0/rpact/man/plot.NumberOfSubjects.Rd | 2 rpact-4.1.0/rpact/man/plot.SimulationResults.Rd | 2 rpact-4.1.0/rpact/man/plot.StageResults.Rd | 5 rpact-4.1.0/rpact/man/plot.TrialDesign.Rd | 2 rpact-4.1.0/rpact/man/plot.TrialDesignSummaries.Rd |only rpact-4.1.0/rpact/man/print.Dataset.Rd | 2 rpact-4.1.0/rpact/man/print.FieldSet.Rd | 9 rpact-4.1.0/rpact/man/print.SummaryFactory.Rd | 4 rpact-4.1.0/rpact/man/print.TrialDesignCharacteristics.Rd | 2 rpact-4.1.0/rpact/man/print.TrialDesignSummaries.Rd |only rpact-4.1.0/rpact/man/printCitation.Rd | 4 rpact-4.1.0/rpact/man/readDatasets.Rd | 2 rpact-4.1.0/rpact/man/setOutputFormat.Rd | 3 rpact-4.1.0/rpact/man/summary.ParameterSet.Rd | 4 rpact-4.1.0/rpact/man/utilitiesForPiecewiseExponentialDistribution.Rd | 2 rpact-4.1.0/rpact/src/f_design_fisher_combination_test.cpp | 26 rpact-4.1.0/rpact/src/f_simulation_base_means.cpp | 8 rpact-4.1.0/rpact/src/f_simulation_base_rates.cpp | 13 rpact-4.1.0/rpact/src/f_simulation_base_survival.cpp | 8 rpact-4.1.0/rpact/tests/testthat/test-class_analysis_dataset.R | 2074 +-- rpact-4.1.0/rpact/tests/testthat/test-class_core_parameter_set.R | 89 rpact-4.1.0/rpact/tests/testthat/test-class_design_plan.R | 45 rpact-4.1.0/rpact/tests/testthat/test-class_design_set.R | 9 rpact-4.1.0/rpact/tests/testthat/test-class_dictionary.R | 23 rpact-4.1.0/rpact/tests/testthat/test-class_summary.R | 8 rpact-4.1.0/rpact/tests/testthat/test-class_time.R | 38 rpact-4.1.0/rpact/tests/testthat/test-design_direction_upper.R |only rpact-4.1.0/rpact/tests/testthat/test-f_analysis_base_means.R | 4159 +++--- rpact-4.1.0/rpact/tests/testthat/test-f_analysis_base_rates.R | 5182 ++++---- rpact-4.1.0/rpact/tests/testthat/test-f_analysis_base_survival.R | 6 rpact-4.1.0/rpact/tests/testthat/test-f_analysis_enrichment_means.R | 330 rpact-4.1.0/rpact/tests/testthat/test-f_analysis_enrichment_rates.R | 1414 +- rpact-4.1.0/rpact/tests/testthat/test-f_analysis_enrichment_survival.R | 1091 - rpact-4.1.0/rpact/tests/testthat/test-f_analysis_multiarm_means.R | 9 rpact-4.1.0/rpact/tests/testthat/test-f_analysis_multiarm_rates.R | 3690 +++--- rpact-4.1.0/rpact/tests/testthat/test-f_analysis_multiarm_survival.R | 2168 +-- rpact-4.1.0/rpact/tests/testthat/test-f_analysis_utilities.R | 13 rpact-4.1.0/rpact/tests/testthat/test-f_as251.R | 6 rpact-4.1.0/rpact/tests/testthat/test-f_core_assertions.R | 6 rpact-4.1.0/rpact/tests/testthat/test-f_core_output_formats.R | 70 rpact-4.1.0/rpact/tests/testthat/test-f_core_utilities.R | 6 rpact-4.1.0/rpact/tests/testthat/test-f_design_fisher_combination_test.R | 6 rpact-4.1.0/rpact/tests/testthat/test-f_design_group_sequential.R | 58 rpact-4.1.0/rpact/tests/testthat/test-f_design_group_sequential_beta_spending.R | 466 rpact-4.1.0/rpact/tests/testthat/test-f_design_plan_count_data.R | 385 rpact-4.1.0/rpact/tests/testthat/test-f_design_plan_means.R | 4870 ++++---- rpact-4.1.0/rpact/tests/testthat/test-f_design_plan_plot.R | 2 rpact-4.1.0/rpact/tests/testthat/test-f_design_plan_rates.R | 2918 ++-- rpact-4.1.0/rpact/tests/testthat/test-f_design_plan_survival.R | 1034 + rpact-4.1.0/rpact/tests/testthat/test-f_design_utilities.R | 11 rpact-4.1.0/rpact/tests/testthat/test-f_logger.R | 6 rpact-4.1.0/rpact/tests/testthat/test-f_parameter_set_utilities.R | 6 rpact-4.1.0/rpact/tests/testthat/test-f_simulation_base_count_data.R | 222 rpact-4.1.0/rpact/tests/testthat/test-f_simulation_base_means.R | 77 rpact-4.1.0/rpact/tests/testthat/test-f_simulation_base_rates.R | 1938 +-- rpact-4.1.0/rpact/tests/testthat/test-f_simulation_base_survival.R | 5978 +++++----- rpact-4.1.0/rpact/tests/testthat/test-f_simulation_enrichment_means.R | 6 rpact-4.1.0/rpact/tests/testthat/test-f_simulation_enrichment_rates.R | 1824 +-- rpact-4.1.0/rpact/tests/testthat/test-f_simulation_enrichment_survival.R | 1916 +-- rpact-4.1.0/rpact/tests/testthat/test-f_simulation_multiarm_means.R | 270 rpact-4.1.0/rpact/tests/testthat/test-f_simulation_multiarm_rates.R | 396 rpact-4.1.0/rpact/tests/testthat/test-f_simulation_multiarm_survival.R | 515 rpact-4.1.0/rpact/tests/testthat/test-f_simulation_plot.R | 28 rpact-4.1.0/rpact/tests/testthat/test-generic_functions.R | 6 rpact-4.1.0/rpact/vignettes/rpact_getting_started.Rmd | 2 190 files changed, 31182 insertions(+), 24271 deletions(-)
Title: Basic Robust Statistics
Description: "Essential" Robust Statistics.
Tools allowing to analyze data with robust methods. This includes
regression methodology including model selections and multivariate
statistics where we strive to cover the book "Robust Statistics,
Theory and Methods" by 'Maronna, Martin and Yohai'; Wiley 2006.
Author: Martin Maechler [aut, cre] ,
Peter Rousseeuw [ctb] ,
Christophe Croux [ctb] ,
Valentin Todorov [aut] ,
Andreas Ruckstuhl [aut] ,
Matias Salibian-Barrera [aut] ,
Tobias Verbeke [ctb, fnd] ,
Manuel Koller [aut] ,
Eduardo L. T. Conceicao [aut] ,
Maria A [...truncated...]
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between robustbase versions 0.99-4 dated 2024-08-19 and 0.99-4-1 dated 2024-09-27
DESCRIPTION | 12 ++++---- MD5 | 28 +++++++++---------- R/lmrob.MM.R | 2 + inst/NEWS.Rd | 11 ++++++- inst/doc/fastMcd-kmini.pdf |binary inst/doc/lmrob_simulation.pdf |binary inst/doc/psi_functions.pdf |binary inst/doc/simulation.functions.R | 18 ++++++------ inst/xtraR/platform-sessionInfo.R | 4 ++ tests/MT-tst.R | 1 tests/lmrob-psifns.R | 31 ++++++++++++--------- tests/lmrob-psifns.Rout.save | 41 +++++++++++++++------------- tests/poisson-ex.R | 55 ++++++++++++++++++++++++-------------- tests/weights.R | 3 +- tests/weights.Rout.save | 17 ++++------- 15 files changed, 129 insertions(+), 94 deletions(-)
Title: Native Access Medical Record Retriever for High Yield Analytics
Description: A toolkit for medical records data analysis. The 'naryn'
package implements an efficient data structure for storing medical
records, and provides a set of functions for data extraction,
manipulation and analysis.
Author: Misha Hoichman [aut],
Aviezer Lifshitz [aut, cre],
Ben Gilat [aut],
Netta Mendelson-Cohen [ctb],
Rami Jaschek [ctb],
Weizmann Institute of Science [cph]
Maintainer: Aviezer Lifshitz <aviezer.lifshitz@weizmann.ac.il>
Diff between naryn versions 2.6.26 dated 2024-01-15 and 2.6.30 dated 2024-09-27
DESCRIPTION | 8 MD5 | 110 +-- NAMESPACE | 4 NEWS.md | 19 R/naryn-package.R | 3 R/time.R | 87 ++ R/track-attributes.R | 2 R/track.R | 9 R/vtrack.R | 4 build/vignette.rds |binary inst/WORDLIST | 4 inst/doc/advanced.html | 1199 ++++++--------------------------- man/emr_time2char.Rd |only man/emr_time2posix.Rd |only man/emr_vtrack.create.Rd | 4 man/naryn-package.Rd | 25 src/BinsManager.cpp | 20 src/BinsManager.h | 3 src/EMR.h | 5 src/EMRLogicalTrack.cpp | 6 src/NRCovariance.cpp | 15 src/NRDb.cpp | 36 src/NRDist.cpp | 11 src/NRExtract.cpp | 32 src/NRIdTimeInterval.cpp | 22 src/NRIdTimeInterval.h | 4 src/NRIdsDist.cpp | 34 src/NRImport.cpp | 22 src/NRIteratorFilter.cpp | 88 +- src/NRLogicalTrack.cpp | 78 +- src/NRLogicalTrackInfo.cpp | 15 src/NRPoint.cpp | 60 - src/NRPoint.h | 21 src/NRQuantiles.cpp | 11 src/NRScreen.cpp | 9 src/NRSummary.cpp | 9 src/NRTest.cpp | 116 +-- src/NRTimeConverter.cpp | 39 - src/NRTimeInterval.cpp | 20 src/NRTimeInterval.h | 4 src/NRTrack.cpp | 105 +- src/NRTrackCreate.cpp | 21 src/NRTrackExpressionScanner.cpp | 68 - src/NRTrackExpressionScanner.h | 16 src/NRTrackExpressionVars.cpp | 95 +- src/NRTrackExpressionVars.h | 3 src/NRUtils.cpp | 46 - src/NRVtrack.cpp | 52 - src/naryn-init.cpp | 3 src/naryn.cpp | 159 ++-- src/naryn.h | 11 tests/testthat/helper-logical_tracks.R | 2 tests/testthat/helper-regression.R | 2 tests/testthat/helper-test_db.R | 6 tests/testthat/test-date2time.R | 54 + tests/testthat/test-track.create.R | 22 tests/testthat/test-vtrack.R | 9 57 files changed, 1222 insertions(+), 1610 deletions(-)
Title: A Fancy Version of 'base::cut'
Description: Provides the function fancycut() which is like cut() except
you can mix left open and right open intervals with point values,
intervals that are closed on both ends and intervals that are open on both ends.
Author: Adam Rich [aut, cre, cph] ,
Richie Cotton [ctb]
Maintainer: Adam Rich <adam@adamleerich.com>
Diff between fancycut versions 0.1.2 dated 2018-06-26 and 0.1.3 dated 2024-09-27
DESCRIPTION | 16 ++++++++-------- MD5 | 8 ++++---- NEWS | 9 +++++++++ man/fancycut.Rd | 3 +-- man/wafflecut.Rd | 10 ++++++++-- 5 files changed, 30 insertions(+), 16 deletions(-)
Title: A Toolbox for CM SAF NetCDF Data
Description: The Satellite Application Facility on Climate Monitoring (CM SAF)
is a ground segment of the European Organization for the Exploitation of
Meteorological Satellites (EUMETSAT) and one of EUMETSATs Satellite Application
Facilities. The CM SAF contributes to the sustainable monitoring of the climate
system by providing essential climate variables related to the energy and water
cycle of the atmosphere (<https://www.cmsaf.eu>). It is a joint cooperation of eight
National Meteorological and Hydrological Services.
The 'cmsaf' R-package includes a 'shiny' based interface for an easy application of
the 'cmsafops' and 'cmsafvis' packages - the CM SAF R Toolbox. The Toolbox offers an
easy way to prepare, manipulate, analyse and visualize CM SAF NetCDF formatted data.
Other CF conform NetCDF data with time, longitude and latitude dimension should be
applicable, but there is no guarantee for an error-free application.
CM SAF climate data records are provided for free via (<https://wui.cm [...truncated...]
Author: Steffen Kothe [aut, cre],
Danny Parsons [ctb]
Maintainer: Steffen Kothe <Steffen.Kothe@dwd.de>
Diff between cmsaf versions 3.5.1 dated 2024-05-07 and 3.5.2 dated 2024-09-27
cmsaf-3.5.1/cmsaf/tests/spelling.Rout.save |only cmsaf-3.5.2/cmsaf/DESCRIPTION | 8 cmsaf-3.5.2/cmsaf/MD5 | 31 cmsaf-3.5.2/cmsaf/NAMESPACE | 10 cmsaf-3.5.2/cmsaf/NEWS.md | 169 cmsaf-3.5.2/cmsaf/R/cmsaf.R | 56 cmsaf-3.5.2/cmsaf/R/get_grid.R | 8 cmsaf-3.5.2/cmsaf/R/release_questions.R | 36 cmsaf-3.5.2/cmsaf/R/run_toolbox.R | 42 cmsaf-3.5.2/cmsaf/inst/WORDLIST | 62 cmsaf-3.5.2/cmsaf/inst/toolbox/ColorspacePrivates.R | 1260 - cmsaf-3.5.2/cmsaf/inst/toolbox/global.R | 706 cmsaf-3.5.2/cmsaf/inst/toolbox/server.R |15254 ++++++++++---------- cmsaf-3.5.2/cmsaf/inst/toolbox/ui.R | 1548 +- cmsaf-3.5.2/cmsaf/inst/toolbox/www/style.css | 532 cmsaf-3.5.2/cmsaf/man/run_toolbox.Rd | 36 cmsaf-3.5.2/cmsaf/tests/spelling.R | 6 17 files changed, 9883 insertions(+), 9881 deletions(-)
Title: Penalised Regression with Multiple Sets of Prior Effects
('Transfer Learning')
Description: Improves the predictive performance of ridge and lasso regression exploiting one or more sources of prior information on the importance and direction of effects (Rauschenberger and others 2023, <doi:10.1093/bioinformatics/btad680>). For running the vignette (optional), install 'fwelnet' from 'GitHub' <https://github.com/kjytay/fwelnet>.
Author: Armin Rauschenberger [aut, cre]
Maintainer: Armin Rauschenberger <armin.rauschenberger@uni.lu>
Diff between transreg versions 1.0.2 dated 2023-11-11 and 1.0.3 dated 2024-09-27
transreg-1.0.2/transreg/inst/doc/abstract.R |only transreg-1.0.2/transreg/inst/doc/abstract.Rmd |only transreg-1.0.2/transreg/inst/doc/abstract.html |only transreg-1.0.2/transreg/vignettes/abstract.Rmd |only transreg-1.0.3/transreg/DESCRIPTION | 24 ++++++---- transreg-1.0.3/transreg/MD5 | 49 ++++++++++----------- transreg-1.0.3/transreg/NEWS.md | 4 + transreg-1.0.3/transreg/R/pkgname.R | 23 +++------ transreg-1.0.3/transreg/README.md | 49 ++++++++------------- transreg-1.0.3/transreg/build/partial.rdb |binary transreg-1.0.3/transreg/build/vignette.rds |binary transreg-1.0.3/transreg/inst/CITATION | 20 +++++--- transreg-1.0.3/transreg/inst/doc/analysis.html | 6 -- transreg-1.0.3/transreg/inst/doc/article.Rmd |only transreg-1.0.3/transreg/inst/doc/article.html |only transreg-1.0.3/transreg/man/calibrate.Rd | 12 ++--- transreg-1.0.3/transreg/man/coef.transreg.Rd | 20 ++++---- transreg-1.0.3/transreg/man/compare.Rd | 4 - transreg-1.0.3/transreg/man/dot-residuals.Rd | 2 transreg-1.0.3/transreg/man/dot-signdisc.Rd | 2 transreg-1.0.3/transreg/man/extract.Rd | 20 ++++---- transreg-1.0.3/transreg/man/fitted.transreg.Rd | 14 +++--- transreg-1.0.3/transreg/man/plot.transreg.Rd | 30 +++++++----- transreg-1.0.3/transreg/man/predict.transreg.Rd | 14 +++--- transreg-1.0.3/transreg/man/simulate.Rd | 2 transreg-1.0.3/transreg/man/transreg-package.Rd | 31 +++++++++---- transreg-1.0.3/transreg/man/transreg.Rd | 56 ++++++++++++------------ transreg-1.0.3/transreg/man/weights.transreg.Rd | 14 +++--- transreg-1.0.3/transreg/vignettes/article.Rmd |only 29 files changed, 209 insertions(+), 187 deletions(-)
Title: Interface to the Global Biodiversity Information Facility API
Description: A programmatic interface to the Web Service methods
provided by the Global Biodiversity Information Facility (GBIF;
<https://www.gbif.org/developer/summary>). GBIF is a database
of species occurrence records from sources all over the globe.
rgbif includes functions for searching for taxonomic names,
retrieving information on data providers, getting species occurrence
records, getting counts of occurrence records, and using the GBIF
tile map service to make rasters summarizing huge amounts of data.
Author: Scott Chamberlain [aut] ,
Damiano Oldoni [aut] ,
Vijay Barve [ctb] ,
Peter Desmet [ctb] ,
Laurens Geffert [ctb],
Dan Mcglinn [ctb] ,
Karthik Ram [ctb] ,
rOpenSci [fnd] ,
John Waller [aut, cre]
Maintainer: John Waller <jwaller@gbif.org>
Diff between rgbif versions 3.8.0 dated 2024-05-23 and 3.8.1 dated 2024-09-27
DESCRIPTION | 6 MD5 | 58 + NAMESPACE | 5 NEWS.md | 15 R/mvt_fetch.R | 388 ++++---- R/occ_download_cached.R | 82 - R/occ_download_describe.R | 2 R/occ_download_sql.R |only R/occ_download_user_dl.R | 534 ++++++------ R/rgbif-package.r | 2 man/occ_download_sql.Rd |only man/rgbif-package.Rd | 2 tests/fixtures/occ_download_cancel.yml |only tests/fixtures/occ_download_sql_1.yml |only tests/fixtures/occ_get.yml |only tests/fixtures/occ_get_other.yml |only tests/fixtures/occ_metadata.yml |only tests/fixtures/occ_search_catalognumber.yml |only tests/fixtures/occ_search_coordinateUncertaintyInMeters.yml |only tests/fixtures/occ_search_degreeOfEstablishment.yml |only tests/fixtures/occ_search_depth.yml |only tests/fixtures/occ_search_distanceFromCentroidInMeters.yml |only tests/fixtures/occ_search_elevation.yml |only tests/fixtures/occ_search_eventId.yml |only tests/fixtures/occ_search_fails_well.yml |only tests/fixtures/occ_search_gadmGid.yml |only tests/fixtures/occ_search_geoDistance.yml |only tests/fixtures/occ_search_hierarchy_data.yml |only tests/fixtures/occ_search_identifiedBy.yml |only tests/fixtures/occ_search_isInCluster.yml |only tests/fixtures/occ_search_iucnRedListCategory.yml |only tests/fixtures/occ_search_key_gbifid_character_class.yml |only tests/fixtures/occ_search_lifeStage.yml |only tests/fixtures/occ_search_many_inputs.yml |only tests/fixtures/occ_search_networkKey.yml |only tests/fixtures/occ_search_occurrenceId.yml |only tests/fixtures/occ_search_occurrencestatus.yml |only tests/fixtures/occ_search_organismQuantity.yml |only tests/fixtures/occ_search_organismQuantityType.yml |only tests/fixtures/occ_search_relativeOrganismQuantity.yml |only tests/fixtures/occ_search_scientificname.yml |only tests/fixtures/occ_search_speciesKey.yml |only tests/fixtures/occ_search_verbatimScientificName.yml |only tests/fixtures/organizations_search_country.yml |only tests/fixtures/organizations_search_uuid.yml |only tests/fixtures/wkt_large_occ_data.yml |only tests/fixtures/wkt_large_occ_search.yml |only tests/testthat/test-occ_download_cached.R | 27 tests/testthat/test-occ_download_sql.R |only 49 files changed, 593 insertions(+), 528 deletions(-)
Title: Penalised Multivariate Regression ('Multi-Target Learning')
Description: Implements penalised multivariate regression (i.e., for multiple outcomes and many features) by stacked generalisation (<doi:10.1093/bioinformatics/btab576>). For positively correlated outcomes, a single multivariate regression is typically more predictive than multiple univariate regressions. Includes functions for model fitting, extracting coefficients, outcome prediction, and performance measurement. For optional comparisons, install 'remMap' from GitHub (<https://github.com/cran/remMap>).
Author: Armin Rauschenberger [aut, cre]
Maintainer: Armin Rauschenberger <armin.rauschenberger@uni.lu>
Diff between joinet versions 0.0.10 dated 2021-08-09 and 1.0.0 dated 2024-09-27
joinet-0.0.10/joinet/.Rinstignore |only joinet-0.0.10/joinet/inst/doc/joinet.R |only joinet-0.0.10/joinet/inst/doc/joinet.Rmd |only joinet-0.0.10/joinet/inst/doc/joinet.html |only joinet-0.0.10/joinet/vignettes/joinet.Rmd |only joinet-1.0.0/joinet/DESCRIPTION | 27 joinet-1.0.0/joinet/MD5 | 38 joinet-1.0.0/joinet/NAMESPACE | 1 joinet-1.0.0/joinet/NEWS.md | 4 joinet-1.0.0/joinet/R/functions.R | 18 joinet-1.0.0/joinet/R/pkgname.R | 20 joinet-1.0.0/joinet/README.md | 55 - joinet-1.0.0/joinet/build/partial.rdb |binary joinet-1.0.0/joinet/build/vignette.rds |binary joinet-1.0.0/joinet/inst/CITATION | 18 joinet-1.0.0/joinet/inst/doc/article.Rmd | 30 joinet-1.0.0/joinet/inst/doc/article.html | 251 +++++ joinet-1.0.0/joinet/inst/doc/script.html | 1247 ++++++++++++++++------------- joinet-1.0.0/joinet/inst/doc/vignette.R |only joinet-1.0.0/joinet/inst/doc/vignette.Rmd |only joinet-1.0.0/joinet/inst/doc/vignette.html |only joinet-1.0.0/joinet/man/joinet-package.Rd | 27 joinet-1.0.0/joinet/man/joinet.Rd | 14 joinet-1.0.0/joinet/vignettes/article.Rmd | 30 joinet-1.0.0/joinet/vignettes/vignette.Rmd |only 25 files changed, 1123 insertions(+), 657 deletions(-)
Title: Robust Analysis using Forward Search
Description: Robust analysis using forward search in linear and generalized linear regression models, as described in Atkinson, A.C. and Riani, M. (2000), Robust Diagnostic Regression Analysis, First Edition. New York: Springer.
Author: Kjell Konis [aut],
Marco Riani [aut],
Luca Scrucca [ctb],
Ken Beath [aut, cre]
Maintainer: Ken Beath <ken@kjbeath.id.au>
Diff between forward versions 1.0.6 dated 2022-05-09 and 1.0.7 dated 2024-09-27
DESCRIPTION | 37 ++++++++++++++++++++++++++----------- MD5 | 10 +++++----- inst/NEWS | 8 ++++++++ man/fwdlm.Rd | 4 ++-- man/fwdsco.Rd | 2 +- man/lmsglm.Rd | 2 +- 6 files changed, 43 insertions(+), 20 deletions(-)
Title: Get Data from the Swiss Federal Statistical Office
Description: Search and download data from the Swiss Federal Statistical Office (BFS) APIs <https://www.bfs.admin.ch/>.
Author: Felix Luginbuhl [aut, cre, cph]
,
Janosch Brenzel-Weiss [ctb],
Joao Martins [ctb],
Philipp Baumann [ctb]
Maintainer: Felix Luginbuhl <felix.luginbuhl@protonmail.ch>
Diff between BFS versions 0.5.9 dated 2024-09-26 and 0.5.10 dated 2024-09-27
DESCRIPTION | 6 +-- MD5 | 14 ++++---- NAMESPACE | 2 + NEWS.md | 4 ++ R/bfs_get_catalog_data.R | 74 ++++++++++++++++++++++++++++++++------------- R/bfs_get_catalog_tables.R | 54 +++++++++++++++++++++++++------- R/globals.R | 6 +++ README.md | 64 ++++++++++++++++++++------------------ 8 files changed, 149 insertions(+), 75 deletions(-)
Title: A Robust Interface to ArcGIS 'Geocoding Services'
Description: A very fast and robust interface to ArcGIS 'Geocoding
Services'. Provides capabilities for reverse geocoding, finding
address candidates, character-by-character search autosuggestion, and
batch geocoding. The public 'ArcGIS World Geocoder' is accessible for
free use via 'arcgisgeocode' for all services except batch geocoding.
'arcgisgeocode' also integrates with 'arcgisutils' to provide access
to custom locators or private 'ArcGIS World Geocoder' hosted on
'ArcGIS Enterprise'. Learn more in the 'Geocode service' API reference
<https://developers.arcgis.com/rest/geocode/api-reference/overview-world-geocoding-service.htm>.
Author: Josiah Parry [aut, cre]
Maintainer: Josiah Parry <josiah.parry@gmail.com>
Diff between arcgisgeocode versions 0.2.1 dated 2024-08-02 and 0.2.2 dated 2024-09-27
arcgisgeocode-0.2.1/arcgisgeocode/configure.ac |only arcgisgeocode-0.2.1/arcgisgeocode/src/arcgeocode-win.def |only arcgisgeocode-0.2.1/arcgisgeocode/src/arcgisgeocode-win.def |only arcgisgeocode-0.2.1/arcgisgeocode/tools/generate-configures.sh |only arcgisgeocode-0.2.2/arcgisgeocode/DESCRIPTION | 10 arcgisgeocode-0.2.2/arcgisgeocode/MD5 | 35 arcgisgeocode-0.2.2/arcgisgeocode/NEWS.md | 8 arcgisgeocode-0.2.2/arcgisgeocode/R/core-batch-geocode.R | 2 arcgisgeocode-0.2.2/arcgisgeocode/R/doc-data.R | 1 arcgisgeocode-0.2.2/arcgisgeocode/R/utils-crs.R | 2 arcgisgeocode-0.2.2/arcgisgeocode/R/utils-geocoder-obj.R | 7 arcgisgeocode-0.2.2/arcgisgeocode/configure | 2518 ---------- arcgisgeocode-0.2.2/arcgisgeocode/configure.win | 2517 --------- arcgisgeocode-0.2.2/arcgisgeocode/src/Makevars | 30 arcgisgeocode-0.2.2/arcgisgeocode/src/Makevars.win | 41 arcgisgeocode-0.2.2/arcgisgeocode/src/rust/Cargo.lock | 129 arcgisgeocode-0.2.2/arcgisgeocode/src/rust/Cargo.toml | 5 arcgisgeocode-0.2.2/arcgisgeocode/src/rust/src/batch_geocode.rs | 27 arcgisgeocode-0.2.2/arcgisgeocode/src/rust/vendor-config.toml | 5 arcgisgeocode-0.2.2/arcgisgeocode/src/rust/vendor.tar.xz |binary arcgisgeocode-0.2.2/arcgisgeocode/tools/msrv.R |only 21 files changed, 178 insertions(+), 5159 deletions(-)
More information about antaresEditObject at CRAN
Permanent link
Title: Download and Tidy Data from the Reserve Bank of Australia
Description: Download up-to-date data from the Reserve Bank of Australia
in a tidy data frame. Package includes functions to download current and
historical statistical tables
(<https://www.rba.gov.au/statistics/tables/>) and forecasts
(<https://www.rba.gov.au/publications/smp/forecasts-archive.html>). Data
includes a broad range of Australian macroeconomic and financial time
series.
Author: Matt Cowgill [aut, cre] ,
Angus Moore [ctb]
Maintainer: Matt Cowgill <mattcowgill@gmail.com>
Diff between readrba versions 0.1.10 dated 2024-08-17 and 0.1.11 dated 2024-09-27
DESCRIPTION | 6 - MD5 | 18 ++-- NEWS.md | 5 + R/get_rba_urls.R | 12 ++ R/read_rba.R | 14 ++- R/sysdata.rda |binary build/vignette.rds |binary inst/doc/readrba.html | 180 ++++++++++++++++++++--------------------- man/read_rba.Rd | 19 ++-- tests/testthat/test-read_rba.R | 14 +++ 10 files changed, 154 insertions(+), 114 deletions(-)
Title: Interface to 'ECMWF' and 'CDS' Data Web Services
Description: Programmatic interface to the European Centre for Medium-Range
Weather Forecasts dataset web services (ECMWF; <https://www.ecmwf.int/>)
and Copernicus's Data Stores. Allows for easy downloads of weather
forecasts and climate reanalysis data in R. Data stores covered include the Climate Data Store (CDS;
<https://cds.climate.copernicus.eu>), Atmosphere Data Store (ADS;
<https://ads.atmosphere.copernicus.eu>) and Early Warning Data Store (CEMS;
<https://ewds.climate.copernicus.eu>).
Author: Koen Hufkens [aut, cre, cph] ,
Reto Stauffer [ctb] ,
Elio Campitelli [ctb] ,
BlueGreen Labs [fnd]
Maintainer: Koen Hufkens <koen.hufkens@gmail.com>
Diff between ecmwfr versions 2.0.1 dated 2024-09-20 and 2.0.2 dated 2024-09-27
DESCRIPTION | 12 ++++++------ MD5 | 8 ++++---- R/service-ds.R | 10 +++++++++- R/zzz.R | 6 +++--- inst/doc/advanced_vignette.html | 4 ++-- 5 files changed, 24 insertions(+), 16 deletions(-)
Title: Imputation Procedures and Quality Tests for Fuzzy Data
Description: Special procedures for the imputation of missing fuzzy numbers are still underdeveloped. The goal of the package is to provide the new d-imputation method (DIMP for short, Romaniuk, M. and Grzegorzewski, P. (2023) "Fuzzy Data Imputation with DIMP and FGAIN" RB/23/2023) and covert some classical ones applied in R packages ('missForest','miceRanger','knn') for use with fuzzy datasets. Additionally, specially tailored benchmarking tests are provided to check and compare these imputation procedures with fuzzy datasets.
Author: Maciej Romaniuk [cre, aut]
Maintainer: Maciej Romaniuk <mroman@ibspan.waw.pl>
Diff between FuzzyImputationTest versions 0.2.0 dated 2024-09-09 and 0.3.0 dated 2024-09-27
DESCRIPTION | 10 ++--- MD5 | 46 +++++++++++++---------- NAMESPACE | 1 R/ApplyStatisticalTests.R | 17 +++++++- R/CalculateFuzzyMeasures.R | 19 ++++++++- R/FuzzifyMatrix.R | 7 +++ R/ImputationDimp.R | 30 +++++++++++++++ R/ImputationTests.R | 2 - R/IntroducingNA.R | 8 ++++ R/MethodsComparison.R |only R/NumberOfNonFNs.R | 10 +++-- R/RemoveNotFuzzy.R | 62 +++++++++++++++++++++++++++++--- R/StatisticalMeasures.R | 10 ++++- README.md | 2 + man/ApplyStatisticalTests.Rd | 2 - man/CalculateFuzzyMeasures.Rd | 2 - man/ImputationTests.Rd | 2 - man/MethodsComparison.Rd |only man/RemoveNotFuzzy.Rd | 10 ++--- man/StatisticalMeasures.Rd | 2 - tests/testthat/_snaps/ImputationDimp.md |only tests/testthat/_snaps/IntroducingNA.md | 2 - tests/testthat/_snaps/RemoveNotFuzzy.md |only tests/testthat/test-FuzzifyMatrix.R | 12 +++++- tests/testthat/test-ImputationDimp.R |only tests/testthat/test-IntroducingNA.R | 12 +++++- tests/testthat/test-RemoveNotFuzzy.R |only 27 files changed, 214 insertions(+), 54 deletions(-)
More information about FuzzyImputationTest at CRAN
Permanent link
Title: Shrinkage Based Forest Plots
Description: Subgroup analyses are routinely performed in clinical trial
analyses. From a methodological perspective, two key issues of
subgroup analyses are multiplicity (even if only predefined subgroups
are investigated) and the low sample sizes of subgroups which lead to
highly variable estimates, see e.g. Yusuf et al (1991)
<doi:10.1001/jama.1991.03470010097038>. This package implements
subgroup estimates based on Bayesian shrinkage priors, see Carvalho et
al (2019) <https://proceedings.mlr.press/v5/carvalho09a.html>. In
addition, estimates based on penalized likelihood inference are
available, based on Simon et al (2011) <doi:10.18637/jss.v039.i05>.
The corresponding shrinkage based forest plots address the
aforementioned issues and can complement standard forest plots in
practical clinical trial analyses.
Author: Mar Vazquez Rabunal [aut],
Daniel Sabanes Bove [aut],
Marcel Wolbers [aut],
Isaac Gravestock [cre],
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Isaac Gravestock <isaac.gravestock@roche.com>
Diff between bonsaiforest versions 0.1.0 dated 2024-06-17 and 0.1.1 dated 2024-09-27
DESCRIPTION | 32 ++-- MD5 | 16 +- NEWS.md | 4 R/horseshoe.R | 13 + build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 1 inst/doc/introduction.html | 264 ++++++++++++++++++++-------------------- tests/testthat/test-horseshoe.R | 14 +- 9 files changed, 176 insertions(+), 168 deletions(-)
Title: Robust Generalized Linear Models (GLM) using Mixtures
Description: Robust generalized linear models (GLM) using a mixture method, as described in Beath (2018) <doi:10.1080/02664763.2017.1414164>. This assumes that the data are a mixture of standard observations, being a generalised linear model, and outlier observations from an overdispersed generalized linear model. The overdispersed linear model is obtained by including a normally distributed random effect in the linear predictor of the generalized linear model.
Author: Ken Beath [aut, cre]
Maintainer: Ken Beath <ken@kjbeath.id.au>
Diff between robmixglm versions 1.2-3 dated 2022-05-10 and 1.2-4 dated 2024-09-27
DESCRIPTION | 14 +++++++------- MD5 | 18 +++++++++--------- R/binomial.fit.robmixglm.R | 6 +++++- R/gamma.fit.robmixglm.R | 4 +++- R/gaussian.fit.robmixglm.R | 5 ++++- R/poisson.fit.robmixglm.R | 4 +++- R/truncpoisson.fit.robmixglm.R | 7 +++++-- build/vignette.rds |binary inst/NEWS | 6 ++++++ src/fit.robmixglm.cpp | 10 ---------- 10 files changed, 42 insertions(+), 32 deletions(-)
Title: Simulation-Based Power Estimation (MSPE) for Nonlinear SEM
Description: Model-implied simulation-based power estimation (MSPE) for
nonlinear (and linear) SEM, path analysis and regression analysis. A
theoretical framework is used to approximate the relation between
power and sample size for given type I error rates and effect sizes.
The package offers an adaptive search algorithm to find the optimal N for
given effect sizes and type I error rates. Plots can be used to visualize
the power relation to N for different parameters of interest (POI).
Theoretical justifications are given in Irmer et al.
(2024a) <doi:10.31219/osf.io/pe5bj> and detailed description
are given in Irmer et al. (2024b) <doi:10.3758/s13428-024-02476-3>.
Author: Julien Patrick Irmer [aut, cre, cph]
Maintainer: Julien Patrick Irmer <jpirmer@gmail.com>
Diff between powerNLSEM versions 0.1.1 dated 2024-07-31 and 0.1.2 dated 2024-09-27
DESCRIPTION | 11 ++++++----- MD5 | 20 ++++++++++---------- NEWS.md | 5 +++++ R/LMS.R | 2 +- R/powerNLSEM.R | 5 +++-- inst/CITATION | 7 ++++--- inst/doc/powerNLSEM.Rmd | 6 +++--- inst/doc/powerNLSEM.html | 12 ++++++------ man/LMS.Rd | 4 ++-- man/powerNLSEM.Rd | 6 ++++-- vignettes/powerNLSEM.Rmd | 6 +++--- 11 files changed, 47 insertions(+), 37 deletions(-)
Title: Concordance Correlation Coefficient for Repeated (and
Non-Repeated) Measures
Description: Estimates the Concordance Correlation Coefficient to assess agreement. The scenarios considered are non-repeated measures, non-longitudinal repeated measures (replicates) and longitudinal repeated measures. It also includes the estimation of the one-way intraclass correlation coefficient also known as reliability index. The estimation approaches implemented are variance components and U-statistics approaches. Description of methods can be found in Fleiss (1986) <doi:10.1002/9781118032923> and Carrasco et al. (2013) <doi:10.1016/j.cmpb.2012.09.002>.
Author: Josep Lluis Carrasco [aut, cre],
Gonzalo Peon Pena [aut]
Maintainer: Josep Lluis Carrasco <jlcarrasco@ub.edu>
Diff between cccrm versions 2.2.2 dated 2024-04-10 and 3.0.2 dated 2024-09-27
cccrm-2.2.2/cccrm/R/bdiag.R |only cccrm-2.2.2/cccrm/R/ccclon.R |only cccrm-2.2.2/cccrm/R/ccclonw.R |only cccrm-2.2.2/cccrm/R/cccvc.R |only cccrm-2.2.2/cccrm/R/cccvc1.R |only cccrm-2.2.2/cccrm/R/cccvc2.R |only cccrm-2.2.2/cccrm/R/extra_func.R |only cccrm-2.2.2/cccrm/R/ic.ccc.R |only cccrm-2.2.2/cccrm/R/ic.icc.R |only cccrm-2.2.2/cccrm/R/icc.R |only cccrm-2.2.2/cccrm/R/phi.R |only cccrm-2.2.2/cccrm/R/print.icc.R |only cccrm-2.2.2/cccrm/R/summary.icc.R |only cccrm-2.2.2/cccrm/data/bdaw.txt |only cccrm-2.2.2/cccrm/data/bfat.txt |only cccrm-2.2.2/cccrm/data/bpres.txt |only cccrm-2.2.2/cccrm/man/ccclon.Rd |only cccrm-2.2.2/cccrm/man/ccclonw.Rd |only cccrm-2.2.2/cccrm/man/cccvc.Rd |only cccrm-2.2.2/cccrm/man/icc.Rd |only cccrm-3.0.2/cccrm/DESCRIPTION | 26 ++++-- cccrm-3.0.2/cccrm/MD5 | 70 ++++++++++------- cccrm-3.0.2/cccrm/NAMESPACE | 60 +++++++++------ cccrm-3.0.2/cccrm/NEWS.md |only cccrm-3.0.2/cccrm/R/Z_funcs.R |only cccrm-3.0.2/cccrm/R/Ztest.R |only cccrm-3.0.2/cccrm/R/auxiliary_funcs.R |only cccrm-3.0.2/cccrm/R/cccUst.R | 33 ++++++++ cccrm-3.0.2/cccrm/R/ccc_est.R |only cccrm-3.0.2/cccrm/R/ccc_sim_data.R |only cccrm-3.0.2/cccrm/R/ccc_vc.R |only cccrm-3.0.2/cccrm/R/cccrm-package.R |only cccrm-3.0.2/cccrm/R/data.R |only cccrm-3.0.2/cccrm/R/deprecated.R |only cccrm-3.0.2/cccrm/R/ic_boot.R |only cccrm-3.0.2/cccrm/R/ic_ccc.R |only cccrm-3.0.2/cccrm/R/imports.R |only cccrm-3.0.2/cccrm/R/lme_model.R |only cccrm-3.0.2/cccrm/R/np_boot_ci.R |only cccrm-3.0.2/cccrm/R/para_boot_ci.R |only cccrm-3.0.2/cccrm/R/print.ccc.R | 1 cccrm-3.0.2/cccrm/R/print.cccUst.R | 1 cccrm-3.0.2/cccrm/R/resamp_ccc.R |only cccrm-3.0.2/cccrm/R/sim_power_ccc.R |only cccrm-3.0.2/cccrm/R/summary.ccc.R | 3 cccrm-3.0.2/cccrm/R/variance_components.R |only cccrm-3.0.2/cccrm/build |only cccrm-3.0.2/cccrm/data/data.RData |only cccrm-3.0.2/cccrm/man/Ztest.Rd |only cccrm-3.0.2/cccrm/man/bdaw.Rd | 38 +++++---- cccrm-3.0.2/cccrm/man/bfat.Rd | 39 +++++---- cccrm-3.0.2/cccrm/man/bpres.Rd | 47 +++++++---- cccrm-3.0.2/cccrm/man/cccUst.Rd | 118 ++++++++++++------------------ cccrm-3.0.2/cccrm/man/ccc_est.Rd |only cccrm-3.0.2/cccrm/man/ccc_sim_data.Rd |only cccrm-3.0.2/cccrm/man/ccc_vc.Rd |only cccrm-3.0.2/cccrm/man/cccrm-package.Rd |only cccrm-3.0.2/cccrm/man/lme_model.Rd |only cccrm-3.0.2/cccrm/man/np_boot_ci.Rd |only cccrm-3.0.2/cccrm/man/para_boot_ci.Rd |only cccrm-3.0.2/cccrm/man/sim_power_ccc.Rd |only 61 files changed, 259 insertions(+), 177 deletions(-)
Title: Sampling Design for Spatially Explicit Capture-Recapture
Description: Tools for designing spatially explicit capture-recapture studies of animal populations. This is primarily a simulation manager for package 'secr'. Extensions in version 2.5.0 include costing and evaluation of detector spacing.
Author: Murray Efford [aut, cre] ,
Ian Durbach [ctb]
Maintainer: Murray Efford <murray.efford@otago.ac.nz>
Diff between secrdesign versions 2.9.1 dated 2024-04-20 and 2.9.2 dated 2024-09-27
DESCRIPTION | 8 ++--- MD5 | 39 ++++++++++++++-------------- NAMESPACE | 5 ++- NEWS | 16 +++++++++++ R/estimateSummary.R | 11 ++++--- R/optimalSpacing.R | 62 +++++++++++++++++++++++++++++++++++++-------- R/run.scenarios.R | 50 +++++++++++++++++++++++++----------- R/scenarioSummary.R | 3 ++ R/utility.R | 5 ++- man/GAoptim.Rd | 4 +- man/Lambda.Rd | 8 ++--- man/count.Rd | 4 +- man/make.scenarios.Rd | 2 - man/minRSE.Rd |only man/optimalSpacing.Rd | 27 +++++++++++++++---- man/plot.optimalSpacing.Rd | 4 +- man/predict.simulations.Rd | 4 +- man/run.scenarios.Rd | 12 ++++---- man/saturation.Rd | 2 - man/scenarioSummary.Rd | 2 - man/secrdesign-package.Rd | 9 ++++-- 21 files changed, 192 insertions(+), 85 deletions(-)
Title: Asymptotic Timing
Description: Computing and visualizing comparative
asymptotic timings of different algorithms and code versions.
Also includes functionality for comparing empirical timings with
expected references such as linear or quadratic,
<https://en.wikipedia.org/wiki/Asymptotic_computational_complexity>
Also includes functionality for measuring asymptotic memory and other
quantities.
Author: Toby Hocking [aut, cre]
Maintainer: Toby Hocking <toby.hocking@r-project.org>
Diff between atime versions 2024.4.23 dated 2024-04-29 and 2024.9.25 dated 2024-09-27
atime-2024.4.23/atime/vignettes/binseg.html |only atime-2024.4.23/atime/vignettes/compare-data.table-tidyverse.html |only atime-2024.9.25/atime/DESCRIPTION | 6 atime-2024.9.25/atime/MD5 | 86 - atime-2024.9.25/atime/NAMESPACE | 43 atime-2024.9.25/atime/NEWS | 250 +-- atime-2024.9.25/atime/R/atime.R | 517 +++--- atime-2024.9.25/atime/R/predict.R | 236 +- atime-2024.9.25/atime/R/references.R | 360 ++-- atime-2024.9.25/atime/R/test.R | 318 +++ atime-2024.9.25/atime/R/versions.R | 578 ++----- atime-2024.9.25/atime/build/vignette.rds |binary atime-2024.9.25/atime/inst/doc/Custom_Plots.R | 144 - atime-2024.9.25/atime/inst/doc/Custom_Plots.Rmd | 200 +- atime-2024.9.25/atime/inst/doc/Custom_Plots.html | 500 +++--- atime-2024.9.25/atime/inst/doc/Custom_References.R | 124 - atime-2024.9.25/atime/inst/doc/Custom_References.Rmd | 265 +-- atime-2024.9.25/atime/inst/doc/Custom_References.html | 585 +++---- atime-2024.9.25/atime/inst/doc/Custom_Units.R | 138 - atime-2024.9.25/atime/inst/doc/Custom_Units.Rmd | 320 +-- atime-2024.9.25/atime/inst/doc/Custom_Units.html | 641 +++---- atime-2024.9.25/atime/inst/doc/cum_median.R | 62 atime-2024.9.25/atime/inst/doc/cum_median.Rmd | 104 - atime-2024.9.25/atime/inst/doc/cum_median.html | 408 ++--- atime-2024.9.25/atime/inst/doc/regex.R | 128 - atime-2024.9.25/atime/inst/doc/regex.Rmd | 192 +- atime-2024.9.25/atime/inst/doc/regex.html | 531 +++--- atime-2024.9.25/atime/inst/example_tests.R |only atime-2024.9.25/atime/inst/global_edit.R |only atime-2024.9.25/atime/man/atime.Rd | 146 - atime-2024.9.25/atime/man/atime_grid.Rd | 172 +- atime-2024.9.25/atime/man/atime_pkg.Rd | 164 +- atime-2024.9.25/atime/man/atime_test.Rd | 76 atime-2024.9.25/atime/man/atime_test_list.Rd | 162 + atime-2024.9.25/atime/man/atime_versions.Rd | 172 +- atime-2024.9.25/atime/man/atime_versions_exprs.Rd | 174 +- atime-2024.9.25/atime/man/atime_versions_remove.Rd | 26 atime-2024.9.25/atime/man/glob_find_replace.Rd | 38 atime-2024.9.25/atime/man/references_best.Rd | 123 - atime-2024.9.25/atime/tests/testthat.R | 2 atime-2024.9.25/atime/tests/testthat/test-CRAN.R | 814 +++++----- atime-2024.9.25/atime/vignettes/Custom_Plots.Rmd | 200 +- atime-2024.9.25/atime/vignettes/Custom_References.Rmd | 265 +-- atime-2024.9.25/atime/vignettes/Custom_Units.Rmd | 320 +-- atime-2024.9.25/atime/vignettes/cum_median.Rmd | 104 - atime-2024.9.25/atime/vignettes/regex.Rmd | 192 +- 46 files changed, 5093 insertions(+), 4793 deletions(-)
Title: Companion to Applied Regression
Description: Functions to Accompany J. Fox and S. Weisberg,
An R Companion to Applied Regression, Third Edition, Sage, 2019.
Author: John Fox [aut, cre],
Sanford Weisberg [aut],
Brad Price [aut],
Daniel Adler [ctb],
Douglas Bates [ctb],
Gabriel Baud-Bovy [ctb],
Ben Bolker [ctb],
Steve Ellison [ctb],
David Firth [ctb],
Michael Friendly [ctb],
Gregor Gorjanc [ctb],
Spencer Graves [c [...truncated...]
Maintainer: John Fox <jfox@mcmaster.ca>
Diff between car versions 3.1-2 dated 2023-03-30 and 3.1-3 dated 2024-09-27
DESCRIPTION | 25 +- MD5 | 91 +++++----- NAMESPACE | 21 ++ NEWS | 26 ++- R/Anova.R | 347 +++++++++++++++++++++------------------- R/Ellipse.R | 214 ++++++++++++++++++++---- R/S.R | 131 --------------- R/avPlot3d.R | 11 - R/avPlots.R | 3 R/brief.R | 9 - R/carWeb.R | 78 +-------- R/crPlot3d.R | 9 - R/crPlots.R | 313 ++++++++++++++++++------------------ R/deltaMethod.R | 10 + R/leveragePlots.R | 4 R/linearHypothesis.R | 105 +----------- R/poTest.R | 115 +++++++------ R/utility-functions.R | 44 ++--- R/vif.R | 5 build/vignette.rds |binary inst/CITATION | 2 inst/doc/embedding.pdf |binary man/Anova.Rd | 31 ++- man/Boot.Rd | 14 - man/Ellipses.Rd | 50 +++++ man/S.Rd | 11 - man/ScatterplotSmoothers.Rd | 12 - man/avPlots.Rd | 4 man/boxCox.Rd | 4 man/boxCoxVariable.Rd | 2 man/carWeb.Rd | 38 ---- man/compareCoefs.Rd | 2 man/crPlots.Rd | 4 man/deltaMethod.Rd | 9 - man/hist.boot.Rd | 8 man/influence-mixed-models.Rd | 4 man/linearHypothesis.Rd | 15 + man/marginalModelPlot.Rd | 362 +++++++++++++++++++++--------------------- man/mcPlots.Rd | 2 man/poTest.Rd | 4 man/pointLabel.Rd | 4 man/scatter3d.Rd | 4 man/scatterplot.Rd | 8 man/scatterplotMatrix.Rd | 10 - man/symbox.Rd | 2 man/vif.Rd | 2 vignettes/plainnat.bst |only 47 files changed, 1102 insertions(+), 1067 deletions(-)
Title: Easy, Fast, and Pretty Specification Curve Analysis
Description: Making specification curve analysis easy, fast, and pretty. It
improves upon existing offerings with additional features and 'tidyverse'
integration. Users can easily visualize and evaluate how their models behave
under different specifications with a high degree of customization. For a
description and applications of specification curve analysis see Simonsohn,
Simmons, and Nelson (2020) <doi:10.1038/s41562-020-0912-z>.
Author: Zayne Sember [aut, cre, cph]
Maintainer: Zayne Sember <zsember@ucsd.edu>
Diff between speccurvieR versions 0.4.0 dated 2024-09-18 and 0.4.1 dated 2024-09-27
DESCRIPTION | 6 +- MD5 | 8 +- NEWS.md | 4 + R/functions.R | 166 +++++++++++++++++++++++++++++++++++++++++++++------------- man/sca.Rd | 4 + 5 files changed, 144 insertions(+), 44 deletions(-)