Title: Reproducible and Flexible Label Design
Description: An open-source R package to deploys reproducible and flexible labels using layers.
The 'huito' package is part of the 'inkaverse' project for developing different procedures and
tools used in plant science and experimental designs.
Learn more about the 'inkaverse' project at <https://inkaverse.com/>.
Author: Flavio Lozano-Isla [aut, cre] ,
Inkaverse [cph]
Maintainer: Flavio Lozano-Isla <flavjack@gmail.com>
Diff between huito versions 0.2.2 dated 2023-01-24 and 0.2.3 dated 2023-07-03
DESCRIPTION | 8 MD5 | 14 - NEWS.md | 4 R/image_import.R | 9 build/vignette.rds |binary inst/doc/germinar.html | 94 ++++---- inst/doc/labels.html | 521 +++++++++---------------------------------------- inst/doc/stickers.html | 100 ++++----- 8 files changed, 218 insertions(+), 532 deletions(-)
Title: Support Functions and Data for "Ecological Models and Data"
Description: Auxiliary functions and data sets for "Ecological Models and Data", a book presenting maximum likelihood estimation and related topics for ecologists (ISBN 978-0-691-12522-0).
Author: Ben Bolker [aut, cre],
Sang Woo Park [ctb],
James Vonesh [dtc],
Jacqueline Wilson [dtc],
Russ Schmitt [dtc],
Sally Holbrook [dtc],
James D. Thomson [dtc],
R. Scot Duncan [dtc]
Maintainer: Ben Bolker <bolker@mcmaster.ca>
Diff between emdbook versions 1.3.12 dated 2020-02-19 and 1.3.13 dated 2023-07-03
emdbook-1.3.12/emdbook/data/DamselRecruitment.tab |only emdbook-1.3.12/emdbook/data/DamselRecruitment_sum.tab |only emdbook-1.3.12/emdbook/data/DamselSettlement.tab |only emdbook-1.3.12/emdbook/data/FirDBHFec.csv |only emdbook-1.3.12/emdbook/data/FirDBHFec_sum.tab |only emdbook-1.3.12/emdbook/data/GobySurvival.csv |only emdbook-1.3.12/emdbook/data/Lily_sum.csv |only emdbook-1.3.12/emdbook/data/MyxoTiter_sum.tab |only emdbook-1.3.12/emdbook/data/ReedfrogFuncresp.tab |only emdbook-1.3.12/emdbook/data/ReedfrogSizepred.tab |only emdbook-1.3.12/emdbook/inst/misc/firfec-batch.Rout |only emdbook-1.3.12/emdbook/tests |only emdbook-1.3.13/emdbook/DESCRIPTION | 8 +- emdbook-1.3.13/emdbook/MD5 | 42 +++++++-------- emdbook-1.3.13/emdbook/NAMESPACE | 5 - emdbook-1.3.13/emdbook/R/bayes.R | 6 +- emdbook-1.3.13/emdbook/R/emdbook.R | 14 +++-- emdbook-1.3.13/emdbook/R/lambertW.R | 5 + emdbook-1.3.13/emdbook/build/partial.rdb |binary emdbook-1.3.13/emdbook/data/DamselRecruitment.tab.gz |only emdbook-1.3.13/emdbook/data/DamselRecruitment_sum.tab.gz |only emdbook-1.3.13/emdbook/data/DamselSettlement.tab.gz |only emdbook-1.3.13/emdbook/data/FirDBHFec.csv.gz |only emdbook-1.3.13/emdbook/data/FirDBHFec_sum.tab.gz |only emdbook-1.3.13/emdbook/data/GobySurvival.csv.gz |only emdbook-1.3.13/emdbook/data/Lily_sum.csv.gz |only emdbook-1.3.13/emdbook/data/MyxoTiter_sum.tab.gz |only emdbook-1.3.13/emdbook/data/ReedfrogFuncresp.tab.gz |only emdbook-1.3.13/emdbook/data/ReedfrogSizepred.tab.gz |only emdbook-1.3.13/emdbook/inst/CITATION | 23 +------- emdbook-1.3.13/emdbook/inst/NEWS.Rd | 18 +++++- emdbook-1.3.13/emdbook/man/GobySurvival.Rd | 2 emdbook-1.3.13/emdbook/man/dmvnorm.Rd | 2 33 files changed, 64 insertions(+), 61 deletions(-)
Title: 3D Brain Visualization
Description: A fast, interactive cross-platform, and easy to share
'WebGL'-based 3D brain viewer that visualizes 'FreeSurfer' and/or
'AFNI/SUMA' surfaces. The viewer widget can be either standalone or
embedded into 'R-shiny' applications. The standalone version only require
a web browser with 'WebGL2' support (for example, 'Chrome', 'Firefox',
'Safari'), and can be inserted into any websites. The 'R-shiny'
support allows the 3D viewer to be dynamically generated from reactive user
inputs. This feature has been fully adopted by 'RAVE'
<https://openwetware.org/wiki/RAVE>, an interactive toolbox to
analyze 'iEEG' data. Documentation about 'threeBrain' is provided
by <https://dipterix.org/threeBrain/> and several vignettes included
in this package. To cite the package, please check our 'NeuroImage' paper
by Magnotti, Wang, and Beauchamp (2020, <doi:10.1016/j.neuroimage.2020.117341>),
or see 'citation("threeBrain")' for details.
Author: Zhengjia Wang [aut, cre, cph],
John Magnotti [aut, res],
Xiang Zhang [ctb, res],
Brian Metzger [res],
Elizabeth Nesbitt [res],
Meng Li [ths],
Michael Beauchamp [ths, dtc]
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>
Diff between threeBrain versions 1.0.0 dated 2023-06-03 and 1.0.1 dated 2023-07-03
DESCRIPTION | 6 +- MD5 | 24 ++++----- NEWS.md | 11 ++++ R/class_brain.R | 39 +++++++++++--- R/class_brainatlas.R | 11 +++- R/fs_brain.R | 11 +--- R/geom_datacube2.R | 8 +++ R/threeBrain.R | 60 ++++++++++++++++++----- R/zzz.R | 11 ++-- build/vignette.rds |binary inst/threeBrainJS/dist/threebrain.js | 2 inst/threeBrainJS/dist/threebrain.js.LICENSE.txt | 2 man/voxel_cube.Rd | 6 +- 13 files changed, 139 insertions(+), 52 deletions(-)
Title: Reproducible Data Retrieval from the GESIS Data Archive
Description: Reproducible, programmatic retrieval of datasets from the
GESIS Data Archive. The GESIS Data Archive <https://search.gesis.org>
makes available thousands of invaluable datasets, but researchers using
these datasets are caught in a bind. The archive's terms and conditions
bar dissemination of downloaded datasets to third parties, but to ensure
that one's work can be reproduced, assessed, and built upon by others, one
must provide access to the raw data one has employed. The 'gesisdata'
package cuts this knot by providing registered users with programmatic,
reproducible access to GESIS datasets from within 'R'.
Author: Frederick Solt [aut, cre, cph],
Dave Peterson [ctb]
Maintainer: Frederick Solt <frederick-solt@uiowa.edu>
Diff between gesisdata versions 0.1.0 dated 2020-06-26 and 0.1.2 dated 2023-07-03
DESCRIPTION | 23 +-- MD5 | 18 +- NAMESPACE | 5 NEWS.md | 10 + R/gesis_download.R | 39 ++++-- README.md | 8 - build/vignette.rds |binary inst/doc/gesisdata-vignette.Rmd | 4 inst/doc/gesisdata-vignette.html | 240 ++++++++++++++++++++++++--------------- vignettes/gesisdata-vignette.Rmd | 4 10 files changed, 223 insertions(+), 128 deletions(-)
Title: TERN AusPlots Australian Ecosystem Monitoring Data
Description: Extraction, preparation, visualisation and analysis of TERN AusPlots ecosystem monitoring data. Direct access to plot-based data on vegetation and soils across Australia, including physical sample barcode numbers. Simple function calls extract the data and merge them into species occurrence matrices for downstream analysis, or calculate things like basal area and fractional cover. TERN AusPlots is a national field plot-based ecosystem surveillance monitoring method and dataset for Australia. The data have been collected across a national network of plots and transects by the Terrestrial Ecosystem Research Network (TERN - <https://www.tern.org.au>), an Australian Government NCRIS-enabled project, and its Ecosystem Surveillance platform (<https://www.tern.org.au/tern-land-observatory/ecosystem-surveillance-and-environmental-monitoring/>).
Author: Greg Guerin [aut, cre],
Tom Saleeba [aut],
Samantha Munroe [aut],
Bernardo Blanco-Martin [aut],
Irene Martin-Fores [aut],
Walid Al Naim [ctb],
Andrew Tokmakoff [aut]
Maintainer: Greg Guerin <ggueri01@gmail.com>
Diff between ausplotsR versions 1.2.9 dated 2023-05-17 and 2.0.3 dated 2023-07-03
DESCRIPTION | 18 - MD5 | 70 ++-- NAMESPACE | 9 NEWS.md |only R/ausplots_queries.r | 662 ++++++++++++++++++++------------------ R/ausplots_trajectory.R |only R/ausplots_visual.R | 16 R/basal_area.R | 89 ++++- R/fraction_pie.R | 4 R/fractional_cover.R | 20 - R/get_ausplots.R | 62 ++- R/growth_form_table.R | 44 +- R/growthform_pie.R | 5 R/ma_ausplot_ma.R | 10 R/map_attribute.R | 13 R/map_ausplots.R | 13 R/single_cover_value.R | 2 R/species_list.R | 20 - R/species_optimisation.R | 20 - R/species_table.R | 3 R/trajectoryPlots_ausplots.R |only R/whitt.plot.R | 4 inst/doc/start_guide.R | 10 inst/doc/start_guide.Rmd | 18 - inst/doc/start_guide.html | 736 ++++++++++++++++++++++++------------------- man/ausplotsR-package.Rd | 22 - man/ausplots_trajectory.Rd |only man/ausplots_visual.Rd | 5 man/basal_area.Rd | 10 man/fractional_cover.Rd | 8 man/get_ausplots.Rd | 43 +- man/growth_form_table.Rd | 2 man/optim_species.Rd | 4 man/plot_opt.Rd | 2 man/single_cover_value.Rd | 3 man/species_list.Rd | 2 man/species_table.Rd | 2 vignettes/start_guide.Rmd | 18 - 38 files changed, 1120 insertions(+), 849 deletions(-)
Title: Easy to Configure an Isolated 'Python' Environment
Description: Aims to create a single isolated 'Miniconda'
and 'Python' environment for reproducible pipeline scripts.
The package provides utilities to run system command within the 'conda'
environment, making it easy to install, launch, manage, and stop
'Jupyter-lab'.
Author: Zhengjia Wang [cph, aut, cre]
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>
Diff between rpymat versions 0.1.5 dated 2023-04-04 and 0.1.6 dated 2023-07-03
rpymat-0.1.5/rpymat/man/run_script.Rd |only rpymat-0.1.6/rpymat/DESCRIPTION | 6 +- rpymat-0.1.6/rpymat/MD5 | 34 +++++++------ rpymat-0.1.6/rpymat/NAMESPACE | 10 +++ rpymat-0.1.6/rpymat/NEWS.md | 6 ++ rpymat-0.1.6/rpymat/R/aaa.R | 3 + rpymat-0.1.6/rpymat/R/cmd.R | 2 rpymat-0.1.6/rpymat/R/exec_py.R | 51 ++++++++++++++++++-- rpymat-0.1.6/rpymat/R/file_choose.R | 2 rpymat-0.1.6/rpymat/R/install.R | 39 +++++++++++---- rpymat-0.1.6/rpymat/R/jupyter.R | 2 rpymat-0.1.6/rpymat/R/reexports.R | 17 ++++++ rpymat-0.1.6/rpymat/R/utils.R |only rpymat-0.1.6/rpymat/R/zzz.R | 61 ++++++++++++++++++++++++ rpymat-0.1.6/rpymat/man/conda-env.Rd | 6 +- rpymat-0.1.6/rpymat/man/py_builtin.Rd |only rpymat-0.1.6/rpymat/man/py_list.Rd |only rpymat-0.1.6/rpymat/man/py_slice.Rd |only rpymat-0.1.6/rpymat/man/reexports.Rd |only rpymat-0.1.6/rpymat/man/reticulate-reexports.Rd | 6 ++ rpymat-0.1.6/rpymat/man/rpymat-python-main.Rd |only rpymat-0.1.6/rpymat/man/run_pyscript.Rd |only 22 files changed, 209 insertions(+), 36 deletions(-)
Title: A Dipping Sauce for Data Analysis and Visualizations
Description: Works as an "add-on" to packages like 'shiny', 'future', as well as
'rlang', and provides utility functions. Just like dipping sauce adding
flavors to potato chips or pita bread, 'dipsaus' for data analysis and
visualizations adds handy functions and enhancements to popular packages.
The goal is to provide simple solutions that are frequently asked for
online, such as how to synchronize 'shiny' inputs without freezing the app,
or how to get memory size on 'Linux' or 'MacOS' system. The enhancements
roughly fall into these four categories: 1. 'shiny' input widgets; 2.
high-performance computing using the 'future' package; 3.
modify R calls and convert among numbers, strings, and other objects. 4.
utility functions to get system information such like CPU chip-set, memory
limit, etc.
Author: Zhengjia Wang [aut, cre],
John Magnotti [ctb] ,
Xiang Zhang [ctb]
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>
Diff between dipsaus versions 0.2.7 dated 2023-05-26 and 0.2.8 dated 2023-07-03
DESCRIPTION | 6 +- MD5 | 20 ++++--- NAMESPACE | 1 NEWS.md | 3 - R/shiny-actionbutton-styled.R | 2 R/shiny-fancyFileInput.R |only build/vignette.rds |binary inst/doc/r_expr_addons.html | 10 +-- inst/doc/shiny_customized_widgets.html | 78 ++++++++++++++++++++++++++++- inst/doc/utility_functions.html | 2 inst/shiny-addons/dipsaus/dipsaus.css | 88 +++++++++++++++++++++++++++++++++ man/fancyFileInput.Rd |only 12 files changed, 190 insertions(+), 20 deletions(-)
Title: Version, Share, Deploy, and Monitor Models
Description: The goal of 'vetiver' is to provide fluent tooling to
version, share, deploy, and monitor a trained model. Functions handle
both recording and checking the model's input data prototype, and
predicting from a remote API endpoint. The 'vetiver' package is
extensible, with generics that can support many kinds of models.
Author: Julia Silge [cre, aut] ,
Posit Software, PBC [cph, fnd]
Maintainer: Julia Silge <julia.silge@posit.co>
Diff between vetiver versions 0.2.1 dated 2023-05-16 and 0.2.2 dated 2023-07-03
DESCRIPTION | 22 MD5 | 79 NEWS.md | 6 R/api.R | 66 R/keras.R | 2 R/monitor.R | 1 R/open-api-spec.R | 21 R/pin-read-write.R | 5 R/renv.R | 25 R/rsconnect.R | 16 R/sagemaker.R | 11 R/write-docker.R | 33 R/write-plumber.R | 2 README.md | 2 inst/chicago_rpart.R | 15 inst/doc/vetiver.Rmd | 6 inst/doc/vetiver.html | 242 inst/netflix_tidymodels.R | 2 inst/rmarkdown/templates/vetiver_model_card/skeleton/skeleton.Rmd | 2 inst/vendor/renv.R | 9771 ++++------ man/vetiver_api.Rd | 12 man/vetiver_create_rsconnect_bundle.Rd | 10 man/vetiver_deploy_rsconnect.Rd | 6 man/vetiver_deploy_sagemaker.Rd | 4 man/vetiver_pin_metrics.Rd | 3 man/vetiver_plot_metrics.Rd | 3 man/vetiver_prepare_docker.Rd | 5 man/vetiver_sm_build.Rd | 13 man/vetiver_write_docker.Rd | 3 man/vetiver_write_plumber.Rd | 2 tests/testthat/_snaps/keras.md | 9 tests/testthat/_snaps/monitor |only tests/testthat/_snaps/monitor.md | 2 tests/testthat/helper.R | 7 tests/testthat/test-api.R | 44 tests/testthat/test-keras.R | 8 tests/testthat/test-monitor.R | 3 tests/testthat/test-predict.R | 13 tests/testthat/test-write-docker.R | 9 tests/testthat/vetiver_renv.lock | 867 vignettes/vetiver.Rmd | 6 41 files changed, 5327 insertions(+), 6031 deletions(-)
Title: Enterprise Streamlined 'Shiny' Application Framework
Description: An enterprise-targeted scalable and UI-standardized 'shiny' framework
including a variety of developer convenience functions with the goal of both
streamlining robust application development while assisting with creating a
consistent user experience regardless of application or developer.
Author: Constance Brett [aut, cre],
Isaac Neuhaus [aut] ,
Ger Inberg [ctb],
Mohammed Ali [ctb],
Bristol-Meyers Squibb [cph]
Maintainer: Constance Brett <connie@aggregate-genius.com>
Diff between periscope versions 1.0.1 dated 2022-01-03 and 1.0.2 dated 2023-07-03
DESCRIPTION | 8 MD5 | 52 - NEWS.md | 2 R/downloadFile.R | 4 R/fw_helpers_external.R | 2 R/fw_helpers_internal.R | 2 R/generate_template.R | 4 R/periscope.R | 2 README.md | 2 build/vignette.rds |binary inst/doc/downloadFile-module.html | 449 +++++++-- inst/doc/downloadablePlot-module.html | 442 +++++++-- inst/doc/downloadableTable-module.html | 471 +++++++--- inst/doc/new-application.html | 452 ++++++--- inst/fw_templ/p_example/ui_sidebar_right.R | 2 inst/fw_templ/ui_plus.R | 2 inst/fw_templ/ui_plus_no_sidebar.R | 2 tests/testthat/_snaps/body_footer.md | 2 tests/testthat/_snaps/download_file.md | 4 tests/testthat/_snaps/downloadable_plot.md | 8 tests/testthat/_snaps/downloadable_table.md | 4 tests/testthat/_snaps/ui_functions.md | 8 tests/testthat/sample_app_both_sidebar/program/ui_sidebar_right.R | 2 tests/testthat/sample_app_both_sidebar/ui.R | 2 tests/testthat/sample_app_r_sidebar/program/ui_sidebar_right.R | 2 tests/testthat/sample_app_r_sidebar/ui.R | 2 tests/testthat/setup.R | 2 27 files changed, 1437 insertions(+), 497 deletions(-)
Title: 'nonmem2rx' Converts 'NONMEM' Models to 'rxode2'
Description: 'NONMEM' has been a tool for running nonlinear mixed
effects models since the 80s and is still used today (Bauer 2019
<doi:10.1002/psp4.12404>). This tool allows you to convert
'NONMEM' models to 'rxode2' (Wang, Hallow and James (2016)
<doi:10.1002/psp4.12052>) and with simple models 'nlmixr2' syntax
(Fidler et al (2019) <doi:10.1002/psp4.12445>). The 'nlmixr2'
syntax requires the residual specification to be included and it
is not always translated. If available, the 'rxode2' model will
read in the 'NONMEM' data and compare the simulation for the
population model ('PRED') individual model ('IPRED') and residual
model ('IWRES') to immediately show how well the translation is
performing. This saves the model development time for people who are
creating an 'rxode2' model manually. Additionally, this package reads
in all the information to allow simulation with uncertainty (that is the
number of observations, the number of subjects, and the covariance
matrix) with a 'rx [...truncated...]
Author: Matthew Fidler [aut, cre] ,
Philip Delff [ctb],
Gabriel Staples [ctb]
Maintainer: Matthew Fidler <matt.fidler@novartis.com>
Diff between nonmem2rx versions 0.1.1 dated 2023-06-01 and 0.1.2 dated 2023-07-03
DESCRIPTION | 6 MD5 | 117 + NAMESPACE | 4 NEWS.md | 21 R/advan5.R |only R/asNonmem2rx.R | 4 R/buildParser.R | 4 R/nminfo.R | 89 + R/nonmem2rx.R | 9 R/rxSolve.R | 4 R/sub.R | 8 R/xml.R | 98 + README.md | 133 +- build/vignette.rds |binary inst/data.g | 7 inst/doc/import-nonmem.R | 8 inst/doc/import-nonmem.Rmd | 8 inst/doc/import-nonmem.html | 460 +++---- inst/doc/rxode2-validate.R | 8 inst/doc/rxode2-validate.Rmd | 8 inst/doc/rxode2-validate.html | 108 - inst/doc/simulate-extra-items.R | 8 inst/doc/simulate-extra-items.Rmd | 8 inst/doc/simulate-extra-items.html | 471 ++++++- inst/doc/simulate-new-dosing-with-covs.R |only inst/doc/simulate-new-dosing-with-covs.Rmd |only inst/doc/simulate-new-dosing-with-covs.html |only inst/doc/simulate-new-dosing.R | 9 inst/doc/simulate-new-dosing.Rmd | 9 inst/doc/simulate-new-dosing.html | 132 +- inst/doc/simulate-uncertainty.R | 10 inst/doc/simulate-uncertainty.Rmd | 10 inst/doc/simulate-uncertainty.html | 222 +-- inst/omega.g | 5 inst/run-153.lst |only inst/wbc |only man/as.nonmem2rx.Rd | 4 man/nmxmlCov.Rd |only src/abbrev.c | 2 src/data.c | 8 src/data.g.d_parser.h | 964 +++++++++------ src/omega.c | 4 src/omega.g.d_parser.h | 1694 +++++++++++++++------------- src/util.cpp | 8 tests/testthat/issue-144.xml |only tests/testthat/test-advan5.R |only tests/testthat/test-data.R | 10 tests/testthat/test-eta-order.R |only tests/testthat/test-omega.R | 2 tests/testthat/test-sub.R | 1 tests/testthat/test-wbc.R |only tests/testthat/test-xml.R |only vignettes/import-nonmem.Rmd | 8 vignettes/rxode2-validate.Rmd | 8 vignettes/simulate-extra-items.Rmd | 8 vignettes/simulate-new-dosing-with-covs.Rmd |only vignettes/simulate-new-dosing.Rmd | 9 vignettes/simulate-uncertainty.Rmd | 10 58 files changed, 2840 insertions(+), 1888 deletions(-)
Title: Implements the Leiden Algorithm via an R Interface
Description: An R interface to the Leiden algorithm, an iterative community detection algorithm on networks. The algorithm is designed to converge to a partition in which all subsets of all communities are locally optimally assigned, yielding communities guaranteed to be connected. The implementation proves to be fast, scales well, and can be run on graphs of millions of nodes (as long as they can fit in memory). The original implementation was constructed as a python interface "leidenalg" found here: <https://github.com/vtraag/leidenalg>. The algorithm was originally described in Traag, V.A., Waltman, L. & van Eck, N.J. "From Louvain to Leiden: guaranteeing well-connected communities". Sci Rep 9, 5233 (2019) <doi:10.1038/s41598-019-41695-z>.
Author: Peter Kharchenko [aut],
Viktor Petukhov [aut],
V.A. Traag [ctb],
Gabor Csardi [ctb],
Tamas Nepusz [ctb],
Minh Van Nguyen [ctb],
Evan Biederstedt [cre, aut]
Maintainer: Evan Biederstedt <evan.biederstedt@gmail.com>
Diff between leidenAlg versions 1.0.5 dated 2022-09-30 and 1.1.0 dated 2023-07-03
DESCRIPTION | 16 ++++---- MD5 | 33 ++++++++--------- NAMESPACE | 1 R/RcppExports.R | 19 +++++----- R/communities.R | 38 +++++++++++++++++--- README.md | 2 - man/find_partition.Rd | 6 +-- man/find_partition_rcpp.Rd |only man/leiden.community.Rd | 4 +- man/membership.fakeCommunities.Rd | 4 +- src/Makevars | 2 - src/Makevars.win | 1 src/RcppExports.cpp | 16 ++++---- src/leiden.cpp | 72 ++++++++++++++++++++++---------------- src/leidenalg/Makefile | 2 - src/leidenalg/Makefile.win | 2 - src/rigraph/Makefile | 6 +-- src/rigraph/Makefile.win | 6 +-- 18 files changed, 138 insertions(+), 92 deletions(-)
Title: Ergonomic Methods for Assessing Spatial Models
Description: Assessing predictive models of spatial data can be
challenging, both because these models are typically built for
extrapolating outside the original region represented by training data
and due to potential spatially structured errors, with "hot spots" of
higher than expected error clustered geographically due to spatial
structure in the underlying data. Methods are provided for assessing
models fit to spatial data, including approaches for measuring the
spatial structure of model errors, assessing model predictions at
multiple spatial scales, and evaluating where predictions can be made
safely. Methods are particularly useful for models fit using the
'tidymodels' framework. Methods include Moran's I ('Moran' (1950)
<doi:10.2307/2332142>), Geary's C ('Geary' (1954)
<doi:10.2307/2986645>), Getis-Ord's G ('Ord' and 'Getis' (1995)
<doi:10.1111/j.1538-4632.1995.tb00912.x>), agreement coefficients from
'Ji' and Gallo (2006) (<doi: 10.14358/PERS.72.7.823>), agreement
m [...truncated...]
Author: Michael Mahoney [aut, cre] ,
Lucas Johnson [ctb] ,
Virgilio Gomez-Rubio [rev] for rOpenSci, see
<https://github.com/ropensci/software-review/issues/571>),
Jakub Nowosad [rev] for
rOpenSci, see
<https://github.com/ropensci/software-review/issues/571 [...truncated...]
Maintainer: Michael Mahoney <mike.mahoney.218@gmail.com>
Diff between waywiser versions 0.4.0 dated 2023-05-17 and 0.4.1 dated 2023-07-03
DESCRIPTION | 6 MD5 | 40 - NEWS.md | 4 R/area_of_applicability.R | 28 - R/data.R | 4 R/multi_scale.R | 5 README.md | 8 inst/doc/multi-scale-assessment.Rmd | 9 inst/doc/multi-scale-assessment.html | 368 ++++++-------- inst/doc/residual-autocorrelation.html | 512 ++++++++----------- inst/doc/waywiser.html | 541 +++++++++------------ man/figures/README-unnamed-chunk-5-1.png |binary man/ny_trees.Rd | 4 man/predict.ww_area_of_applicability.Rd | 10 man/print.ww_area_of_applicability.Rd | 10 man/ww_area_of_applicability.Rd | 8 tests/testthat/test-area_of_applicability.R | 16 tests/testthat/test-multi_scale.R | 47 + tests/testthat/test-srr-ww_area_of_applicability.R | 8 tests/testthat/test-tidy_importance.R | 7 vignettes/multi-scale-assessment.Rmd | 9 21 files changed, 806 insertions(+), 838 deletions(-)
Title: The Tidymodels Extension for Time Series Modeling
Description: The time series forecasting framework for use with the 'tidymodels' ecosystem.
Models include ARIMA, Exponential Smoothing, and additional time series models
from the 'forecast' and 'prophet' packages. Refer to "Forecasting Principles & Practice, Second edition"
(<https://otexts.com/fpp2/>).
Refer to "Prophet: forecasting at scale"
(<https://research.facebook.com/blog/2017/02/prophet-forecasting-at-scale/>.).
Author: Matt Dancho [aut, cre],
Business Science [cph]
Maintainer: Matt Dancho <mdancho@business-science.io>
Diff between modeltime versions 1.2.6 dated 2023-03-31 and 1.2.7 dated 2023-07-03
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Title: Simulation of Demic Diffusion with Environmental Constraints
Description: Simulates demic diffusion building on models previously developed
for the expansion of Neolithic and other food-producing economies during
the Holocene (Fort et al. (2012) <doi:10.7183/0002-7316.77.2.203>, Souza et al.
(2021) <doi:10.1098/rsif.2021.0499>). Growth and emigration are modelled as
density-dependent processes using logistic growth and an asymptotic threshold
model. Environmental and terrain layers, which can change over time, affect
carrying capacity, growth and mobility. Multiple centres of origin with
their respective starting times can be specified.
Author: Jonas Gregorio de Souza [aut, cre]
Maintainer: Jonas Gregorio de Souza <jonas.gregorio@gmail.com>
Diff between dispeRse versions 1.0 dated 2022-08-14 and 1.1 dated 2023-07-03
DESCRIPTION | 10 +++++----- LICENSE | 2 +- MD5 | 10 +++++----- NAMESPACE | 1 + R/dispeRse.R | 10 +++++++--- README.md | 14 ++++++++++++++ 6 files changed, 33 insertions(+), 14 deletions(-)
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]
Maintainer: Friedrich Pahlke <friedrich.pahlke@rpact.com>
Diff between rpact versions 3.3.4 dated 2023-02-14 and 3.4.0 dated 2023-07-03
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rpact-3.4.0/rpact/man/getSimulationMultiArmMeans.Rd | 12 rpact-3.4.0/rpact/man/getSimulationMultiArmRates.Rd | 12 rpact-3.4.0/rpact/man/getSimulationMultiArmSurvival.Rd | 12 rpact-3.4.0/rpact/man/getSimulationRates.Rd | 3 rpact-3.4.0/rpact/man/getSimulationSurvival.Rd | 2 rpact-3.4.0/rpact/man/getStageResults.Rd | 1 rpact-3.4.0/rpact/man/getTestActions.Rd | 1 rpact-3.4.0/rpact/man/knit_print.ParameterSet.Rd |only rpact-3.4.0/rpact/man/names.SimulationResults.Rd | 3 rpact-3.4.0/rpact/man/param_allocationRatioPlanned.Rd | 3 rpact-3.4.0/rpact/man/param_typeOfShape.Rd | 9 rpact-3.4.0/rpact/man/plot.AnalysisResults.Rd | 3 rpact-3.4.0/rpact/man/plot.EventProbabilities.Rd | 3 rpact-3.4.0/rpact/man/plot.SimulationResults.Rd | 6 rpact-3.4.0/rpact/man/plot.StageResults.Rd | 3 rpact-3.4.0/rpact/man/plot.SummaryFactory.Rd | 4 rpact-3.4.0/rpact/man/plot.TrialDesign.Rd | 3 rpact-3.4.0/rpact/man/print.SummaryFactory.Rd |only rpact-3.4.0/rpact/man/print.TrialDesignCharacteristics.Rd |only rpact-3.4.0/rpact/man/printCitation.Rd | 4 rpact-3.4.0/rpact/man/rpact.Rd | 1 rpact-3.4.0/rpact/src/RcppExports.cpp | 16 rpact-3.4.0/rpact/src/f_assertions.cpp | 4 rpact-3.4.0/rpact/src/f_assertions.h | 4 rpact-3.4.0/rpact/src/f_design_fisher_combination_test.cpp | 4 rpact-3.4.0/rpact/src/f_design_group_sequential.cpp | 365 rpact-3.4.0/rpact/src/f_simulation_base_means.cpp | 4 rpact-3.4.0/rpact/src/f_simulation_base_rates.cpp | 4 rpact-3.4.0/rpact/src/f_simulation_survival_utilities.h | 4 rpact-3.4.0/rpact/src/f_utilities.cpp | 24 rpact-3.4.0/rpact/src/f_utilities.h | 19 rpact-3.4.0/rpact/tests/testthat/helper-f_core_output_formats.R |only rpact-3.4.0/rpact/tests/testthat/test-class_core_plot_settings.R |only rpact-3.4.0/rpact/tests/testthat/test-class_design_plan.R |only rpact-3.4.0/rpact/tests/testthat/test-class_design_set.R |only rpact-3.4.0/rpact/tests/testthat/test-class_simulation_results.R |only rpact-3.4.0/rpact/tests/testthat/test-f_core_output_formats.R | 392 rpact-3.4.0/rpact/tests/testthat/test-f_core_plot.R | 113 rpact-3.4.0/rpact/tests/testthat/test-f_design_group_sequential.R | 560 - rpact-3.4.0/rpact/tests/testthat/test-f_design_group_sequential_beta_spending.R | 324 rpact-3.4.0/rpact/tests/testthat/test-f_logger.R |only rpact-3.4.0/rpact/tests/testthat/test-f_quality_assurance.R |only rpact-3.4.0/rpact/tests/testthat/test-f_simulation_base_means.R | 9 rpact-3.4.0/rpact/tests/testthat/test-f_simulation_base_rates.R | 7 rpact-3.4.0/rpact/tests/testthat/test-f_simulation_enrichment_survival.R | 155 rpact-3.4.0/rpact/tests/testthat/test-f_simulation_performance_score.R |only rpact-3.4.0/rpact/tests/testthat/test-pkgname.R |only rpact-3.4.0/rpact/vignettes/rpact_getting_started.Rmd | 63 198 files changed, 12279 insertions(+), 10190 deletions(-)
Title: A Collection of Efficient and Extremely Fast R Functions
Description: A collection of fast (utility) functions for data analysis. Column- and row- wise means, medians, variances, minimums, maximums, many t, F and G-square tests, many regressions (normal, logistic, Poisson), are some of the many fast functions. References: a) Tsagris M., Papadakis M. (2018). Taking R to its limits: 70+ tips. PeerJ Preprints 6:e26605v1 <doi:10.7287/peerj.preprints.26605v1>. b) Tsagris M. and Papadakis M. (2018). Forward regression in R: from the extreme slow to the extreme fast. Journal of Data Science, 16(4): 771--780. <doi:10.6339/JDS.201810_16(4).00006>.
Author: Manos Papadakis, Michail Tsagris, Marios Dimitriadis, Stefanos Fafalios, Ioannis Tsamardinos, Matteo Fasiolo, Giorgos Borboudakis, John Burkardt, Changliang Zou, Kleanthi Lakiotaki and Christina Chatzipantsiou.
Maintainer: Manos Papadakis <rfastofficial@gmail.com>
Diff between Rfast versions 2.0.7 dated 2023-02-16 and 2.0.8 dated 2023-07-03
DESCRIPTION | 8 MD5 | 148 +- NAMESPACE | 2 NEWS.md | 91 + R/Dist.R | 2 R/Rank.R | 6 R/Sort.R | 50 R/group.R | 8 R/min_max.R | 16 R/onAttach.R |only R/range.R | 4 R/system_and_package.R | 7 inst/include/Rfast/helpers.hpp | 760 +++++++----- inst/include/Rfast/matrix.hpp | 2420 ++++++++++++++++++++++++++++---------- inst/include/Rfast/templates.h | 21 inst/include/Rfast/types.hpp |only inst/include/Rfast/vector.hpp | 136 +- man/Rfast-package.Rd | 4 man/Round.Rd | 10 man/Sort.Rd | 16 man/ancova1.Rd | 2 man/ancovas.Rd | 2 man/beta.mle.Rd | 2 man/bic.corfsreg.Rd | 4 man/boot.ttest2.Rd | 2 man/cat.goftests.Rd | 2 man/checkNamespace.Rd | 5 man/cholesky.Rd | 6 man/colAny.Rd | 18 man/colMads.Rd | 4 man/colMedians.Rd | 2 man/colMins.Rd | 4 man/colRanks.Rd | 2 man/colShuffle.Rd | 6 man/colTabulate.Rd | 5 man/colaucs.Rd | 2 man/colkurtosis.Rd | 4 man/colmeans.Rd | 13 man/colnth.Rd | 7 man/colrange.Rd | 7 man/colrint.regbx.Rd | 2 man/comb_n.Rd | 4 man/cor.fsreg.Rd | 2 man/corpairs.Rd | 2 man/count_value.Rd | 4 man/dcor.Rd | 15 man/dista.Rd | 4 man/eel.test1.Rd | 4 man/eel.test2.Rd | 4 man/expregs.Rd | 2 man/g2Test_univariate.Rd | 2 man/gammamle.Rd | 6 man/invdir.mle.Rd | 2 man/kruskaltests.Rd | 4 man/logistic.cat1.Rd | 10 man/mvbetas.Rd | 2 man/poisson.anovas.Rd | 2 man/quasi.poisson_only.Rd | 2 man/rint.regbx.Rd | 2 man/rowMins.Rd | 14 man/sftests.Rd | 2 man/sort_mat.Rd | 10 man/tobit.mle.Rd | 2 man/transpose.Rd | 5 man/ttests.Rd | 4 man/twoway.anovas.Rd | 4 src/add_to_namespace.cpp | 10 src/check.cpp | 473 ++++--- src/col_row_utilities.cpp | 2586 +++++++++++++++++++++++------------------ src/col_row_utilities_p.cpp | 106 - src/init.c | 22 src/matrices.cpp | 4 src/sort_mat.cpp | 10 src/system_files.cpp | 910 ++++++++------ src/system_files.h | 2 src/utilities.cpp | 6 76 files changed, 4998 insertions(+), 3055 deletions(-)
Title: Clinical Stroke Research
Description: This is an R-toolbox of custom functions for convenient data management
and analysis in clinical health research and teaching.
The package is mainly collected for personal use, but any use beyond that is encouraged.
This package has migrated functions from 'agdamsbo/daDoctoR', and new functions has been added.
Version follows months and year. See NEWS/Changelog for release notes.
This package includes sampled data from the TALOS trial (Kraglund et al (2018) <doi:10.1161/STROKEAHA.117.020067>).
The win_prob() function is based on work by Zou et al (2022) <doi:10.1161/STROKEAHA.121.037744>.
The age_calc() function is based on work by Becker (2020) <doi:10.18637/jss.v093.i02>.
Author: Andreas Gammelgaard Damsbo [aut, cre]
Maintainer: Andreas Gammelgaard Damsbo <agdamsbo@clin.au.dk>
Diff between stRoke versions 23.4.1 dated 2023-04-13 and 23.6.3 dated 2023-07-03
stRoke-23.4.1/stRoke/man/figures/hexlogo.png |only stRoke-23.6.3/stRoke/DESCRIPTION | 9 stRoke-23.6.3/stRoke/MD5 | 51 stRoke-23.6.3/stRoke/NAMESPACE | 6 stRoke-23.6.3/stRoke/NEWS.md | 22 stRoke-23.6.3/stRoke/R/contrast_text.R | 67 stRoke-23.6.3/stRoke/R/ds2dd.R | 9 stRoke-23.6.3/stRoke/R/index_plot.R | 9 stRoke-23.6.3/stRoke/R/pase.R |only stRoke-23.6.3/stRoke/R/pase_calc.R |only stRoke-23.6.3/stRoke/R/win_prob.R | 10 stRoke-23.6.3/stRoke/README.md | 5 stRoke-23.6.3/stRoke/build/partial.rdb |binary stRoke-23.6.3/stRoke/build/vignette.rds |binary stRoke-23.6.3/stRoke/data/pase.rda |only stRoke-23.6.3/stRoke/inst/WORDLIST | 6 stRoke-23.6.3/stRoke/inst/doc/ds2dd.html | 44 stRoke-23.6.3/stRoke/inst/doc/toolbox.html | 1383 ++++++--------- stRoke-23.6.3/stRoke/man/color_plot.Rd |only stRoke-23.6.3/stRoke/man/contrast_text.Rd | 5 stRoke-23.6.3/stRoke/man/ds2dd.Rd | 6 stRoke-23.6.3/stRoke/man/figures/brain.256x256.png |only stRoke-23.6.3/stRoke/man/figures/logo.png |only stRoke-23.6.3/stRoke/man/pase.Rd |only stRoke-23.6.3/stRoke/man/pase_calc.Rd |only stRoke-23.6.3/stRoke/man/print.win_Prob.Rd |only stRoke-23.6.3/stRoke/man/stRoke-package.Rd | 2 stRoke-23.6.3/stRoke/tests/testthat/Rplots.pdf |only stRoke-23.6.3/stRoke/tests/testthat/data |only stRoke-23.6.3/stRoke/tests/testthat/test-contrast_text.R | 50 stRoke-23.6.3/stRoke/tests/testthat/test-pase_calc.R |only stRoke-23.6.3/stRoke/tests/testthat/test-win_prob.R | 6 32 files changed, 819 insertions(+), 871 deletions(-)
Title: Species Distribution Model Selection
Description: User-friendly framework that enables the training and the
evaluation of species distribution models (SDMs). The package implements
functions for data driven variable selection and model tuning and includes
numerous utilities to display the results. All the functions used to select
variables or to tune model hyperparameters have an interactive real-time
chart displayed in the 'RStudio' viewer pane during their execution.
Author: Sergio Vignali [aut, cre] ,
Arnaud Barras [aut] ,
Veronika Braunisch [aut] ,
Conservation Biology - University of Bern [fnd]
Maintainer: Sergio Vignali <sergio.vignali@unibe.ch>
Diff between SDMtune versions 1.3.0 dated 2023-05-02 and 1.3.1 dated 2023-07-03
DESCRIPTION | 9 +-- MD5 | 102 +++++++++++++++++++-------------------- NEWS.md | 3 + R/SDMmodel2MaxEnt.R | 10 +-- R/auc.R | 5 - R/doJk.R | 6 -- R/gridSearch.R | 6 -- R/maxentTh.R | 6 -- R/maxentVarImp.R | 6 -- R/modelReport.R | 10 +-- R/optimizeModel.R | 7 -- R/plotCor.R | 6 -- R/plotJk.R | 6 -- R/plotPA.R | 16 ++---- R/plotPred.R | 10 +-- R/plotROC.R | 4 - R/plotResponse.R | 36 +++++++++++-- R/predict-SDMmodel.R | 3 - R/predict-SDMmodelCV.R | 13 +--- R/randomSearch.R | 6 -- R/reduceVar.R | 7 -- R/swd2csv.R | 7 -- R/thinData.R | 6 -- R/train.R | 9 +-- R/tss.R | 10 +-- R/varImp.R | 6 -- R/varSel.R | 7 -- man/SDMmodel2MaxEnt.Rd | 7 -- man/SDMtune-package.Rd | 1 man/auc.Rd | 5 - man/doJk.Rd | 6 -- man/gridSearch.Rd | 6 -- man/maxentTh.Rd | 6 -- man/maxentVarImp.Rd | 6 -- man/modelReport.Rd | 10 +-- man/optimizeModel.Rd | 7 -- man/plotCor.Rd | 6 -- man/plotJk.Rd | 6 -- man/plotPA.Rd | 16 ++---- man/plotPred.Rd | 10 +-- man/plotROC.Rd | 1 man/plotResponse.Rd | 39 ++++++++++++-- man/predict-SDMmodel-method.Rd | 3 - man/predict-SDMmodelCV-method.Rd | 13 +--- man/randomSearch.Rd | 6 -- man/reduceVar.Rd | 7 -- man/swd2csv.Rd | 7 -- man/thinData.Rd | 6 -- man/train.Rd | 9 +-- man/tss.Rd | 10 +-- man/varImp.Rd | 6 -- man/varSel.Rd | 7 -- 52 files changed, 235 insertions(+), 293 deletions(-)
Title: Jacobi Theta Functions and Related Functions
Description: Evaluation of the Jacobi theta functions and related
functions: Weierstrass elliptic function, Weierstrass sigma function,
Weierstrass zeta function, Klein j-function, Dedekind eta function,
lambda modular function, Jacobi elliptic functions, Neville theta
functions, Eisenstein series, lemniscate elliptic functions, and
Dixon elliptic functions. Complex values of the variable are
supported.
Author: Stephane Laurent [aut, cre],
Mikael Fremling [aut]
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Diff between jacobi versions 2.3.0 dated 2023-04-24 and 2.3.1 dated 2023-07-03
DESCRIPTION | 6 MD5 | 124 +++++----- NAMESPACE | 90 +++---- NEWS.md | 106 ++++---- R/CostaMesh.R | 174 +++++++------- R/Dixon.R | 62 ++--- R/RcppExports.R | 262 ++++++++++----------- R/aaa.R | 8 R/agm.R | 40 +-- R/am.R | 38 +-- R/eisenstein.R | 90 +++---- R/eta-dedekind.R | 36 +- R/internal.R | 190 +++++++-------- R/jellip.R | 92 +++---- R/jtheta.R | 344 ++++++++++++++-------------- R/jtheta1derivatives.R | 60 ++-- R/klein-j.R | 114 ++++----- R/lambda.R | 96 +++---- R/lemniscate.R | 146 +++++------ R/theta-neville.R | 162 ++++++------- R/weierstrassStuff.R | 182 +++++++------- R/wp.R | 440 ++++++++++++++++++------------------ R/wpinv.R | 112 ++++----- R/wsigma.R | 142 +++++------ R/wzeta.R | 136 +++++------ README.md | 80 +++--- man/CostaMesh.Rd | 56 ++-- man/Dixon.Rd | 62 ++--- man/EisensteinE.Rd | 40 +-- man/agm.Rd | 46 +-- man/am.Rd | 52 ++-- man/ellipticInvariants.Rd | 34 +- man/eta.Rd | 42 +-- man/halfPeriods.Rd | 34 +- man/jellip.Rd | 68 ++--- man/jtheta1.Rd | 64 ++--- man/jtheta2.Rd | 64 ++--- man/jtheta3.Rd | 64 ++--- man/jtheta4.Rd | 64 ++--- man/kleinj.Rd | 72 ++--- man/lambda.Rd | 60 ++-- man/lemniscate.Rd | 102 ++++---- man/neville.Rd | 64 ++--- man/wp.Rd | 76 +++--- man/wpinv.Rd | 66 ++--- man/wsigma.Rd | 62 ++--- man/wzeta.Rd | 66 ++--- tests/testthat.R | 24 - tests/testthat/test-Dixon.R | 12 tests/testthat/test-agm.R | 34 ++ tests/testthat/test-am.R | 18 - tests/testthat/test-eisenstein.R | 54 ++-- tests/testthat/test-eta.R | 8 tests/testthat/test-jellip.R | 33 ++ tests/testthat/test-jtheta.R | 50 ++-- tests/testthat/test-kleinj.R | 64 ++--- tests/testthat/test-lambda.R | 20 - tests/testthat/test-lemniscate.R | 52 ++-- tests/testthat/test-theta-neville.R | 12 tests/testthat/test-wp.R | 123 ++++++---- tests/testthat/test-wpinv.R | 12 tests/testthat/test-wsigma.R | 24 + tests/testthat/test-wzeta.R | 72 +++-- 63 files changed, 2662 insertions(+), 2540 deletions(-)
Title: Standardize Dates in Different Formats or with Missing Data
Description: There are many different formats dates are commonly
represented with: the order of day, month, or year can differ,
different separators ("-", "/", or whitespace) can be used, months can
be numerical, names, or abbreviations and year given as two digits or
four. 'datefixR' takes dates in all these different formats and
converts them to R's built-in date class. If 'datefixR' cannot
standardize a date, such as because it is too malformed, then the user
is told which date cannot be standardized and the corresponding ID for
the row. 'datefixR' also allows the imputation of missing days and
months with user-controlled behavior.
Author: Nathan Constantine-Cooke [aut, cre]
,
Jonathan Kitt [ctb, trl],
Antonio J. Perez-Luque [ctb, trl]
,
Daniel Possenriede [ctb, trl] ,
Kaique dos S. Alves [rev] ,
Al-Ahmadgaid B. Asaad [rev] ,
Anatoly Tsyplenkov [ctb, trl]
Maintainer: Nathan Constantine-Cooke <nathan.constantine-cooke@ed.ac.uk>
Diff between datefixR versions 1.4.1 dated 2023-02-10 and 1.5.0 dated 2023-07-03
datefixR-1.4.1/datefixR/tests/testthat/_snaps/mac-4.2/app_1/001_.new.png |only datefixR-1.4.1/datefixR/tests/testthat/_snaps/mac-4.2/app_1/003_.new.png |only datefixR-1.4.1/datefixR/tests/testthat/_snaps/shiny/app_1/001_.new.png |only datefixR-1.4.1/datefixR/tests/testthat/_snaps/shiny/app_1/003_.new.png |only datefixR-1.5.0/datefixR/DESCRIPTION | 13 datefixR-1.5.0/datefixR/MD5 | 99 ++-- datefixR-1.5.0/datefixR/NEWS.md | 19 datefixR-1.5.0/datefixR/R/RcppExports.R | 8 datefixR-1.5.0/datefixR/R/datefixR-package.R | 1 datefixR-1.5.0/datefixR/R/fix_date_char.R | 4 datefixR-1.5.0/datefixR/R/fix_date_df.R | 11 datefixR-1.5.0/datefixR/R/internal.R | 43 +- datefixR-1.5.0/datefixR/R/months.R | 102 ++++ datefixR-1.5.0/datefixR/README.md | 77 ++- datefixR-1.5.0/datefixR/build/vignette.rds |binary datefixR-1.5.0/datefixR/data/exampledates.rda |binary datefixR-1.5.0/datefixR/inst/WORDLIST | 4 datefixR-1.5.0/datefixR/inst/doc/datefixR.R | 3 datefixR-1.5.0/datefixR/inst/doc/datefixR.Rmd | 15 datefixR-1.5.0/datefixR/inst/doc/datefixR.html | 55 +- datefixR-1.5.0/datefixR/inst/po/de/LC_MESSAGES/R-datefixR.mo |binary datefixR-1.5.0/datefixR/inst/po/en@quot/LC_MESSAGES/R-datefixR.mo |binary datefixR-1.5.0/datefixR/inst/po/en@quot/LC_MESSAGES/datefixR.mo |binary datefixR-1.5.0/datefixR/inst/po/es/LC_MESSAGES/R-datefixR.mo |binary datefixR-1.5.0/datefixR/inst/po/fr/LC_MESSAGES/R-datefixR.mo |binary datefixR-1.5.0/datefixR/inst/po/ru |only datefixR-1.5.0/datefixR/man/datefixR.Rd | 1 datefixR-1.5.0/datefixR/man/figures/example.svg | 2 datefixR-1.5.0/datefixR/man/fix_date_char.Rd | 9 datefixR-1.5.0/datefixR/man/fix_date_df.Rd | 9 datefixR-1.5.0/datefixR/po/LINGUAS | 2 datefixR-1.5.0/datefixR/po/R-datefixR.pot | 10 datefixR-1.5.0/datefixR/po/R-de.po | 24 - datefixR-1.5.0/datefixR/po/R-es.po | 24 - datefixR-1.5.0/datefixR/po/R-fr.po | 24 - datefixR-1.5.0/datefixR/po/R-pt.po | 8 datefixR-1.5.0/datefixR/po/R-ru.po |only datefixR-1.5.0/datefixR/po/datefixR.pot | 4 datefixR-1.5.0/datefixR/po/ru.po |only datefixR-1.5.0/datefixR/src/RcppExports.cpp | 24 - datefixR-1.5.0/datefixR/src/code.cpp | 12 datefixR-1.5.0/datefixR/tests/testthat/_snaps/mac-4.2/app_1/001_.png |binary datefixR-1.5.0/datefixR/tests/testthat/_snaps/mac-4.2/app_1/003_.png |binary datefixR-1.5.0/datefixR/tests/testthat/_snaps/mac-4.3 |only datefixR-1.5.0/datefixR/tests/testthat/_snaps/shiny/app_1/001.json | 4 datefixR-1.5.0/datefixR/tests/testthat/_snaps/shiny/app_1/001_.png |binary datefixR-1.5.0/datefixR/tests/testthat/_snaps/shiny/app_1/003.json | 4 datefixR-1.5.0/datefixR/tests/testthat/_snaps/shiny/app_1/003_.png |binary datefixR-1.5.0/datefixR/tests/testthat/test_app_1.R | 4 datefixR-1.5.0/datefixR/tests/testthat/test_languages.R | 215 ++++++---- datefixR-1.5.0/datefixR/tests/testthat/test_roman.R |only datefixR-1.5.0/datefixR/vignettes/datefixR.Rmd | 15 52 files changed, 561 insertions(+), 288 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-06-28 0.1.0
Title: Tests on Properties of Space-Time Covariance Functions
Description: Tests on properties of space-time covariance functions.
Tests on symmetry, separability and for assessing
different forms of non-separability are available. Moreover tests on
some classes of covariance functions, such that the classes of
product-sum models, Gneiting models and integrated product models have
been provided. It is the companion R package to the papers of
Cappello, C., De Iaco, S., Posa, D., 2018, Testing the type of non-separability
and some classes of space-time covariance function models <doi:10.1007/s00477-017-1472-2>
and Cappello, C., De Iaco, S., Posa, D., 2020, covatest: an R package for
selecting a class of space-time covariance functions <doi:10.18637/jss.v094.i01>.
Author: Sandra De Iaco [aut, cre],
Claudia Cappello [aut],
Donato Posa [aut],
Sabrina Maggio [ctb]
Maintainer: Sandra De Iaco <sandra.deiaco@unisalento.it>
Diff between covatest versions 1.2.2 dated 2022-10-28 and 1.2.3 dated 2023-07-03
DESCRIPTION | 12 +++++++----- MD5 | 21 +++++++++++---------- NAMESPACE | 2 ++ R/blocks.R | 13 ++++++++----- R/couples.R | 23 ++++++++++++++--------- R/covaprop.R | 13 +++++++------ R/sepindex.R | 17 ++++++++++++----- build |only man/blocks-class.Rd | 13 ++++++++----- man/couples-class.Rd | 18 +++++++++++------- man/covaprop-class.Rd | 11 ++++++----- man/sepindex-class.Rd | 16 +++++++++++----- 12 files changed, 97 insertions(+), 62 deletions(-)
Title: Comparative Analyses of Phylogenetics and Evolution in R
Description: Functions for performing phylogenetic comparative analyses.
Author: David Orme [aut, cre] ,
Rob Freckleton [aut],
Gavin Thomas [aut],
Thomas Petzoldt [aut],
Susanne Fritz [aut],
Nick Isaac [aut],
Will Pearse [aut]
Maintainer: David Orme <d.orme@imperial.ac.uk>
Diff between caper versions 1.0.1 dated 2018-04-17 and 1.0.2 dated 2023-07-03
caper-1.0.1/caper/data/pglsBenchmarks.rda |only caper-1.0.1/caper/inst/doc/caper-benchmarks.R |only caper-1.0.1/caper/inst/doc/caper-benchmarks.pdf |only caper-1.0.1/caper/inst/doc/caper-benchmarks.rnw |only caper-1.0.1/caper/vignettes/caper-benchmarks.rnw |only caper-1.0.2/caper/DESCRIPTION | 32 +- caper-1.0.2/caper/MD5 | 53 +-- caper-1.0.2/caper/R/clade.matrix.R | 91 ++--- caper-1.0.2/caper/R/clade.members.R | 112 +++---- caper-1.0.2/caper/R/pd.calc.R | 335 ++++++++++----------- caper-1.0.2/caper/R/vcv.array.R | 109 +++--- caper-1.0.2/caper/build/vignette.rds |binary caper-1.0.2/caper/data/BritishBirds.rda |binary caper-1.0.2/caper/data/IsaacEtAl.rda |binary caper-1.0.2/caper/data/benchBayesTraitsOutputs.rda |binary caper-1.0.2/caper/data/benchBrunchOutputs.rda |binary caper-1.0.2/caper/data/benchCrunchOutputs.rda |binary caper-1.0.2/caper/data/benchFuscoOutputs.rda |binary caper-1.0.2/caper/data/benchMacroCAICOutputs.rda |binary caper-1.0.2/caper/data/benchMesaOutputs.rda |binary caper-1.0.2/caper/data/benchTestInputs.rda |binary caper-1.0.2/caper/data/fuscoData.rda |binary caper-1.0.2/caper/data/perissodactyla.rda |binary caper-1.0.2/caper/data/shorebird.rda |binary caper-1.0.2/caper/data/syrphidae.rda |binary caper-1.0.2/caper/inst/doc/caper.R | 7 caper-1.0.2/caper/inst/doc/caper.pdf |binary caper-1.0.2/caper/inst/doc/caper.rnw | 287 ++++++++++++++--- caper-1.0.2/caper/man/caic-class.Rd | 40 +- caper-1.0.2/caper/vignettes/caper.rnw | 287 ++++++++++++++--- 30 files changed, 859 insertions(+), 494 deletions(-)
Title: Harmonise and Integrate Heterogeneous Areal Data
Description: Many relevant applications in the environmental and socioeconomic
sciences use areal data, such as biodiversity checklists, agricultural statistics,
or socioeconomic surveys. For applications that surpass the spatial, temporal or
thematic scope of any single data source, data must be integrated from several
heterogeneous sources. Inconsistent concepts, definitions, or messy data tables
make this a tedious and error-prone process. 'arealDB' tackles those problems and
helps the user to integrate a harmonised databases of areal data. Read the paper
at Ehrmann, Seppelt & Meyer (2020) <doi:10.1016/j.envsoft.2020.104799>.
Author: Steffen Ehrmann [aut, cre] ,
Arne Ruemmler [aut, ctb] ,
Felipe Melges [ctb] ,
Carsten Meyer [aut]
Maintainer: Steffen Ehrmann <steffen.ehrmann@posteo.de>
Diff between arealDB versions 0.6.2 dated 2023-06-15 and 0.6.3 dated 2023-07-03
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- NEWS.md | 4 ++++ R/matchOntology.R | 2 +- R/normGeometry.R | 2 -- R/normTable.R | 1 - R/start_arealDB.R | 9 +++++---- README.md | 17 +++++++++++++---- man/matchOntology.Rd | 2 +- man/start_arealDB.Rd | 5 ++--- 10 files changed, 38 insertions(+), 28 deletions(-)
Title: Spatio-Temporal Point Pattern Methods, Model Fitting,
Diagnostics, Simulation, Local Tests
Description: Toolbox for different kinds of spatio-temporal analyses to be performed on observed point patterns, following the growing stream of literature on point process theory. This R package implements functions to perform different kinds of analyses on point processes, proposed in the papers (Siino, Adelfio, and Mateu 2018<doi:10.1007/s00477-018-1579-0>; Siino et al. 2018<doi:10.1002/env.2463>; Adelfio et al. 2020<doi:10.1007/s00477-019-01748-1>; D’Angelo, Adelfio, and Mateu 2021<doi:10.1016/j.spasta.2021.100534>; D’Angelo, Adelfio, and Mateu 2022<doi:10.1007/s00362-022-01338-4>; D’Angelo, Adelfio, and Mateu 2023<doi:10.1016/j.csda.2022.107679>). The main topics include modeling, statistical inference, and simulation issues on spatio-temporal point processes on Euclidean space and linear networks.
Author: Nicoletta D'Angelo [aut, cre] ,
Giada Adelfio [aut]
Maintainer: Nicoletta D'Angelo <nicoletta.dangelo@unipa.it>
Diff between stopp versions 0.1.0 dated 2023-02-24 and 0.1.1 dated 2023-07-03
DESCRIPTION | 8 - MD5 | 16 +- man/localdiag.Rd | 311 +++++++++++++++++++++------------------------------ man/localtest.Rd | 276 +++++++++++++++++++-------------------------- man/locstppm.Rd | 63 ---------- man/sepstlppm.Rd | 1 man/stlgcppm.Rd | 29 ---- man/stopp-package.Rd | 50 ++++---- man/stppm.Rd | 67 ---------- 9 files changed, 294 insertions(+), 527 deletions(-)
Title: Read and Write 'jamovi' Files ('.omv')
Description: The free and open a statistical spreadsheet 'jamovi'
(<https://www.jamovi.org>) aims to make statistical analyses easy and
intuitive. 'jamovi' produces syntax that can directly be used in R (in
connection with the R-package 'jmv'). Having import / export routines for
the data files 'jamovi' produces ('.omv') permits an easy transfer of
data and analyses between 'jamovi' and R.
Author: Sebastian Jentschke [aut, cre]
Maintainer: Sebastian Jentschke <sebastian.jentschke@uib.no>
Diff between jmvReadWrite versions 0.3.6 dated 2023-06-26 and 0.3.7 dated 2023-07-03
DESCRIPTION | 10 ++-- MD5 | 63 +++++++++++++------------ NAMESPACE | 1 NEWS.md | 10 ++++ R/arrange_cols_omv.R | 35 +++++++------- R/globals.R | 40 +++++++++++++--- R/long2wide_omv.R | 22 +++------ R/merge_cols_omv.R | 20 ++++---- R/read_omv.R | 2 R/sort_omv.R | 33 +++++++------ R/transpose_omv.R |only R/wide2long_omv.R | 21 +++----- R/write_omv.R | 4 - README.md | 7 ++ build/vignette.rds |binary inst/CITATION | 2 inst/WORDLIST | 3 + inst/doc/jmvReadWrite.Rmd | 3 + inst/doc/jmvReadWrite.html | 9 ++- man/arrange_cols_omv.Rd | 16 +++--- man/long2wide_omv.Rd | 10 ++-- man/sort_omv.Rd | 14 ++--- man/transpose_omv.Rd |only man/wide2long_omv.Rd | 11 ++-- tests/testthat/test-arrange_cols_omv.R | 74 +++++++++++++++--------------- tests/testthat/test-globals.R | 28 +++++++++-- tests/testthat/test-long2wide_omv.R | 80 +++++++++++++++++++-------------- tests/testthat/test-merge_cols_omv.R | 23 +++++++++ tests/testthat/test-merge_rows_omv.R | 2 tests/testthat/test-sort_omv.R | 56 ++++++++++++++++++----- tests/testthat/test-transpose_omv.R |only tests/testthat/test-wide2long_omv.R | 74 +++++++++++++++++------------- tests/testthat/test-write_omv.R | 2 vignettes/jmvReadWrite.Rmd | 3 + 34 files changed, 417 insertions(+), 261 deletions(-)
Title: Text Conversion from Nexis Uni PDFs to R Data Frames
Description: Transform 'newswire' and earnings call transcripts as PDF obtained from 'Nexis Uni' to R data frames. Various 'newswires' and 'FairDisclosure' earnings call formats are supported. Further, users can apply several pre-defined dictionaries on the data based on Graffin et al. (2016)<doi:10.5465/amj.2013.0288> and Gamache et al. (2015)<doi:10.5465/amj.2013.0377>.
Author: Jonas Roettger [aut, cre]
Maintainer: Jonas Roettger <jonas.roettger@gmx.net>
Diff between disclosuR versions 0.5.0 dated 2023-06-26 and 0.5.1 dated 2023-07-03
DESCRIPTION | 6 +- MD5 | 8 +- NAMESPACE | 1 R/2023-04-24_DisclosuR.R | 121 +++++++++++++++++++++++-------------------- man/impression_offsetting.Rd | 7 +- 5 files changed, 77 insertions(+), 66 deletions(-)
Title: Data Cloning and MCMC Tools for Maximum Likelihood Methods
Description: Low level functions for implementing
maximum likelihood estimating procedures for
complex models using data cloning and Bayesian
Markov chain Monte Carlo methods
as described in Solymos 2010 <doi:10.32614/RJ-2010-011>.
Sequential and parallel MCMC support
for 'JAGS', 'WinBUGS', 'OpenBUGS', and 'Stan'.
Author: Peter Solymos [aut, cre]
Maintainer: Peter Solymos <psolymos@gmail.com>
Diff between dclone versions 2.3-0 dated 2019-03-22 and 2.3-2 dated 2023-07-03
DESCRIPTION | 20 +- MD5 | 59 ++++---- NAMESPACE | 2 NEWS.md |only R/dc.fit.R | 5 R/dc.parfit.R | 9 - R/dcFit.R | 23 ++- R/dclone.dctr.R | 2 R/pairs.mcmc.list.R | 2 R/stan.fit.R | 2 R/stan.parfit.R | 2 R/summary.mcmc.list.dc.R | 9 - inst/CITATION | 4 inst/WORDLIST |only man/DcloneEnv.Rd | 206 ++++++++++++++-------------- man/bugs.fit.Rd | 318 ++++++++++++++++++++++---------------------- man/coef.mcmc.list.Rd | 230 +++++++++++++++---------------- man/dc.fit.Rd | 16 +- man/dc.parfit.Rd | 8 - man/dcFit.Rd | 8 - man/dclone-package.Rd | 2 man/errlines.Rd | 188 +++++++++++++------------- man/evalParallelArgument.Rd | 86 +++++------ man/jags.fit.Rd | 256 +++++++++++++++++------------------ man/make.symmetric.Rd | 90 ++++++------ man/mcmcapply.Rd | 120 ++++++++-------- man/nclones.Rd | 80 +++++------ man/ovenbird.Rd | 82 +++++------ man/pairs.mcmc.list.Rd | 152 ++++++++++----------- man/parallel.inits.Rd | 136 +++++++++--------- man/regmod.Rd | 104 +++++++------- tests |only 32 files changed, 1135 insertions(+), 1086 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-06-16 0.1.10
2023-06-12 0.1.9
2023-06-08 0.1.8
2023-06-05 0.1.7
2023-06-02 0.1.6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-05-02 3.3.0
2021-10-11 2.3.2
2021-10-05 2.3.1
2019-12-17 1.64.5
2019-12-16 1.64.4
2019-05-29 1.61.0
2017-09-06 1.22.1
2017-05-29 1.8.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-06-14 1.0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-03-15 0.7.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-03-02 0.10.7
2019-01-07 0.10.6
2018-07-01 0.10.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-04-09 0.3.2
2023-04-03 0.3.1
2022-06-15 0.2.4
2022-06-13 0.2.3
2022-05-31 0.2.2
2022-01-21 0.2.1
2021-09-14 0.1.8
2021-06-29 0.1.7
2021-05-29 0.1.6
2021-01-04 0.1.3
2020-11-26 0.1.1
2020-11-23 0.1.0
Title: Enhance Reproducibility of R Code
Description: A collection of high-level, machine- and OS-independent tools
for making reproducible and reusable content in R.
The two workhorse functions are Cache() and prepInputs(). Cache()
allows for nested caching, is robust to environments and objects with
environments (like functions), and has deals with some classes of
file-backed R objects e.g., from terra and raster packages.
Both functions have been developed to
be foundational components of data retrieval
and processing in continuous workflow situations. In both functions,
efforts are made to make the first and subsequent calls of functions have
the same result, but faster at subsequent times by way of checksums
and digesting. Several features are still under development, including
cloud storage of cached objects, allowing for sharing between users. Several
advanced options are available, see ?reproducibleOptions().
Author: Eliot J B McIntire [aut, cre] ,
Alex M Chubaty [aut] ,
Tati Micheletti [ctb] ,
Ceres Barros [ctb] ,
Ian Eddy [ctb] ,
His Majesty the King in Right of Canada, as represented by the Minister
of Natural Resources Canada [cph]
Maintainer: Eliot J B McIntire <eliot.mcintire@canada.ca>
Diff between reproducible versions 2.0.4 dated 2023-05-31 and 2.0.5 dated 2023-07-03
reproducible-2.0.4/reproducible/man/dealWithClass.Rd |only reproducible-2.0.5/reproducible/DESCRIPTION | 8 reproducible-2.0.5/reproducible/MD5 | 116 reproducible-2.0.5/reproducible/NAMESPACE | 16 reproducible-2.0.5/reproducible/NEWS.md | 647 +- reproducible-2.0.5/reproducible/R/DBI.R | 143 reproducible-2.0.5/reproducible/R/cache-helpers.R | 2 reproducible-2.0.5/reproducible/R/cache.R | 22 reproducible-2.0.5/reproducible/R/cloud.R | 47 reproducible-2.0.5/reproducible/R/convertPaths.R | 72 reproducible-2.0.5/reproducible/R/copy.R | 53 reproducible-2.0.5/reproducible/R/download.R | 2 reproducible-2.0.5/reproducible/R/exportedMethods.R | 267 reproducible-2.0.5/reproducible/R/helpers.R | 3 reproducible-2.0.5/reproducible/R/objectSize.R | 2 reproducible-2.0.5/reproducible/R/preProcess.R | 10 reproducible-2.0.5/reproducible/R/robustDigest.R | 8 reproducible-2.0.5/reproducible/R/showCacheEtc.R | 27 reproducible-2.0.5/reproducible/build/vignette.rds |binary reproducible-2.0.5/reproducible/inst/doc/Intro-to-Cache.R | 10 reproducible-2.0.5/reproducible/inst/doc/Intro-to-Cache.Rmd | 12 reproducible-2.0.5/reproducible/inst/doc/Intro-to-Cache.html | 2830 +++++----- reproducible-2.0.5/reproducible/man/Cache.Rd | 4 reproducible-2.0.5/reproducible/man/CacheDigest.Rd | 2 reproducible-2.0.5/reproducible/man/Copy.Rd | 2 reproducible-2.0.5/reproducible/man/Filenames.Rd | 6 reproducible-2.0.5/reproducible/man/cloudDownload.Rd | 2 reproducible-2.0.5/reproducible/man/dotWrap.Rd |only reproducible-2.0.5/reproducible/man/movedCache.Rd | 2 reproducible-2.0.5/reproducible/man/prepareFileBackedRaster.Rd | 2 reproducible-2.0.5/reproducible/man/robustDigest.Rd | 2 reproducible-2.0.5/reproducible/man/saveToCache.Rd | 2 reproducible-2.0.5/reproducible/man/viewCache.Rd | 2 reproducible-2.0.5/reproducible/man/writeFuture.Rd | 2 reproducible-2.0.5/reproducible/tests/testthat/helper-allEqual.R | 222 reproducible-2.0.5/reproducible/tests/testthat/setup.R | 2 reproducible-2.0.5/reproducible/tests/testthat/test-cache.R | 384 - reproducible-2.0.5/reproducible/tests/testthat/test-cacheGeo.R | 7 reproducible-2.0.5/reproducible/tests/testthat/test-cacheHelpers.R | 20 reproducible-2.0.5/reproducible/tests/testthat/test-checkPath.R | 2 reproducible-2.0.5/reproducible/tests/testthat/test-checksums.R | 5 reproducible-2.0.5/reproducible/tests/testthat/test-cloud.R | 19 reproducible-2.0.5/reproducible/tests/testthat/test-cluster.R | 5 reproducible-2.0.5/reproducible/tests/testthat/test-copy.R | 5 reproducible-2.0.5/reproducible/tests/testthat/test-devMode.R | 5 reproducible-2.0.5/reproducible/tests/testthat/test-examples.R | 5 reproducible-2.0.5/reproducible/tests/testthat/test-filesMissingExtension.R | 25 reproducible-2.0.5/reproducible/tests/testthat/test-gis.R | 41 reproducible-2.0.5/reproducible/tests/testthat/test-misc.R | 59 reproducible-2.0.5/reproducible/tests/testthat/test-multipleCacheRepo.R | 10 reproducible-2.0.5/reproducible/tests/testthat/test-postProcess.R | 25 reproducible-2.0.5/reproducible/tests/testthat/test-postProcessTerra.R | 7 reproducible-2.0.5/reproducible/tests/testthat/test-preProcessDoesntWork.R | 66 reproducible-2.0.5/reproducible/tests/testthat/test-preProcessWorks.R | 61 reproducible-2.0.5/reproducible/tests/testthat/test-prepInputs-large-files.R | 7 reproducible-2.0.5/reproducible/tests/testthat/test-prepInputs.R | 26 reproducible-2.0.5/reproducible/tests/testthat/test-prepInputsInNestedArchives.R | 20 reproducible-2.0.5/reproducible/tests/testthat/test-reproducibleVerbose.R | 5 reproducible-2.0.5/reproducible/tests/testthat/test-robustDigest.R | 5 reproducible-2.0.5/reproducible/vignettes/Intro-to-Cache.Rmd | 12 60 files changed, 2722 insertions(+), 2653 deletions(-)
Title: Ranking in Network Meta-Analysis
Description: A supportive collection of functions for gathering and plotting treatment ranking metrics after network meta-analysis.
Author: Cheihfeng Chen [aut] ,
Enoch Kang [aut, cre, trl] ,
Wen-Hsuan Hou [aut] ,
Jin-Hua Chen [aut] ,
Yu-Chieh Chuang [aut] ,
Edwin Chan [aut]
Maintainer: Enoch Kang <y.enoch.kang@gmail.com>
Diff between rankinma versions 0.1.7 dated 2023-04-23 and 0.1.8 dated 2023-07-03
DESCRIPTION | 8 MD5 | 28 +- NEWS.md | 99 +++++++-- R/get_metrics.R | 128 ++++++++---- R/plot_bar.R | 80 ++++--- R/plot_beads.R | 34 +-- R/plot_heat.R | 32 +-- R/plot_line.R | 407 ++++++++++++++++++++++++++++++++++------ R/plot_spie.R | 33 +-- R/set_metrics.R | 216 ++++++++++++++++----- inst/doc/rankinma_vignette.Rmd | 4 inst/doc/rankinma_vignette.html | 37 --- man/PlotLine.Rd | 8 man/rankinma-package.Rd | 2 vignettes/rankinma_vignette.Rmd | 4 15 files changed, 817 insertions(+), 303 deletions(-)
Title: Medulloblastoma Subgroups Prediction
Description: Utilizing a combination of machine learning models (Random Forest, Naive Bayes, K-Nearest Neighbor, Support Vector Machines, Extreme Gradient Boosting, and Linear Discriminant Analysis) and a deep Artificial Neural Network model, 'MBMethPred' can predict medulloblastoma subgroups, including wingless (WNT), sonic hedgehog (SHH), Group 3, and Group 4 from DNA methylation beta values.
Author: Edris Sharif Rahmani [aut, ctb, cre]
,
Ankita Sunil Lawarde [aut, ctb]
,
Vijayachitra Modhukur [aut, ctb]
Maintainer: Edris Sharif Rahmani <rahmani.biotech@gmail.com>
Diff between MBMethPred versions 0.1.1 dated 2023-06-30 and 0.1.2 dated 2023-07-03
DESCRIPTION | 10 +++--- MD5 | 24 +++++++-------- R/KNearestNeighborModel.r | 3 + R/LinearDiscriminantAnalysisModel.r | 3 + R/ModelMetrics.r | 32 +++++++++++--------- R/NaiveBayesModel.r | 3 + R/NeuralNetworkModel.r | 3 + R/RandomForestModel.r | 3 + R/SupportVectorMachineModel.r | 3 + R/XGBoostModel.r | 9 ++++- inst/doc/MBMethPred_introduction.html | 54 ++++++++++++++++++++++++++++++++++ man/ModelMetrics.Rd | 2 - tests/testthat/test-ModelMetrics.r | 2 - 13 files changed, 111 insertions(+), 40 deletions(-)
Title: Parametric Cure Model Estimation
Description: Contains functions for estimating generalized parametric mixture and non-mixture cure models <doi:10.1016/j.cmpb.2022.107125>, loss of lifetime, mean residual lifetime, and crude event probabilities.
Author: Lasse Hjort Jakobsen [aut, cre],
Mark Clements [cph],
Rasmus Kuhr Jensen [ctb],
Lars Klingen Gjaerde [ctb]
Maintainer: Lasse Hjort Jakobsen <hjort9230@hotmail.com>
Diff between cuRe versions 1.1.0 dated 2022-05-16 and 1.1.1 dated 2023-07-03
DESCRIPTION | 16 ++++++++-------- MD5 | 6 +++--- R/fit.cure.model.R | 2 ++ man/lrtest.Rd | 50 +++++++++++++++++++++++++------------------------- 4 files changed, 38 insertions(+), 36 deletions(-)