Title: Modeling the Kinetics of Carbon Dioxide Production in Alcoholic
Fermentation
Description: Developed to help researchers who need to model the kinetics of carbon dioxide (CO2) production in alcoholic fermentation of wines, beers and other fermented products. The following models are available for modeling the carbon dioxide production curve as a function of time: 5PL, Gompertz and 4PL. This package has different functions, which applied can: perform the modeling of the data obtained in the fermentation and return the coefficients, analyze the model fit and return different statistical metrics, and calculate the kinetic parameters: Maximum production of carbon dioxide; Maximum rate of production of carbon dioxide; Moment in which maximum fermentation rate occurs; Duration of the latency phase for carbon dioxide production; Carbon dioxide produced until maximum fermentation rate occurs. In addition, a function that generates graphs with the observed and predicted data from the models, isolated and combined, is available. Gava, A., Borsato, D., & Ficagna, E. (2020)."Effect [...truncated...]
Author: Angelo Gava [aut, cre]
Maintainer: Angelo Gava <gava.angelogava@gmail.com>
Diff between OenoKPM versions 2.2.1 dated 2023-01-10 and 2.3.1 dated 2024-04-07
OenoKPM-2.2.1/OenoKPM/R/Coeff.R |only OenoKPM-2.2.1/OenoKPM/man/coeff.Rd |only OenoKPM-2.3.1/OenoKPM/DESCRIPTION | 8 ++++---- OenoKPM-2.3.1/OenoKPM/MD5 | 10 ++++------ OenoKPM-2.3.1/OenoKPM/NAMESPACE | 21 ++++++++++----------- OenoKPM-2.3.1/OenoKPM/R/plot_fit.R | 19 ++++++------------- OenoKPM-2.3.1/OenoKPM/build/partial.rdb |binary 7 files changed, 24 insertions(+), 34 deletions(-)
Title: Dummy R APIs Used in 'Azure Synapse Analytics' for Local
Developments
Description: This is a pure dummy interfaces package which mirrors 'MsSparkUtils' APIs <https://learn.microsoft.com/en-us/azure/synapse-analytics/spark/microsoft-spark-utilities?pivots=programming-language-r> of 'Azure Synapse Analytics' <https://learn.microsoft.com/en-us/azure/synapse-analytics/> for R users,
customer of Azure Synapse can download this package from CRAN for local development.
Author: runtimeexp [aut, cre],
Microsoft [cph]
Maintainer: runtimeexp <runtimeexpdg@microsoft.com>
Diff between notebookutils versions 1.5.1 dated 2023-02-20 and 1.5.3 dated 2024-04-07
DESCRIPTION | 8 MD5 | 134 ++++- NAMESPACE | 101 +++ R/credentials.R | 144 +++++ R/env.R | 82 ++- R/fabricClient.R |only R/fs.R | 319 +++++++++++- R/help.R | 14 R/lakehouse.R |only R/notebook.R | 144 +++++ R/runtime.R | 39 + R/session.R |only R/visualization.R | 19 R/warehouse.R |only R/workspace.R |only build/vignette.rds |binary man/display.config.Rd |only man/displayHTML.Rd | 4 man/mssparkutils.fs.exists.Rd |only man/mssparkutils.fs.fastcp.Rd |only man/mssparkutils.fs.mkdirs.Rd | 4 man/mssparkutils.fs.mount.Rd | 1 man/mssparkutils.fs.mountToDriverNode.Rd |only man/mssparkutils.fs.mounts.Rd |only man/mssparkutils.fs.unmountFromDriverNode.Rd |only man/mssparkutils.lakehouse.create.Rd |only man/mssparkutils.lakehouse.delete.Rd |only man/mssparkutils.lakehouse.get.Rd |only man/mssparkutils.lakehouse.help.Rd |only man/mssparkutils.lakehouse.list.Rd |only man/mssparkutils.lakehouse.update.Rd |only man/mssparkutils.notebook.help.Rd | 3 man/mssparkutils.notebook.runMultiple.Rd |only man/mssparkutils.notebook.updateNBSEndpoint.Rd |only man/mssparkutils.runtime.setHcReplId.Rd |only man/mssparkutils.session.stop.Rd |only man/notebookutils.credentials.getConnectionStringOrCreds.Rd |only man/notebookutils.credentials.getFullConnectionString.Rd |only man/notebookutils.credentials.getPropertiesAll.Rd |only man/notebookutils.credentials.getSecret.Rd |only man/notebookutils.credentials.getSecretWithLS.Rd |only man/notebookutils.credentials.getToken.Rd |only man/notebookutils.credentials.help.Rd |only man/notebookutils.credentials.isValidToken.Rd |only man/notebookutils.credentials.putSecret.Rd |only man/notebookutils.credentials.putSecretWithLS.Rd |only man/notebookutils.env.getClusterId.Rd |only man/notebookutils.env.getJobId.Rd |only man/notebookutils.env.getPoolName.Rd |only man/notebookutils.env.getUserId.Rd |only man/notebookutils.env.getUserName.Rd |only man/notebookutils.env.getWorkspaceName.Rd |only man/notebookutils.env.help.Rd |only man/notebookutils.fabricClient.delete.Rd |only man/notebookutils.fabricClient.get.Rd |only man/notebookutils.fabricClient.help.Rd |only man/notebookutils.fabricClient.listCapacities.Rd |only man/notebookutils.fabricClient.patch.Rd |only man/notebookutils.fabricClient.post.Rd |only man/notebookutils.fabricClient.put.Rd |only man/notebookutils.fs.append.Rd |only man/notebookutils.fs.cp.Rd |only man/notebookutils.fs.exists.Rd |only man/notebookutils.fs.fastcp.Rd |only man/notebookutils.fs.getMountPath.Rd |only man/notebookutils.fs.head.Rd |only man/notebookutils.fs.help.Rd |only man/notebookutils.fs.ls.Rd |only man/notebookutils.fs.mkdirs.Rd |only man/notebookutils.fs.mount.Rd |only man/notebookutils.fs.mountToDriverNode.Rd |only man/notebookutils.fs.mounts.Rd |only man/notebookutils.fs.mv.Rd |only man/notebookutils.fs.put.Rd |only man/notebookutils.fs.refreshMounts.Rd |only man/notebookutils.fs.rm.Rd |only man/notebookutils.fs.unmount.Rd |only man/notebookutils.fs.unmountFromDriverNode.Rd |only man/notebookutils.help.Rd |only man/notebookutils.lakehouse.create.Rd |only man/notebookutils.lakehouse.delete.Rd |only man/notebookutils.lakehouse.get.Rd |only man/notebookutils.lakehouse.getDefinition.Rd |only man/notebookutils.lakehouse.getWithProperties.Rd |only man/notebookutils.lakehouse.help.Rd |only man/notebookutils.lakehouse.list.Rd |only man/notebookutils.lakehouse.listTables.Rd |only man/notebookutils.lakehouse.loadTable.Rd |only man/notebookutils.lakehouse.update.Rd |only man/notebookutils.lakehouse.updateDefinition.Rd |only man/notebookutils.notebook.create.Rd |only man/notebookutils.notebook.delete.Rd |only man/notebookutils.notebook.exit.Rd |only man/notebookutils.notebook.get.Rd |only man/notebookutils.notebook.help.Rd |only man/notebookutils.notebook.list.Rd |only man/notebookutils.notebook.run.Rd |only man/notebookutils.notebook.update.Rd |only man/notebookutils.notebook.updateDefinition.Rd |only man/notebookutils.notebook.updateNBSEndpoint.Rd |only man/notebookutils.runtime.context.Rd |only man/notebookutils.runtime.help.Rd |only man/notebookutils.runtime.setHcReplId.Rd |only man/notebookutils.session.stop.Rd |only man/notebookutils.warehouse.create.Rd |only man/notebookutils.warehouse.delete.Rd |only man/notebookutils.warehouse.get.Rd |only man/notebookutils.warehouse.getDefinition.Rd |only man/notebookutils.warehouse.help.Rd |only man/notebookutils.warehouse.list.Rd |only man/notebookutils.warehouse.update.Rd |only man/notebookutils.warehouse.updateDefinition.Rd |only man/notebookutils.workspace.assignToCapacity.Rd |only man/notebookutils.workspace.create.Rd |only man/notebookutils.workspace.delete.Rd |only man/notebookutils.workspace.get.Rd |only man/notebookutils.workspace.help.Rd |only man/notebookutils.workspace.list.Rd |only man/notebookutils.workspace.listArtifacts.Rd |only man/notebookutils.workspace.unassignFromCapacity.Rd |only man/notebookutils.workspace.update.Rd |only 121 files changed, 953 insertions(+), 63 deletions(-)
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 2.1.4 dated 2024-01-28 and 2.1.5 dated 2024-04-07
BranchGLM-2.1.4/BranchGLM/man/fit.Rd |only BranchGLM-2.1.5/BranchGLM/DESCRIPTION | 8 BranchGLM-2.1.5/BranchGLM/MD5 | 43 +- BranchGLM-2.1.5/BranchGLM/NAMESPACE | 4 BranchGLM-2.1.5/BranchGLM/R/BranchGLM-package.R | 25 + BranchGLM-2.1.5/BranchGLM/R/VariableSelection.R | 184 ++++++---- BranchGLM-2.1.5/BranchGLM/R/summaryBranchGLMVS.R | 109 ++--- BranchGLM-2.1.5/BranchGLM/build/vignette.rds |binary BranchGLM-2.1.5/BranchGLM/inst/doc/VariableSelection-Vignette.R | 9 BranchGLM-2.1.5/BranchGLM/inst/doc/VariableSelection-Vignette.Rmd | 31 - BranchGLM-2.1.5/BranchGLM/inst/doc/VariableSelection-Vignette.html | 81 ++-- BranchGLM-2.1.5/BranchGLM/man/BranchGLM-defunct.Rd |only BranchGLM-2.1.5/BranchGLM/man/BranchGLM-internal.Rd |only BranchGLM-2.1.5/BranchGLM/man/VariableSelection.Rd | 67 ++- BranchGLM-2.1.5/BranchGLM/man/coef.BranchGLMVS.Rd | 5 BranchGLM-2.1.5/BranchGLM/man/plot.summary.BranchGLMVS.Rd | 6 BranchGLM-2.1.5/BranchGLM/man/predict.BranchGLMVS.Rd | 4 BranchGLM-2.1.5/BranchGLM/src/BranchAndBound.cpp | 73 ++- BranchGLM-2.1.5/BranchGLM/src/StepwiseMethods.cpp | 39 +- BranchGLM-2.1.5/BranchGLM/tests/testthat/Rplots.pdf |binary BranchGLM-2.1.5/BranchGLM/tests/testthat/test-BadInputs.R | 7 BranchGLM-2.1.5/BranchGLM/tests/testthat/test-Consistency.R | 4 BranchGLM-2.1.5/BranchGLM/tests/testthat/test-VSMethods.R | 21 - BranchGLM-2.1.5/BranchGLM/vignettes/VariableSelection-Vignette.Rmd | 31 - 24 files changed, 449 insertions(+), 302 deletions(-)
Title: Creates Log Files
Description: Contains functions to help create log files. The
package aims to overcome the difficulty of the base R sink() command. The
log_print() function will print to both the console and the file log,
without interfering in other write operations.
Author: David Bosak [aut, cre],
Rikard Isaksson [ctb]
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between logr versions 1.3.6 dated 2024-02-24 and 1.3.7 dated 2024-04-07
DESCRIPTION | 10 MD5 | 68 ++- NAMESPACE | 4 NEWS.md | 8 R/logr.R | 632 ++++++++++++++++++++++++++++++++----- R/unicode.R | 29 + R/utilities.R | 152 ++++++++ inst/doc/logr-globals.R | 7 inst/doc/logr-globals.Rmd | 14 inst/doc/logr-globals.html | 11 man/get_warnings.Rd |only man/log_close.Rd | 8 man/log_error.Rd |only man/log_open.Rd | 8 man/log_print.Rd | 2 man/log_resume.Rd |only man/log_suspend.Rd |only man/log_warning.Rd | 22 + man/logr.Rd | 2 tests/testthat/fork/log/test29.log | 12 tests/testthat/fork/test29.log | 12 tests/testthat/log/headerTest.log |only tests/testthat/log/resumeTest.log |only tests/testthat/log/test-logr.log | 12 tests/testthat/log/test.log | 18 - tests/testthat/log/test11.log | 20 - tests/testthat/log/test12.log | 20 - tests/testthat/log/test13.log | 20 - tests/testthat/log/test29.log | 12 tests/testthat/log/test35.log |only tests/testthat/log/test36.log |only tests/testthat/log/test36.msg |only tests/testthat/log/testme.log |only tests/testthat/programs |only tests/testthat/test-logr.R | 251 ++++++++++++++ tests/testthat/test-unicode.R | 34 + tests/testthat/test-utilities.R | 125 +++++++ vignettes/logr-globals.Rmd | 14 38 files changed, 1327 insertions(+), 200 deletions(-)
Title: Non-Invasive Pretty Printing of R Code
Description: Pretty-prints R code without changing the user's formatting
intent.
Author: Kirill Mueller [aut] ,
Lorenz Walthert [cre, aut],
Indrajeet Patil [ctb]
Maintainer: Lorenz Walthert <lorenz.walthert@icloud.com>
Diff between styler versions 1.10.2 dated 2023-08-29 and 1.10.3 dated 2024-04-07
styler-1.10.2/styler/tests/testthat/_snaps/public_api.md |only styler-1.10.2/styler/tests/testthat/parsing/repeated_parsing-in.R |only styler-1.10.2/styler/tests/testthat/parsing/repeated_parsing-out.R |only styler-1.10.2/styler/tests/testthat/test-roxygen-examples-complete.R |only styler-1.10.3/styler/DESCRIPTION | 8 styler-1.10.3/styler/MD5 | 133 ++++++---- styler-1.10.3/styler/NEWS.md | 34 ++ styler-1.10.3/styler/R/addins.R | 21 - styler-1.10.3/styler/R/detect-alignment-utils.R | 40 +-- styler-1.10.3/styler/R/detect-alignment.R | 6 styler-1.10.3/styler/R/io.R | 29 +- styler-1.10.3/styler/R/nested-to-tree.R | 7 styler-1.10.3/styler/R/parse.R | 11 styler-1.10.3/styler/R/roxygen-examples.R | 6 styler-1.10.3/styler/R/rules-indention.R | 2 styler-1.10.3/styler/R/rules-line-breaks.R | 1 styler-1.10.3/styler/R/rules-spaces.R | 6 styler-1.10.3/styler/R/rules-tokens.R | 3 styler-1.10.3/styler/R/set-assert-args.R | 4 styler-1.10.3/styler/R/style-guides.R | 9 styler-1.10.3/styler/R/styler-package.R | 18 - styler-1.10.3/styler/R/stylerignore.R | 7 styler-1.10.3/styler/R/testing.R | 2 styler-1.10.3/styler/R/transform-code.R | 2 styler-1.10.3/styler/R/transform-files.R | 20 - styler-1.10.3/styler/R/ui-caching.R | 2 styler-1.10.3/styler/R/ui-styling.R | 22 - styler-1.10.3/styler/R/utils-cache.R | 16 - styler-1.10.3/styler/R/utils.R | 5 styler-1.10.3/styler/R/zzz.R | 15 - styler-1.10.3/styler/README.md | 30 +- styler-1.10.3/styler/inst/doc/caching.R | 4 styler-1.10.3/styler/inst/doc/customizing_styler.R | 6 styler-1.10.3/styler/inst/doc/customizing_styler.html | 6 styler-1.10.3/styler/inst/doc/detect-alignment.R | 2 styler-1.10.3/styler/inst/doc/distribute_custom_style_guides.R | 2 styler-1.10.3/styler/inst/doc/remove_rules.R | 6 styler-1.10.3/styler/inst/doc/remove_rules.html | 2 styler-1.10.3/styler/inst/doc/strict.R | 2 styler-1.10.3/styler/inst/doc/styler.R | 6 styler-1.10.3/styler/inst/doc/styler.Rmd | 2 styler-1.10.3/styler/inst/doc/styler.html | 4 styler-1.10.3/styler/inst/doc/third-party-integrations.R | 2 styler-1.10.3/styler/man/figures |only styler-1.10.3/styler/man/prettify_any.Rd | 11 styler-1.10.3/styler/man/prettify_pkg.Rd | 11 styler-1.10.3/styler/man/style_dir.Rd | 11 styler-1.10.3/styler/man/style_pkg.Rd | 16 - styler-1.10.3/styler/man/styler-package.Rd | 8 styler-1.10.3/styler/tests/dev |only styler-1.10.3/styler/tests/testthat/test-io.R | 6 styler-1.10.3/styler/tests/testthat/test-parsing.R | 30 -- styler-1.10.3/styler/tests/testthat/test-public_api-0.R | 12 styler-1.10.3/styler/tests/testthat/test-public_api-3.R | 16 - styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-01.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-02.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-03.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-04.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-05.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-06.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-07.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-08.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-09.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-10.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-11.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-12.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-13.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-14.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-15.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-16.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-17.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-18.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-19.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-20.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-21.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-22.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-23.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-24.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-25.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-26.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-27.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-28.R |only styler-1.10.3/styler/tests/testthat/test-roxygen-examples-complete-29.R |only styler-1.10.3/styler/tests/testthat/tests-cache-require-serial.R | 2 styler-1.10.3/styler/vignettes/styler.Rmd | 2 85 files changed, 342 insertions(+), 286 deletions(-)
Title: Less Code, More Results
Description: Each function accomplishes the work of multiple standard R functions. For example, two function calls, Read() and CountAll(), read the data and generate summary statistics for all variables in the data frame, plus histograms and bar charts as appropriate. Other functions provide for comprehensive summary statistics via pivot tables, a comprehensive regression analysis, ANOVA and t-test, visualizations including the Violin/Box/Scatter plot for a numerical variable, bar chart, histogram, box plot, density curves, calibrated power curve, reading multiple data formats with the same function call, variable labels, color themes, and Trellis graphics. Also includes a confirmatory factor analysis of multiple indicator measurement models, pedagogical routines for data simulation such as for the Central Limit Theorem, generation and rendering of regression instructions for interpretative output, and interactive visualizations.
Author: David Gerbing, The School of Business, Portland State University
Maintainer: David W. Gerbing <gerbing@pdx.edu>
Diff between lessR versions 4.3.1 dated 2024-03-26 and 4.3.2 dated 2024-04-07
DESCRIPTION | 8 - MD5 | 22 +- NEWS.md | 9 + R/BarChart.R | 9 - R/pivot.R | 6 R/zzz.R | 2 inst/doc/Customize.html | 4 inst/doc/Extract.html | 22 +- inst/doc/Histogram.html | 2 inst/doc/Means.html | 4 inst/doc/pivot.html | 353 ++++-------------------------------------------- man/BarChart.Rd | 77 +++++----- 12 files changed, 118 insertions(+), 400 deletions(-)
Title: The R WINS Package
Description: Calculate the win statistics (win ratio, net benefit and win odds) for prioritized multiple endpoints, plot the win statistics and win proportions over study time if at least one time-to-event endpoint is analyzed, and simulate datasets with dependent endpoints. The package can handle any type of outcomes (continuous, ordinal, binary, time-to-event) and allow users to perform stratified analysis, inverse probability of censoring weighting (IPCW) and inverse probability of treatment weighting (IPTW) analysis.
Author: Ying Cui [aut, cre],
Bo Huang [aut]
Maintainer: Ying Cui <cuiyingbeicheng@gmail.com>
Diff between WINS versions 1.3.3 dated 2023-07-09 and 1.4 dated 2024-04-07
WINS-1.3.3/WINS/R/win.stat.Luo.R |only WINS-1.3.3/WINS/man/win.stat.Luo.Rd |only WINS-1.4/WINS/DESCRIPTION | 8 WINS-1.4/WINS/MD5 | 41 +- WINS-1.4/WINS/NAMESPACE | 2 WINS-1.4/WINS/R/covipcw.win.stat.R |only WINS-1.4/WINS/R/get.win.stat_t.R | 14 WINS-1.4/WINS/R/globals.R | 3 WINS-1.4/WINS/R/ipcw.win.stat.R |only WINS-1.4/WINS/R/iptw.adjusted.KL.R |only WINS-1.4/WINS/R/iptw.adjusted.win.stat.R |only WINS-1.4/WINS/R/partition_t.plot.R | 31 ++ WINS-1.4/WINS/R/stat_t.plot.R | 41 ++ WINS-1.4/WINS/R/unadjusted.win.stat.R |only WINS-1.4/WINS/R/win.stat.R | 441 ++++-------------------------- WINS-1.4/WINS/R/win.strategy.default.R | 26 - WINS-1.4/WINS/inst/doc/vignette.R | 44 +- WINS-1.4/WINS/inst/doc/vignette.Rmd | 102 ++++-- WINS-1.4/WINS/inst/doc/vignette.pdf |binary WINS-1.4/WINS/man/partition_t.plot.Rd | 15 - WINS-1.4/WINS/man/sim.data.Rd | 4 WINS-1.4/WINS/man/stat_t.plot.Rd | 28 - WINS-1.4/WINS/man/win.stat.Rd | 101 +++--- WINS-1.4/WINS/man/win.strategy.default.Rd | 2 WINS-1.4/WINS/vignettes/vignette.Rmd | 102 ++++-- 25 files changed, 400 insertions(+), 605 deletions(-)
Title: Reliability and Relative Efficiency in Locally-Dependent
Measures
Description: Implements an approach aimed at assessing the accuracy and
effectiveness of raw scores obtained in scales that contain locally dependent
items. The program uses as input the calibration (structural) item estimates
obtained from fitting extended unidimensional factor-analytic solutions in
which the existing local dependencies are included. Measures of reliability
(Omega) and information are proposed at three levels: (a) total score, (b)
bivariate-doublet, and (c) item-by-item deletion, and are compared to those
that would be obtained if all the items had been locally independent. All the
implemented procedures can be obtained from: (a) linear factor-analytic
solutions in which the item scores are treated as approximately continuous,
and (b) non-linear solutions in which the item scores are treated as
ordered-categorical. A detailed guide can be obtained at the following url.
Author: David Navarro-Gonzalez [aut, cre],
Fabia Morales-Vives [aut],
Pere J. Ferrando [aut]
Maintainer: David Navarro-Gonzalez <david.navarro@urv.cat>
Diff between SINRELEF.LD versions 1.0.3 dated 2024-02-29 and 1.0.4 dated 2024-04-07
DESCRIPTION | 11 ++++++----- MD5 | 4 ++-- man/SINRELEF.LD.Rd | 2 +- 3 files changed, 9 insertions(+), 8 deletions(-)
Title: The Plate Plot for Network Meta-Analysis Results
Description: A graphical display of results from network meta-analysis (NMA).
It is suitable for outcomes like odds ratio (OR), risk ratio (RR),
risk difference (RD) and standardized mean difference (SMD).
It also has an option to visually display and compare
the surface under the cumulative ranking (SUCRA) of different treatments.
Author: Zhenxun Wang [aut, cre],
Lifeng Lin [ctb],
Shanshan Zhao [ctb],
Haitao Chu [ctb]
Maintainer: Zhenxun Wang <wang6795@alumni.umn.edu>
Diff between nmaplateplot versions 1.0.1 dated 2021-05-27 and 1.0.2 dated 2024-04-07
DESCRIPTION | 14 MD5 | 12 NEWS.md | 8 build/vignette.rds |binary inst/doc/nmaplateplot-intro.Rmd | 34 - inst/doc/nmaplateplot-intro.html | 953 +++++++++++++++++++++------------------ vignettes/nmaplateplot-intro.Rmd | 34 - 7 files changed, 580 insertions(+), 475 deletions(-)
Title: Power Analysis and Sample Size Calculation
Description: Power analysis and sample size calculation for Welch and Hsu (Hedderich and Sachs (2018), ISBN:978-3-662-56657-2) t-tests including Monte-Carlo simulations of empirical power and type-I-error. Power and sample size calculation for Wilcoxon rank sum and signed rank tests via Monte-Carlo simulations. Power and sample size required for the evaluation of a diagnostic test(-system) (Flahault et al. (2005), <doi:10.1016/j.jclinepi.2004.12.009>; Dobbin and Simon (2007), <doi:10.1093/biostatistics/kxj036>) as well as for a single proportion (Fleiss et al. (2003), ISBN:978-0-471-52629-2; Piegorsch (2004), <doi:10.1016/j.csda.2003.10.002>; Thulin (2014), <doi:10.1214/14-ejs909>), comparing two negative binomial rates (Zhu and Lakkis (2014), <doi:10.1002/sim.5947>), ANCOVA (Shieh (2020), <doi:10.1007/s11336-019-09692-3>), reference ranges (Jennen-Steinmetz and Wellek (2005), <doi:10.1002/sim.2177>), and multiple primary endpoints (Sozu et al. (2015), ISBN [...truncated...]
Author: Matthias Kohl [aut, cre]
Maintainer: Matthias Kohl <Matthias.Kohl@stamats.de>
Diff between MKpower versions 0.8 dated 2024-03-12 and 0.9 dated 2024-04-07
DESCRIPTION | 12 - MD5 | 25 ++- NAMESPACE | 5 NEWS | 7 + R/power.mpe.atleast.one.R |only R/power.mpe.known.var.R |only R/power.mpe.unknown.var.R |only inst/doc/MKpower.R | 30 ++++ inst/doc/MKpower.Rmd | 62 +++++++++ inst/doc/MKpower.html | 281 +++++++++++++++++++++++++++++++++++-------- man/0MKpower-package.Rd | 5 man/power.mpe.atleast.one.Rd |only man/power.mpe.known.var.Rd |only man/power.mpe.unknown.var.Rd |only man/print.power.mpe.test.Rd |only vignettes/MKpower.Rmd | 62 +++++++++ vignettes/MKpower.bib | 10 + 17 files changed, 428 insertions(+), 71 deletions(-)
Title: Generalized Additive Latent and Mixed Models
Description: Estimates generalized additive latent and
mixed models using maximum marginal likelihood,
as defined in Sorensen et al. (2023)
<doi:10.1007/s11336-023-09910-z>, which is an extension of Rabe-Hesketh and
Skrondal (2004)'s unifying framework for multilevel latent variable
modeling <doi:10.1007/BF02295939>. Efficient computation is done using sparse
matrix methods, Laplace approximation, and automatic differentiation. The
framework includes generalized multilevel models with heteroscedastic
residuals, mixed response types, factor loadings, smoothing splines,
crossed random effects, and combinations thereof. Syntax for model
formulation is close to 'lme4' (Bates et al. (2015)
<doi:10.18637/jss.v067.i01>) and 'PLmixed' (Rockwood and Jeon (2019)
<doi:10.1080/00273171.2018.1516541>).
Author: Oeystein Soerensen [aut, cre] ,
Douglas Bates [ctb],
Ben Bolker [ctb],
Martin Maechler [ctb],
Allan Leal [ctb],
Fabian Scheipl [ctb],
Steven Walker [ctb],
Simon Wood [ctb]
Maintainer: Oeystein Soerensen <oystein.sorensen@psykologi.uio.no>
Diff between galamm versions 0.1.1 dated 2023-10-13 and 0.2.0 dated 2024-04-07
DESCRIPTION | 11 MD5 | 232 +-- NAMESPACE | 2 R/RcppExports.R | 229 +++ R/VarCorr.R | 30 R/anova.galamm.R | 28 R/coef.R | 9 R/confint.R | 23 R/data.R | 44 R/define_factor_mappings.R | 392 +++-- R/extract_optim_parameters.R | 7 R/factor_loadings.R | 19 R/family.R | 14 R/fitted.galamm.R | 5 R/fixef.R | 9 R/formula.R |only R/galamm-package.R | 4 R/galamm.R | 278 ++- R/galamm_control.R | 42 R/gamm4-functions.R | 41 R/logLik.galamm.R | 9 R/mgcv-functions.R | 9 R/misc.R | 223 ++ R/plot.galamm.R | 5 R/plot_smooth.R | 10 R/predict.galamm.R | 28 R/ranef.R | 5 R/residuals.galamm.R | 17 R/sigma.R | 12 R/smooths.R | 73 R/srr-stats-standards.R |only R/summary.galamm.R | 19 R/vcov.R | 40 README.md | 20 build/partial.rdb |binary build/vignette.rds |binary data/lifespan.rda |only inst/REFERENCES.bib | 94 - inst/doc/galamm.Rmd | 1 inst/doc/galamm.html | 5 inst/doc/glmm_factor.Rmd | 18 inst/doc/glmm_factor.html | 35 inst/doc/latent_observed_interaction.Rmd | 20 inst/doc/latent_observed_interaction.html | 23 inst/doc/lmm_factor.Rmd | 85 - inst/doc/lmm_factor.html | 212 +- inst/doc/lmm_heteroscedastic.Rmd | 5 inst/doc/lmm_heteroscedastic.html | 75 - inst/doc/mixed_response.Rmd | 42 inst/doc/mixed_response.html | 228 +-- inst/doc/optimization.Rmd | 66 inst/doc/optimization.html | 230 +-- inst/doc/scaling.Rmd |only inst/doc/scaling.html |only inst/doc/semiparametric.Rmd | 46 inst/doc/semiparametric.html | 194 +- man/VarCorr.Rd | 8 man/coef.galamm.Rd | 5 man/cognition.Rd | 7 man/confint.galamm.Rd | 17 man/deviance.galamm.Rd | 2 man/diet.Rd | 7 man/epilep.Rd | 7 man/factor_loadings.galamm.Rd | 8 man/family.galamm.Rd | 11 man/figures/README-unnamed-chunk-10-1.png |only man/fitted.galamm.Rd | 2 man/fixef.Rd | 5 man/formula.galamm.Rd |only man/galamm.Rd | 111 - man/galamm_control.Rd | 11 man/hsced.Rd | 7 man/latent_covariates.Rd | 5 man/latent_covariates_long.Rd | 5 man/lifespan.Rd |only man/llikAIC.Rd | 2 man/logLik.galamm.Rd | 2 man/mresp.Rd | 3 man/mresp_hsced.Rd | 3 man/nobs.galamm.Rd | 37 man/plot_smooth.galamm.Rd | 4 man/predict.galamm.Rd | 19 man/print.VarCorr.galamm.Rd | 13 man/ranef.galamm.Rd | 2 man/residuals.galamm.Rd | 7 man/sigma.galamm.Rd | 8 man/sl.Rd | 22 man/t2l.Rd | 36 man/vcov.galamm.Rd | 5 src/RcppExports.cpp | 4 src/compute_galamm.cpp | 234 +++ src/misc.h | 124 + src/model.h | 65 src/parameters.h | 19 src/update_funs.h | 99 + tests/testthat.R | 29 tests/testthat/Rplots.pdf |binary tests/testthat/_snaps/galamm-mixed-resp.md | 4 tests/testthat/test-galamm-glmm.R | 52 tests/testthat/test-galamm-heteroscedastic.R | 10 tests/testthat/test-galamm-latent-covariates-interaction.R | 22 tests/testthat/test-galamm-lmm.R | 332 ++-- tests/testthat/test-galamm-mixed-resp.R | 86 + tests/testthat/test-galamm-semiparametric.R | 967 ++++++------- tests/testthat/test-galamm-setup.R | 458 +++++- tests/testthat/test-misc.R |only tests/testthat/test-parameter-recovery.R |only vignettes/galamm.Rmd | 1 vignettes/glmm_factor.Rmd | 18 vignettes/glmm_factor_poisson_diagnostic_lme4-1.png |binary vignettes/latent_observed_interaction.Rmd | 20 vignettes/lmm_factor.Rmd | 85 - vignettes/lmm_heteroscedastic.Rmd | 5 vignettes/mixed_response.Rmd | 42 vignettes/optimization.Rmd | 66 vignettes/scaling-glmm-plot-1.png |only vignettes/scaling-hsced-plot-1.png |only vignettes/scaling-lmm-plot-1.png |only vignettes/scaling-semiparametric-binomial-plot-1.png |only vignettes/scaling-semiparametric-gaussian-plot-1.png |only vignettes/scaling.Rmd |only vignettes/semiparametric-mixed-by-factor1-1.png |binary vignettes/semiparametric-mixed-by-factor2-1.png |binary vignettes/semiparametric-spaghetti-plot-1.png |binary vignettes/semiparametric.Rmd | 46 125 files changed, 4241 insertions(+), 2196 deletions(-)
Title: Fit Normal, Student-t or Contaminated Normal Heckman Selection
Models
Description: It performs maximum likelihood estimation for the Heckman selection model (Normal, Student-t or Contaminated normal) using an EM-algorithm <doi:10.1016/j.jmva.2021.104737>. It also performs influence diagnostic through global and local influence for four possible perturbation schema.
Author: Marcos Prates [aut, cre, trl] ,
Victor Lachos [aut] ,
Dipak Dey [aut],
Marcos Oliveira [aut, ctb],
Christian Galarza [ctb],
Katherine Loor [ctb],
Alejandro Ordonez [ctb]
Maintainer: Marcos Prates <marcosop@est.ufmg.br>
Diff between HeckmanEM versions 0.2-0 dated 2023-06-11 and 0.2-1 dated 2024-04-07
CHANGELOG | 8 - DESCRIPTION | 29 ++-- MD5 | 30 ++-- NAMESPACE | 2 R/Diag_Heckman-t.R | 13 + R/HeckmanEM.R | 34 +++- R/MI.R | 347 ++++++++++++++++++++++++++++++++----------------- R/S3functions.R | 86 +++++++----- R/criteria.R | 7 R/envelopes.R | 80 +++++++---- R/rHeckman.R | 28 +++ R/utilitaries.R | 368 +++++++++++++++++++++++++++++++++++++++++----------- man/CaseDeletion.Rd | 3 man/HeckmanEM.Rd | 7 man/Influence.Rd | 3 man/rHeckman.Rd | 9 - 16 files changed, 750 insertions(+), 304 deletions(-)
Title: Helper Tools for Managing Data, Dates, Missing Values, and Text
Description: An assortment of helper functions for managing data (e.g.,
rotating values in matrices by a user-defined angle, switching from
row- to column-indexing), dates (e.g., intuiting year from messy date
strings), handling missing values (e.g., removing elements/rows across
multiple vectors or matrices if any have an NA), text (e.g.,
flushing reports to the console in real-time); and combining data frames
with different schema (copying, filling, or concatenating columns or
applying functions before combining).
Author: Adam B. Smith [cre, aut]
Maintainer: Adam B. Smith <adam.smith@mobot.org>
Diff between omnibus versions 1.2.9 dated 2024-01-09 and 1.2.12 dated 2024-04-07
DESCRIPTION | 10 +++--- MD5 | 35 ++++++++++++--------- NAMESPACE | 9 +++++ NEWS.md | 15 +++++++++ R/aaa.r |only R/compareFloat.r |only R/convertUnits.r | 30 +++++++++--------- R/expandUnits.r | 30 +++++++++--------- R/forwardSlash.r |only R/is.wholeNumber.r |only R/mergeLists.r | 74 ++++++++++++++++++++++++++++++++------------- R/omnibus.r | 5 ++- R/pmatchSafe.r | 6 +-- README.md | 3 + data/conversionFactors.rda |binary man/compareFloat.Rd |only man/convertUnits.Rd | 30 +++++++++--------- man/expandUnits.Rd | 30 +++++++++--------- man/forwardSlash.Rd |only man/is.wholeNumber.Rd |only man/mergeLists.Rd | 19 +++++++---- man/omnibus.Rd | 7 +++- 22 files changed, 195 insertions(+), 108 deletions(-)
Title: The Corset Plot
Description: Corset plots are a visualization technique used strictly to visualize repeat measures
at 2 time points (such as pre- and post- data). The distribution of measurements are visualized at
each time point, whilst the trajectories of individual change are visualized by connecting the pre-
and post- values linearly. These lines can be coloured to represent the magnitude of change, or
other user-defined value. This method of visualization is ideal for showing the heterogeneity of
data, including differences by sub-groups. The package relies on 'ggplot2' allowing for easy
integration so that users can customize their visualizations as required. Users can create corset
plots using data in either wide or long format using the functions gg_corset() or gg_corset_elongated(), respectively.
Author: Kyla Belisario
Maintainer: Kyla Belisario <kyla_belisario@protonmail.com>
Diff between ggcorset versions 0.4.5 dated 2022-12-11 and 0.5.0 dated 2024-04-07
DESCRIPTION | 13 + LICENSE | 2 MD5 | 27 ++- NAMESPACE | 7 - R/gg_corset.R | 275 ++++++++++++++++++++-------------------- R/gg_corset_elongated.R | 272 ++++++++++++++++++++------------------- R/position_dodgev.R |only R/utils.R | 9 + build/vignette.rds |binary inst/CITATION |only inst/doc/corset_plot_intro.html | 140 ++++++++++---------- man/gg_corset.Rd | 16 +- man/gg_corset_elongated.Rd | 18 +- vignettes/img |only 14 files changed, 412 insertions(+), 367 deletions(-)
Title: Analyze Inter-Layer Structure of Multilayer Ecological Network
Description: In view of the analysis of the structural characteristics of the multilayer network has been complete, however, there is still a lack of a unified operation that can quickly obtain the corresponding characteristics of the multilayer network.
To solve this insufficiency, 'ILSM' was designed for supporting calculating such metrics of multilayer networks by functions of this R package.
Author: WeiCheng Sun [aut, cre],
Chuan Yan [aut],
Yangyang Zhao [aut]
Maintainer: WeiCheng Sun <sunwch2023@lzu.edu.cn>
Diff between ILSM versions 1.0.1 dated 2024-03-28 and 1.0.2 dated 2024-04-07
DESCRIPTION | 8 - MD5 | 66 +++++---- NAMESPACE | 1 NEWS.md |only R/Hc.R | 91 ++++++++----- R/Node_versatility.R | 43 ++++-- R/Prc.R | 65 ++++++--- R/Psc.R | 68 +++++++--- R/build_net.R | 4 R/edgelist_from_matrices.R | 56 +++++--- R/igraph_from_matrices.R | 94 +++++++++---- R/motif_count.R | 97 ++++++++++---- R/null_model.R | 2 R/role.R | 100 ++++++++++---- R/subnet_cor.R | 196 +++++++++++++++++++++-------- README.md | 6 inst/doc/motif_guideline.R | 4 inst/doc/motif_guideline.Rmd | 8 - inst/doc/motif_guideline.html | 8 - man/Hc.Rd | 40 +++-- man/Midlayer_role.Rd | 60 ++++++-- man/Node_versatility.Rd | 41 ++++-- man/Prc.Rd | 40 +++-- man/Psc.Rd | 43 ++++-- man/figure/conbine_1.png |only man/igraph_from_matrices.Rd | 33 +++- man/motif_count.Rd | 52 +++++-- man/subnet_cor.Rd | 58 +++++++- tests/testthat/test-Midlayer_role.R | 28 ++-- tests/testthat/test-Node_versatility.R | 39 ++--- tests/testthat/test-adject_net.R | 2 tests/testthat/test-build_net.R | 2 tests/testthat/test-igraph_from_matrices.R | 38 +++-- tests/testthat/test-motif_count.R | 21 +-- vignettes/motif_guideline.Rmd | 8 - 35 files changed, 967 insertions(+), 455 deletions(-)
Title: Synthetic Microdata Generator
Description: This tool fits a non-parametric Bayesian model called a "hierarchically coupled mixture model with local dependence (HCMM-LD)" to the original microdata in order to generate synthetic microdata for privacy protection. The non-parametric feature of the adopted model is useful for capturing the joint distribution of the original input data in a highly flexible manner, leading to the generation of synthetic data whose distributional features are similar to that of the input data. The package allows the original input data to have missing values and impute them with the posterior predictive distribution, so no missing values exist in the synthetic data output. The method builds on the work of Murray and Reiter (2016) <doi:10.1080/01621459.2016.1174132>.
Author: Hang J. Kim [aut, cre],
Juhee Lee [aut],
Young-Min Kim [aut],
Jared Murray [aut]
Maintainer: Hang J. Kim <hangkim0@gmail.com>
Diff between synMicrodata versions 1.0.0 dated 2023-02-06 and 2.0.0 dated 2024-04-07
DESCRIPTION | 24 +++------ MD5 | 15 +++-- NAMESPACE | 9 ++- R/R_functions.R | 108 +++++++++++++++++++++++++++++++++++------- man/Rcpp_modelobject-class.Rd | 32 +++++------- man/createModel.Rd | 25 +-------- man/multipleSyn.Rd | 56 +++++++++++---------- man/plot.synMicro_object.Rd |only man/readData.Rd | 37 +++++++------- 9 files changed, 181 insertions(+), 125 deletions(-)
Title: Computes Proximity in Large Sparse Matrices
Description: Computes proximity between rows or columns of large matrices efficiently in C++.
Functions are optimised for large sparse matrices using the Armadillo and Intel TBB libraries.
Among several built-in similarity/distance measures, computation of correlation,
cosine similarity and Euclidean distance is particularly fast.
Author: Kohei Watanabe [cre, aut, cph]
,
Robrecht Cannoodt [aut]
Maintainer: Kohei Watanabe <watanabe.kohei@gmail.com>
Diff between proxyC versions 0.4.0 dated 2024-04-05 and 0.4.1 dated 2024-04-07
DESCRIPTION | 7 MD5 | 44 +- NAMESPACE | 24 - NEWS.md | 242 +++++------ R/RcppExports.R | 54 +- R/proxy.R | 600 ++++++++++++++-------------- README.md | 262 ++++++------ build/vignette.rds |binary configure | 168 ++------ configure.ac | 41 + inst/doc/measures.R | 6 inst/doc/measures.Rmd | 394 +++++++++--------- inst/doc/measures.html | 914 ++++++++++++++++++++++---------------------- inst/libtbb.R | 10 man/colSds.Rd | 48 +- man/colZeros.Rd | 44 +- man/simil.Rd | 270 ++++++------ tests/testthat.R | 6 tests/testthat/function.R | 312 +++++++-------- tests/testthat/test-dist.R | 646 +++++++++++++++---------------- tests/testthat/test-proxy.R | 436 ++++++++++---------- tests/testthat/test-simil.R | 570 +++++++++++++-------------- vignettes/measures.Rmd | 394 +++++++++--------- 23 files changed, 2728 insertions(+), 2764 deletions(-)