Thu, 14 Nov 2024

Package umx updated to version 4.21.0 with previous version 4.20.0 dated 2024-04-10

Title: Structural Equation Modeling and Twin Modeling in R
Description: Quickly create, run, and report structural equation models, and twin models. See '?umx' for help, and umx_open_CRAN_page("umx") for NEWS. Timothy C. Bates, Michael C. Neale, Hermine H. Maes, (2019). umx: A library for Structural Equation and Twin Modelling in R. Twin Research and Human Genetics, 22, 27-41. <doi:10.1017/thg.2019.2>.
Author: Timothy C. Bates [aut, cre] , Nathan Gillespie [wit], Hermine Maes [ctb], Michael C. Neale [ctb], Joshua N. Pritikin [ctb], Luis De Araujo [ctb], Brenton Wiernik [ctb], Michael Zakharin [wit]
Maintainer: Timothy C. Bates <timothy.c.bates@gmail.com>

Diff between umx versions 4.20.0 dated 2024-04-10 and 4.21.0 dated 2024-11-14

 DESCRIPTION                                 |   26 -
 MD5                                         |  629 +++++++++++++-------------
 NAMESPACE                                   |    3 
 NEWS.md                                     |   21 
 R/build_run_modify.R                        |  107 ++--
 R/deprecated.R                              |    4 
 R/fit_and_reporting.R                       |  173 +++----
 R/misc_and_utility.R                        |  202 ++++----
 R/tmx.R                                     |    4 
 R/umxCLPM.R                                 |  660 +++++++++++++++++++++-------
 R/umxDoC.R                                  |    4 
 R/umxMRDoC.R                                |    2 
 R/umxMatrixFree.R                           |    2 
 R/umx_build_high_level_models.R             |   38 -
 R/umx_build_polychoricMatrix3.R             |    6 
 R/umx_build_umxACEv.R                       |    9 
 R/umx_build_umxGxEbiv.R                     |    4 
 R/umx_build_umxSexLim.R                     |    6 
 R/umx_build_umxSimplex.R                    |    6 
 R/umx_fit_stash_CIs.R                       |    4 
 R/umx_fit_umxFitIndices.R                   |    6 
 R/xmu.R                                     |   46 -
 R/xmu_make_top_twin_models.R                |    2 
 build/partial.rdb                           |binary
 inst/WORDLIST                               |    1 
 man/FishersMethod.Rd                        |    4 
 man/RMSEA.MxModel.Rd                        |   10 
 man/RMSEA.Rd                                |    6 
 man/RMSEA.summary.mxmodel.Rd                |   10 
 man/SE_from_p.Rd                            |    4 
 man/dl_from_dropbox.Rd                      |    4 
 man/extractAIC.MxModel.Rd                   |   15 
 man/figures/CP.pdf                          |binary
 man/figures/CP.svg                          |  267 ++++-------
 man/figures/umx_help_figures.graffle        |binary
 man/fin_interest.Rd                         |   12 
 man/geometric_mean.Rd                       |   14 
 man/ggAddR.Rd                               |   12 
 man/harmonic_mean.Rd                        |    8 
 man/install.OpenMx.Rd                       |    4 
 man/libs.Rd                                 |    4 
 man/loadings.MxModel.Rd                     |    6 
 man/loadings.Rd                             |    6 
 man/noNAs.Rd                                |    4 
 man/oddsratio.Rd                            |    4 
 man/plot.MxLISRELModel.Rd                   |   16 
 man/plot.MxModel.Rd                         |   17 
 man/plot.MxModelTwinMaker.Rd                |   10 
 man/power.ACE.test.Rd                       |   14 
 man/prolific_anonymize.Rd                   |    4 
 man/prolific_check_ID.Rd                    |    4 
 man/prolific_read_demog.Rd                  |    4 
 man/qm.Rd                                   |    4 
 man/reliability.Rd                          |    4 
 man/residuals.MxModel.Rd                    |   10 
 man/tmx_is.identified.Rd                    |    4 
 man/tmx_show.MxMatrix.Rd                    |    6 
 man/tmx_show.Rd                             |    6 
 man/umx-deprecated.Rd                       |    4 
 man/umx.Rd                                  |   24 -
 man/umxACE.Rd                               |   16 
 man/umxACEcov.Rd                            |   16 
 man/umxACEv.Rd                              |   18 
 man/umxAPA.Rd                               |    6 
 man/umxAlgebra.Rd                           |    4 
 man/umxBrownie.Rd                           |    9 
 man/umxCI.Rd                                |   10 
 man/umxCI_boot.Rd                           |   14 
 man/umxCLPM.Rd                              |   65 +-
 man/umxCP.Rd                                |   16 
 man/umxCompare.Rd                           |   12 
 man/umxConfint.Rd                           |   14 
 man/umxCov2cor.Rd                           |    4 
 man/umxDiagnose.Rd                          |   12 
 man/umxDiffMZ.Rd                            |   14 
 man/umxDiscTwin.Rd                          |   14 
 man/umxDoC.Rd                               |   14 
 man/umxDoCp.Rd                              |   12 
 man/umxEFA.Rd                               |   10 
 man/umxEquate.Rd                            |    8 
 man/umxExpCov.Rd                            |   18 
 man/umxExpMeans.Rd                          |   20 
 man/umxFactor.Rd                            |   20 
 man/umxFactorScores.Rd                      |    6 
 man/umxFitIndices.Rd                        |   14 
 man/umxFixAll.Rd                            |    6 
 man/umxGetLatents.Rd                        |    4 
 man/umxGetManifests.Rd                      |    4 
 man/umxGetModel.Rd                          |    4 
 man/umxGetParameters.Rd                     |   10 
 man/umxGxE.Rd                               |   14 
 man/umxGxE_window.Rd                        |   16 
 man/umxGxEbiv.Rd                            |   16 
 man/umxHetCor.Rd                            |    8 
 man/umxIP.Rd                                |   16 
 man/umxJiggle.Rd                            |    6 
 man/umxLav2RAM.Rd                           |    4 
 man/umxMI.Rd                                |   10 
 man/umxMRDoC.Rd                             |   16 
 man/umxMatrix.Rd                            |    8 
 man/umxMatrixFree.Rd                        |    2 
 man/umxModel.Rd                             |    5 
 man/umxModelNames.Rd                        |    8 
 man/umxModify.Rd                            |   12 
 man/umxParameters.Rd                        |    6 
 man/umxParan.Rd                             |    4 
 man/umxPath.Rd                              |    8 
 man/umxPlot.Rd                              |   10 
 man/umxPlotACE.Rd                           |   12 
 man/umxPlotACEcov.Rd                        |   14 
 man/umxPlotACEv.Rd                          |   12 
 man/umxPlotCP.Rd                            |   14 
 man/umxPlotDoC.Rd                           |   12 
 man/umxPlotFun.Rd                           |   12 
 man/umxPlotGxE.Rd                           |   10 
 man/umxPlotGxEbiv.Rd                        |   10 
 man/umxPlotIP.Rd                            |   12 
 man/umxPlotSexLim.Rd                        |   14 
 man/umxPlotSimplex.Rd                       |   12 
 man/umxRAM.Rd                               |    8 
 man/umxRAM2Lav.Rd                           |    4 
 man/umxReduce.Rd                            |   24 -
 man/umxReduceACE.Rd                         |   19 
 man/umxReduceGxE.Rd                         |   17 
 man/umxRenameMatrix.Rd                      |    3 
 man/umxRotate.MxModelCP.Rd                  |   16 
 man/umxRotate.Rd                            |    8 
 man/umxRun.Rd                               |   10 
 man/umxSetParameters.Rd                     |   16 
 man/umxSexLim.Rd                            |   16 
 man/umxSimplex.Rd                           |   16 
 man/umxSummarizeTwinData.Rd                 |   14 
 man/umxSummary.MxModel.Rd                   |    4 
 man/umxSummary.Rd                           |    6 
 man/umxSummaryACE.Rd                        |   16 
 man/umxSummaryACEcov.Rd                     |    2 
 man/umxSummaryACEv.Rd                       |   16 
 man/umxSummaryCP.Rd                         |    2 
 man/umxSummaryDoC.Rd                        |   16 
 man/umxSummaryGxE.Rd                        |    2 
 man/umxSummaryGxEbiv.Rd                     |   16 
 man/umxSummaryIP.Rd                         |    2 
 man/umxSummarySexLim.Rd                     |   16 
 man/umxSummarySimplex.Rd                    |   18 
 man/umxSuperModel.Rd                        |   10 
 man/umxThresholdMatrix.Rd                   |    2 
 man/umxTwinMaker.Rd                         |   14 
 man/umxTwoStage.Rd                          |   21 
 man/umxUnexplainedCausalNexus.Rd            |    4 
 man/umxVersion.Rd                           |    6 
 man/umxWeightedAIC.Rd                       |    4 
 man/umx_APA_pval.Rd                         |    3 
 man/umx_aggregate.Rd                        |    4 
 man/umx_apply.Rd                            |    4 
 man/umx_array_shift.Rd                      |    4 
 man/umx_as_numeric.Rd                       |    4 
 man/umx_check_OS.Rd                         |    2 
 man/umx_check_model.Rd                      |    2 
 man/umx_check_names.Rd                      |    6 
 man/umx_check_parallel.Rd                   |    9 
 man/umx_cont_2_quantiles.Rd                 |    8 
 man/umx_cor.Rd                              |    4 
 man/umx_explode.Rd                          |    4 
 man/umx_explode_twin_names.Rd               |    4 
 man/umx_file_load_pseudo.Rd                 |    4 
 man/umx_find_object.Rd                      |    4 
 man/umx_fun_mean_sd.Rd                      |    3 
 man/umx_get_bracket_addresses.Rd            |    3 
 man/umx_get_checkpoint.Rd                   |    4 
 man/umx_get_options.Rd                      |    4 
 man/umx_grep.Rd                             |    6 
 man/umx_has_CIs.Rd                          |    6 
 man/umx_has_been_run.Rd                     |    4 
 man/umx_has_means.Rd                        |    6 
 man/umx_has_square_brackets.Rd              |    2 
 man/umx_is_MxData.Rd                        |    2 
 man/umx_is_MxMatrix.Rd                      |    4 
 man/umx_is_MxModel.Rd                       |    4 
 man/umx_is_RAM.Rd                           |    4 
 man/umx_is_class.Rd                         |    4 
 man/umx_is_cov.Rd                           |    2 
 man/umx_is_endogenous.Rd                    |    6 
 man/umx_is_exogenous.Rd                     |    6 
 man/umx_is_numeric.Rd                       |    4 
 man/umx_is_ordered.Rd                       |    6 
 man/umx_long2wide.Rd                        |    4 
 man/umx_lower.tri.Rd                        |    4 
 man/umx_lower2full.Rd                       |   10 
 man/umx_make.Rd                             |    3 
 man/umx_make_MR_data.Rd                     |    4 
 man/umx_make_TwinData.Rd                    |    8 
 man/umx_make_fake_data.Rd                   |    4 
 man/umx_make_raw_from_cov.Rd                |    4 
 man/umx_make_sql_from_excel.Rd              |    4 
 man/umx_make_twin_data_nice.Rd              |    4 
 man/umx_means.Rd                            |    4 
 man/umx_merge_randomized_columns.Rd         |    4 
 man/umx_move_file.Rd                        |    4 
 man/umx_msg.Rd                              |    4 
 man/umx_names.Rd                            |    6 
 man/umx_open.Rd                             |    4 
 man/umx_open_CRAN_page.Rd                   |    4 
 man/umx_pad.Rd                              |    4 
 man/umx_paste_names.Rd                      |    6 
 man/umx_polychoric.Rd                       |    6 
 man/umx_polypairwise.Rd                     |    8 
 man/umx_polytriowise.Rd                     |    4 
 man/umx_print.Rd                            |    4 
 man/umx_r_test.Rd                           |    4 
 man/umx_read_lower.Rd                       |    4 
 man/umx_rename.Rd                           |    4 
 man/umx_rename_file.Rd                      |    4 
 man/umx_reorder.Rd                          |    4 
 man/umx_residualize.Rd                      |   14 
 man/umx_rot.Rd                              |    8 
 man/umx_round.Rd                            |    6 
 man/umx_scale.Rd                            |   10 
 man/umx_scale_wide_twin_data.Rd             |    4 
 man/umx_score_scale.Rd                      |    6 
 man/umx_select_valid.Rd                     |    4 
 man/umx_set_auto_plot.Rd                    |    4 
 man/umx_set_auto_run.Rd                     |    4 
 man/umx_set_checkpoint.Rd                   |    4 
 man/umx_set_condensed_slots.Rd              |    4 
 man/umx_set_cores.Rd                        |    4 
 man/umx_set_data_variance_check.Rd          |    4 
 man/umx_set_dollar_symbol.Rd                |    4 
 man/umx_set_optimization_options.Rd         |    4 
 man/umx_set_optimizer.Rd                    |    4 
 man/umx_set_plot_file_suffix.Rd             |    4 
 man/umx_set_plot_format.Rd                  |    6 
 man/umx_set_plot_use_hrbrthemes.Rd          |    4 
 man/umx_set_separator.Rd                    |    4 
 man/umx_set_silent.Rd                       |    4 
 man/umx_set_table_format.Rd                 |    4 
 man/umx_stack.Rd                            |    4 
 man/umx_standardize.Rd                      |    5 
 man/umx_str_chars.Rd                        |    6 
 man/umx_str_from_object.Rd                  |    6 
 man/umx_string_to_algebra.Rd                |    5 
 man/umx_strings2numeric.Rd                  |    4 
 man/umx_time.Rd                             |    6 
 man/umx_trim.Rd                             |    6 
 man/umx_var.Rd                              |    6 
 man/umx_wide2long.Rd                        |    4 
 man/umx_write_to_clipboard.Rd               |    4 
 man/xmuHasSquareBrackets.Rd                 |    3 
 man/xmuLabel.Rd                             |   10 
 man/xmuLabel_MATRIX_Model.Rd                |    7 
 man/xmuLabel_Matrix.Rd                      |    7 
 man/xmuLabel_RAM_Model.Rd                   |    7 
 man/xmuMI.Rd                                |    5 
 man/xmuMakeDeviationThresholdsMatrices.Rd   |    3 
 man/xmuMakeOneHeadedPathsFromPathList.Rd    |    3 
 man/xmuMakeTwoHeadedPathsFromPathList.Rd    |    3 
 man/xmuMaxLevels.Rd                         |    3 
 man/xmuMinLevels.Rd                         |    3 
 man/xmuPropagateLabels.Rd                   |    5 
 man/xmuRAM2Ordinal.Rd                       |    5 
 man/xmuTwinSuper_Continuous.Rd              |    3 
 man/xmuTwinSuper_NoBinary.Rd                |    3 
 man/xmuTwinUpgradeMeansToCovariateModel.Rd  |    3 
 man/xmuValues.Rd                            |    8 
 man/xmu_CI_merge.Rd                         |    5 
 man/xmu_CI_stash.Rd                         |    7 
 man/xmu_DF_to_mxData_TypeCov.Rd             |    7 
 man/xmu_PadAndPruneForDefVars.Rd            |    3 
 man/xmu_bracket_address2rclabel.Rd          |    3 
 man/xmu_cell_is_on.Rd                       |    5 
 man/xmu_check_levels_identical.Rd           |    3 
 man/xmu_check_needs_means.Rd                |    5 
 man/xmu_check_variance.Rd                   |    3 
 man/xmu_clean_label.Rd                      |    3 
 man/xmu_data_missing.Rd                     |    3 
 man/xmu_data_swap_a_block.Rd                |    3 
 man/xmu_describe_data_WLS.Rd                |    9 
 man/xmu_dot_make_paths.Rd                   |    3 
 man/xmu_dot_make_residuals.Rd               |    3 
 man/xmu_dot_maker.Rd                        |    5 
 man/xmu_dot_move_ranks.Rd                   |    3 
 man/xmu_dot_rank_str.Rd                     |    3 
 man/xmu_equate_threshold_values.Rd          |only
 man/xmu_extract_column.Rd                   |    5 
 man/xmu_get_CI.Rd                           |    5 
 man/xmu_lavaan_process_group.Rd             |    3 
 man/xmu_make_TwinSuperModel.Rd              |    5 
 man/xmu_make_bin_cont_pair_data.Rd          |    3 
 man/xmu_make_mxData.Rd                      |    7 
 man/xmu_match.arg.Rd                        |    3 
 man/xmu_name_from_lavaan_str.Rd             |    3 
 man/xmu_path2twin.Rd                        |    3 
 man/xmu_path_regex.Rd                       |    3 
 man/xmu_print_algebras.Rd                   |    3 
 man/xmu_rclabel_2_bracket_address.Rd        |    3 
 man/xmu_relevel_factors.Rd                  |only
 man/xmu_safe_run_summary.Rd                 |    7 
 man/xmu_scale_wide_data.Rd                  |only
 man/xmu_set_sep_from_suffix.Rd              |    3 
 man/xmu_show_fit_or_comparison.Rd           |    5 
 man/xmu_simplex_corner.Rd                   |    3 
 man/xmu_standardize_ACE.Rd                  |    1 
 man/xmu_standardize_ACEcov.Rd               |    3 
 man/xmu_standardize_ACEv.Rd                 |    3 
 man/xmu_standardize_CP.Rd                   |    3 
 man/xmu_standardize_IP.Rd                   |    3 
 man/xmu_standardize_RAM.Rd                  |    5 
 man/xmu_standardize_SexLim.Rd               |    3 
 man/xmu_standardize_Simplex.Rd              |    3 
 man/xmu_start_value_list.Rd                 |    3 
 man/xmu_starts.Rd                           |    3 
 man/xmu_summary_RAM_group_parameters.Rd     |    3 
 man/xmu_twin_add_WeightMatrices.Rd          |    3 
 man/xmu_twin_check.Rd                       |    3 
 man/xmu_twin_get_var_names.Rd               |    3 
 man/xmu_twin_make_def_means_mats_and_alg.Rd |    3 
 man/xmu_twin_upgrade_selDvs2SelVars.Rd      |    3 
 tests/testthat/test_umx_CLPM.r              |   70 ++
 317 files changed, 2409 insertions(+), 1912 deletions(-)

More information about umx at CRAN
Permanent link

Package TreeRingShape updated to version 3.0.5 with previous version 3.0.3 dated 2024-04-22

Title: Recording Tree-Ring Shapes of Tree Disks with Manual Digitizing and Interpolating Model
Description: Record all tree-ring Shapefile of tree disk with GIS soft 'Qgis' and interpolating model from high resolution tree disk image.
Author: Megumi ISHIDA [aut, cre, cph]
Maintainer: Megumi ISHIDA <ishidam@sanchikanri.com>

Diff between TreeRingShape versions 3.0.3 dated 2024-04-22 and 3.0.5 dated 2024-11-14

 DESCRIPTION                 |   21 ++++++++-------
 MD5                         |   25 +++++++++---------
 NEWS.md                     |   16 +++++++++---
 R/ShapeFile.R               |    9 ++++++
 R/TreeRingsInterpolation.R  |   58 ++++++++++++++++++++++++++++++++++++++++++--
 R/calculation.R             |    2 -
 README.md                   |   28 ++-------------------
 build/vignette.rds          |binary
 inst/doc/TreeRingShape.Rmd  |    2 -
 inst/doc/TreeRingShape.html |    6 ++--
 man/DiskInfo.Rd             |only
 man/TreeRingShape.Rd        |    5 ++-
 tests/testthat.R            |    3 --
 vignettes/TreeRingShape.Rmd |    2 -
 14 files changed, 114 insertions(+), 63 deletions(-)

More information about TreeRingShape at CRAN
Permanent link

Package reticulate updated to version 1.40.0 with previous version 1.39.0 dated 2024-09-05

Title: Interface to 'Python'
Description: Interface to 'Python' modules, classes, and functions. When calling into 'Python', R data types are automatically converted to their equivalent 'Python' types. When values are returned from 'Python' to R they are converted back to R types. Compatible with all versions of 'Python' >= 2.7.
Author: Tomasz Kalinowski [ctb, cre], Kevin Ushey [aut], JJ Allaire [aut], RStudio [cph, fnd], Yuan Tang [aut, cph] , Dirk Eddelbuettel [ctb, cph], Bryan Lewis [ctb, cph], Sigrid Keydana [ctb], Ryan Hafen [ctb, cph], Marcus Geelnard [ctb, cph]
Maintainer: Tomasz Kalinowski <tomasz@posit.co>

Diff between reticulate versions 1.39.0 dated 2024-09-05 and 1.40.0 dated 2024-11-14

 reticulate-1.39.0/reticulate/tests/testthat/resources/figure                  |only
 reticulate-1.39.0/reticulate/tests/testthat/resources/test-custom-root-dir.md |only
 reticulate-1.40.0/reticulate/DESCRIPTION                                      |    6 
 reticulate-1.40.0/reticulate/MD5                                              |   79 +-
 reticulate-1.40.0/reticulate/NEWS.md                                          |   39 +
 reticulate-1.40.0/reticulate/R/RcppExports.R                                  |    8 
 reticulate-1.40.0/reticulate/R/ark-variables-methods.R                        |only
 reticulate-1.40.0/reticulate/R/array.R                                        |    7 
 reticulate-1.40.0/reticulate/R/conda.R                                        |   44 +
 reticulate-1.40.0/reticulate/R/config.R                                       |   41 +
 reticulate-1.40.0/reticulate/R/miniconda.R                                    |    5 
 reticulate-1.40.0/reticulate/R/package.R                                      |    7 
 reticulate-1.40.0/reticulate/R/python-tools.R                                 |   52 -
 reticulate-1.40.0/reticulate/R/python.R                                       |    7 
 reticulate-1.40.0/reticulate/R/thread.R                                       |   32 
 reticulate-1.40.0/reticulate/R/virtualenv.R                                   |   13 
 reticulate-1.40.0/reticulate/R/zzz.R                                          |   97 ++
 reticulate-1.40.0/reticulate/build/vignette.rds                               |binary
 reticulate-1.40.0/reticulate/inst/doc/arrays.html                             |    2 
 reticulate-1.40.0/reticulate/inst/doc/calling_python.html                     |    2 
 reticulate-1.40.0/reticulate/inst/doc/package.html                            |    2 
 reticulate-1.40.0/reticulate/inst/doc/python_dependencies.html                |    2 
 reticulate-1.40.0/reticulate/inst/doc/python_packages.Rmd                     |    2 
 reticulate-1.40.0/reticulate/inst/doc/python_packages.html                    |    4 
 reticulate-1.40.0/reticulate/inst/doc/python_primer.html                      |    2 
 reticulate-1.40.0/reticulate/inst/doc/r_markdown.html                         |   12 
 reticulate-1.40.0/reticulate/inst/doc/versions.html                           |    2 
 reticulate-1.40.0/reticulate/inst/python/rpytools/ark_variables.py            |only
 reticulate-1.40.0/reticulate/inst/python/rpytools/run.py                      |   22 
 reticulate-1.40.0/reticulate/src/RcppExports.cpp                              |   23 
 reticulate-1.40.0/reticulate/src/libpython.cpp                                |   36 -
 reticulate-1.40.0/reticulate/src/libpython.h                                  |   12 
 reticulate-1.40.0/reticulate/src/python.cpp                                   |  330 +++++++---
 reticulate-1.40.0/reticulate/src/readline.cpp                                 |   27 
 reticulate-1.40.0/reticulate/src/reticulate_types.h                           |    6 
 reticulate-1.40.0/reticulate/tests/testthat/resources/test-chunking.md        |    2 
 reticulate-1.40.0/reticulate/tests/testthat/test-delay-load.R                 |   26 
 reticulate-1.40.0/reticulate/tests/testthat/test-python-class.R               |   87 +-
 reticulate-1.40.0/reticulate/tests/testthat/test-python-numpy.R               |   12 
 reticulate-1.40.0/reticulate/tests/testthat/test-python-objects.R             |   37 +
 reticulate-1.40.0/reticulate/tests/testthat/test-python-threads.R             |   21 
 reticulate-1.40.0/reticulate/vignettes/python_packages.Rmd                    |    2 
 42 files changed, 781 insertions(+), 329 deletions(-)

More information about reticulate at CRAN
Permanent link

Package SchoolDataIT updated to version 0.2.2 with previous version 0.2.1 dated 2024-10-01

Title: Retrieve, Harmonise and Map Open Data Regarding the Italian School System
Description: Compiles and displays the available data sets regarding the Italian school system, with a focus on the infrastructural aspects. Input datasets are downloaded from the web, with the aim of updating everything to real time. The functions are divided in four main modules, namely 'Get', to scrape raw data from the web 'Util', various utilities needed to process raw data 'Group', to aggregate data at the municipality or province level 'Map', to visualize the output datasets.
Author: Leonardo Cefalo [aut, cre] , Alessio Pollice [ctb, ths] , Paolo Maranzano [ctb]
Maintainer: Leonardo Cefalo <leonardo.cefalo@uniba.it>

Diff between SchoolDataIT versions 0.2.1 dated 2024-10-01 and 0.2.2 dated 2024-11-14

 DESCRIPTION                 |    8 ++--
 MD5                         |   52 +++++++++++++--------------
 NEWS.md                     |   11 +++++
 R/Get_BroadBand.R           |   11 ++++-
 R/Get_DB_MIUR.R             |    9 ++++
 R/Get_InnerAreas.R          |   19 +++++++++-
 R/Get_Invalsi_IS.R          |   33 ++++++++---------
 R/Get_Registry.R            |   15 ++++++--
 R/Get_School2mun.R          |   31 +++++++++++++---
 R/Get_Shapefile.R           |    2 -
 R/Get_nstud.R               |   10 ++++-
 R/Get_nteachers_prov.R      |   12 ++++--
 R/Group_DB_MIUR.R           |    2 -
 R/Map_DB.R                  |   28 ++++++++-------
 R/Map_Invalsi.R             |   28 ++++++++++-----
 R/Map_School_Buildings.R    |   33 +++++++++--------
 R/Set_DB.R                  |   82 ++++++++++++++++++++++++++++++++------------
 R/Util_DB_MIUR_num.R        |    2 -
 README.md                   |    2 -
 man/Get_BroadBand.Rd        |    2 -
 man/Get_Invalsi_IS.Rd       |    4 +-
 man/Get_Shapefile.Rd        |    2 -
 man/Map_DB.Rd               |    7 ++-
 man/Map_Invalsi.Rd          |    7 ++-
 man/Map_School_Buildings.Rd |    7 ++-
 man/Set_DB.Rd               |    2 -
 man/Util_DB_MIUR_num.Rd     |    2 -
 27 files changed, 280 insertions(+), 143 deletions(-)

More information about SchoolDataIT at CRAN
Permanent link

Package adbcdrivermanager updated to version 0.15.0 with previous version 0.14.0 dated 2024-09-06

Title: 'Arrow' Database Connectivity ('ADBC') Driver Manager
Description: Provides a developer-facing interface to 'Arrow' Database Connectivity ('ADBC') for the purposes of driver development, driver testing, and building high-level database interfaces for users. 'ADBC' <https://arrow.apache.org/adbc/> is an API standard for database access libraries that uses 'Arrow' for result sets and query parameters.
Author: Dewey Dunnington [aut, cre] , Apache Arrow [aut, cph], Apache Software Foundation [cph]
Maintainer: Dewey Dunnington <dewey@dunnington.ca>

Diff between adbcdrivermanager versions 0.14.0 dated 2024-09-06 and 0.15.0 dated 2024-11-14

 adbcdrivermanager-0.14.0/adbcdrivermanager/src/c/driver/framework/catalog.cc              |only
 adbcdrivermanager-0.14.0/adbcdrivermanager/src/c/driver/framework/catalog.h               |only
 adbcdrivermanager-0.14.0/adbcdrivermanager/src/c/vendor/sqlite3                           |only
 adbcdrivermanager-0.15.0/adbcdrivermanager/DESCRIPTION                                    |   10 
 adbcdrivermanager-0.15.0/adbcdrivermanager/MD5                                            |   90 
 adbcdrivermanager-0.15.0/adbcdrivermanager/configure                                      |    3 
 adbcdrivermanager-0.15.0/adbcdrivermanager/man/adbcdrivermanager-package.Rd               |    2 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/common/utils.c                    |   66 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/common/utils.h                    |    6 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/framework/base_driver.h           |   11 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/framework/connection.h            |    6 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/framework/objects.cc              |  175 +
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/framework/objects.h               |  120 +
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/framework/statement.h             |    3 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/framework/status.h                |   38 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/framework/utility.cc              |only
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/framework/utility.h               |only
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/postgresql/bind_stream.h          |  552 +----
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/postgresql/connection.cc          | 1086 ++++------
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/postgresql/connection.h           |    8 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/postgresql/copy/reader.h          |    5 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/postgresql/copy/writer.h          |   10 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/postgresql/database.cc            |  269 +-
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/postgresql/database.h             |   23 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/postgresql/error.cc               |   73 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/postgresql/error.h                |   73 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/postgresql/postgres_type.h        |   96 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/postgresql/postgresql.cc          |   32 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/postgresql/result_helper.cc       |   89 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/postgresql/result_helper.h        |   86 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/postgresql/result_reader.cc       |  108 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/postgresql/result_reader.h        |   29 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/postgresql/statement.cc           |  296 +-
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/postgresql/statement.h            |   24 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/sqlite/sqlite.cc                  |   62 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/sqlite/statement_reader.c         |   19 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver/sqlite/statement_reader.h         |    5 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/driver_manager/adbc_driver_manager.cc    |   63 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/include/arrow-adbc/adbc.h                |    2 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/include/arrow-adbc/adbc_driver_manager.h |    5 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/validation/adbc_validation.h             |   54 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/validation/adbc_validation_connection.cc |   35 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/validation/adbc_validation_statement.cc  |  147 +
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/validation/adbc_validation_util.cc       |   60 
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/validation/adbc_validation_util.h        |  127 -
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/vendor/nanoarrow/nanoarrow.c             |  701 +++++-
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/vendor/nanoarrow/nanoarrow.h             |  602 ++++-
 adbcdrivermanager-0.15.0/adbcdrivermanager/src/c/vendor/nanoarrow/nanoarrow.hpp           |   13 
 48 files changed, 3285 insertions(+), 1999 deletions(-)

More information about adbcdrivermanager at CRAN
Permanent link

Package adbcsqlite updated to version 0.15.0 with previous version 0.14.0 dated 2024-09-06

Title: 'Arrow' Database Connectivity ('ADBC') 'SQLite' Driver
Description: Provides a developer-facing interface to the 'Arrow' Database Connectivity ('ADBC') 'SQLite' driver for the purposes of building high-level database interfaces for users. 'ADBC' <https://arrow.apache.org/adbc/> is an API standard for database access libraries that uses 'Arrow' for result sets and query parameters.
Author: Dewey Dunnington [aut, cre] , Apache Arrow [aut, cph], Apache Software Foundation [cph]
Maintainer: Dewey Dunnington <dewey@dunnington.ca>

Diff between adbcsqlite versions 0.14.0 dated 2024-09-06 and 0.15.0 dated 2024-11-14

 adbcsqlite-0.14.0/adbcsqlite/src/c/driver/framework/catalog.cc              |only
 adbcsqlite-0.14.0/adbcsqlite/src/c/driver/framework/catalog.h               |only
 adbcsqlite-0.15.0/adbcsqlite/DESCRIPTION                                    |   12 
 adbcsqlite-0.15.0/adbcsqlite/MD5                                            |   90 
 adbcsqlite-0.15.0/adbcsqlite/configure                                      |    3 
 adbcsqlite-0.15.0/adbcsqlite/man/adbcsqlite-package.Rd                      |    3 
 adbcsqlite-0.15.0/adbcsqlite/src/Makevars.in                                |    4 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/common/utils.c                    |   66 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/common/utils.h                    |    6 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/framework/base_driver.h           |   11 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/framework/connection.h            |    6 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/framework/objects.cc              |  175 +
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/framework/objects.h               |  120 +
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/framework/statement.h             |    3 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/framework/status.h                |   38 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/framework/utility.cc              |only
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/framework/utility.h               |only
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/postgresql/bind_stream.h          |  552 +----
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/postgresql/connection.cc          | 1086 ++++------
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/postgresql/connection.h           |    8 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/postgresql/copy/reader.h          |    5 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/postgresql/copy/writer.h          |   10 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/postgresql/database.cc            |  269 +-
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/postgresql/database.h             |   23 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/postgresql/error.cc               |   73 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/postgresql/error.h                |   73 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/postgresql/postgres_type.h        |   96 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/postgresql/postgresql.cc          |   32 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/postgresql/result_helper.cc       |   89 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/postgresql/result_helper.h        |   86 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/postgresql/result_reader.cc       |  108 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/postgresql/result_reader.h        |   29 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/postgresql/statement.cc           |  296 +-
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/postgresql/statement.h            |   24 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/sqlite/sqlite.cc                  |   62 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/sqlite/statement_reader.c         |   19 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver/sqlite/statement_reader.h         |    5 
 adbcsqlite-0.15.0/adbcsqlite/src/c/driver_manager/adbc_driver_manager.cc    |   63 
 adbcsqlite-0.15.0/adbcsqlite/src/c/include/arrow-adbc/adbc.h                |    2 
 adbcsqlite-0.15.0/adbcsqlite/src/c/include/arrow-adbc/adbc_driver_manager.h |    5 
 adbcsqlite-0.15.0/adbcsqlite/src/c/validation/adbc_validation.h             |   54 
 adbcsqlite-0.15.0/adbcsqlite/src/c/validation/adbc_validation_connection.cc |   35 
 adbcsqlite-0.15.0/adbcsqlite/src/c/validation/adbc_validation_statement.cc  |  147 +
 adbcsqlite-0.15.0/adbcsqlite/src/c/validation/adbc_validation_util.cc       |   60 
 adbcsqlite-0.15.0/adbcsqlite/src/c/validation/adbc_validation_util.h        |  127 -
 adbcsqlite-0.15.0/adbcsqlite/src/c/vendor/nanoarrow/nanoarrow.c             |  701 +++++-
 adbcsqlite-0.15.0/adbcsqlite/src/c/vendor/nanoarrow/nanoarrow.h             |  602 ++++-
 adbcsqlite-0.15.0/adbcsqlite/src/c/vendor/nanoarrow/nanoarrow.hpp           |   13 
 48 files changed, 3289 insertions(+), 2002 deletions(-)

More information about adbcsqlite at CRAN
Permanent link

Package adbcpostgresql updated to version 0.15.0 with previous version 0.14.0 dated 2024-09-06

Title: 'Arrow' Database Connectivity ('ADBC') 'PostgreSQL' Driver
Description: Provides a developer-facing interface to the 'Arrow' Database Connectivity ('ADBC') 'PostgreSQL' driver for the purposes of building high-level database interfaces for users. 'ADBC' <https://arrow.apache.org/adbc/> is an API standard for database access libraries that uses 'Arrow' for result sets and query parameters.
Author: Dewey Dunnington [aut, cre] , Apache Arrow [aut, cph], Apache Software Foundation [cph]
Maintainer: Dewey Dunnington <dewey@dunnington.ca>

Diff between adbcpostgresql versions 0.14.0 dated 2024-09-06 and 0.15.0 dated 2024-11-14

 adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/framework/catalog.cc              |only
 adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/framework/catalog.h               |only
 adbcpostgresql-0.14.0/adbcpostgresql/src/c/vendor/sqlite3                           |only
 adbcpostgresql-0.15.0/adbcpostgresql/DESCRIPTION                                    |   12 
 adbcpostgresql-0.15.0/adbcpostgresql/MD5                                            |   96 
 adbcpostgresql-0.15.0/adbcpostgresql/configure                                      |    5 
 adbcpostgresql-0.15.0/adbcpostgresql/man/adbcpostgresql-package.Rd                  |    3 
 adbcpostgresql-0.15.0/adbcpostgresql/src/Makevars.in                                |    5 
 adbcpostgresql-0.15.0/adbcpostgresql/src/Makevars.ucrt                              |    5 
 adbcpostgresql-0.15.0/adbcpostgresql/src/Makevars.win                               |    5 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/common/utils.c                    |   66 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/common/utils.h                    |    6 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/framework/base_driver.h           |   11 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/framework/connection.h            |    6 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/framework/objects.cc              |  175 +
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/framework/objects.h               |  120 +
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/framework/statement.h             |    3 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/framework/status.h                |   38 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/framework/utility.cc              |only
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/framework/utility.h               |only
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/postgresql/bind_stream.h          |  552 +----
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/postgresql/connection.cc          | 1086 ++++------
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/postgresql/connection.h           |    8 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/postgresql/copy/reader.h          |    5 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/postgresql/copy/writer.h          |   10 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/postgresql/database.cc            |  269 +-
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/postgresql/database.h             |   23 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/postgresql/error.cc               |   73 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/postgresql/error.h                |   73 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/postgresql/postgres_type.h        |   96 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/postgresql/postgresql.cc          |   32 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/postgresql/result_helper.cc       |   89 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/postgresql/result_helper.h        |   86 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/postgresql/result_reader.cc       |  108 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/postgresql/result_reader.h        |   29 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/postgresql/statement.cc           |  296 +-
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/postgresql/statement.h            |   24 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/sqlite/sqlite.cc                  |   62 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/sqlite/statement_reader.c         |   19 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver/sqlite/statement_reader.h         |    5 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/driver_manager/adbc_driver_manager.cc    |   63 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/include/arrow-adbc/adbc.h                |    2 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/include/arrow-adbc/adbc_driver_manager.h |    5 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/validation/adbc_validation.h             |   54 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/validation/adbc_validation_connection.cc |   35 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/validation/adbc_validation_statement.cc  |  147 +
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/validation/adbc_validation_util.cc       |   60 
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/validation/adbc_validation_util.h        |  127 -
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/vendor/nanoarrow/nanoarrow.c             |  701 +++++-
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/vendor/nanoarrow/nanoarrow.h             |  602 ++++-
 adbcpostgresql-0.15.0/adbcpostgresql/src/c/vendor/nanoarrow/nanoarrow.hpp           |   13 
 51 files changed, 3299 insertions(+), 2011 deletions(-)

More information about adbcpostgresql at CRAN
Permanent link

Package mlr3pipelines updated to version 0.7.1 with previous version 0.7.0 dated 2024-09-24

Title: Preprocessing Operators and Pipelines for 'mlr3'
Description: Dataflow programming toolkit that enriches 'mlr3' with a diverse set of pipelining operators ('PipeOps') that can be composed into graphs. Operations exist for data preprocessing, model fitting, and ensemble learning. Graphs can themselves be treated as 'mlr3' 'Learners' and can therefore be resampled, benchmarked, and tuned.
Author: Martin Binder [aut, cre], Florian Pfisterer [aut] , Lennart Schneider [aut] , Bernd Bischl [aut] , Michel Lang [aut] , Sebastian Fischer [aut] , Susanne Dandl [aut], Keno Mersmann [ctb], Maximilian Muecke [ctb] , Lona Koers [ctb]
Maintainer: Martin Binder <mlr.developer@mb706.com>

Diff between mlr3pipelines versions 0.7.0 dated 2024-09-24 and 0.7.1 dated 2024-11-14

 DESCRIPTION                                   |   31 +-
 MD5                                           |  274 +++++++++++++-------------
 NAMESPACE                                     |    8 
 NEWS.md                                       |   16 +
 R/Graph.R                                     |    5 
 R/GraphLearner.R                              |   89 ++++++--
 R/PipeOpADAS.R                                |    4 
 R/PipeOpBLSmote.R                             |    4 
 R/PipeOpBoxCox.R                              |    5 
 R/PipeOpClassifAvg.R                          |    4 
 R/PipeOpEncodeLmer.R                          |    6 
 R/PipeOpFilter.R                              |    6 
 R/PipeOpICA.R                                 |    4 
 R/PipeOpImputeLearner.R                       |    4 
 R/PipeOpKernelPCA.R                           |    4 
 R/PipeOpLearner.R                             |    4 
 R/PipeOpLearnerCV.R                           |    4 
 R/PipeOpLearnerPICVPlus.R                     |only
 R/PipeOpLearnerQuantiles.R                    |only
 R/PipeOpNMF.R                                 |    8 
 R/PipeOpNearmiss.R                            |only
 R/PipeOpOVR.R                                 |    8 
 R/PipeOpProxy.R                               |    4 
 R/PipeOpRandomResponse.R                      |    4 
 R/PipeOpRegrAvg.R                             |    4 
 R/PipeOpSmote.R                               |    4 
 R/PipeOpSmoteNC.R                             |    4 
 R/PipeOpTextVectorizer.R                      |    6 
 R/PipeOpThreshold.R                           |    4 
 R/PipeOpTomek.R                               |only
 R/PipeOpTrafo.R                               |   12 -
 R/PipeOpTuneThreshold.R                       |    8 
 R/PipeOpVtreat.R                              |    4 
 R/PipeOpYeoJohnson.R                          |    4 
 R/TaskRegr_boston_housing.R                   |only
 R/bibentries.R                                |   39 +++
 R/mlr_graphs.R                                |    4 
 R/mlr_pipeops.R                               |    4 
 R/pipeline_bagging.R                          |    4 
 R/pipeline_ovr.R                              |    4 
 R/pipeline_robustify.R                        |    4 
 R/pipeline_stacking.R                         |    6 
 R/pipeline_targettrafo.R                      |    4 
 R/po.R                                        |    4 
 R/ppl.R                                       |    4 
 R/utils.R                                     |   31 --
 R/zzz.R                                       |    1 
 man/Graph.Rd                                  |    5 
 man/PipeOp.Rd                                 |    4 
 man/PipeOpEnsemble.Rd                         |    4 
 man/PipeOpImpute.Rd                           |    4 
 man/PipeOpTargetTrafo.Rd                      |    4 
 man/PipeOpTaskPreproc.Rd                      |    4 
 man/PipeOpTaskPreprocSimple.Rd                |    4 
 man/mlr3pipelines-package.Rd                  |    1 
 man/mlr_graphs.Rd                             |    4 
 man/mlr_graphs_bagging.Rd                     |    4 
 man/mlr_graphs_ovr.Rd                         |    4 
 man/mlr_graphs_robustify.Rd                   |    4 
 man/mlr_graphs_stacking.Rd                    |    6 
 man/mlr_graphs_targettrafo.Rd                 |    4 
 man/mlr_learners_graph.Rd                     |   40 ++-
 man/mlr_pipeops.Rd                            |    8 
 man/mlr_pipeops_adas.Rd                       |    8 
 man/mlr_pipeops_blsmote.Rd                    |    8 
 man/mlr_pipeops_boxcox.Rd                     |    8 
 man/mlr_pipeops_branch.Rd                     |    4 
 man/mlr_pipeops_chunk.Rd                      |    4 
 man/mlr_pipeops_classbalancing.Rd             |    4 
 man/mlr_pipeops_classifavg.Rd                 |    8 
 man/mlr_pipeops_classweights.Rd               |    4 
 man/mlr_pipeops_colapply.Rd                   |    4 
 man/mlr_pipeops_collapsefactors.Rd            |    4 
 man/mlr_pipeops_colroles.Rd                   |    4 
 man/mlr_pipeops_copy.Rd                       |    4 
 man/mlr_pipeops_datefeatures.Rd               |    4 
 man/mlr_pipeops_encode.Rd                     |    4 
 man/mlr_pipeops_encodeimpact.Rd               |    4 
 man/mlr_pipeops_encodelmer.Rd                 |   10 
 man/mlr_pipeops_featureunion.Rd               |    4 
 man/mlr_pipeops_filter.Rd                     |   10 
 man/mlr_pipeops_fixfactors.Rd                 |    4 
 man/mlr_pipeops_histbin.Rd                    |    4 
 man/mlr_pipeops_ica.Rd                        |    8 
 man/mlr_pipeops_imputeconstant.Rd             |    4 
 man/mlr_pipeops_imputehist.Rd                 |    4 
 man/mlr_pipeops_imputelearner.Rd              |    9 
 man/mlr_pipeops_imputemean.Rd                 |    4 
 man/mlr_pipeops_imputemedian.Rd               |    4 
 man/mlr_pipeops_imputemode.Rd                 |    4 
 man/mlr_pipeops_imputeoor.Rd                  |    4 
 man/mlr_pipeops_imputesample.Rd               |    4 
 man/mlr_pipeops_kernelpca.Rd                  |    8 
 man/mlr_pipeops_learner.Rd                    |   12 -
 man/mlr_pipeops_learner_cv.Rd                 |    8 
 man/mlr_pipeops_learner_pi_cvplus.Rd          |only
 man/mlr_pipeops_learner_quantiles.Rd          |only
 man/mlr_pipeops_missind.Rd                    |    4 
 man/mlr_pipeops_modelmatrix.Rd                |    4 
 man/mlr_pipeops_multiplicityexply.Rd          |    4 
 man/mlr_pipeops_multiplicityimply.Rd          |    4 
 man/mlr_pipeops_mutate.Rd                     |    4 
 man/mlr_pipeops_nearmiss.Rd                   |only
 man/mlr_pipeops_nmf.Rd                        |   12 -
 man/mlr_pipeops_nop.Rd                        |    4 
 man/mlr_pipeops_ovrsplit.Rd                   |    8 
 man/mlr_pipeops_ovrunite.Rd                   |    8 
 man/mlr_pipeops_pca.Rd                        |    4 
 man/mlr_pipeops_proxy.Rd                      |    8 
 man/mlr_pipeops_quantilebin.Rd                |    4 
 man/mlr_pipeops_randomprojection.Rd           |    4 
 man/mlr_pipeops_randomresponse.Rd             |    8 
 man/mlr_pipeops_regravg.Rd                    |    8 
 man/mlr_pipeops_removeconstants.Rd            |    4 
 man/mlr_pipeops_renamecolumns.Rd              |    4 
 man/mlr_pipeops_replicate.Rd                  |    4 
 man/mlr_pipeops_rowapply.Rd                   |    4 
 man/mlr_pipeops_scale.Rd                      |    4 
 man/mlr_pipeops_scalemaxabs.Rd                |    4 
 man/mlr_pipeops_scalerange.Rd                 |    4 
 man/mlr_pipeops_select.Rd                     |    4 
 man/mlr_pipeops_smote.Rd                      |    8 
 man/mlr_pipeops_smotenc.Rd                    |    8 
 man/mlr_pipeops_spatialsign.Rd                |    4 
 man/mlr_pipeops_subsample.Rd                  |    4 
 man/mlr_pipeops_targetinvert.Rd               |    4 
 man/mlr_pipeops_targetmutate.Rd               |    8 
 man/mlr_pipeops_targettrafoscalerange.Rd      |    8 
 man/mlr_pipeops_textvectorizer.Rd             |   10 
 man/mlr_pipeops_threshold.Rd                  |    8 
 man/mlr_pipeops_tomek.Rd                      |only
 man/mlr_pipeops_tunethreshold.Rd              |   12 -
 man/mlr_pipeops_unbranch.Rd                   |    4 
 man/mlr_pipeops_updatetarget.Rd               |    8 
 man/mlr_pipeops_vtreat.Rd                     |    8 
 man/mlr_pipeops_yeojohnson.Rd                 |    8 
 man/mlr_tasks_boston_housing.Rd               |only
 man/po.Rd                                     |    4 
 man/ppl.Rd                                    |    4 
 tests/testthat/test_GraphLearner.R            |   36 ++-
 tests/testthat/test_dictionary.R              |    6 
 tests/testthat/test_pipeop_learnerpicvplus.R  |only
 tests/testthat/test_pipeop_learnerquantiles.R |only
 tests/testthat/test_pipeop_nearmiss.R         |only
 tests/testthat/test_pipeop_tomek.R            |only
 145 files changed, 782 insertions(+), 430 deletions(-)

More information about mlr3pipelines at CRAN
Permanent link

Package gsDesign updated to version 3.6.5 with previous version 3.6.4 dated 2024-07-26

Title: Group Sequential Design
Description: Derives group sequential clinical trial designs and describes their properties. Particular focus on time-to-event, binary, and continuous outcomes. Largely based on methods described in Jennison, Christopher and Turnbull, Bruce W., 2000, "Group Sequential Methods with Applications to Clinical Trials" ISBN: 0-8493-0316-8.
Author: Keaven Anderson [aut, cre], Merck & Co., Inc., Rahway, NJ, USA and its affiliates [cph]
Maintainer: Keaven Anderson <keaven_anderson@merck.com>

Diff between gsDesign versions 3.6.4 dated 2024-07-26 and 3.6.5 dated 2024-11-14

 DESCRIPTION                                    |   16 
 MD5                                            |   48 -
 NEWS.md                                        |   21 
 R/toInteger.R                                  |   83 +-
 build/vignette.rds                             |binary
 inst/doc/ConditionalErrorSpending.html         |  825 ++++++++++++------------
 inst/doc/ConditionalPowerPlot.html             |  183 ++---
 inst/doc/GentleIntroductionToGSD.html          |  162 ++--
 inst/doc/PoissonMixtureModel.html              |  287 ++++----
 inst/doc/SpendingFunctionOverview.html         |    3 
 inst/doc/SurvivalOverview.R                    |    2 
 inst/doc/SurvivalOverview.html                 |  328 ++++-----
 inst/doc/VaccineEfficacy.html                  |  717 ++++++++++----------
 inst/doc/binomialSPRTExample.html              |  321 ++++-----
 inst/doc/gsDesignPackageOverview.html          |   51 -
 inst/doc/gsSurvBasicExamples.R                 |   26 
 inst/doc/gsSurvBasicExamples.html              |  857 ++++++++++++-------------
 inst/doc/nNormal.html                          |  109 +--
 inst/doc/toInteger.R                           |   73 --
 inst/doc/toInteger.Rmd                         |  108 +--
 inst/doc/toInteger.html                        |  259 +++----
 man/gsDesign-package.Rd                        |    5 
 man/toInteger.Rd                               |   54 +
 tests/testthat/test-developer-test-toInteger.R |only
 tests/testthat/test-independent-test-as_rtf.R  |only
 vignettes/toInteger.Rmd                        |  108 +--
 26 files changed, 2305 insertions(+), 2341 deletions(-)

More information about gsDesign at CRAN
Permanent link

Package openxlsx2 updated to version 1.11 with previous version 1.10 dated 2024-10-17

Title: Read, Write and Edit 'xlsx' Files
Description: Simplifies the creation of 'xlsx' files by providing a high level interface to writing, styling and editing worksheets.
Author: Jordan Mark Barbone [aut] , Jan Marvin Garbuszus [aut, cre], Olivier Roy [ctb], openxlsx authors [cph] , Arseny Kapoulkine [ctb, cph]
Maintainer: Jan Marvin Garbuszus <jan.garbuszus@ruhr-uni-bochum.de>

Diff between openxlsx2 versions 1.10 dated 2024-10-17 and 1.11 dated 2024-11-14

 DESCRIPTION                          |    6 
 MD5                                  |   56 ++++-----
 NEWS.md                              |   14 ++
 R/RcppExports.R                      |   12 -
 R/class-workbook-wrappers.R          |   55 ++++++++
 R/class-workbook.R                   |   42 ++++--
 R/converters.R                       |    2 
 R/helper-functions.R                 |   10 +
 R/read.R                             |    2 
 R/utils.R                            |    1 
 R/wb_functions.R                     |    4 
 R/wb_styles.R                        |    7 -
 R/write.R                            |   15 +-
 build/vignette.rds                   |binary
 inst/WORDLIST                        |    1 
 inst/doc/Update-from-openxlsx.R      |   50 ++++----
 inst/doc/conditional-formatting.R    |   32 ++---
 inst/doc/openxlsx2.R                 |   32 ++---
 man/wb_add_numfmt.Rd                 |   72 +++++++++++
 man/wb_add_slicer.Rd                 |    1 
 src/RcppExports.cpp                  |   40 ++----
 src/helper_functions.cpp             |  217 +++++++----------------------------
 src/load_workbook.cpp                |   10 -
 src/openxlsx2.h                      |  116 ++++++++++++++++++
 src/pugi.cpp                         |    6 
 src/strings_xml.cpp                  |    8 -
 tests/testthat/test-class-workbook.R |   20 +++
 tests/testthat/test-pugi_cpp.R       |    2 
 tests/testthat/test-write.R          |   55 +++++++-
 29 files changed, 546 insertions(+), 342 deletions(-)

More information about openxlsx2 at CRAN
Permanent link

Package interfacer updated to version 0.3.2 with previous version 0.2.3 dated 2024-08-01

Title: Define and Enforce Contracts for Dataframes as Function Parameters
Description: A dataframe validation framework for package builders who use dataframes as function parameters. It performs checks on column names, coerces data-types, and checks grouping to make sure user inputs conform to a specification provided by the package author. It provides a mechanism for package authors to automatically document supported dataframe inputs and selectively dispatch to functions depending on the format of a dataframe much like S3 does for classes. It also contains some developer tools to make working with and documenting dataframe specifications easier. It helps package developers to improve their documentation and simplifies parameter validation where dataframes are used as function parameters.
Author: Robert Challen [aut, cre, cph]
Maintainer: Robert Challen <rob.challen@bristol.ac.uk>

Diff between interfacer versions 0.2.3 dated 2024-08-01 and 0.3.2 dated 2024-11-14

 DESCRIPTION                      |    8 +--
 MD5                              |   76 +++++++++++++++++++-----------
 NAMESPACE                        |   10 ++++
 NEWS.md                          |   24 +++++++++
 R/devtools.R                     |    9 +--
 R/idispatch.R                    |   12 ++--
 R/iface-class.R                  |   20 ++++----
 R/igroup-process.R               |   12 ++++
 R/imapper.R                      |    6 +-
 R/interfacer.R                   |   26 ++++++++--
 R/params_check_consistent.R      |only
 R/params_check_framework.R       |only
 R/params_check_types.R           |only
 R/params_recycle.R               |only
 R/params_resolve_missing.R       |only
 R/type-coerce.R                  |   96 +++++++++++++++++++++++++++++++--------
 README.md                        |   12 ++++
 build/vignette.rds               |binary
 inst/WORDLIST                    |    3 -
 inst/doc/consistency.R           |only
 inst/doc/consistency.Rmd         |only
 inst/doc/consistency.html        |only
 inst/doc/dispatch.Rmd            |    2 
 inst/doc/dispatch.html           |    2 
 inst/doc/interfacer.html         |   21 ++++----
 inst/doc/nesting.html            |    2 
 man/check_character.Rd           |only
 man/check_consistent.Rd          |only
 man/check_date.Rd                |only
 man/check_integer.Rd             |only
 man/check_logical.Rd             |only
 man/check_numeric.Rd             |only
 man/check_single.Rd              |only
 man/figures                      |only
 man/iconvert.Rd                  |    4 -
 man/idispatch.Rd                 |   13 ++---
 man/iface.Rd                     |    8 +--
 man/imapper.Rd                   |    6 +-
 man/recycle.Rd                   |only
 man/resolve_missing.Rd           |only
 man/type.double.Rd               |    5 +-
 man/type.group_unique.Rd         |    4 -
 man/type.numeric.Rd              |    5 +-
 man/type.unique_id.Rd            |only
 tests/testthat/helper-data.R     |    4 +
 tests/testthat/test-interfacer.R |   47 ++++++++++---------
 tests/testthat/test-roxygen.R    |only
 vignettes/consistency.Rmd        |only
 vignettes/dispatch.Rmd           |    2 
 49 files changed, 297 insertions(+), 142 deletions(-)

More information about interfacer at CRAN
Permanent link

Package spatPomp updated to version 1.0.0 with previous version 0.36.1 dated 2024-08-20

Title: Inference for Spatiotemporal Partially Observed Markov Processes
Description: Inference on panel data using spatiotemporal partially-observed Markov process (SpatPOMP) models. The 'spatPomp' package extends 'pomp' to include algorithms taking advantage of the spatial structure in order to assist with handling high dimensional processes. See Asfaw et al. (2024) <doi:10.48550/arXiv.2101.01157> for further description of the package.
Author: Kidus Asfaw [aut], Edward Ionides [cre, aut], Aaron A. King [aut], Allister Ho [ctb], Joonha Park [ctb], Jesse Wheeler [ctb], Jifan Li [ctb], Ning Ning [ctb], Haogao Gu [ctb]
Maintainer: Edward Ionides <ionides@umich.edu>

Diff between spatPomp versions 0.36.1 dated 2024-08-20 and 1.0.0 dated 2024-11-14

 DESCRIPTION                     |   24 ++++-----
 MD5                             |  104 ++++++++++++++++++++--------------------
 R/abf.R                         |    4 -
 R/abfir.R                       |    2 
 R/bpfilter.R                    |    4 -
 R/conc.R                        |    2 
 R/enkf.R                        |    2 
 R/eunit_measure.R               |    2 
 R/girf.R                        |    2 
 R/ibpf.R                        |    6 +-
 R/ienkf.R                       |    2 
 R/igirf.R                       |    4 -
 R/init.R                        |only
 R/iubf.R                        |    2 
 R/listie.R                      |    5 +
 R/loglik.R                      |    4 -
 R/lorenz.R                      |    2 
 R/munit_measure.R               |    2 
 R/plot.R                        |   79 +++++++++++++++---------------
 R/runit_measure.R               |    2 
 R/spatPomp.R                    |    2 
 R/vec_dmeasure.R                |    2 
 R/vec_rmeasure.R                |    2 
 R/vunit_measure.R               |    2 
 build/partial.rdb               |binary
 build/vignette.rds              |binary
 inst/doc/ibpf.pdf               |binary
 inst/doc/tutorial.pdf           |binary
 man/abf.Rd                      |   12 +++-
 man/abfir.Rd                    |    2 
 man/bpfilter.Rd                 |    4 -
 man/conc.Rd                     |    2 
 man/enkf.Rd                     |    2 
 man/eunit_measure.Rd            |    2 
 man/girf.Rd                     |    2 
 man/ibpf.Rd                     |    6 +-
 man/ienkf.Rd                    |    2 
 man/igirf.Rd                    |    4 -
 man/iubf.Rd                     |    2 
 man/listie.Rd                   |    5 +
 man/loglik.Rd                   |    4 -
 man/lorenz.Rd                   |    2 
 man/munit_measure.Rd            |    2 
 man/plot.Rd                     |   39 ++++++---------
 man/runit_measure.Rd            |    2 
 man/spatPomp.Rd                 |    2 
 man/vec_dmeasure.Rd             |    2 
 man/vec_rmeasure.Rd             |    2 
 man/vunit_measure.Rd            |    2 
 tests/bm.R                      |    3 -
 tests/bm.Rout.save              |    3 -
 vignettes/README                |only
 vignettes/ibpf-original.pdf     |binary
 vignettes/tutorial-original.pdf |binary
 54 files changed, 189 insertions(+), 181 deletions(-)

More information about spatPomp at CRAN
Permanent link

Package Qindex updated to version 0.1.7 with previous version 0.1.6 dated 2024-10-07

Title: Continuous and Dichotomized Index Predictors Based on Distribution Quantiles
Description: Select optimal functional regression or dichotomized quantile predictors for survival/logistic/numeric outcome and perform optimistic bias correction for any optimally dichotomized numeric predictor(s), as in Yi, et. al. (2023) <doi:10.1016/j.labinv.2023.100158>.
Author: Tingting Zhan [aut, cre, cph] , Misung Yi [aut, cph] , Inna Chervoneva [aut, cph]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>

Diff between Qindex versions 0.1.6 dated 2024-10-07 and 0.1.7 dated 2024-11-14

 Qindex-0.1.6/Qindex/R/lim_trans.R           |only
 Qindex-0.1.6/Qindex/inst                    |only
 Qindex-0.1.7/Qindex/DESCRIPTION             |   27 +++----
 Qindex-0.1.7/Qindex/MD5                     |   44 +++++-------
 Qindex-0.1.7/Qindex/NAMESPACE               |    5 +
 Qindex-0.1.7/Qindex/R/BBC_dichotom.R        |   30 +++++++-
 Qindex-0.1.7/Qindex/R/Qindex.R              |    8 --
 Qindex-0.1.7/Qindex/R/bootid.R              |   13 +--
 Qindex-0.1.7/Qindex/R/clusterQp.R           |   99 ++++++++++++++++------------
 Qindex-0.1.7/Qindex/R/defunct.R             |only
 Qindex-0.1.7/Qindex/R/integrandSurface.R    |   42 ++++++-----
 Qindex-0.1.7/Qindex/R/predict.Qindex.R      |    2 
 Qindex-0.1.7/Qindex/R/std_.R                |    6 -
 Qindex-0.1.7/Qindex/build/partial.rdb       |binary
 Qindex-0.1.7/Qindex/man/BBC_cutoff.Rd       |only
 Qindex-0.1.7/Qindex/man/BBC_dichotom.Rd     |    4 -
 Qindex-0.1.7/Qindex/man/Qindex-package.Rd   |   19 +++--
 Qindex-0.1.7/Qindex/man/bootid.Rd           |   11 +--
 Qindex-0.1.7/Qindex/man/clusterQp.Rd        |   38 ++++------
 Qindex-0.1.7/Qindex/man/defunct.Rd          |only
 Qindex-0.1.7/Qindex/man/integrandSurface.Rd |   26 +++----
 Qindex-0.1.7/Qindex/man/predict.Qindex.Rd   |    2 
 Qindex-0.1.7/Qindex/man/std_.Rd             |    6 -
 23 files changed, 212 insertions(+), 170 deletions(-)

More information about Qindex at CRAN
Permanent link

Package crumble updated to version 0.1.1 with previous version 0.1.0 dated 2024-09-18

Title: Flexible and General Mediation Analysis Using Riesz Representers
Description: Implements a modern, unified estimation strategy for common mediation estimands (natural effects, organic effects, interventional effects, and recanting twins) in combination with modified treatment policies as described in Liu, Williams, Rudolph, and Díaz (2024) <doi:10.48550/arXiv.2408.14620>. Estimation makes use of recent advancements in Riesz-learning to estimate a set of required nuisance parameters with deep learning. The result is the capability to estimate mediation effects with binary, categorical, continuous, or multivariate exposures with high-dimensional mediators and mediator-outcome confounders using machine learning.
Author: Nicholas Williams [aut, cre, cph] , Richard Liu [ctb], Ivan Diaz [aut, cph]
Maintainer: Nicholas Williams <ntwilliams.personal@gmail.com>

Diff between crumble versions 0.1.0 dated 2024-09-18 and 0.1.1 dated 2024-11-14

 DESCRIPTION         |    9 ++--
 MD5                 |   32 +++++++-------
 NAMESPACE           |   10 ++++
 NEWS.md             |    6 ++
 R/assertions.R      |    8 ++-
 R/calc_estimates.R  |   62 +++++++++-------------------
 R/crumble.R         |   67 ++++++++++++++----------------
 R/crumble_data.R    |   49 ++++++++++++----------
 R/crumble_vars.R    |    1 
 R/eif.R             |   37 +++++++++--------
 R/helpers.R         |   16 -------
 R/phi.R             |    7 ++-
 R/print.R           |  104 ++++++++++-------------------------------------
 R/tidy.R            |  113 +---------------------------------------------------
 README.md           |   28 ++++++++----
 inst/references.bib |    6 ++
 man/crumble.Rd      |    2 
 17 files changed, 200 insertions(+), 357 deletions(-)

More information about crumble at CRAN
Permanent link

Package excessmort updated to version 0.8.0 with previous version 0.7.0 dated 2024-03-13

Title: Excess Mortality
Description: Implementation of method for estimating excess mortality and other health related outcomes from weekly or daily count data described in Acosta and Irizarry (2021) "A Flexible Statistical Framework for Estimating Excess Mortality".
Author: Rafael A. Irizarry [aut, cre], Rolando Acosta [aut], Monica Robles-Fontan [aut], Ferenci Tamas [ctb]
Maintainer: Rafael A. Irizarry <rafael_irizarry@dfci.harvard.edu>

Diff between excessmort versions 0.7.0 dated 2024-03-13 and 0.8.0 dated 2024-11-14

 DESCRIPTION                 |   10 ++++----
 MD5                         |   16 ++++++-------
 R/puerto_rico_counts.R      |    5 +++-
 build/vignette.rds          |binary
 data/puerto_rico_counts.rda |binary
 data/puerto_rico_icd.rda    |binary
 inst/doc/excessmort.html    |   54 +++++++++++++++++++++-----------------------
 man/puerto_rico_counts.Rd   |    7 ++++-
 man/puerto_rico_icd.Rd      |    2 -
 9 files changed, 50 insertions(+), 44 deletions(-)

More information about excessmort at CRAN
Permanent link

Package yamlet updated to version 1.1.5 with previous version 1.1.4 dated 2024-10-21

Title: Versatile Curation of Table Metadata
Description: A YAML-based mechanism for working with table metadata. Supports compact syntax for creating, modifying, viewing, exporting, importing, displaying, and plotting metadata coded as column attributes. The 'yamlet' dialect is valid 'YAML' with defaults and conventions chosen to improve readability. See ?yamlet, ?decorate, ?modify, ?io_csv, and ?ggplot.decorated.
Author: Tim Bergsma [aut, cre]
Maintainer: Tim Bergsma <bergsmat@gmail.com>

Diff between yamlet versions 1.1.4 dated 2024-10-21 and 1.1.5 dated 2024-11-14

 DESCRIPTION                                                     |    6 +-
 MD5                                                             |   26 +++++-----
 R/mimic.R                                                       |    6 +-
 inst/doc/scripted-html.html                                     |    4 -
 inst/doc/scripted-pdf.pdf                                       |binary
 inst/doc/yamlet-introduction.html                               |    4 -
 man/mimic.classified.Rd                                         |    1 
 tests/testthat/086.rds                                          |binary
 tests/testthat/090.rds                                          |binary
 tests/testthat/091.rds                                          |binary
 tests/testthat/094.rds                                          |binary
 tests/testthat/096.rds                                          |binary
 vignettes/scripted-pdf_files/figure-latex/unnamed-chunk-4-1.pdf |binary
 vignettes/scripted-pdf_files/figure-latex/unnamed-chunk-5-1.pdf |binary
 14 files changed, 26 insertions(+), 21 deletions(-)

More information about yamlet at CRAN
Permanent link

Package ukbnmr updated to version 3.2.0 with previous version 2.2 dated 2023-08-23

Title: Removal of Unwanted Technical Variation from UK Biobank NMR Metabolomics Biomarker Data
Description: A suite of utilities for working with the UK Biobank <https://www.ukbiobank.ac.uk/> Nuclear Magnetic Resonance spectroscopy (NMR) metabolomics data <https://biobank.ndph.ox.ac.uk/showcase/label.cgi?id=220>. Includes functions for extracting biomarkers from decoded UK Biobank field data, removing unwanted technical variation from biomarker concentrations, computing an extended set of lipid, fatty acid, and cholesterol fractions, and for re-deriving composite biomarkers and ratios after adjusting data for unwanted biological variation. For further details on methods see Ritchie SC et al. Sci Data (2023) <doi:10.1038/s41597-023-01949-y>.
Author: Scott C Ritchie [aut, cre]
Maintainer: Scott C Ritchie <sritchie73@gmail.com>

Diff between ukbnmr versions 2.2 dated 2023-08-23 and 3.2.0 dated 2024-11-14

 ukbnmr-2.2/ukbnmr/man/compute_nightingale_ratio_qc_flags.Rd |only
 ukbnmr-2.2/ukbnmr/man/compute_nightingale_ratios.Rd         |only
 ukbnmr-3.2.0/ukbnmr/DESCRIPTION                             |   10 
 ukbnmr-3.2.0/ukbnmr/MD5                                     |   57 -
 ukbnmr-3.2.0/ukbnmr/NAMESPACE                               |    4 
 ukbnmr-3.2.0/ukbnmr/NEWS.md                                 |   42 +
 ukbnmr-3.2.0/ukbnmr/R/biomarker_qc.R                        |  191 +++-
 ukbnmr-3.2.0/ukbnmr/R/compute_biomarkers_user.R             |   63 -
 ukbnmr-3.2.0/ukbnmr/R/compute_qc_flags_user.R               |   44 -
 ukbnmr-3.2.0/ukbnmr/R/data.R                                |    4 
 ukbnmr-3.2.0/ukbnmr/R/detect_format.R                       |    3 
 ukbnmr-3.2.0/ukbnmr/R/extractor_functions.R                 |  158 ++-
 ukbnmr-3.2.0/ukbnmr/R/process_data.R                        |   42 -
 ukbnmr-3.2.0/ukbnmr/R/ukbnmr.R                              |   50 -
 ukbnmr-3.2.0/ukbnmr/R/utils.R                               |   16 
 ukbnmr-3.2.0/ukbnmr/build/vignette.rds                      |binary
 ukbnmr-3.2.0/ukbnmr/data/test_data.rda                      |binary
 ukbnmr-3.2.0/ukbnmr/inst/doc/ukbnmr.R                       |  111 ++
 ukbnmr-3.2.0/ukbnmr/inst/doc/ukbnmr.Rmd                     |  254 ++++--
 ukbnmr-3.2.0/ukbnmr/inst/doc/ukbnmr.html                    |  483 ++++++++----
 ukbnmr-3.2.0/ukbnmr/inst/extdata/test_data.csv              |    2 
 ukbnmr-3.2.0/ukbnmr/man/extract_biomarker_qc_flags.Rd       |   51 -
 ukbnmr-3.2.0/ukbnmr/man/extract_biomarkers.Rd               |   48 -
 ukbnmr-3.2.0/ukbnmr/man/extract_sample_qc_flags.Rd          |   55 -
 ukbnmr-3.2.0/ukbnmr/man/recompute_derived_biomarkers.Rd     |    6 
 ukbnmr-3.2.0/ukbnmr/man/remove_technical_variation.Rd       |  117 +-
 ukbnmr-3.2.0/ukbnmr/man/test_data.Rd                        |    4 
 ukbnmr-3.2.0/ukbnmr/man/ukbnmr.Rd                           |   52 -
 ukbnmr-3.2.0/ukbnmr/vignettes/img/gwas_improvement_v3.png   |only
 ukbnmr-3.2.0/ukbnmr/vignettes/img/r2_explained_v3.png       |only
 ukbnmr-3.2.0/ukbnmr/vignettes/img/repeatability_v3.png      |only
 ukbnmr-3.2.0/ukbnmr/vignettes/ukbnmr.Rmd                    |  254 ++++--
 32 files changed, 1340 insertions(+), 781 deletions(-)

More information about ukbnmr at CRAN
Permanent link

Package tablet updated to version 0.6.12 with previous version 0.6.11 dated 2024-10-25

Title: Tabulate Descriptive Statistics in Multiple Formats
Description: Creates a table of descriptive statistics for factor and numeric columns in a data frame. Displays these by groups, if any. Highly customizable, with support for 'html' and 'pdf' provided by 'kableExtra'. Respects original column order, column labels, and factor level order. See ?tablet.data.frame and vignettes.
Author: Tim Bergsma [aut, cre]
Maintainer: Tim Bergsma <bergsmat@gmail.com>

Diff between tablet versions 0.6.11 dated 2024-10-25 and 0.6.12 dated 2024-11-14

 DESCRIPTION                            |    6 -
 MD5                                    |   16 +-
 R/tablet.R                             |  188 +++++++++++++++++++++++++--------
 inst/doc/tablet-introduction-html.html |    4 
 inst/doc/tablet-introduction-pdf.pdf   |binary
 man/tablet.data.frame.Rd               |    4 
 man/tablette.groupwise.Rd              |    4 
 man/widgets.devalued.Rd                |    2 
 tests/testthat/test-tablet.R           |   16 ++
 9 files changed, 177 insertions(+), 63 deletions(-)

More information about tablet at CRAN
Permanent link

Package NMsim updated to version 0.1.5 with previous version 0.1.4 dated 2024-11-01

Title: Seamless 'Nonmem' Simulation Platform
Description: A complete and seamless 'Nonmem' simulation interface within R. Turns 'Nonmem' control streams into simulation control streams, executes them with specified simulation input data and returns the results. The simulation is performed by 'Nonmem', eliminating manual work and risks of re-implementation of models in other tools.
Author: Philip Delff [aut, cre], Brian Reilly [ctb], Sanaya Shroff [ctb]
Maintainer: Philip Delff <philip@delff.dk>

Diff between NMsim versions 0.1.4 dated 2024-11-01 and 0.1.5 dated 2024-11-14

 DESCRIPTION                                    |    8 +--
 MD5                                            |   50 +++++++++++--------
 NAMESPACE                                      |    5 +
 NEWS.md                                        |   37 ++++++++++++++
 R/NMexec.R                                     |   23 ++++++--
 R/NMreadSim.R                                  |   63 ++++++++++++++++--------
 R/NMreadSimModTab.R                            |    7 --
 R/NMrunWin.R                                   |   57 +++++++++++-----------
 R/NMsim.R                                      |   54 +++++++++++----------
 R/addEVID2.R                                   |   10 +--
 R/dcastSe.R                                    |only
 R/expandCovs.R                                 |   21 ++++++--
 R/reportFailedRun.R                            |only
 R/summarizeCovs.R                              |only
 README.md                                      |   64 +++++++++++++++----------
 man/NMreadSim.Rd                               |   26 ++++++----
 man/NMreadSimModTab.Rd                         |   20 +++----
 man/NMreadSimModTabOne.Rd                      |   14 ++---
 man/addEVID2.Rd                                |   10 +--
 man/expandCovs.Rd                              |    8 ++-
 man/figures/ACOP_logo_transp.png               |only
 man/figures/intro-tab.png                      |only
 man/summarizeCovs.Rd                           |only
 tests/testthat/testReference/expandCovs_01.rds |binary
 tests/testthat/testReference/expandCovs_02.rds |binary
 tests/testthat/testReference/expandCovs_03.rds |binary
 tests/testthat/testReference/expandCovs_04.rds |only
 tests/testthat/testReference/fnAppend_02.rds   |only
 tests/testthat/testReference/fnAppend_03.rds   |only
 tests/testthat/testReference/fnAppend_1.rds    |only
 tests/testthat/test_expandCovs.R               |   23 ++++++++
 31 files changed, 325 insertions(+), 175 deletions(-)

More information about NMsim at CRAN
Permanent link

Package yahoofinancer updated to version 0.4.0 with previous version 0.3.0 dated 2024-02-03

Title: Fetch Data from Yahoo Finance API
Description: Obtain historical and near real time data related to stocks, index and currencies from the Yahoo Finance API. This package is community maintained and is not officially supported by 'Yahoo'. The accuracy of data is only as correct as provided on <https://finance.yahoo.com/>.
Author: Aravind Hebbali [aut, cre]
Maintainer: Aravind Hebbali <hebbali.aravind@gmail.com>

Diff between yahoofinancer versions 0.3.0 dated 2024-02-03 and 0.4.0 dated 2024-11-14

 DESCRIPTION                          |    8 
 MD5                                  |   22 +-
 NEWS.md                              |   10 +
 R/ticker.R                           |  314 +++++++++++------------------------
 README.md                            |   35 ++-
 man/Ticker-class.Rd                  |   32 ++-
 man/yahoofinancer.Rd                 |    1 
 tests/testthat/test-currency.R       |    2 
 tests/testthat/test-index.R          |    2 
 tests/testthat/test-market-summary.R |    2 
 tests/testthat/test-ticker.R         |    2 
 tests/testthat/test-trending.R       |    2 
 12 files changed, 177 insertions(+), 255 deletions(-)

More information about yahoofinancer at CRAN
Permanent link

New package shinyMixR with initial version 0.5.0
Package: shinyMixR
Title: Interactive 'shiny' Dashboard for 'nlmixr2'
Version: 0.5.0
Description: An R shiny user interface for the 'nlmixr2' (Fidler et al (2019) <doi:10.1002/psp4.12445>) package, designed to simplify the modeling process for users. Additionally, this package includes supplementary functions to further enhances the usage of 'nlmixr2'.
Depends: R (>= 3.5.0), shiny, ggplot2
Imports: gridExtra, collapsibleTree, shinyAce, DT, bs4Dash, shinyWidgets, stringi, R3port, whisker, plotly, patchwork, shinyjs, ps, xfun, fresh, nlmixr2, nlmixr2est, magrittr, cli
Suggests: xpose, xpose.nlmixr2, nlme, testthat, shinytest2, knitr, rmarkdown, rlang, miniUI, shinyFiles, rstudioapi
License: MIT + file LICENSE
Encoding: UTF-8
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-11-14 14:25:49 UTC; r.hooijmaijers
Author: Richard Hooijmaijers [aut, cre, cph], Teun Post [aut, cph], LAPP Consultants [fnd, cph], Matthew Fidler [ctb], Veerle van Leemput [ctb]
Maintainer: Richard Hooijmaijers <richardhooijmaijers@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-14 16:10:03 UTC

More information about shinyMixR at CRAN
Permanent link

Package nanonext updated to version 1.3.2 with previous version 1.3.1 dated 2024-11-13

Title: NNG (Nanomsg Next Gen) Lightweight Messaging Library
Description: R binding for NNG (Nanomsg Next Gen), a successor to ZeroMQ. NNG is a socket library implementing 'Scalability Protocols', a reliable, high-performance standard for common communications patterns including publish/subscribe, request/reply and service discovery, over in-process, IPC, TCP, WebSocket and secure TLS transports. As its own threaded concurrency framework, provides a toolkit for asynchronous programming and distributed computing, with intuitive 'aio' objects which resolve automatically upon completion of asynchronous operations, and synchronisation primitives allowing R to wait upon events signalled by concurrent threads.
Author: Charlie Gao [aut, cre] , Hibiki AI Limited [cph], R Consortium [fnd]
Maintainer: Charlie Gao <charlie.gao@shikokuchuo.net>

Diff between nanonext versions 1.3.1 dated 2024-11-13 and 1.3.2 dated 2024-11-14

 DESCRIPTION   |    6 +++---
 MD5           |    6 +++---
 NEWS.md       |    4 ++++
 tests/tests.R |    7 ++++---
 4 files changed, 14 insertions(+), 9 deletions(-)

More information about nanonext at CRAN
Permanent link

New package mapindia with initial version 1.0.1
Package: mapindia
Title: Plot Map of the Indian Subcontinent
Version: 1.0.1
Maintainer: Shubham Dutta <shubhamdutta26@gmail.com>
Description: Get map data frames for the Indian subcontinent with different region levels (e.g., district, state). The package also offers convenience functions for plotting choropleths, visualizing spatial data, and handling state/district codes.
License: MIT + file LICENSE
URL: https://github.com/shubhamdutta26/mapindia, https://www.shubhamdutta.com/mapindia/
BugReports: https://github.com/shubhamdutta26/mapindia/issues
Depends: R (>= 2.10)
Imports: ggplot2, mapindiatools, rlang, sf, vdiffr
Suggests: knitr, patchwork, rmarkdown, testthat (>= 3.0.0)
Encoding: UTF-8
LazyData: true
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-11-14 15:15:37 UTC; shubham
Author: Shubham Dutta [aut, cre, cph]
Repository: CRAN
Date/Publication: 2024-11-14 16:10:07 UTC

More information about mapindia at CRAN
Permanent link

New package EDCimport with initial version 0.5.2
Package: EDCimport
Version: 0.5.2
Title: Import Data from EDC Software
Description: A convenient toolbox to import data exported from Electronic Data Capture (EDC) software 'TrialMaster'.
License: GPL-3
URL: https://github.com/DanChaltiel/EDCimport, https://danchaltiel.github.io/EDCimport/
BugReports: https://github.com/DanChaltiel/EDCimport/issues
Depends: R (>= 3.1.0)
Imports: cli, dplyr, forcats, fs, glue, ggplot2, haven, purrr, readr, rlang, scales, stringr, tibble, tidyr, tidyselect, utils, lifecycle
Suggests: callr, crosstable, gtools, htmlwidgets, janitor, knitr, openxlsx, patchwork, plotly, quarto, rmarkdown, rstudioapi, testthat (>= 3.1.8), usethis, vdiffr, withr
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-11-14 14:14:50 UTC; Dan
Author: Dan Chaltiel [aut, cre]
Maintainer: Dan Chaltiel <dan.chaltiel@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-14 16:10:11 UTC

More information about EDCimport at CRAN
Permanent link

Package CopulaCenR updated to version 1.2.4 with previous version 1.2.3 dated 2023-09-23

Title: Copula-Based Regression Models for Multivariate Censored Data
Description: Copula-based regression models for multivariate censored data, including bivariate right-censored data, bivariate interval-censored data, and right/interval-censored semi-competing risks data. Currently supports Clayton, Gumbel, Frank, Joe, AMH and Copula2 copula models. For marginal models, it supports parametric (Weibull, Loglogistic, Gompertz) and semiparametric (Cox and transformation) models. Includes methods for convenient prediction and plotting. Also provides a bivariate time-to-event simulation function and an information ratio-based goodness-of-fit test for copula. Method details can be found in Sun et.al (2019) Lifetime Data Analysis, Sun et.al (2021) Biostatistics, Sun et.al (2022) Statistical Methods in Medical Research, Sun et.al (2022) Biometrics, and Sun et al. (2023+) JRSSC.
Author: Tao Sun [aut, cre] , Ying Ding [aut]
Maintainer: Tao Sun <sun.tao@ruc.edu.cn>

Diff between CopulaCenR versions 1.2.3 dated 2023-09-23 and 1.2.4 dated 2024-11-14

 DESCRIPTION                 |   22 ++++++++++++++++------
 MD5                         |   11 ++++++++---
 NAMESPACE                   |    1 +
 R/fun_rc_scmprisk_Cox.R     |only
 R/rc_scmprisk_Cox.R         |only
 data/data_scmprisk.RData    |binary
 data/data_scmprisk_rc.RData |only
 man/data_scmprisk_rc.Rd     |only
 man/rc_scmprisk_Cox.Rd      |only
 9 files changed, 25 insertions(+), 9 deletions(-)

More information about CopulaCenR at CRAN
Permanent link

New package visvaR with initial version 1.0.0
Package: visvaR
Title: Shiny-Based Statistical Solutions for Agricultural Research
Version: 1.0.0
Description: Visualize Variance is an intuitive 'shiny' applications tailored for agricultural research data analysis, including one-way and two-way analysis of variance, correlation, and other essential statistical tools. Users can easily upload their datasets, perform analyses, and download the results as a well-formatted document, streamlining the process of data analysis and reporting in agricultural research.The experimental design methods are based on classical work by Fisher (1925) and Scheffe (1959). The correlation visualization approaches follow methods developed by Wei & Simko (2021) and Friendly (2002) <doi:10.1198/000313002533>.
License: AGPL (>= 3)
Encoding: UTF-8
URL: https://github.com/rameshram96/visvaR, https://rameshram96.github.io/visvaR/
BugReports: https://github.com/rameshram96/visvaR/issues
Imports: agricolae, bslib, corrplot, flextable, ggcorrplot, ggplot2, officer, patchwork, shiny, tibble, tidyr, rlang, dplyr, DT, readxl, htmltools, utils, stats, graphics, grDevices
Suggests: testthat (>= 3.0.0), writexl, shinytest2, extrafont
NeedsCompilation: no
Packaged: 2024-11-14 06:02:52 UTC; Ramesh_PhD
Author: Ramesh Ramasamy [aut, cre, cph] , Mathiyarasi Kulandaivadivel [ctb], Tamilselvan Arumugam [ctb]
Maintainer: Ramesh Ramasamy <ramesh.rahu96@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-14 15:50:02 UTC

More information about visvaR at CRAN
Permanent link

New package TFM with initial version 0.1.0
Package: TFM
Title: Sparse Online Principal Component for TFM
Version: 0.1.0
Description: The Truncated Factor Model is a statistical model designed to handle specific data structures in data analysis. This R package focuses on the Sparse Online Principal Component Estimation method, which is used to calculate data such as the loading matrix and specific variance matrix for truncated data, thereby better explaining the relationship between common factors and original variables. Additionally, the R package also provides other equations for comparison with the Sparse Online Principal Component Estimation method.The philosophy of the package is described in Guangbao Guo. (2023) <doi:10.1007/s00180-022-01270-z>.
License: MIT + file LICENSE
Suggests: rmarkdown, psych
Depends: R (>= 3.0)
Encoding: UTF-8
Language: en-US
Author: Beibei Wu [aut], Guangbao Guo [aut, cre]
NeedsCompilation: yes
Maintainer: Guangbao Guo <ggb11111111@163.com>
Imports: relliptical, SOPC, MASS, mvtnorm
Packaged: 2024-11-12 08:34:55 UTC; 14218
Repository: CRAN
Date/Publication: 2024-11-14 15:40:07 UTC

More information about TFM at CRAN
Permanent link

Package svMisc updated to version 1.4.3 with previous version 1.2.3 dated 2021-10-11

Title: Miscellaneous Functions for 'SciViews::R'
Description: Functions required for the 'SciViews::R' dialect or for general use: manage a temporary environment attached to the search path, define synonyms for R functions using aka(), test if 'Aqua', 'Mac', 'Win' ... Show progress bar, etc.
Author: Philippe Grosjean [aut, cre] , Romain Francois [ctb], Kamil Barton [ctb]
Maintainer: Philippe Grosjean <phgrosjean@sciviews.org>

Diff between svMisc versions 1.2.3 dated 2021-10-11 and 1.4.3 dated 2024-11-14

 svMisc-1.2.3/svMisc/R/Install.R                         |only
 svMisc-1.2.3/svMisc/R/pkgman.R                          |only
 svMisc-1.4.3/svMisc/DESCRIPTION                         |   39 
 svMisc-1.4.3/svMisc/MD5                                 |   74 -
 svMisc-1.4.3/svMisc/NAMESPACE                           |   20 
 svMisc-1.4.3/svMisc/NEWS.md                             |  215 ++-
 svMisc-1.4.3/svMisc/R/about.R                           |   51 
 svMisc-1.4.3/svMisc/R/aka.R                             |only
 svMisc-1.4.3/svMisc/R/capture_all.R                     |    2 
 svMisc-1.4.3/svMisc/R/cut_quantile.R                    |only
 svMisc-1.4.3/svMisc/R/file_edit.R                       |   90 -
 svMisc-1.4.3/svMisc/R/install.R                         |only
 svMisc-1.4.3/svMisc/R/pkgMan.R                          |only
 svMisc-1.4.3/svMisc/R/rbenchmark.R                      |only
 svMisc-1.4.3/svMisc/R/section.R                         |only
 svMisc-1.4.3/svMisc/R/svMisc-package.R                  |   20 
 svMisc-1.4.3/svMisc/build/vignette.rds                  |binary
 svMisc-1.4.3/svMisc/inst/CITATION                       |   35 
 svMisc-1.4.3/svMisc/inst/WORDLIST                       |   17 
 svMisc-1.4.3/svMisc/inst/doc/svMisc.R                   |    8 
 svMisc-1.4.3/svMisc/inst/doc/svMisc.Rmd                 |   18 
 svMisc-1.4.3/svMisc/inst/doc/svMisc.html                |  991 ++++++++++------
 svMisc-1.4.3/svMisc/inst/doc/temporary_environment.R    |    8 
 svMisc-1.4.3/svMisc/inst/doc/temporary_environment.Rmd  |   14 
 svMisc-1.4.3/svMisc/inst/doc/temporary_environment.html |  240 +++
 svMisc-1.4.3/svMisc/inst/figures                        |only
 svMisc-1.4.3/svMisc/man/Install.Rd                      |    2 
 svMisc-1.4.3/svMisc/man/about.Rd                        |    8 
 svMisc-1.4.3/svMisc/man/aka.Rd                          |only
 svMisc-1.4.3/svMisc/man/capture_all.Rd                  |    2 
 svMisc-1.4.3/svMisc/man/cut_quantile.Rd                 |only
 svMisc-1.4.3/svMisc/man/figures                         |only
 svMisc-1.4.3/svMisc/man/file_edit.Rd                    |   12 
 svMisc-1.4.3/svMisc/man/pkgman_describe.Rd              |    2 
 svMisc-1.4.3/svMisc/man/rbenchmark.Rd                   |only
 svMisc-1.4.3/svMisc/man/section.Rd                      |only
 svMisc-1.4.3/svMisc/man/svMisc-package.Rd               |   11 
 svMisc-1.4.3/svMisc/po/R-fr.po                          |    2 
 svMisc-1.4.3/svMisc/tests/spelling.R                    |    2 
 svMisc-1.4.3/svMisc/tests/testthat.R                    |    8 
 svMisc-1.4.3/svMisc/tests/testthat/test-capture_all.R   |   57 
 svMisc-1.4.3/svMisc/tests/testthat/test-parse_text.R    |   66 -
 svMisc-1.4.3/svMisc/tests/testthat/test-temp_env.R      |   56 
 svMisc-1.4.3/svMisc/vignettes/svMisc.Rmd                |   18 
 svMisc-1.4.3/svMisc/vignettes/temporary_environment.Rmd |   14 
 45 files changed, 1353 insertions(+), 749 deletions(-)

More information about svMisc at CRAN
Permanent link

Package spant updated to version 2.24.0 with previous version 2.23.0 dated 2024-08-27

Title: MR Spectroscopy Analysis Tools
Description: Tools for reading, visualising and processing Magnetic Resonance Spectroscopy data. The package includes methods for spectral fitting: Wilson (2021) <DOI:10.1002/mrm.28385> and spectral alignment: Wilson (2018) <DOI:10.1002/mrm.27605>.
Author: Martin Wilson [cre, aut] , Yong Wang [ctb], John Muschelli [ctb]
Maintainer: Martin Wilson <martin@pipegrep.co.uk>

Diff between spant versions 2.23.0 dated 2024-08-27 and 2.24.0 dated 2024-11-14

 DESCRIPTION                           |   14 +--
 MD5                                   |   26 +++---
 NEWS.md                               |    5 +
 R/abfit.R                             |  129 +++++++++++++++++++++++----------
 R/interactive_plotting.R              |   12 ++-
 R/utils.R                             |   24 ++++--
 inst/doc/spant-intro.html             |  132 +++++++++++++++++-----------------
 inst/doc/spant-preprocessing.html     |    4 -
 man/abfit_opts.Rd                     |    8 ++
 man/ortho3.Rd                         |    5 +
 tests/testthat/abfit_res_coarse.rds   |binary
 tests/testthat/abfit_res_default.rds  |binary
 tests/testthat/abfit_res_fine.rds     |binary
 tests/testthat/abfit_res_no_optim.rds |binary
 14 files changed, 222 insertions(+), 137 deletions(-)

More information about spant at CRAN
Permanent link

New package sivirep with initial version 1.0.0
Package: sivirep
Title: Data Wrangling and Automated Reports from 'SIVIGILA' Source
Version: 1.0.0
Description: Data wrangling, pre-processing, and generating automated reports from Colombia's epidemiological surveillance system, 'SIVIGILA' <https://portalsivigila.ins.gov.co/>. It provides a customizable R Markdown template for analysis and automatic generation of epidemiological reports that can be adapted to local, regional, and national contexts. This tool offers a standardized and reproducible workflow that helps to reduce manual labor and potential errors in report generation, improving their efficiency and consistency.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: config, dplyr, ggplot2, httr2, stringr, xml2, epitrix, sf, readxl, rlang, tools, sysfonts, showtext, kableExtra
Suggests: knitr, rmarkdown, spelling, testthat (>= 3.0.0)
Depends: R (>= 4.0.0)
VignetteBuilder: knitr
Language: es_ES
URL: https://epiverse-trace.github.io/sivirep/, https://github.com/epiverse-trace/sivirep
BugReports: https://github.com/epiverse-trace/sivirep/issues
NeedsCompilation: no
Packaged: 2024-11-14 03:38:35 UTC; geral
Author: Geraldine Gomez-Millan [aut, cre, ctb] , Zulma M. Cucunuba [aut, ctb] , Jennifer A. Mendez-Romero [aut, ctb] , Claudia Huguett-Aragon [aut, ctb] , Hugo Gruson [ctb] , Juanita Romero-Garces [ctb] , Jaime Pavlich-Mariscal [ctb] , Laura Gomez Bermeo [ct [...truncated...]
Maintainer: Geraldine Gomez-Millan <geralidine.gomez@javeriana.edu.co>
Repository: CRAN
Date/Publication: 2024-11-14 15:50:05 UTC

More information about sivirep at CRAN
Permanent link

New package ReSurv with initial version 1.0.0
Package: ReSurv
Title: Machine Learning Models for Predicting Claim Counts
Version: 1.0.0
Description: Prediction of claim counts using the feature based development factors introduced in the manuscript Hiabu M., Hofman E. and Pittarello G. (2023) <doi:10.48550/arXiv.2312.14549>. Implementation of Neural Networks, Extreme Gradient Boosting, and Cox model with splines to optimise the partial log-likelihood of proportional hazard models.
URL: https://github.com/edhofman/ReSurv
BugReports: https://github.com/edhofman/ReSurv/issues
License: GPL (>= 2)
Depends: tidyverse
Imports: stats, dplyr, dtplyr, fastDummies, forecast, data.table, purrr, tidyr, tibble, ggplot2, survival, reshape2, bshazard, SynthETIC, rpart, reticulate, xgboost, SHAPforxgboost
SystemRequirements: Python (>= 3.8.0)
Encoding: UTF-8
Suggests: knitr, rmarkdown
VignetteBuilder: knitr, rmarkdown
NeedsCompilation: no
Packaged: 2024-11-14 08:40:52 UTC; gpitt
Author: Emil Hofman [aut, cre, cph], Gabriele Pittarello [aut, cph] , Munir Hiabu [aut, cph]
Maintainer: Emil Hofman <emil_hofman@hotmail.dk>
Repository: CRAN
Date/Publication: 2024-11-14 16:00:10 UTC

More information about ReSurv at CRAN
Permanent link

New package powertools with initial version 0.1.0
Package: powertools
Title: Power and Sample Size Tools
Version: 0.1.0
Maintainer: Catherine M. Crespi <ccrespi@ucla.edu>
Description: Power and sample size calculations for a variety of study designs and outcomes. Methods include t tests, ANOVA (including tests for interactions, simple effects and contrasts), proportions, categorical data (chi-square tests and proportional odds), linear, logistic and Poisson regression, alternative and coprimary endpoints, power for confidence intervals, correlation coefficient tests, cluster randomized trials, individually randomized group treatment trials, multisite trials, treatment-by-covariate interaction effects and nonparametric tests of location. Utilities are provided for computing various effect sizes. Companion package to the book "Power and Sample Size in R", Crespi (2025, ISBN:9781138591622).
URL: https://github.com/powerandsamplesize/powertools
BugReports: https://github.com/powerandsamplesize/powertools/issues
License: MIT + file LICENSE
Encoding: UTF-8
Suggests: testthat (>= 3.0.0)
Imports: mvtnorm, PowerTOST, Hmisc, stats, knitr
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2024-11-13 21:22:52 UTC; zichenliu
Author: Catherine M. Crespi [aut, cre], Zichen Liu [aut], Kristen M. McGreevy [ctb]
Repository: CRAN
Date/Publication: 2024-11-14 14:00:07 UTC

More information about powertools at CRAN
Permanent link

New package PerRegMod with initial version 4.4.1
Package: PerRegMod
Maintainer: Slimane Regui <slimaneregui111997@gmail.com>
Title: Fitting Periodic Coefficients Linear Regression Models
Version: 4.4.1
Description: Provides tools for fitting periodic coefficients regression models to data where periodicity plays a crucial role. It allows users to model and analyze relationships between variables that exhibit cyclical or seasonal patterns, offering functions for estimating parameters and testing the periodicity of coefficients in linear regression models. For simple periodic coefficient regression model see Regui et al. (2024) <doi:10.1080/03610918.2024.2314662>.
License: GPL
Encoding: UTF-8
Imports: expm, readxl, sn
URL: https://doi.org/10.1080/03610918.2024.2314662
Packaged: 2024-11-14 14:15:20 UTC; slima
NeedsCompilation: no
Author: Slimane Regui [aut, cre] , Abdelhadi Akharif [aut], Amal Mellouk [aut]
Repository: CRAN
Date/Publication: 2024-11-14 16:00:14 UTC

More information about PerRegMod at CRAN
Permanent link

New package lovecraftr with initial version 1.0.0
Package: lovecraftr
Title: A Collection of Lovecraftian Tales and Texts
Version: 1.0.0
Maintainer: Ruff Sergej <serijnh@gmail.com>
Description: A curated collection of Howard Phillips Lovecraft's complete stories, collected for the purpose of text analysis.
License: GPL (>= 3)
URL: https://github.com/SergejRuff/lovecraftr
BugReports: https://github.com/SergejRuff/lovecraftr/issues
Encoding: UTF-8
LazyData: true
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2024-11-13 20:57:25 UTC; sergej
Author: Ruff Sergej [aut, cre]
Repository: CRAN
Date/Publication: 2024-11-14 14:00:29 UTC

More information about lovecraftr at CRAN
Permanent link

Package graphicalExtremes updated to version 0.3.3 with previous version 0.3.2 dated 2024-04-18

Title: Statistical Methodology for Graphical Extreme Value Models
Description: Statistical methodology for sparse multivariate extreme value models. Methods are provided for exact simulation and statistical inference for multivariate Pareto distributions on graphical structures as described in the paper 'Graphical Models for Extremes' by Engelke and Hitz (2020) <doi:10.1111/rssb.12355>.
Author: Sebastian Engelke [aut, cre], Adrien S. Hitz [aut], Nicola Gnecco [aut], Manuel Hentschel [aut]
Maintainer: Sebastian Engelke <sebastian.engelke@unige.ch>

Diff between graphicalExtremes versions 0.3.2 dated 2024-04-18 and 0.3.3 dated 2024-11-14

 DESCRIPTION                         |   12 ++++----
 MD5                                 |   50 ++++++++++++++++++------------------
 R/data.R                            |    4 +-
 R/matrix_completions_main.R         |    8 +++++
 build/partial.rdb                   |binary
 build/vignette.rds                  |binary
 inst/doc/applicationDanube.html     |   45 ++++++++++++++++++++------------
 inst/doc/applicationFlights.html    |   19 ++++++++-----
 man/complete_Gamma.Rd               |    9 ++++--
 man/complete_Gamma_decomposable.Rd  |    6 ++--
 man/complete_Gamma_general.Rd       |    4 +-
 man/complete_Gamma_general_demo.Rd  |    4 +-
 man/complete_Gamma_general_split.Rd |    4 +-
 man/data2mpareto.Rd                 |    2 -
 man/emp_vario.Rd                    |    2 -
 man/emtp2.Rd                        |    2 -
 man/flights.Rd                      |    4 +-
 man/fmpareto_HR_MLE.Rd              |    2 -
 man/fmpareto_graph_HR.Rd            |    2 -
 man/graphicalExtremes.Rd            |    1 
 man/loglik_HR.Rd                    |    2 -
 man/plotFlights.Rd                  |    2 -
 man/rmpareto.Rd                     |    4 +-
 man/rmpareto_tree.Rd                |    4 +-
 man/rmstable.Rd                     |    2 -
 man/rmstable_tree.Rd                |    2 -
 26 files changed, 110 insertions(+), 86 deletions(-)

More information about graphicalExtremes at CRAN
Permanent link

New package VecDep with initial version 0.1.3
Package: VecDep
Title: Measuring Copula-Based Dependence Between Random Vectors
Version: 0.1.3
Description: Provides functions for estimation (parametric, semi-parametric and non-parametric) of copula-based dependence coefficients between a finite collection of random vectors, including phi-dependence measures and Bures-Wasserstein dependence measures. An algorithm for agglomerative hierarchical variable clustering is also implemented. Following the articles De Keyser & Gijbels (2024) <doi:10.1016/j.jmva.2024.105336>, De Keyser & Gijbels (2024) <doi:10.1016/j.ijar.2023.109090>, and De Keyser & Gijbels (2024) <doi:10.48550/arXiv.2404.07141>.
License: GPL-3
Encoding: UTF-8
URL: https://github.com/StevenDeKeyser98/VecDep
BugReports: https://github.com/StevenDeKeyser98/VecDep/issues
Depends: R (>= 4.4.0)
Imports: ElliptCopulas (>= 0.1.4.1), HAC (>= 1.1-1), hash (>= 2.2.6.3), sets (>= 1.0-25), covglasso (>= 1.0.3), expm (>= 1.0-0), magic (>= 1.6-1), pbapply (>= 1.7-2), Rmpfr (>= 0.9-5), reticulate (>= 1.39.0), gtools (>= 3.9.5)
Suggests: mvtnorm, ggplot2, extraDistr, fossil, dendextend, copula, knitr, rmarkdown, testthat (>= 3.0.0)
Language: en-US
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-11-13 20:10:33 UTC; u0149189
Author: Steven De Keyser [aut, cre] , Irene Gijbels [ctb]
Maintainer: Steven De Keyser <steven.dekeyser@kuleuven.be>
Repository: CRAN
Date/Publication: 2024-11-14 13:50:19 UTC

More information about VecDep at CRAN
Permanent link

New package RobustPrediction with initial version 0.1.4
Package: RobustPrediction
Title: Robust Tuning and Training for Cross-Source Prediction
Version: 0.1.4
Maintainer: Yuting He <Yuting.He@campus.lmu.de>
Description: Provides robust parameter tuning and model training for predictive models across data sources. This package implements three primary tuning methods: cross-validation-based internal tuning, external tuning, and the 'RobustTuneC' method. It supports Lasso, Ridge, Random Forest, Boosting, and Support Vector Machine classifiers. The tuning methods are based on the paper by Nicole Ellenbach, Anne-Laure Boulesteix, Bernd Bischl, Kristian Unger, and Roman Hornung (2021) "Improved Outcome Prediction Across Data Sources Through Robust Parameter Tuning" <doi:10.1007/s00357-020-09368-z>.
License: GPL-3
Encoding: UTF-8
NeedsCompilation: no
LazyData: true
Depends: R (>= 3.5.0)
Imports: glmnet, mboost, mlr, ranger, e1071, pROC
URL: https://github.com/Yuting-He/RobustPrediction
Packaged: 2024-11-13 16:25:05 UTC; yutin
Author: Yuting He [aut, cre], Nicole Ellenbach [ctb], Roman Hornung [ctb]
Repository: CRAN
Date/Publication: 2024-11-14 13:30:08 UTC

More information about RobustPrediction at CRAN
Permanent link

New package RegrCoeffsExplorer with initial version 1.1.0
Package: RegrCoeffsExplorer
Title: Efficient Visualization of Regression Coefficients for lm(), glm(), and glmnet() Objects
Version: 1.1.0
Imports: dplyr, ggpubr, gridExtra, glmnet, ggplot2, magrittr, grDevices, rlang, stats
Description: The visualization tool offers a nuanced understanding of regression dynamics, going beyond traditional per-unit interpretation of continuous variables versus categorical ones. It highlights the impact of unit changes as well as larger shifts like interquartile changes, acknowledging the distribution of empirical data. Furthermore, it generates visualizations depicting alterations in Odds Ratios for predictors across minimum, first quartile, median, third quartile, and maximum values, aiding in comprehending predictor-outcome interplay within empirical data distributions, particularly in logistic regression frameworks.
License: MIT + file LICENSE
Encoding: UTF-8
Suggests: faraway, knitr, MASS, psych, rmarkdown, selectiveInference, survival
VignetteBuilder: knitr
URL: https://vadimtyuryaev.github.io/RegrCoeffsExplorer/
NeedsCompilation: no
Packaged: 2024-11-13 20:38:35 UTC; vadim
Author: Vadim Tyuryaev [aut, cre] , Aleksandr Tsybakin [aut], Jane Heffernan [aut], Hanna Jankowski [aut], Kevin McGregor [aut]
Maintainer: Vadim Tyuryaev <vadim.tyuryaev@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-14 13:50:49 UTC

More information about RegrCoeffsExplorer at CRAN
Permanent link

New package JANE with initial version 0.1.1
Package: JANE
Title: Just Another Latent Space Network Clustering Algorithm
Version: 0.1.1
Description: Fit and simulate latent space network cluster models using an expectation-maximization algorithm. Enables flexible modeling of unweighted network data, supporting both directed and undirected networks, with or without degree heterogeneity. Designed to handle large networks efficiently, it allows users to explore network structure through latent space representations, identify clusters within network data, and simulate models with varying clustering and connectivity patterns.
License: GPL (>= 3)
Encoding: UTF-8
Depends: R (>= 4.1.0)
LinkingTo: Rcpp, RcppArmadillo
Imports: Rcpp (>= 1.0.10), Matrix, extraDistr, mclust, scales, aricode, stringdist, utils, splines, rlang, future.apply, future, progressr, progress, igraph, methods
URL: https://github.com/a1arakkal/JANE
BugReports: https://github.com/a1arakkal/JANE/issues
Suggests: testthat (>= 3.0.0)
NeedsCompilation: yes
Packaged: 2024-11-13 16:59:35 UTC; alanarakkal
Author: Alan Arakkal [aut, cre, cph] , Daniel Sewell [aut]
Maintainer: Alan Arakkal <alan-arakkal@uiowa.edu>
Repository: CRAN
Date/Publication: 2024-11-14 13:40:03 UTC

More information about JANE at CRAN
Permanent link

New package HiGarrote with initial version 1.0
Package: HiGarrote
Title: Nonnegative Garrote Method Incorporating Hierarchical Relationships
Version: 1.0
Date: 2024-11-08
Author: Wei-Yang Yu [aut, cre], V. Roshan Joseph [aut]
Maintainer: Wei-Yang Yu <wyu322@gatech.edu>
Description: An implementation of the nonnegative garrote method that incorporates hierarchical relationships among variables. The core function, HiGarrote(), offers an automated approach for analyzing experiments while respecting hierarchical structures among effects. For methodological details, refer to Yu and Joseph (2024) <doi:10.48550/arXiv.2411.01383>. This work is supported by U.S. National Science Foundation grant DMS-2310637.
License: GPL (>= 2)
Imports: Matrix, MaxPro, nloptr, purrr, quadprog, Rcpp (>= 1.0.12), RcppArmadillo, rlist, scales, stringr
LinkingTo: Rcpp, RcppArmadillo
Encoding: UTF-8
Depends: R (>= 2.10)
LazyData: true
NeedsCompilation: yes
Packaged: 2024-11-13 16:06:24 UTC; weiyang
Repository: CRAN
Date/Publication: 2024-11-14 13:30:37 UTC

More information about HiGarrote at CRAN
Permanent link

New package clustur with initial version 0.1.0
Package: clustur
Title: Clustering
Version: 0.1.0
Date: 2024-10-18
Maintainer: Patrick Schloss <pschloss@umich.edu>
Description: A tool that implements the clustering algorithms from 'mothur' (Schloss PD et al. (2009) <doi:10.1128/AEM.01541-09>). 'clustur' make use of the cluster() and make.shared() command from 'mothur'. Our cluster() function has five different algorithms implemented: 'OptiClust', 'furthest', 'nearest', 'average', and 'weighted'. 'OptiClust' is an optimized clustering method for Operational Taxonomic Units, and you can learn more here, (Westcott SL, Schloss PD (2017) <doi:10.1128/mspheredirect.00073-17>). The make.shared() command is always applied at the end of the clustering command. This functionality allows us to generate and create clustering and abundance data efficiently.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: Matrix, methods, Rcpp (>= 1.0.12), utils
Depends: R (>= 3.5.0)
LinkingTo: Rcpp, testthat
Suggests: knitr, rmarkdown, testthat (>= 3.0.0), xml2
VignetteBuilder: knitr
URL: http://www.schlosslab.org/clustur/, https://github.com/SchlossLab/clustur
BugReports: https://github.com/SchlossLab/clustur/issues
NeedsCompilation: yes
Packaged: 2024-11-13 18:38:22 UTC; grejoh
Author: Gregory Johnson [aut] , Sarah Westcott [aut], Patrick Schloss [aut, cre, cph]
Repository: CRAN
Date/Publication: 2024-11-14 13:50:05 UTC

More information about clustur at CRAN
Permanent link

New package Bios2cor with initial version 2.2.2
Package: Bios2cor
Title: From Biological Sequences and Simulations to Correlation Analysis
Version: 2.2.2
Date: 2024-10-15
Author: Bruck Taddese [aut], Antoine Garnier [aut], Madeline Deniaud [aut], Julien Pele [ctb], Lea Bellenger [ctb], Jean-Michel Becu [ctb], Marie Chabbert [aut, cre]
Maintainer: Marie Chabbert <marie.chabbert@univ-angers.fr>
Depends: R (>= 3.5), bio3d, circular, bigmemory, parallel
Imports: igraph
Description: Utilities for computation and analysis of correlation/covariation in multiple sequence alignments and in side chain motions during molecular dynamics simulations. Features include the computation of correlation/covariation scores using a variety of scoring functions between either sequence positions in alignments or side chain dihedral angles in molecular dynamics simulations and utilities to analyze the correlation/covariation matrix through a variety of tools including network representation and principal components analysis. In addition, several utility functions are based on the R graphical environment to provide friendly tools for help in data interpretation. Examples of sequence covariation analysis are provided in: (1) Pele J, Moreau M, Abdi H, Rodien P, Castel H, Chabbert M (2014) <doi:10.1002/prot.24570> and (2) Taddese B, Deniaud M, Garnier A, Tiss A, Guissouma H, Abdi H, Henrion D, Chabbert M (2018) <doi:10.1371/journal.pcbi.1006209>. An example of side chain cor [...truncated...]
License: GPL (>= 2)
NeedsCompilation: no
Packaged: 2024-11-13 18:29:12 UTC; root
Repository: CRAN
Date/Publication: 2024-11-14 13:40:23 UTC

More information about Bios2cor at CRAN
Permanent link

Package rvif updated to version 2.0 with previous version 1.0 dated 2022-12-22

Title: Collinearity Detection using Redefined Variance Inflation Factor and Graphical Methods
Description: The detection of troubling approximate collinearity in a multiple linear regression model is a classical problem in Econometrics. The objective of this package is to detect it using the variance inflation factor redefined and the scatterplot between the variance inflation factor and the coefficient of variation. For more details see Salmerón R., García C.B. and García J. (2018) <doi:10.1080/00949655.2018.1463376>, Salmerón, R., Rodríguez, A. and García C. (2020) <doi:10.1007/s00180-019-00922-x>, Salmerón, R., García, C.B, Rodríguez, A. and García, C. (2022) <doi:10.32614/RJ-2023-010>, Salmerón, R., García, C.B. and García, J. (2024) <doi:10.1007/s10614-024-10575-8> and Salmerón, R., García, C.B, García J. (2023, working paper) <doi:10.48550/arXiv.2005.02245>.
Author: R. Salmeron [aut, cre], C.B. Garcia [aut]
Maintainer: R. Salmeron <romansg@ugr.es>

Diff between rvif versions 1.0 dated 2022-12-22 and 2.0 dated 2024-11-14

 DESCRIPTION         |   15 +++++++++------
 MD5                 |   24 +++++++++++++++++++-----
 NAMESPACE           |    4 +++-
 R/Theorem.R         |only
 data                |only
 man/CDpf.Rd         |only
 man/CV_VIF.Rd       |   26 +++++++++++++-------------
 man/RVIF.Rd         |   20 ++++++++++----------
 man/SLM1.Rd         |only
 man/SLM2.Rd         |only
 man/Theorem.Rd      |only
 man/Wissel.Rd       |only
 man/employees.Rd    |only
 man/euribor.Rd      |only
 man/rvif-package.Rd |   30 ++++++++++++++++++------------
 15 files changed, 72 insertions(+), 47 deletions(-)

More information about rvif at CRAN
Permanent link

Package lpcde updated to version 0.1.5 with previous version 0.1.4 dated 2024-04-10

Title: Boundary Adaptive Local Polynomial Conditional Density Estimator
Description: Tools for estimation and inference of conditional densities, derivatives and functions. This is the companion software for Cattaneo, Chandak, Jansson and Ma (2024) <doi:10.3150/23-BEJ1711>.
Author: Rajita Chandak [aut, cre]
Maintainer: Rajita Chandak <rajita.chandak@epfl.ch>

Diff between lpcde versions 0.1.4 dated 2024-04-10 and 0.1.5 dated 2024-11-14

 DESCRIPTION                   |   16 +--
 LICENSE                       |only
 MD5                           |   31 +++---
 R/lpbwcde.R                   |    6 -
 R/lpbwcde_fns.R               |    7 -
 R/lpcde.R                     |   28 ++++-
 R/lpcde_fns.R                 |  204 +++++++++++++++++++++++++++++++++---------
 R/lpcde_methods.R             |   18 +--
 build/partial.rdb             |binary
 man/S_exact.Rd                |    7 -
 man/cov_hat.Rd                |    4 
 man/lpbwcde.Rd                |    4 
 man/lpcde.Rd                  |   13 +-
 man/lpcde_fn.Rd               |    3 
 man/plot.lpcde.Rd             |   12 +-
 tests/testthat/test-lpbwcde.R |    1 
 tests/testthat/test-lpcde.R   |   35 ++++++-
 17 files changed, 277 insertions(+), 112 deletions(-)

More information about lpcde at CRAN
Permanent link

Package curl updated to version 6.0.1 with previous version 6.0.0 dated 2024-11-05

Title: A Modern and Flexible Web Client for R
Description: Bindings to 'libcurl' <https://curl.se/libcurl/> for performing fully configurable HTTP/FTP requests where responses can be processed in memory, on disk, or streaming via the callback or connection interfaces. Some knowledge of 'libcurl' is recommended; for a more-user-friendly web client see the 'httr2' package which builds on this package with http specific tools and logic.
Author: Jeroen Ooms [aut, cre] , Hadley Wickham [ctb], Posit Software, PBC [cph]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>

Diff between curl versions 6.0.0 dated 2024-11-05 and 6.0.1 dated 2024-11-14

 DESCRIPTION                      |    6 +-
 MD5                              |   24 ++++-----
 NEWS                             |    6 +-
 R/multi.R                        |    3 -
 R/options.R                      |   32 ++++++------
 R/parser.R                       |    2 
 configure                        |    2 
 inst/doc/intro.html              |   98 +++++++++++++++++++--------------------
 man/curl_parse_url.Rd            |    2 
 src/Makevars.win                 |    1 
 src/curl.c                       |    3 +
 src/multi.c                      |   20 +++++++
 tests/testthat/test-connection.R |   10 +++
 13 files changed, 122 insertions(+), 87 deletions(-)

More information about curl at CRAN
Permanent link

Package chillR updated to version 0.76 with previous version 0.75 dated 2023-11-27

Title: Statistical Methods for Phenology Analysis in Temperate Fruit Trees
Description: The phenology of plants (i.e. the timing of their annual life phases) depends on climatic cues. For temperate trees and many other plants, spring phases, such as leaf emergence and flowering, have been found to result from the effects of both cool (chilling) conditions and heat. Fruit tree scientists (pomologists) have developed some metrics to quantify chilling and heat (e.g. see Luedeling (2012) <doi:10.1016/j.scienta.2012.07.011>). 'chillR' contains functions for processing temperature records into chilling (Chilling Hours, Utah Chill Units and Chill Portions) and heat units (Growing Degree Hours). Regarding chilling metrics, Chill Portions are often considered the most promising, but they are difficult to calculate. This package makes it easy. 'chillR' also contains procedures for conducting a PLS analysis relating phenological dates (e.g. bloom dates) to either mean temperatures or mean chill and heat accumulation rates, based on long-term weather and phenology records (Lued [...truncated...]
Author: Eike Luedeling [aut, cre] , Lars Caspersen [aut] , Eduardo Fernandez [aut]
Maintainer: Eike Luedeling <eike@eikeluedeling.com>

Diff between chillR versions 0.75 dated 2023-11-27 and 0.76 dated 2024-11-14

 chillR-0.75/chillR/build/partial.rdb                     |only
 chillR-0.76/chillR/DESCRIPTION                           |   18 -
 chillR-0.76/chillR/MD5                                   |   33 -
 chillR-0.76/chillR/NAMESPACE                             |    2 
 chillR-0.76/chillR/R/chillR-package.R                    |    8 
 chillR-0.76/chillR/R/download_baseline_cmip6_ecmwfr.R    |   50 +-
 chillR-0.76/chillR/R/download_cmip6_ecmwfr.R             |  251 ++++++++-------
 chillR-0.76/chillR/R/plot_phenology_trends.R             |    6 
 chillR-0.76/chillR/R/plot_scenarios.R                    |    6 
 chillR-0.76/chillR/build/vignette.rds                    |binary
 chillR-0.76/chillR/inst/doc/PhenoFlex.R                  |    6 
 chillR-0.76/chillR/inst/doc/PhenoFlex.html               |  101 ++++--
 chillR-0.76/chillR/inst/doc/hourly_temperatures.html     |   25 -
 chillR-0.76/chillR/man/chillR-package.Rd                 |   32 -
 chillR-0.76/chillR/man/download_baseline_cmip6_ecmwfr.Rd |   27 -
 chillR-0.76/chillR/man/download_cmip6_ecmwfr.Rd          |   33 -
 chillR-0.76/chillR/man/plot_phenology_trends.Rd          |    6 
 chillR-0.76/chillR/man/plot_scenarios.Rd                 |    6 
 18 files changed, 341 insertions(+), 269 deletions(-)

More information about chillR at CRAN
Permanent link

Package phytoclass updated to version 2.0.0 with previous version 1.2.0 dated 2024-05-11

Title: Estimate Chla Concentrations of Phytoplankton Groups
Description: Determine the chlorophyll a (Chl a) concentrations of different phytoplankton groups based on their pigment biomarkers. The method uses non-negative matrix factorisation and simulated annealing to minimise error between the observed and estimated values of pigment concentrations (Hayward et al. (2023) <doi:10.1002/lom3.10541>). The approach is similar to the widely used 'CHEMTAX' program (Mackey et al. 1996) <doi:10.3354/meps144265>, but is more straightforward, accurate, and not reliant on initial guesses for the pigment to Chl a ratios for phytoplankton groups.
Author: Alexander Hayward [aut, cre, cph], Tylar Murray [aut], Andy McKenzie [aut]
Maintainer: Alexander Hayward <phytoclass@outlook.com>

Diff between phytoclass versions 1.2.0 dated 2024-05-11 and 2.0.0 dated 2024-11-14

 DESCRIPTION                          |   16 
 MD5                                  |   34 -
 NEWS.md                              |    2 
 R/Matrix_checks.R                    |    4 
 R/NNLS_MF_Final.R                    |    2 
 R/Prochloro_NNLS_MF_Final.R          |   10 
 R/Prochloro_Random_Neighbour.R       |   12 
 R/Prochloro_Random_Neighbour2.R      |   31 -
 R/Prochloro_Sim_Anneal.R             |   28 
 R/Prochloro_wrangling.R              |    6 
 R/simulated_annealing.R              |    2 
 R/simulated_annealing_prochloro.R    |  110 +--
 build/vignette.rds                   |binary
 inst/doc/phytoclass-vignette.html    | 1073 ++++++++++++++++++-----------------
 man/Prochloro_Random_Neighbour_2.Rd  |    6 
 man/simulated_annealing.Rd           |   62 +-
 man/simulated_annealing_Prochloro.Rd |    2 
 tests                                |only
 18 files changed, 775 insertions(+), 625 deletions(-)

More information about phytoclass at CRAN
Permanent link

Package mirt updated to version 1.43 with previous version 1.42 dated 2024-07-14

Title: Multidimensional Item Response Theory
Description: Analysis of discrete response data using unidimensional and multidimensional item analysis models under the Item Response Theory paradigm (Chalmers (2012) <doi:10.18637/jss.v048.i06>). Exploratory and confirmatory item factor analysis models are estimated with quadrature (EM) or stochastic (MHRM) methods. Confirmatory bi-factor and two-tier models are available for modeling item testlets using dimension reduction EM algorithms, while multiple group analyses and mixed effects designs are included for detecting differential item, bundle, and test functioning, and for modeling item and person covariates. Finally, latent class models such as the DINA, DINO, multidimensional latent class, mixture IRT models, and zero-inflated response models are supported.
Author: Phil Chalmers [aut, cre] , Joshua Pritikin [ctb], Alexander Robitzsch [ctb], Mateusz Zoltak [ctb], KwonHyun Kim [ctb], Carl F. Falk [ctb], Adam Meade [ctb], Lennart Schneider [ctb], David King [ctb], Chen-Wei Liu [ctb], Ogreden Oguzhan [ctb]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>

Diff between mirt versions 1.42 dated 2024-07-14 and 1.43 dated 2024-11-14

 mirt-1.42/mirt/tests/tests                 |only
 mirt-1.43/mirt/DESCRIPTION                 |   12 -
 mirt-1.43/mirt/MD5                         |  166 +++++++------
 mirt-1.43/mirt/NAMESPACE                   |    4 
 mirt-1.43/mirt/NEWS.md                     |   29 ++
 mirt-1.43/mirt/R/01-itemclass.R            |    2 
 mirt-1.43/mirt/R/02a-general_methods.R     |    5 
 mirt-1.43/mirt/R/02b-item_methods.R        |  268 +++++++++++++++-------
 mirt-1.43/mirt/R/03-estimation.R           |   66 +++--
 mirt-1.43/mirt/R/05-model.elements.R       |    8 
 mirt-1.43/mirt/R/06-LoadPars.R             |   80 +++++-
 mirt-1.43/mirt/R/08-SE.methods.R           |   38 ++-
 mirt-1.43/mirt/R/DIF.R                     |    5 
 mirt-1.43/mirt/R/DRF.R                     |   10 
 mirt-1.43/mirt/R/DTF.R                     |    6 
 mirt-1.43/mirt/R/EMstep.group.R            |   59 +++-
 mirt-1.43/mirt/R/EMstep.utils.R            |   11 
 mirt-1.43/mirt/R/M2.R                      |   96 +++-----
 mirt-1.43/mirt/R/MDIFF.R                   |    3 
 mirt-1.43/mirt/R/MHRM.group.R              |    8 
 mirt-1.43/mirt/R/Mixed-methods.R           |   38 ++-
 mirt-1.43/mirt/R/Mixture-methods.R         |    4 
 mirt-1.43/mirt/R/MultipleGroup-methods.R   |    4 
 mirt-1.43/mirt/R/PLCI.mirt.R               |    4 
 mirt-1.43/mirt/R/RCI.R                     |  347 +++++++++++++++++++++++------
 mirt-1.43/mirt/R/SIBTEST.R                 |    2 
 mirt-1.43/mirt/R/SingleGroup-methods.R     |   71 ++++-
 mirt-1.43/mirt/R/boot.mirt.R               |    2 
 mirt-1.43/mirt/R/empirical_ES.R            |    2 
 mirt-1.43/mirt/R/estfun.R                  |   43 ++-
 mirt-1.43/mirt/R/extract.mirt.R            |   11 
 mirt-1.43/mirt/R/fscores.R                 |    8 
 mirt-1.43/mirt/R/fscores.internal.R        |   45 +++
 mirt-1.43/mirt/R/gen.difficulty.R          |    2 
 mirt-1.43/mirt/R/itemfit.R                 |   10 
 mirt-1.43/mirt/R/itemplot.internal.R       |   26 +-
 mirt-1.43/mirt/R/itemstats.R               |    1 
 mirt-1.43/mirt/R/lagrange.R                |    2 
 mirt-1.43/mirt/R/marginal_rxx.R            |   13 -
 mirt-1.43/mirt/R/mirt.R                    |  201 ++++++++++++++--
 mirt-1.43/mirt/R/mixedmirt.R               |   17 +
 mirt-1.43/mirt/R/mod2values.R              |   37 ++-
 mirt-1.43/mirt/R/multipleGroup.R           |    8 
 mirt-1.43/mirt/R/personfit.R               |   12 -
 mirt-1.43/mirt/R/simdata.R                 |   45 ++-
 mirt-1.43/mirt/R/utils.R                   |  205 ++++++++++++++---
 mirt-1.43/mirt/man/M2.Rd                   |    7 
 mirt-1.43/mirt/man/RCI.Rd                  |   73 ++++--
 mirt-1.43/mirt/man/estfun.AllModelClass.Rd |   23 +
 mirt-1.43/mirt/man/extract.mirt.Rd         |    5 
 mirt-1.43/mirt/man/fscores.Rd              |    6 
 mirt-1.43/mirt/man/marginal_rxx.Rd         |   12 -
 mirt-1.43/mirt/man/mirt.Rd                 |  198 ++++++++++++++--
 mirt-1.43/mirt/man/mixedmirt.Rd            |    6 
 mirt-1.43/mirt/man/mod2values.Rd           |   18 +
 mirt-1.43/mirt/man/multipleGroup.Rd        |    6 
 mirt-1.43/mirt/src/dpars.cpp               |   16 -
 mirt-1.43/mirt/src/traceLinePts.cpp        |   66 ++++-
 mirt-1.43/mirt/src/traceLinePts.h          |    3 
 mirt-1.43/mirt/tests/testthat              |only
 60 files changed, 1845 insertions(+), 630 deletions(-)

More information about mirt at CRAN
Permanent link

Package maq updated to version 0.5.0 with previous version 0.4.0 dated 2024-04-18

Title: Multi-Armed Qini
Description: Policy evaluation using generalized Qini curves: Evaluate data-driven treatment targeting rules for one or more treatment arms over different budget constraints in experimental or observational settings under unconfoundedness.
Author: Erik Sverdrup [aut, cre], Han Wu [aut], Susan Athey [aut], Stefan Wager [aut]
Maintainer: Erik Sverdrup <erik.sverdrup@monash.edu>

Diff between maq versions 0.4.0 dated 2024-04-18 and 0.5.0 dated 2024-11-14

 DESCRIPTION           |   14 ++++++++------
 MD5                   |   14 +++++++-------
 R/get_ipw_scores.R    |    4 +---
 R/maq.R               |   17 +++++++++--------
 R/plot.R              |   37 ++++++++++++++++++++++++++++++++++++-
 man/get_ipw_scores.Rd |    4 +---
 man/maq.Rd            |   16 +++++++++-------
 man/plot.maq.Rd       |   35 +++++++++++++++++++++++++++++++++++
 8 files changed, 106 insertions(+), 35 deletions(-)

More information about maq at CRAN
Permanent link

Package LearnNonparam updated to version 1.2.5 with previous version 1.2.4 dated 2024-11-12

Title: 'R6'-Based Flexible Framework for Permutation Tests
Description: Implements non-parametric tests from Higgins (2004, ISBN:0534387756), including tests for one sample, two samples, k samples, paired comparisons, blocked designs, trends and association. Built with 'Rcpp' for efficiency and 'R6' for flexible, object-oriented design, the package provides a unified framework for performing or creating custom permutation tests.
Author: Yan Du [aut, cre]
Maintainer: Yan Du <isduyan@outlook.com>

Diff between LearnNonparam versions 1.2.4 dated 2024-11-12 and 1.2.5 dated 2024-11-14

 DESCRIPTION            |    6 +++---
 MD5                    |   22 +++++++++++-----------
 NAMESPACE              |    2 +-
 NEWS.md                |    6 ++++++
 R/CDF.R                |    4 ++--
 R/MultipleComparison.R |   20 +++++++++++---------
 R/PairedDifference.R   |    2 +-
 R/PermuTest.R          |   16 +++++++---------
 R/do_call.R            |   26 +++++++++++++++++---------
 R/pmt.R                |   29 +++++++++++++++++------------
 man/PermuTest.Rd       |    2 +-
 man/pmt.Rd             |   10 ++++++++--
 12 files changed, 85 insertions(+), 60 deletions(-)

More information about LearnNonparam at CRAN
Permanent link

Package ggpmisc updated to version 0.6.1 with previous version 0.6.0 dated 2024-06-27

Title: Miscellaneous Extensions to 'ggplot2'
Description: Extensions to 'ggplot2' respecting the grammar of graphics paradigm. Statistics: locate and tag peaks and valleys; label plot with the equation of a fitted polynomial or other types of models; labels with P-value, R^2 or adjusted R^2 or information criteria for fitted models; label with ANOVA table for fitted models; label with summary for fitted models. Model fit classes for which suitable methods are provided by package 'broom' and 'broom.mixed' are supported. Scales and stats to build volcano and quadrant plots based on outcomes, fold changes, p-values and false discovery rates.
Author: Pedro J. Aphalo [aut, cre] , Kamil Slowikowski [ctb] , Samer Mouksassi [ctb]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>

Diff between ggpmisc versions 0.6.0 dated 2024-06-27 and 0.6.1 dated 2024-11-14

 DESCRIPTION                                                                      |   10 
 MD5                                                                              |  156 +--
 NEWS.md                                                                          |    8 
 R/stat-fit-broom-tb.R                                                            |    6 
 R/stat-fit-broom.R                                                               |  108 +-
 R/stat-fit-deviations.R                                                          |   23 
 R/stat-fit-residuals.R                                                           |    5 
 R/stat-ma-eq.R                                                                   |    3 
 R/stat-multcomp.R                                                                |    3 
 R/stat-peaks.R                                                                   |   12 
 R/stat-poly-eq.R                                                                 |    3 
 R/stat-poly-line.R                                                               |    6 
 R/stat-quant-eq.R                                                                |   49 -
 README.md                                                                        |   46 -
 build/partial.rdb                                                                |binary
 build/vignette.rds                                                               |binary
 inst/doc/model-based-annotations.R                                               |    8 
 inst/doc/model-based-annotations.html                                            |  414 +++++-----
 man/figures/README-unnamed-chunk-1-1.png                                         |binary
 man/stat_fit_augment.Rd                                                          |   43 -
 man/stat_fit_deviations.Rd                                                       |   20 
 man/stat_fit_glance.Rd                                                           |   34 
 man/stat_fit_residuals.Rd                                                        |   20 
 man/stat_fit_tb.Rd                                                               |   20 
 man/stat_fit_tidy.Rd                                                             |   37 
 man/stat_peaks.Rd                                                                |   26 
 tests/testthat/_snaps/stat-broom/augment-method-args.svg                         |    3 
 tests/testthat/_snaps/stat-broom/augment-method-default-noload.svg               |    3 
 tests/testthat/_snaps/stat-broom/augment-method-default.svg                      |    3 
 tests/testthat/_snaps/stat-broom/augment-method-lm-char.svg                      |    3 
 tests/testthat/_snaps/stat-broom/augment-method-lm-fun.svg                       |    3 
 tests/testthat/_snaps/stat-multcomp/stat-multcomp-bars-tukey2.svg                |   44 -
 tests/testthat/_snaps/stat-multcomp/stat-multcomp-letters-label-tukey.svg        |   52 -
 tests/testthat/_snaps/stat-multcomp/stat-multcomp-letters-tukey-many-levels.svg  |   20 
 tests/testthat/_snaps/stat-multcomp/stat-multcomp-letters-tukey-mixed.svg        |   40 
 tests/testthat/_snaps/stat-multcomp/stat-multcomp-letters-tukey-rev.svg          |   40 
 tests/testthat/_snaps/stat-multcomp/stat-multcomp-letters-tukey.svg              |   40 
 tests/testthat/_snaps/stat-multcomp/stat-multcomp-y-bottom-num-letters-tukey.svg |   40 
 tests/testthat/_snaps/stat-multcomp/stat-multcomp-y-bottom-tukey.svg             |   40 
 tests/testthat/_snaps/stat-multcomp/stat-multcomp-y-top-num-letters-tukey.svg    |   40 
 tests/testthat/_snaps/stat-peaks/stat-peaks-date-02.svg                          |   12 
 tests/testthat/_snaps/stat-peaks/stat-peaks-date-03.svg                          |   12 
 tests/testthat/_snaps/stat-peaks/stat-peaks-date-04.svg                          |   60 -
 tests/testthat/_snaps/stat-peaks/stat-peaks-date-05.svg                          |   60 -
 tests/testthat/_snaps/stat-peaks/stat-peaks-datetime-02.svg                      |   12 
 tests/testthat/_snaps/stat-peaks/stat-peaks-datetime-03.svg                      |   12 
 tests/testthat/_snaps/stat-peaks/stat-peaks-datetime-04.svg                      |   60 -
 tests/testthat/_snaps/stat-peaks/stat-peaks-datetime-05.svg                      |   60 -
 tests/testthat/_snaps/stat-peaks/stat-peaks-numeric-02.svg                       |   12 
 tests/testthat/_snaps/stat-peaks/stat-peaks-numeric-03.svg                       |   12 
 tests/testthat/_snaps/stat-peaks/stat-peaks-numeric-04.svg                       |   60 -
 tests/testthat/_snaps/stat-poly-eq/stat-poly-eq-3.svg                            |   12 
 tests/testthat/_snaps/stat-poly-eq/stat-poly-eq-4.svg                            |   14 
 tests/testthat/_snaps/stat-poly-eq/stat-poly-eq-7.svg                            |   12 
 tests/testthat/_snaps/stat-poly-eq/stat-poly-eq-8.svg                            |   14 
 tests/testthat/_snaps/stat-poly-eq/stat-poly-eq-n3.svg                           |   12 
 tests/testthat/_snaps/stat-poly-eq/stat-poly-eq-n4.svg                           |   14 
 tests/testthat/_snaps/stat-poly-eq/stat-poly-eq-n7.svg                           |   12 
 tests/testthat/_snaps/stat-poly-eq/stat-poly-eq-n8.svg                           |   14 
 tests/testthat/_snaps/stat-quant-eq/stat-quant-eq-3.svg                          |   56 -
 tests/testthat/_snaps/stat-quant-eq/stat-quant-eq-4.svg                          |   62 -
 tests/testthat/_snaps/stat-quant-eq/stat-quant-eq-7.svg                          |   56 -
 tests/testthat/_snaps/stat-quant-eq/stat-quant-eq-8.svg                          |   62 -
 tests/testthat/_snaps/stat-quant-eq/stat-quant-eq-n3.svg                         |   56 -
 tests/testthat/_snaps/stat-quant-eq/stat-quant-eq-n4.svg                         |   62 -
 tests/testthat/_snaps/stat-quant-eq/stat-quant-eq-n7.svg                         |   56 -
 tests/testthat/_snaps/stat-quant-eq/stat-quant-eq-n8.svg                         |   62 -
 tests/testthat/_snaps/stat-valleys/stat-valleys-date-02.svg                      |   10 
 tests/testthat/_snaps/stat-valleys/stat-valleys-date-03.svg                      |   10 
 tests/testthat/_snaps/stat-valleys/stat-valleys-date-04.svg                      |   50 -
 tests/testthat/_snaps/stat-valleys/stat-valleys-date-05.svg                      |   60 -
 tests/testthat/_snaps/stat-valleys/stat-valleys-datetime-02.svg                  |   10 
 tests/testthat/_snaps/stat-valleys/stat-valleys-datetime-03.svg                  |   10 
 tests/testthat/_snaps/stat-valleys/stat-valleys-datetime-04.svg                  |   50 -
 tests/testthat/_snaps/stat-valleys/stat-valleys-datetime-05.svg                  |   60 -
 tests/testthat/_snaps/stat-valleys/stat-valleys-numeric-02.svg                   |   10 
 tests/testthat/_snaps/stat-valleys/stat-valleys-numeric-03.svg                   |   10 
 tests/testthat/_snaps/stat-valleys/stat-valleys-numeric-04.svg                   |   60 -
 tests/testthat/test-stat-broom.R                                                 |    3 
 79 files changed, 1408 insertions(+), 1314 deletions(-)

More information about ggpmisc at CRAN
Permanent link

Package dataCompare updated to version 1.0.3 with previous version 1.0.2 dated 2024-11-11

Title: A 'shiny' App to Compare Two Data Frames
Description: A tool developed with the 'Golem' framework which provides an easier way to check cells differences between two data frames. The user provides two data frames for comparison, selects IDs variables identifying each row of input data, then clicks a button to perform the comparison. Several 'R' package functions are used to describe the data and perform the comparison in the server of the application. The main ones are comparedf() from 'arsenal' and skim() from 'skimr'. For more details see the description of comparedf() from the 'arsenal' package and that of skim() from the 'skimr' package.
Author: Sergio Ewane Ebouele [aut, cre]
Maintainer: Sergio Ewane Ebouele <info@dataforknow.com>

Diff between dataCompare versions 1.0.2 dated 2024-11-11 and 1.0.3 dated 2024-11-14

 dataCompare-1.0.2/dataCompare/inst/app/template                   |only
 dataCompare-1.0.2/dataCompare/inst/app/www/Comparison_report.html |only
 dataCompare-1.0.3/dataCompare/DESCRIPTION                         |    6 
 dataCompare-1.0.3/dataCompare/MD5                                 |   16 -
 dataCompare-1.0.3/dataCompare/NEWS.md                             |    5 
 dataCompare-1.0.3/dataCompare/R/mod_comp_report.R                 |   84 +++++-----
 dataCompare-1.0.3/dataCompare/README.md                           |    8 
 dataCompare-1.0.3/dataCompare/inst/app/www/Comparison_report.Rmd  |    5 
 dataCompare-1.0.3/dataCompare/inst/app/www/printer.png            |only
 dataCompare-1.0.3/dataCompare/inst/app/www/report.png             |only
 dataCompare-1.0.3/dataCompare/inst/doc/dataCompare.html           |   44 ++---
 11 files changed, 93 insertions(+), 75 deletions(-)

More information about dataCompare at CRAN
Permanent link

Package cppcontainers updated to version 1.0.1 with previous version 1.0.0 dated 2024-11-13

Title: 'C++' Standard Template Library Containers
Description: Use 'C++' Standard Template Library containers interactively in R. Includes sets, unordered sets, multisets, unordered multisets, maps, unordered maps, multimaps, unordered multimaps, stacks, queues, priority queues, vectors, deques, forward lists, and lists.
Author: Christian Dueben [aut, cre]
Maintainer: Christian Dueben <cdueben.ml+cran@proton.me>

Diff between cppcontainers versions 1.0.0 dated 2024-11-13 and 1.0.1 dated 2024-11-14

 DESCRIPTION                 |    6 +-
 MD5                         |    4 -
 tests/testthat/test-print.R |  122 ++++++++++++++++++++++----------------------
 3 files changed, 67 insertions(+), 65 deletions(-)

More information about cppcontainers at CRAN
Permanent link

Package nonprobsvy updated to version 0.1.1 with previous version 0.1.0 dated 2024-04-04

Title: Inference Based on Non-Probability Samples
Description: Statistical inference with non-probability samples when auxiliary information from external sources such as probability samples or population totals or means is available. Details can be found in: Wu et al. (2020) <doi:10.1080/01621459.2019.1677241>, Kim et al. (2021) <doi:10.1111/rssa.12696>, Wu et al. (2023) <https://www150.statcan.gc.ca/n1/pub/12-001-x/2022002/article/00002-eng.htm>, Kim et al. (2021) <https://www150.statcan.gc.ca/n1/pub/12-001-x/2021001/article/00004-eng.htm>, Kim et al. (2020) <doi:10.1111/rssb.12354>.
Author: Lukasz Chrostowski [aut, cre], Maciej Beresewicz [aut, ctb] , Piotr Chlebicki [aut, ctb]
Maintainer: Lukasz Chrostowski <lukchr@st.amu.edu.pl>

Diff between nonprobsvy versions 0.1.0 dated 2024-04-04 and 0.1.1 dated 2024-11-14

 nonprobsvy-0.1.0/nonprobsvy/build/nonprobsvy.pdf                 |only
 nonprobsvy-0.1.1/nonprobsvy/DESCRIPTION                          |   12 
 nonprobsvy-0.1.1/nonprobsvy/MD5                                  |   71 
 nonprobsvy-0.1.1/nonprobsvy/NAMESPACE                            |    2 
 nonprobsvy-0.1.1/nonprobsvy/NEWS.md                              |   23 
 nonprobsvy-0.1.1/nonprobsvy/R/bias_correction_ipw.R              |   30 
 nonprobsvy-0.1.1/nonprobsvy/R/boot_mi.R                          |    5 
 nonprobsvy-0.1.1/nonprobsvy/R/control_inference.R                |   14 
 nonprobsvy-0.1.1/nonprobsvy/R/control_outcome.R                  |    4 
 nonprobsvy-0.1.1/nonprobsvy/R/control_selection.R                |   16 
 nonprobsvy-0.1.1/nonprobsvy/R/data_manip.R                       |   25 
 nonprobsvy-0.1.1/nonprobsvy/R/gee_ipw.R                          |    6 
 nonprobsvy-0.1.1/nonprobsvy/R/glm.R                              |    9 
 nonprobsvy-0.1.1/nonprobsvy/R/internals.R                        |   31 
 nonprobsvy-0.1.1/nonprobsvy/R/main_function_documentation.R      |   74 
 nonprobsvy-0.1.1/nonprobsvy/R/nn.R                               |   53 
 nonprobsvy-0.1.1/nonprobsvy/R/nonprobDR.R                        |  103 
 nonprobsvy-0.1.1/nonprobsvy/R/nonprobIPW.R                       |   33 
 nonprobsvy-0.1.1/nonprobsvy/R/nonprobMI.R                        |   31 
 nonprobsvy-0.1.1/nonprobsvy/R/pmm.R                              |   36 
 nonprobsvy-0.1.1/nonprobsvy/R/prints.R                           |    5 
 nonprobsvy-0.1.1/nonprobsvy/R/summary.R                          |    9 
 nonprobsvy-0.1.1/nonprobsvy/R/theta_funcs.R                      |   13 
 nonprobsvy-0.1.1/nonprobsvy/R/varianceIPW.R                      |    1 
 nonprobsvy-0.1.1/nonprobsvy/R/varianceMI.R                       |   19 
 nonprobsvy-0.1.1/nonprobsvy/README.md                            |   31 
 nonprobsvy-0.1.1/nonprobsvy/build/stage23.rdb                    |binary
 nonprobsvy-0.1.1/nonprobsvy/inst/tinytest/test-2-ipw-totals.R    | 3213 ++++------
 nonprobsvy-0.1.1/nonprobsvy/inst/tinytest/test-3-mi-totals.R     |only
 nonprobsvy-0.1.1/nonprobsvy/inst/tinytest/test-4-dr-totals.R     |only
 nonprobsvy-0.1.1/nonprobsvy/inst/tinytest/test_methods.R         |  408 -
 nonprobsvy-0.1.1/nonprobsvy/inst/tinytest/test_nonprobsvy.R      |  454 -
 nonprobsvy-0.1.1/nonprobsvy/inst/tinytest/test_nonprobsvy_main.R |  494 +
 nonprobsvy-0.1.1/nonprobsvy/man/controlInf.Rd                    |    8 
 nonprobsvy-0.1.1/nonprobsvy/man/controlOut.Rd                    |    4 
 nonprobsvy-0.1.1/nonprobsvy/man/controlSel.Rd                    |   11 
 nonprobsvy-0.1.1/nonprobsvy/man/nonprob.Rd                       |   74 
 nonprobsvy-0.1.1/nonprobsvy/man/summary.nonprobsvy.Rd            |    2 
 38 files changed, 3009 insertions(+), 2315 deletions(-)

More information about nonprobsvy at CRAN
Permanent link

Package ggalign updated to version 0.0.5 with previous version 0.0.4 dated 2024-10-12

Title: A 'ggplot2' Extension for Consistent Axis Alignment
Description: A 'ggplot2' extension offers various tools for organizing and arranging plots. It is designed to consistently align a specific axis across multiple 'ggplot' objects, making it especially useful for plots requiring data order manipulation. A typical use case includes organizing combinations like a dendrogram and a heatmap.
Author: Yun Peng [aut, cre]
Maintainer: Yun Peng <yunyunp96@163.com>

Diff between ggalign versions 0.0.4 dated 2024-10-12 and 0.0.5 dated 2024-11-14

 ggalign-0.0.4/ggalign/R/activate.R                                                                   |only
 ggalign-0.0.4/ggalign/R/align-panel.R                                                                |only
 ggalign-0.0.4/ggalign/R/import-standalone-cli.R                                                      |only
 ggalign-0.0.4/ggalign/R/layout-heatmap-add.R                                                         |only
 ggalign-0.0.4/ggalign/R/layout-heatmap-operator.R                                                    |only
 ggalign-0.0.4/ggalign/R/theme.R                                                                      |only
 ggalign-0.0.4/ggalign/inst/doc/complete-examples.R                                                   |only
 ggalign-0.0.4/ggalign/inst/doc/complete-examples.Rmd                                                 |only
 ggalign-0.0.4/ggalign/inst/doc/complete-examples.html                                                |only
 ggalign-0.0.4/ggalign/inst/doc/plot-composer.R                                                       |only
 ggalign-0.0.4/ggalign/inst/doc/plot-composer.Rmd                                                     |only
 ggalign-0.0.4/ggalign/inst/doc/plot-composer.html                                                    |only
 ggalign-0.0.4/ggalign/inst/doc/special-syntax.R                                                      |only
 ggalign-0.0.4/ggalign/inst/doc/special-syntax.Rmd                                                    |only
 ggalign-0.0.4/ggalign/inst/doc/special-syntax.html                                                   |only
 ggalign-0.0.4/ggalign/inst/doc/stack-layout.R                                                        |only
 ggalign-0.0.4/ggalign/inst/doc/stack-layout.Rmd                                                      |only
 ggalign-0.0.4/ggalign/inst/doc/stack-layout.html                                                     |only
 ggalign-0.0.4/ggalign/man/hmanno.Rd                                                                  |only
 ggalign-0.0.4/ggalign/man/is_ggheatmap.Rd                                                            |only
 ggalign-0.0.4/ggalign/man/is_ggstack.Rd                                                              |only
 ggalign-0.0.4/ggalign/man/layout-add.Rd                                                              |only
 ggalign-0.0.4/ggalign/man/stack_active.Rd                                                            |only
 ggalign-0.0.4/ggalign/man/wrap.Rd                                                                    |only
 ggalign-0.0.4/ggalign/tests/testthat/_snaps/align                                                    |only
 ggalign-0.0.4/ggalign/tests/testthat/_snaps/layout_heatmap/heatmap-hmanno-null-free-guides.svg       |only
 ggalign-0.0.4/ggalign/tests/testthat/_snaps/layout_heatmap/heatmap-hmanno-stack-free-guides.svg      |only
 ggalign-0.0.4/ggalign/tests/testthat/_snaps/layout_heatmap/heatmap-layout-annotation.svg             |only
 ggalign-0.0.4/ggalign/tests/testthat/_snaps/layout_heatmap/heatmap-layout-theme.svg                  |only
 ggalign-0.0.4/ggalign/tests/testthat/test-align.R                                                    |only
 ggalign-0.0.4/ggalign/vignettes/complete-examples.Rmd                                                |only
 ggalign-0.0.4/ggalign/vignettes/plot-composer.Rmd                                                    |only
 ggalign-0.0.4/ggalign/vignettes/special-syntax.Rmd                                                   |only
 ggalign-0.0.4/ggalign/vignettes/stack-layout.Rmd                                                     |only
 ggalign-0.0.5/ggalign/DESCRIPTION                                                                    |   16 
 ggalign-0.0.5/ggalign/MD5                                                                            |  432 ++++---
 ggalign-0.0.5/ggalign/NAMESPACE                                                                      |  287 +++-
 ggalign-0.0.5/ggalign/NEWS.md                                                                        |   76 +
 ggalign-0.0.5/ggalign/R/active.R                                                                     |only
 ggalign-0.0.5/ggalign/R/align-.R                                                                     |  274 ++--
 ggalign-0.0.5/ggalign/R/align-add.R                                                                  |   11 
 ggalign-0.0.5/ggalign/R/align-build.R                                                                |  113 -
 ggalign-0.0.5/ggalign/R/align-dendrogram.R                                                           |  281 +++-
 ggalign-0.0.5/ggalign/R/align-gg.R                                                                   |  243 ++--
 ggalign-0.0.5/ggalign/R/align-group.R                                                                |   40 
 ggalign-0.0.5/ggalign/R/align-initialize.R                                                           |  198 +--
 ggalign-0.0.5/ggalign/R/align-kmeans.R                                                               |   35 
 ggalign-0.0.5/ggalign/R/align-order.R                                                                |  121 +-
 ggalign-0.0.5/ggalign/R/align-reorder.R                                                              |   29 
 ggalign-0.0.5/ggalign/R/alignpatch-.R                                                                |   55 
 ggalign-0.0.5/ggalign/R/alignpatch-align_plots.R                                                     |   62 -
 ggalign-0.0.5/ggalign/R/alignpatch-alignpatches.R                                                    |  172 +-
 ggalign-0.0.5/ggalign/R/alignpatch-area.R                                                            |   87 -
 ggalign-0.0.5/ggalign/R/alignpatch-build.R                                                           |    8 
 ggalign-0.0.5/ggalign/R/alignpatch-free-align.R                                                      |   47 
 ggalign-0.0.5/ggalign/R/alignpatch-free-border.R                                                     |   38 
 ggalign-0.0.5/ggalign/R/alignpatch-free-guide.R                                                      |    2 
 ggalign-0.0.5/ggalign/R/alignpatch-free-lab.R                                                        |   18 
 ggalign-0.0.5/ggalign/R/alignpatch-free-space.R                                                      |   19 
 ggalign-0.0.5/ggalign/R/alignpatch-ggplot2.R                                                         |  249 ++--
 ggalign-0.0.5/ggalign/R/alignpatch-guides.R                                                          |    4 
 ggalign-0.0.5/ggalign/R/alignpatch-inset.R                                                           |   89 -
 ggalign-0.0.5/ggalign/R/alignpatch-patchwork.R                                                       |    2 
 ggalign-0.0.5/ggalign/R/alignpatch-title.R                                                           |    6 
 ggalign-0.0.5/ggalign/R/alignpatch-wrap.R                                                            |   46 
 ggalign-0.0.5/ggalign/R/dendrogram.R                                                                 |   39 
 ggalign-0.0.5/ggalign/R/fortify-data_frame.R                                                         |only
 ggalign-0.0.5/ggalign/R/fortify-matrix.R                                                             |only
 ggalign-0.0.5/ggalign/R/free-.R                                                                      |only
 ggalign-0.0.5/ggalign/R/geom-pie.R                                                                   |only
 ggalign-0.0.5/ggalign/R/ggalign-package.R                                                            |   12 
 ggalign-0.0.5/ggalign/R/import-standalone-assert.R                                                   |  488 ++++----
 ggalign-0.0.5/ggalign/R/import-standalone-obj-type.R                                                 |  185 ++-
 ggalign-0.0.5/ggalign/R/import-standalone-purrr.R                                                    |only
 ggalign-0.0.5/ggalign/R/import-standalone-tibble.R                                                   |only
 ggalign-0.0.5/ggalign/R/layer-order.R                                                                |only
 ggalign-0.0.5/ggalign/R/layout-.R                                                                    |  439 +++----
 ggalign-0.0.5/ggalign/R/layout-heatmap-.R                                                            |  280 +---
 ggalign-0.0.5/ggalign/R/layout-heatmap-build.R                                                       |  315 -----
 ggalign-0.0.5/ggalign/R/layout-heatmap-oncoplot.R                                                    |only
 ggalign-0.0.5/ggalign/R/layout-quad-.R                                                               |only
 ggalign-0.0.5/ggalign/R/layout-quad-add.R                                                            |only
 ggalign-0.0.5/ggalign/R/layout-quad-build.R                                                          |only
 ggalign-0.0.5/ggalign/R/layout-quad-operator.R                                                       |only
 ggalign-0.0.5/ggalign/R/layout-quad-switch.R                                                         |only
 ggalign-0.0.5/ggalign/R/layout-stack-.R                                                              |  314 +++--
 ggalign-0.0.5/ggalign/R/layout-stack-add.R                                                           |  538 +++++----
 ggalign-0.0.5/ggalign/R/layout-stack-build.R                                                         |  199 ++-
 ggalign-0.0.5/ggalign/R/layout-stack-data.R                                                          |only
 ggalign-0.0.5/ggalign/R/layout-stack-operator.R                                                      |  153 ++
 ggalign-0.0.5/ggalign/R/layout-stack-switch.R                                                        |only
 ggalign-0.0.5/ggalign/R/plot-.R                                                                      |only
 ggalign-0.0.5/ggalign/R/plot-align.R                                                                 |only
 ggalign-0.0.5/ggalign/R/plot-data.R                                                                  |only
 ggalign-0.0.5/ggalign/R/plot-theme.R                                                                 |only
 ggalign-0.0.5/ggalign/R/rasterise.R                                                                  |    4 
 ggalign-0.0.5/ggalign/R/utils-assert.R                                                               |   53 
 ggalign-0.0.5/ggalign/R/utils-ggplot2.R                                                              |   60 -
 ggalign-0.0.5/ggalign/R/utils-grid.R                                                                 |   38 
 ggalign-0.0.5/ggalign/R/utils-rd.R                                                                   |   62 -
 ggalign-0.0.5/ggalign/R/utils.R                                                                      |  211 +--
 ggalign-0.0.5/ggalign/R/zzz.R                                                                        |    3 
 ggalign-0.0.5/ggalign/README.md                                                                      |  106 +
 ggalign-0.0.5/ggalign/build/vignette.rds                                                             |binary
 ggalign-0.0.5/ggalign/inst/doc/heatmap-layout.R                                                      |  283 +---
 ggalign-0.0.5/ggalign/inst/doc/heatmap-layout.Rmd                                                    |  482 ++------
 ggalign-0.0.5/ggalign/inst/doc/heatmap-layout.html                                                   |  585 +++-------
 ggalign-0.0.5/ggalign/inst/doc/layout-customize.R                                                    |   50 
 ggalign-0.0.5/ggalign/inst/doc/layout-customize.Rmd                                                  |   83 -
 ggalign-0.0.5/ggalign/inst/doc/layout-customize.html                                                 |  182 +--
 ggalign-0.0.5/ggalign/inst/doc/layout-plot.R                                                         |   78 -
 ggalign-0.0.5/ggalign/inst/doc/layout-plot.Rmd                                                       |  203 ++-
 ggalign-0.0.5/ggalign/inst/doc/layout-plot.html                                                      |  356 +++---
 ggalign-0.0.5/ggalign/inst/doc/operator.R                                                            |only
 ggalign-0.0.5/ggalign/inst/doc/operator.Rmd                                                          |only
 ggalign-0.0.5/ggalign/inst/doc/operator.html                                                         |only
 ggalign-0.0.5/ggalign/inst/doc/plot-options.R                                                        |only
 ggalign-0.0.5/ggalign/inst/doc/plot-options.Rmd                                                      |only
 ggalign-0.0.5/ggalign/inst/doc/plot-options.html                                                     |only
 ggalign-0.0.5/ggalign/man/active.Rd                                                                  |only
 ggalign-0.0.5/ggalign/man/align.Rd                                                                   |  160 +-
 ggalign-0.0.5/ggalign/man/align_dendro.Rd                                                            |  185 +--
 ggalign-0.0.5/ggalign/man/align_gg.Rd                                                                |  218 +--
 ggalign-0.0.5/ggalign/man/align_group.Rd                                                             |   33 
 ggalign-0.0.5/ggalign/man/align_kmeans.Rd                                                            |   70 -
 ggalign-0.0.5/ggalign/man/align_order.Rd                                                             |   83 -
 ggalign-0.0.5/ggalign/man/align_panel.Rd                                                             |  125 --
 ggalign-0.0.5/ggalign/man/align_plots.Rd                                                             |    6 
 ggalign-0.0.5/ggalign/man/align_reorder.Rd                                                           |   64 -
 ggalign-0.0.5/ggalign/man/alignpatch.Rd                                                              |    2 
 ggalign-0.0.5/ggalign/man/area.Rd                                                                    |    2 
 ggalign-0.0.5/ggalign/man/figures/README-unnamed-chunk-6-1.png                                       |only
 ggalign-0.0.5/ggalign/man/figures/README-unnamed-chunk-7-1.png                                       |only
 ggalign-0.0.5/ggalign/man/figures/README-unnamed-chunk-8-1.png                                       |only
 ggalign-0.0.5/ggalign/man/figures/README-unnamed-chunk-9-1.png                                       |only
 ggalign-0.0.5/ggalign/man/figures/lifecycle-archived.svg                                             |only
 ggalign-0.0.5/ggalign/man/figures/lifecycle-defunct.svg                                              |only
 ggalign-0.0.5/ggalign/man/figures/lifecycle-deprecated.svg                                           |only
 ggalign-0.0.5/ggalign/man/figures/lifecycle-experimental.svg                                         |only
 ggalign-0.0.5/ggalign/man/figures/lifecycle-maturing.svg                                             |only
 ggalign-0.0.5/ggalign/man/figures/lifecycle-questioning.svg                                          |only
 ggalign-0.0.5/ggalign/man/figures/lifecycle-soft-deprecated.svg                                      |only
 ggalign-0.0.5/ggalign/man/figures/lifecycle-stable.svg                                               |only
 ggalign-0.0.5/ggalign/man/figures/lifecycle-superseded.svg                                           |only
 ggalign-0.0.5/ggalign/man/fortify_data_frame.Rd                                                      |only
 ggalign-0.0.5/ggalign/man/fortify_data_frame.character.Rd                                            |only
 ggalign-0.0.5/ggalign/man/fortify_data_frame.default.Rd                                              |only
 ggalign-0.0.5/ggalign/man/fortify_data_frame.matrix.Rd                                               |only
 ggalign-0.0.5/ggalign/man/fortify_data_frame.numeric.Rd                                              |only
 ggalign-0.0.5/ggalign/man/fortify_matrix.MAF.Rd                                                      |only
 ggalign-0.0.5/ggalign/man/fortify_matrix.Rd                                                          |only
 ggalign-0.0.5/ggalign/man/fortify_matrix.default.Rd                                                  |only
 ggalign-0.0.5/ggalign/man/fortify_stack.Rd                                                           |only
 ggalign-0.0.5/ggalign/man/free_gg.Rd                                                                 |only
 ggalign-0.0.5/ggalign/man/geom_pie.Rd                                                                |only
 ggalign-0.0.5/ggalign/man/ggalign-package.Rd                                                         |    2 
 ggalign-0.0.5/ggalign/man/ggalign_attr.Rd                                                            |only
 ggalign-0.0.5/ggalign/man/ggalign_stat.Rd                                                            |    6 
 ggalign-0.0.5/ggalign/man/ggoncoplot.Rd                                                              |only
 ggalign-0.0.5/ggalign/man/ggwrap.Rd                                                                  |only
 ggalign-0.0.5/ggalign/man/hclust2.Rd                                                                 |   10 
 ggalign-0.0.5/ggalign/man/heatmap_layout.Rd                                                          |  100 -
 ggalign-0.0.5/ggalign/man/inset.Rd                                                                   |   32 
 ggalign-0.0.5/ggalign/man/is_layout.Rd                                                               |only
 ggalign-0.0.5/ggalign/man/layer_order.Rd                                                             |only
 ggalign-0.0.5/ggalign/man/layout-operator.Rd                                                         |   99 +
 ggalign-0.0.5/ggalign/man/layout_design.Rd                                                           |    6 
 ggalign-0.0.5/ggalign/man/patch.Heatmap.Rd                                                           |   25 
 ggalign-0.0.5/ggalign/man/patch.Rd                                                                   |   32 
 ggalign-0.0.5/ggalign/man/patch.alignpatches.Rd                                                      |   23 
 ggalign-0.0.5/ggalign/man/patch.formula.Rd                                                           |   23 
 ggalign-0.0.5/ggalign/man/patch.ggplot.Rd                                                            |   21 
 ggalign-0.0.5/ggalign/man/patch.grob.Rd                                                              |   22 
 ggalign-0.0.5/ggalign/man/patch.patch.Rd                                                             |   23 
 ggalign-0.0.5/ggalign/man/patch.patch_ggplot.Rd                                                      |   27 
 ggalign-0.0.5/ggalign/man/patch.patchwork.Rd                                                         |   23 
 ggalign-0.0.5/ggalign/man/patch.pheatmap.Rd                                                          |   23 
 ggalign-0.0.5/ggalign/man/patch.recordedplot.Rd                                                      |   23 
 ggalign-0.0.5/ggalign/man/patch.trellis.Rd                                                           |   23 
 ggalign-0.0.5/ggalign/man/plot_align.Rd                                                              |only
 ggalign-0.0.5/ggalign/man/plot_data.Rd                                                               |only
 ggalign-0.0.5/ggalign/man/plot_theme.Rd                                                              |only
 ggalign-0.0.5/ggalign/man/quad_active.Rd                                                             |only
 ggalign-0.0.5/ggalign/man/quad_free.Rd                                                               |only
 ggalign-0.0.5/ggalign/man/quad_init.Rd                                                               |only
 ggalign-0.0.5/ggalign/man/quad_layout.Rd                                                             |only
 ggalign-0.0.5/ggalign/man/quad_switch.Rd                                                             |only
 ggalign-0.0.5/ggalign/man/show-Layout-method.Rd                                                      |    2 
 ggalign-0.0.5/ggalign/man/stack_align.Rd                                                             |only
 ggalign-0.0.5/ggalign/man/stack_layout.Rd                                                            |   70 -
 ggalign-0.0.5/ggalign/man/stack_switch.Rd                                                            |only
 ggalign-0.0.5/ggalign/man/theme_ggalign.Rd                                                           |   24 
 ggalign-0.0.5/ggalign/man/theme_no_axes.Rd                                                           |only
 ggalign-0.0.5/ggalign/man/with_quad.Rd                                                               |only
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/alignpatch/free-border-mix-with-free-align.svg           |   48 
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/alignpatch/free-border-with-facet-ggplot.svg             |   10 
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/alignpatch/free-border-with-far.svg                      |   10 
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/alignpatch/free-border-with-ggplot.svg                   |   24 
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/alignpatch/free-border-with-nested-alignpatches.svg      |   52 
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout-align                                             |only
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_heatmap/heatmap-character.svg                     |   16 
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_heatmap/heatmap-data-frame.svg                    |   20 
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_heatmap/heatmap-hmanno-align-action-guides.svg    |only
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_heatmap/heatmap-hmanno-height.svg                 |   16 
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_heatmap/heatmap-hmanno-null-guides.svg            |   74 -
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_heatmap/heatmap-hmanno-stack-action-guides.svg    |only
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_heatmap/heatmap-hmanno-width.svg                  |   16 
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_heatmap/heatmap-matrix.svg                        |   16 
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_heatmap/heatmap-numeric-to-factor.svg             |   16 
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_heatmap/heatmap-numeric.svg                       |   16 
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_heatmap/oncoplot-with-annotation.svg              |only
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_heatmap/single-oncoplot.svg                       |only
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_quad                                              |only
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_stack/add-align-dendro-split.svg                  |only
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_stack/add-align-dendro.svg                        |only
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_stack/add-align-gg.svg                            |only
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_stack/add-align-kmeans.svg                        |only
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_stack/add-ggheatmap-with-name-as-mapping.svg      |only
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_stack/add-ggheatmap.svg                           |only
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_stack/add-quad-alignb.svg                         |only
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_stack/add-quad-alignh.svg                         |only
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_stack/add-quad-alignv.svg                         |only
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_stack/add-quad-switch.svg                         |only
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_stack/stack-with-absolute-size-1.svg              |   54 
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_stack/stack-with-absolute-size-2.svg              |   54 
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_stack/stack-with-mix-absolute-and-null-size-1.svg |   92 +
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/layout_stack/stack-with-mix-absolute-and-null-size-2.svg |   92 +
 ggalign-0.0.5/ggalign/tests/testthat/_snaps/others                                                   |only
 ggalign-0.0.5/ggalign/tests/testthat/test-layout-align.R                                             |only
 ggalign-0.0.5/ggalign/tests/testthat/test-layout_heatmap.R                                           |  101 -
 ggalign-0.0.5/ggalign/tests/testthat/test-layout_quad.R                                              |only
 ggalign-0.0.5/ggalign/tests/testthat/test-layout_stack.R                                             |  186 ++-
 ggalign-0.0.5/ggalign/tests/testthat/test-others.R                                                   |only
 ggalign-0.0.5/ggalign/vignettes/heatmap-layout.Rmd                                                   |  482 ++------
 ggalign-0.0.5/ggalign/vignettes/layout-customize.Rmd                                                 |   83 -
 ggalign-0.0.5/ggalign/vignettes/layout-plot.Rmd                                                      |  203 ++-
 ggalign-0.0.5/ggalign/vignettes/operator.Rmd                                                         |only
 ggalign-0.0.5/ggalign/vignettes/plot-options.Rmd                                                     |only
 238 files changed, 6543 insertions(+), 5586 deletions(-)

More information about ggalign at CRAN
Permanent link

New package autometric with initial version 0.1.1
Package: autometric
Title: Background Resource Logging
Description: Intense parallel workloads can be difficult to monitor. Packages 'crew.cluster', 'clustermq', and 'future.batchtools' distribute hundreds of worker processes over multiple computers. If a worker process exhausts its available memory, it may terminate silently, leaving the underlying problem difficult to detect or troubleshoot. Using the 'autometric' package, a worker can proactively monitor itself in a detached background thread. The worker process itself runs normally, and the thread writes to a log every few seconds. If the worker terminates unexpectedly, 'autometric' can read and visualize the log file to reveal potential resource-related reasons for the crash. The 'autometric' package borrows heavily from the methods of packages 'ps' <doi:10.32614/CRAN.package.ps> and 'psutil'.
Version: 0.1.1
License: MIT + file LICENSE
URL: https://wlandau.github.io/autometric/, https://github.com/wlandau/autometric
BugReports: https://github.com/wlandau/autometric/issues
Depends: R (>= 3.5.0)
Imports: graphics, utils
Suggests: grDevices, ps, tinytest
Encoding: UTF-8
Language: en-US
NeedsCompilation: yes
Packaged: 2024-10-31 19:33:31 UTC; C240390
Author: William Michael Landau [aut, cre] , Eli Lilly and Company [cph, fnd], Posit Software, PBC [cph] , Jay Loden [cph] , Dave Daeschler [cph] , Giampaolo Rodola [cph]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>
Repository: CRAN
Date/Publication: 2024-10-31 23:10:02 UTC

More information about autometric at CRAN
Permanent link

Package autometric (with last version 0.1.1) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2024-10-31 0.1.1
2024-10-30 0.1.0
2024-10-10 0.0.5

Permanent link
Package iClusterVB (with last version 0.1.2) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2024-08-20 0.1.2

Permanent link
Package HLAtools updated to version 1.3.0 with previous version 1.2.0 dated 2024-09-02

Title: Toolkit for HLA Immunogenomics
Description: A toolkit for the analysis and management of data for genes in the so-called "Human Leukocyte Antigen" (HLA) region. Functions extract reference data from the Anthony Nolan HLA Informatics Group/ImmunoGeneTics HLA 'GitHub' repository (ANHIG/IMGTHLA) <https://github.com/ANHIG/IMGTHLA>, validate Genotype List (GL) Strings, convert between UNIFORMAT and GL String Code (GLSC) formats, translate HLA alleles and GLSCs across ImmunoPolymorphism Database (IPD) IMGT/HLA Database release versions, identify differences between pairs of alleles at a locus, generate customized, multi-position sequence alignments, trim and convert allele-names across nomenclature epochs, and extend existing data-analysis methods.
Author: Livia Tran [aut], Ryan Nickens [aut], Leamon Crooms IV [aut], Derek Pappas [aut], Vinh Luu [ctb], Josh Bredeweg [ctb], Steven Mack [aut, cre]
Maintainer: Steven Mack <Steven.Mack@ucsf.edu>

Diff between HLAtools versions 1.2.0 dated 2024-09-02 and 1.3.0 dated 2024-11-14

 DESCRIPTION                   |    6 
 MD5                           |   45 ++--
 NAMESPACE                     |    1 
 NEWS.md                       |   10 +
 R/GIANT.R                     |    2 
 R/accessoryFunctions.R        |   42 ++++
 R/atlasMaker.R                |    2 
 R/buildAlignments.R           |   18 -
 R/data.R                      |    2 
 R/locusValidator.R            |   16 -
 README.md                     |   19 +
 data/HLAatlas.rda             |binary
 data/HLAgazeteer.rda          |binary
 data/alleleListHistory.rda    |binary
 data/fragmentFeatureNames.rda |binary
 inst/doc/HLAtools.Rmd         |  406 +++++++++++++++++++++---------------------
 inst/doc/HLAtools.html        |  166 +++++++----------
 man/GIANT.Rd                  |    2 
 man/buildAlignments.Rd        |    2 
 man/fragmentFeatureNames.Rd   |    2 
 man/multiQueryRelease.Rd      |only
 man/queryRelease.Rd           |    4 
 man/validateLocus.Rd          |    6 
 vignettes/HLAtools.Rmd        |  406 +++++++++++++++++++++---------------------
 24 files changed, 605 insertions(+), 552 deletions(-)

More information about HLAtools at CRAN
Permanent link


Built and running on Debian GNU/Linux using R, littler and blosxom. Styled with Bootstrap.