Title: Alternating Minimization Induced Active Set Algorithms
Description: An implementation of alternating minimization induced active set (AMIAS) method for solving the L0 regularized learning problems. It includes a piecewise smooth estimator by minimizing the least squares function with constraints on the number of kink points in the discrete derivatives. It also includes generalized structural sparsity via composite L0 penalty. Both time series and image segmentation can be handled by this package.
Author: Canhong Wen, Zelin Hong, Xueqin Wang, Aijun Zhang
Maintainer: Canhong Wen <wencanhong@gmail.com>
Diff between AMIAS versions 1.0.0 dated 2017-10-30 and 1.0.1 dated 2017-11-20
AMIAS-1.0.0/AMIAS/cleanup |only AMIAS-1.0.0/AMIAS/configure |only AMIAS-1.0.0/AMIAS/configure.in |only AMIAS-1.0.0/AMIAS/src/Makevars.in |only AMIAS-1.0.0/AMIAS/src/Makevars.win |only AMIAS-1.0.1/AMIAS/DESCRIPTION | 8 - AMIAS-1.0.1/AMIAS/MD5 | 18 +--- AMIAS-1.0.1/AMIAS/man/AMIAS.Rd | 22 ++--- AMIAS-1.0.1/AMIAS/man/AMIAS2d.Rd | 20 ++-- AMIAS-1.0.1/AMIAS/man/genD.Rd | 4 AMIAS-1.0.1/AMIAS/man/plot.AMIAS.1d.Rd | 6 - AMIAS-1.0.1/AMIAS/src/AMIAS.f90 | 142 ++++++++++++++++----------------- AMIAS-1.0.1/AMIAS/src/Makevars |only 13 files changed, 108 insertions(+), 112 deletions(-)
Title: Information Security Quantified Risk Assessment Toolkit
Description: An open source information security strategic risk analysis
toolkit based on the OpenFAIR taxonomy
<https://www2.opengroup.org/ogsys/catalog/C13K> and risk assessment standard
<https://www2.opengroup.org/ogsys/catalog/C13G>. Empowers an organization to
perform a quantifiable, repeatable, and data-driven review of its security
program.
Author: David Severski [aut, cre]
Maintainer: David Severski <davidski@deadheaven.com>
Diff between evaluator versions 0.1.0 dated 2017-02-26 and 0.1.1 dated 2017-11-20
evaluator-0.1.0/evaluator/man/summarize_all.Rd |only evaluator-0.1.1/evaluator/DESCRIPTION | 15 evaluator-0.1.1/evaluator/MD5 | 118 +- evaluator-0.1.1/evaluator/NAMESPACE | 71 - evaluator-0.1.1/evaluator/NEWS.md | 22 evaluator-0.1.1/evaluator/R/common_graphs.R | 6 evaluator-0.1.1/evaluator/R/data.R | 4 evaluator-0.1.1/evaluator/R/encode.R | 13 evaluator-0.1.1/evaluator/R/evaluator.R |only evaluator-0.1.1/evaluator/R/import.R | 12 evaluator-0.1.1/evaluator/R/load_data.R | 11 evaluator-0.1.1/evaluator/R/openfair.R | 4 evaluator-0.1.1/evaluator/R/report.R | 54 - evaluator-0.1.1/evaluator/R/simulate.R | 9 evaluator-0.1.1/evaluator/R/summarize.R | 15 evaluator-0.1.1/evaluator/R/utils.R | 2 evaluator-0.1.1/evaluator/R/validate.R | 12 evaluator-0.1.1/evaluator/README.md | 331 +++---- evaluator-0.1.1/evaluator/build/vignette.rds |binary evaluator-0.1.1/evaluator/data/datalist | 10 evaluator-0.1.1/evaluator/inst/doc/usage.R | 133 +- evaluator-0.1.1/evaluator/inst/doc/usage.Rmd | 79 - evaluator-0.1.1/evaluator/inst/doc/usage.html | 466 +++++----- evaluator-0.1.1/evaluator/inst/rmd/analyze_risk.Rmd | 27 evaluator-0.1.1/evaluator/inst/rmd/explore_scenarios.Rmd | 26 evaluator-0.1.1/evaluator/inst/rmd/risk_dashboard.Rmd | 11 evaluator-0.1.1/evaluator/man/calculate_ale.Rd | 58 - evaluator-0.1.1/evaluator/man/calculate_domain_impact.Rd | 38 evaluator-0.1.1/evaluator/man/calculate_max_losses.Rd | 38 evaluator-0.1.1/evaluator/man/calculate_weak_domains.Rd | 38 evaluator-0.1.1/evaluator/man/convert_qual_to_quant.Rd | 42 evaluator-0.1.1/evaluator/man/derive_controls.Rd | 52 - evaluator-0.1.1/evaluator/man/dollar_millions.Rd | 34 evaluator-0.1.1/evaluator/man/domain_summary.Rd | 46 evaluator-0.1.1/evaluator/man/domains.Rd | 40 evaluator-0.1.1/evaluator/man/encode_scenarios.Rd | 42 evaluator-0.1.1/evaluator/man/evaluator.Rd |only evaluator-0.1.1/evaluator/man/explore_scenarios.Rd | 38 evaluator-0.1.1/evaluator/man/generate_event_outcomes_plot.Rd | 34 evaluator-0.1.1/evaluator/man/generate_heatmap.Rd | 34 evaluator-0.1.1/evaluator/man/generate_report.Rd | 51 - evaluator-0.1.1/evaluator/man/generate_scatterplot.Rd | 38 evaluator-0.1.1/evaluator/man/get_base_fontfamily.Rd | 28 evaluator-0.1.1/evaluator/man/import_capabilities.Rd | 40 evaluator-0.1.1/evaluator/man/import_scenarios.Rd | 40 evaluator-0.1.1/evaluator/man/import_spreadsheet.Rd | 50 - evaluator-0.1.1/evaluator/man/load_data.Rd | 38 evaluator-0.1.1/evaluator/man/openfair_example.Rd | 28 evaluator-0.1.1/evaluator/man/quantitative_scenarios.Rd | 72 - evaluator-0.1.1/evaluator/man/risk_dashboard.Rd | 43 evaluator-0.1.1/evaluator/man/run_simulations.Rd | 38 evaluator-0.1.1/evaluator/man/sample_lm.Rd | 50 - evaluator-0.1.1/evaluator/man/scenario_summary.Rd | 74 - evaluator-0.1.1/evaluator/man/select_events.Rd | 56 - evaluator-0.1.1/evaluator/man/simulation_results.Rd | 64 - evaluator-0.1.1/evaluator/man/split_sheet.Rd | 38 evaluator-0.1.1/evaluator/man/summarize_domains.Rd | 38 evaluator-0.1.1/evaluator/man/summarize_scenarios.Rd | 34 evaluator-0.1.1/evaluator/man/summarize_to_disk.Rd |only evaluator-0.1.1/evaluator/man/theme_evaluator.Rd | 34 evaluator-0.1.1/evaluator/man/validate_scenarios.Rd | 46 evaluator-0.1.1/evaluator/vignettes/usage.Rmd | 79 - 62 files changed, 1506 insertions(+), 1458 deletions(-)
Title: Functions to Automate Downloading Geospatial Data Available from
Several Federated Data Sources
Description: Functions to automate downloading geospatial data available from
several federated data sources (mainly sources maintained by the US Federal
government). Currently, the package enables extraction from six datasets:
The National Elevation Dataset digital elevation models (1 and 1/3 arc-second;
USGS); The National Hydrography Dataset (USGS); The Soil Survey Geographic
(SSURGO) database from the National Cooperative Soil Survey (NCSS), which is
led by the Natural Resources Conservation Service (NRCS) under the USDA; the
Global Historical Climatology Network (GHCN), coordinated by National Climatic
Data Center at NOAA; the Daymet gridded estimates of daily weather parameters
for North America, version 3, available from the Oak Ridge National Laboratory's
Distributed Active Archive Center (DAAC); and the International Tree Ring Data Bank.
Author: R. Kyle Bocinsky [aut, cre], Dylan Beaudette [ctb], Scott Chamberlain [ctb]
Maintainer: R. Kyle Bocinsky <bocinsky@gmail.com>
Diff between FedData versions 2.4.6 dated 2017-08-18 and 2.4.7 dated 2017-11-20
DESCRIPTION | 8 +++---- MD5 | 32 +++++++++++++++---------------- NEWS.md | 5 ++++ R/DAYMET_FUNCTIONS.R | 2 - R/NHD_FUNCTIONS.R | 4 +-- R/SSURGO_FUNCTIONS.R | 12 ++++++----- README.md | 12 +++++++---- inst/image/README-unnamed-chunk-10-1.png |binary inst/image/README-unnamed-chunk-11-1.png |binary inst/image/README-unnamed-chunk-12-1.png |binary inst/image/README-unnamed-chunk-13-1.png |binary inst/image/README-unnamed-chunk-6-1.png |binary inst/image/README-unnamed-chunk-7-1.png |binary inst/image/README-unnamed-chunk-8-1.png |binary inst/image/README-unnamed-chunk-9-1.png |binary man/tiles.Rd | 2 - tests/testthat/test.SSURGO.R | 2 - 17 files changed, 45 insertions(+), 34 deletions(-)
Title: Bayesian Variable Selection with Shrinking and Diffusing Priors
Description: Provides a Bayesian variable selection approach using continuous spike and slab prior distributions. The prior choices here are motivated by the shrinking and diffusing priors studied in Narisetty & He (2014) <DOI:10.1214/14-AOS1207>.
Author: Qingyan Xiang <qxiang@illinois.edu>, Naveen Narisetty <naveen@illinois.edu>
Maintainer: Qingyan Xiang <qxiang@illinois.edu>
Diff between basad versions 0.1.0 dated 2017-10-26 and 0.2.0 dated 2017-11-20
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/basad.R | 25 +++++++++++++++++++++---- man/basad.Rd | 3 ++- src/Gauss.cpp | 5 ++--- src/ScaleMixturePrior.cpp | 7 +++---- 6 files changed, 37 insertions(+), 21 deletions(-)
Title: Some Additional Multiple Imputation Functions, Especially for
'mice'
Description: Contains some auxiliary functions for multiple
imputation which complements existing functionality
in R.
In addition to some utility functions, main features
include plausible value imputation, multilevel
imputation functions (arbitrary number of levels,
hierarchical and non-hierarchical datasets),
imputation using partial least squares (PLS) for
high dimensional predictors, and nested multiple
imputation.
Author: Alexander Robitzsch [aut, cre], Simon Grund [aut],
Thorsten Henke [aut]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between miceadds versions 2.7-19 dated 2017-08-24 and 2.8-24 dated 2017-11-20
miceadds-2.7-19/miceadds/R/mice.impute.2l.latentgroupmean.MCMC.R |only miceadds-2.7-19/miceadds/man/mice.impute.2l.contextual.norm.Rd |only miceadds-2.7-19/miceadds/man/mice.impute.2l.latentgroupmean.ML.Rd |only miceadds-2.7-19/miceadds/man/mice.impute.2l.lmer.Rd |only miceadds-2.7-19/miceadds/man/mice.impute.weighted.norm.Rd |only miceadds-2.7-19/miceadds/src/init.c |only miceadds-2.8-24/miceadds/DESCRIPTION | 8 miceadds-2.8-24/miceadds/MD5 | 655 +++++----- miceadds-2.8-24/miceadds/NAMESPACE | 6 miceadds-2.8-24/miceadds/R/ANSI_create_table.R | 4 miceadds-2.8-24/miceadds/R/ANSI_extend_table.R | 4 miceadds-2.8-24/miceadds/R/ANSI_fomat_latex_table.R | 4 miceadds-2.8-24/miceadds/R/ANSI_matrix_include_cols.R | 4 miceadds-2.8-24/miceadds/R/ANSI_matrix_include_rows.R | 4 miceadds-2.8-24/miceadds/R/GroupMean.R | 2 miceadds-2.8-24/miceadds/R/GroupSD.R | 2 miceadds-2.8-24/miceadds/R/GroupSum.R | 2 miceadds-2.8-24/miceadds/R/List2nestedList.R | 2 miceadds-2.8-24/miceadds/R/MIcombine.NestedImputationResultList.R | 2 miceadds-2.8-24/miceadds/R/MIwaldtest.R | 2 miceadds-2.8-24/miceadds/R/NMIcombine.R | 2 miceadds-2.8-24/miceadds/R/NMIextract.R | 2 miceadds-2.8-24/miceadds/R/NMIwaldtest.R | 2 miceadds-2.8-24/miceadds/R/NestedImputationList.R | 2 miceadds-2.8-24/miceadds/R/RcppExports.R | 16 miceadds-2.8-24/miceadds/R/Reval.R | 2 miceadds-2.8-24/miceadds/R/Rfunction_include_argument_values.R | 7 miceadds-2.8-24/miceadds/R/Rfunction_output_list_result_function.R | 6 miceadds-2.8-24/miceadds/R/Rhat.mice.R | 2 miceadds-2.8-24/miceadds/R/Rhat1.R | 2 miceadds-2.8-24/miceadds/R/Rsessinfo.R | 2 miceadds-2.8-24/miceadds/R/VariableNames2String.R | 2 miceadds-2.8-24/miceadds/R/antilogit.R | 2 miceadds-2.8-24/miceadds/R/complete.miceadds.R | 2 miceadds-2.8-24/miceadds/R/cor2fisher.R | 2 miceadds-2.8-24/miceadds/R/cor_avoid_zero.R | 2 miceadds-2.8-24/miceadds/R/covTest.R | 2 miceadds-2.8-24/miceadds/R/create.designMatrices.waldtest.R | 2 miceadds-2.8-24/miceadds/R/create_interactions.R | 4 miceadds-2.8-24/miceadds/R/crlrem.R | 2 miceadds-2.8-24/miceadds/R/cxxfunction.copy.R | 2 miceadds-2.8-24/miceadds/R/datalist2mids.R | 6 miceadds-2.8-24/miceadds/R/datlist_create.R | 2 miceadds-2.8-24/miceadds/R/draw.pv.ctt.R | 2 miceadds-2.8-24/miceadds/R/fast.groupmean.R | 2 miceadds-2.8-24/miceadds/R/fast.groupsum.R | 2 miceadds-2.8-24/miceadds/R/file_path.R | 2 miceadds-2.8-24/miceadds/R/filename_split.R | 2 miceadds-2.8-24/miceadds/R/files_move.R | 2 miceadds-2.8-24/miceadds/R/fisher2cor.R | 2 miceadds-2.8-24/miceadds/R/glm.cluster.R | 2 miceadds-2.8-24/miceadds/R/grep.vec.R | 2 miceadds-2.8-24/miceadds/R/in_CI.R |only miceadds-2.8-24/miceadds/R/include.2l.predictors_v1.R | 2 miceadds-2.8-24/miceadds/R/index.dataframe.R | 2 miceadds-2.8-24/miceadds/R/jomo2datlist.R | 2 miceadds-2.8-24/miceadds/R/jomo2mids.R | 4 miceadds-2.8-24/miceadds/R/kernelpls.fit2.R | 2 miceadds-2.8-24/miceadds/R/latent.regression.em.R | 2 miceadds-2.8-24/miceadds/R/library_install.R | 2 miceadds-2.8-24/miceadds/R/lm.cluster.R | 2 miceadds-2.8-24/miceadds/R/load.Rdata.R | 2 miceadds-2.8-24/miceadds/R/load.Rdata2.R | 2 miceadds-2.8-24/miceadds/R/load.data.R | 6 miceadds-2.8-24/miceadds/R/ma.scale2.R | 2 miceadds-2.8-24/miceadds/R/ma.wtd.aux.data.R | 2 miceadds-2.8-24/miceadds/R/ma.wtd.corNA.R | 2 miceadds-2.8-24/miceadds/R/ma.wtd.covNA.R | 2 miceadds-2.8-24/miceadds/R/ma.wtd.curtosisNA.R | 2 miceadds-2.8-24/miceadds/R/ma.wtd.meanNA.R | 2 miceadds-2.8-24/miceadds/R/ma.wtd.quantileNA.R | 2 miceadds-2.8-24/miceadds/R/ma.wtd.sdNA.R | 2 miceadds-2.8-24/miceadds/R/ma.wtd.skewnessNA.R | 2 miceadds-2.8-24/miceadds/R/ma_rmvnorm.R | 4 miceadds-2.8-24/miceadds/R/max0.R | 2 miceadds-2.8-24/miceadds/R/mean0.R | 2 miceadds-2.8-24/miceadds/R/mi.anova.R | 2 miceadds-2.8-24/miceadds/R/mi_dstat.R | 2 miceadds-2.8-24/miceadds/R/mice.1chain.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.2l.binary.R | 9 miceadds-2.8-24/miceadds/R/mice.impute.2l.contextual.norm.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.2l.contextual.pmm.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.2l.continuous.R | 8 miceadds-2.8-24/miceadds/R/mice.impute.2l.eap.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.2l.groupmean.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.2l.groupmean.elim.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.2l.latentgroupmean.ML.R | 7 miceadds-2.8-24/miceadds/R/mice.impute.2l.latentgroupmean.mcmc.R |only miceadds-2.8-24/miceadds/R/mice.impute.2l.lmer.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.2l.plausible.values.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.2l.pls.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.2l.pls2.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.2l.pmm.R | 8 miceadds-2.8-24/miceadds/R/mice.impute.2lonly.function.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.2lonly.norm2.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.2lonly.pmm2.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.bygroup.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.eap.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.grouped.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.hotDeck.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.ml.lmer.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.norm3.R | 14 miceadds-2.8-24/miceadds/R/mice.impute.plausible.values.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.pls.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.pmm3.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.pmm4.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.pmm5.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.pmm6.R | 14 miceadds-2.8-24/miceadds/R/mice.impute.tricube.pmm.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.tricube.pmm2.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.weighted.norm.R | 2 miceadds-2.8-24/miceadds/R/mice.impute.weighted.pmm.R | 2 miceadds-2.8-24/miceadds/R/mice.nmi.R | 2 miceadds-2.8-24/miceadds/R/mice_imputation_create_interactions.R | 2 miceadds-2.8-24/miceadds/R/mice_imputation_extract_arguments_list.R | 4 miceadds-2.8-24/miceadds/R/mice_imputation_extract_list_arguments.R | 2 miceadds-2.8-24/miceadds/R/mice_imputation_get_states.R | 2 miceadds-2.8-24/miceadds/R/mice_imputation_include_cluster_effect.R | 2 miceadds-2.8-24/miceadds/R/mice_imputation_multilevel_include_2l_predictors.R | 2 miceadds-2.8-24/miceadds/R/mice_imputation_pls_correlation_criteria.R | 2 miceadds-2.8-24/miceadds/R/mice_imputation_pls_do_impute.R | 2 miceadds-2.8-24/miceadds/R/mice_imputation_pls_estimate_pls_regression.R | 2 miceadds-2.8-24/miceadds/R/mice_imputation_pls_helper.R | 2 miceadds-2.8-24/miceadds/R/mice_imputation_pls_include_interactions.R | 2 miceadds-2.8-24/miceadds/R/mice_imputation_pls_include_quadratics.R | 2 miceadds-2.8-24/miceadds/R/mice_imputation_pls_largest_correlations.R | 2 miceadds-2.8-24/miceadds/R/mice_imputation_pls_pca_reduction.R | 2 miceadds-2.8-24/miceadds/R/mice_imputation_pls_print_progress1.R | 2 miceadds-2.8-24/miceadds/R/mice_imputation_pls_print_progress2.R | 2 miceadds-2.8-24/miceadds/R/mice_imputation_pls_print_progress3.R | 2 miceadds-2.8-24/miceadds/R/mice_imputation_pls_scale_x.R | 2 miceadds-2.8-24/miceadds/R/mice_imputation_prepare_2l_functions.R | 2 miceadds-2.8-24/miceadds/R/mice_imputation_weighted_norm_draw.R | 6 miceadds-2.8-24/miceadds/R/mice_impute_2l_lmer.R |only miceadds-2.8-24/miceadds/R/mice_impute_create_type_vector.R | 4 miceadds-2.8-24/miceadds/R/mice_ml_lmer_aggregate_data_higher_level.R | 4 miceadds-2.8-24/miceadds/R/mice_ml_lmer_arrange_cluster_identifiers.R | 4 miceadds-2.8-24/miceadds/R/mice_ml_lmer_choice_aggregated_variables.R | 4 miceadds-2.8-24/miceadds/R/mice_ml_lmer_collect_lme4_input.R | 4 miceadds-2.8-24/miceadds/R/mice_ml_lmer_construct_lme4_formula.R | 4 miceadds-2.8-24/miceadds/R/mice_ml_lmer_define_lmer_function.R | 4 miceadds-2.8-24/miceadds/R/mice_ml_lmer_draw_random_effects.R | 2 miceadds-2.8-24/miceadds/R/mice_ml_lmer_extend_imputed_values_lower_level.R | 4 miceadds-2.8-24/miceadds/R/mice_ml_lmer_extract_input.R | 4 miceadds-2.8-24/miceadds/R/mice_ml_lmer_include_cluster_means.R | 4 miceadds-2.8-24/miceadds/R/mice_ml_lmer_interactions_pls.R | 4 miceadds-2.8-24/miceadds/R/mice_multilevel_add_groupmeans.R | 2 miceadds-2.8-24/miceadds/R/mice_multilevel_create_formula.R | 2 miceadds-2.8-24/miceadds/R/mice_multilevel_doCall_suppressWarnings.R | 2 miceadds-2.8-24/miceadds/R/mice_multilevel_draw_binomial.R | 2 miceadds-2.8-24/miceadds/R/mice_multilevel_draw_rnorm1.R | 2 miceadds-2.8-24/miceadds/R/mice_multilevel_imputation_blme_args.R | 2 miceadds-2.8-24/miceadds/R/mice_multilevel_imputation_draw_random_effects.R | 2 miceadds-2.8-24/miceadds/R/mice_multilevel_imputation_draw_residuals.R | 2 miceadds-2.8-24/miceadds/R/mice_multilevel_imputation_pmm5.R | 2 miceadds-2.8-24/miceadds/R/mice_multilevel_impute_groupmean.R | 2 miceadds-2.8-24/miceadds/R/micombine.F.R | 2 miceadds-2.8-24/miceadds/R/micombine.chisquare.R | 2 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| 109 - miceadds-2.8-24/miceadds/src/kernelpls_1dim_c.cpp | 173 +- miceadds-2.8-24/miceadds/src/ma_pmm6_csource.cpp | 2 miceadds-2.8-24/miceadds/src/ma_scale.cpp | 107 - 335 files changed, 1417 insertions(+), 675 deletions(-)
Title: Diagnostic and Prognostic Meta-Analysis
Description: Meta-analysis of diagnostic and prognostic modeling studies. Summarize estimates of diagnostic test accuracy and prediction model performance. Validate, update and combine published prediction models. Develop new prediction models with data from multiple studies.
Author: Thomas Debray [aut, cre],
Valentijn de Jong [aut]
Maintainer: Thomas Debray <thomas.debray@gmail.com>
Diff between metamisc versions 0.1.6 dated 2017-09-06 and 0.1.7 dated 2017-11-20
DESCRIPTION | 19 +-- MD5 | 47 +++++--- NAMESPACE | 21 +++ R/basics.r | 2 R/fat.r |only R/fibrinogen.r |only R/metapred.R |only R/metapred_recalibrate.R |only R/metapred_utils.R |only R/valmeta.r | 252 ++++++++++++++++++++++++++++++++++++++++++- R/valmeta_utils.r |only data/Collins.rda |binary data/DVTipd.rda |binary data/DVTmodels.rda |binary data/Daniels.rda |binary data/EuroSCORE.rda |binary data/Fibrinogen.rda |only data/Framingham.rda |binary data/Kertai.rda |binary data/Roberts.rda |binary data/Scheidler.rda |binary man/Fibrinogen.Rd |only man/fat.Rd |only man/metamisc-package.Rd | 20 ++- man/metapred.Rd |only man/plot.fat.Rd |only man/plot.valmeta.Rd | 76 ++++++------ man/recalibrate.Rd |only man/valmeta.Rd | 275 ++++++++++++++++++++++++++++------------------- tests |only 30 files changed, 530 insertions(+), 182 deletions(-)
Title: Generating Synthetic Versions of Sensitive Microdata for
Statistical Disclosure Control
Description: A tool for producing synthetic versions of microdata containing confidential information so that they are safe to be released to users for exploratory analysis. The key objective of generating synthetic data is to replace sensitive original values with synthetic ones causing minimal distortion of the statistical information contained in the data set. Variables, which can be categorical or continuous, are synthesised one-by-one using sequential modelling. Replacements are generated by drawing from conditional distributions fitted to the original data using parametric or classification and regression trees models. Data are synthesised via the function syn() which can be largely automated, if default settings are used, or with methods defined by the user. Optional parameters can be used to influence the disclosure risk and the analytical quality of the synthesised data. For a description of the implemented method see Nowok, Raab and Dibben (2016) <doi:10.18637/jss.v074.i11>.
Author: Beata Nowok, Gillian M Raab, Joshua Snoke and Chris Dibben
Maintainer: Beata Nowok <beata.nowok@gmail.com>
Diff between synthpop versions 1.3-2 dated 2017-07-10 and 1.4-0 dated 2017-11-20
DESCRIPTION | 8 MD5 | 53 +++--- NAMESPACE | 6 NEWS | 38 ++++ R/IO.r | 52 ++++-- R/compare.syn.r | 189 +++++++++++++++------- R/functions.syn.r | 54 +++++- R/methods.syn.r | 340 ++++++++++++++++++++++++----------------- R/padModel.syn.r | 23 +- R/sampler.syn.r | 2 R/syn.r | 53 +++--- R/syn.strata.r | 35 ++-- R/utility.syn.r | 45 +++-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/inference.R |only inst/doc/inference.Rnw |only inst/doc/inference.pdf |only inst/doc/synthpop.pdf |binary man/compare.fit.synds.Rd | 88 +++++++--- man/glm.synds.Rd | 12 - man/sdc.Rd | 6 man/summary.fit.synds.Rd | 83 ++++++---- man/syn.Rd | 41 +++- man/syn.lognorm.Rd | 2 man/syn.satcat.Rd |only man/synthpop-package.Rd | 7 man/utility.tab.Rd | 9 - vignettes/Figure1inference.pdf |only vignettes/inference.Rnw |only vignettes/inference.bib |only 31 files changed, 742 insertions(+), 404 deletions(-)
Title: Preprocessing Tools to Create Design Matrices
Description: An extensible framework to create and preprocess
design matrices. Recipes consist of one or more data manipulation
and analysis "steps". Statistical parameters for the steps can
be estimated from an initial data set and then applied to
other data sets. The resulting design matrices can then be used
as inputs into statistical or machine learning models.
Author: Max Kuhn [aut, cre],
Hadley Wickham [aut],
RStudio [cph]
Maintainer: Max Kuhn <max@rstudio.com>
Diff between recipes versions 0.1.0 dated 2017-07-27 and 0.1.1 dated 2017-11-20
DESCRIPTION | 12 - MD5 | 342 ++++++++++++++++++---------------- NAMESPACE | 44 ++++ NEWS.md | 20 + R/BoxCox.R | 89 +++++--- R/YeoJohnson.R | 127 ++++++++---- R/bag_imp.R | 138 ++++++++----- R/bin2factor.R | 51 +++-- R/bs.R |only R/center.R | 70 ++++-- R/classdist.R | 94 ++++++--- R/corr.R | 84 +++++--- R/count.R |only R/data.R | 12 - R/date.R | 124 ++++++++---- R/depth.R | 115 +++++++---- R/discretize.R | 134 ++++++++----- R/dummy.R | 207 +++++++++++++------- R/factor2string.R |only R/formula.R |only R/holiday.R | 79 ++++--- R/hyperbolic.R | 43 +++- R/ica.R | 147 +++++++++----- R/interactions.R | 177 ++++++++++++++--- R/intercept.R | 12 - R/invlogit.R | 41 ++-- R/isomap.R | 115 +++++++---- R/knn_imp.R | 111 +++++++---- R/kpca.R | 142 ++++++++------ R/lincombo.R | 77 ++++--- R/log.R | 39 ++- R/logit.R | 41 ++-- R/lowerimpute.R |only R/meanimpute.R | 54 +++-- R/misc.R | 89 +++++++- R/modeimpute.R | 50 +++- R/ns.R | 57 +++-- R/nzv.R | 96 +++++---- R/ordinalscore.R | 64 ++++-- R/other.R | 60 ++++- R/pca.R | 150 +++++++++----- R/pkg.R | 18 - R/poly.R | 74 ++++--- R/range.R | 63 ++++-- R/ratio.R | 89 +++++--- R/recipe.R | 250 +++++++++++++----------- R/regex.R | 72 ++++--- R/relu.R |only R/rm.R | 33 ++- R/roles.R | 6 R/scale.R | 56 ++++- R/selections.R | 195 ++++++++++--------- R/shuffle.R | 35 ++- R/sparsity.R |only R/spatialsign.R | 54 +++-- R/sqrt.R | 36 ++- R/string2factor.R |only R/tidy.R |only R/unorder.R |only R/window.R | 113 ++++++----- R/zv.R |only build/vignette.rds |binary inst/doc/Custom_Steps.html | 57 ++--- inst/doc/Dummies.R |only inst/doc/Dummies.Rmd |only inst/doc/Dummies.html |only inst/doc/Selecting_Variables.html | 27 +- inst/doc/Simple_Example.R | 2 inst/doc/Simple_Example.Rmd | 6 inst/doc/Simple_Example.html | 71 +++---- man/add_role.Rd | 8 man/add_step.Rd | 4 man/bake.Rd | 39 ++- man/biomass.Rd | 8 man/covers.Rd | 10 man/credit_data.Rd | 6 man/discretize.Rd | 116 ++++++----- man/formula.recipe.Rd |only man/has_role.Rd | 28 +- man/juice.Rd | 30 +- man/names0.Rd | 43 +++- man/okc.Rd | 8 man/prep.Rd | 32 +-- man/recipe.Rd | 68 +++--- man/recipes-internal.Rd | 2 man/recipes.Rd | 30 +- man/selections.Rd | 127 ++++++------ man/step_BoxCox.Rd | 88 +++++--- man/step_YeoJohnson.Rd | 91 +++++---- man/step_bagimpute.Rd | 115 ++++++----- man/step_bin2factor.Rd | 59 +++-- man/step_bs.Rd |only man/step_center.Rd | 57 +++-- man/step_classdist.Rd | 84 ++++---- man/step_corr.Rd | 74 ++++--- man/step_count.Rd |only man/step_date.Rd | 111 ++++++----- man/step_depth.Rd | 121 ++++++------ man/step_dummy.Rd | 125 +++++++----- man/step_factor2string.Rd |only man/step_holiday.Rd | 77 ++++--- man/step_hyperbolic.Rd | 50 +++- man/step_ica.Rd | 131 +++++++------ man/step_interact.Rd | 102 ++++++---- man/step_intercept.Rd | 16 - man/step_invlogit.Rd | 51 +++-- man/step_isomap.Rd | 119 ++++++----- man/step_knnimpute.Rd | 103 ++++++---- man/step_kpca.Rd | 149 ++++++++------ man/step_lincomb.Rd | 64 +++--- man/step_log.Rd | 47 ++-- man/step_logit.Rd | 51 +++-- man/step_lowerimpute.Rd |only man/step_meanimpute.Rd | 57 +++-- man/step_modeimpute.Rd | 52 +++-- man/step_ns.Rd | 63 +++--- man/step_nzv.Rd | 93 +++++---- man/step_ordinalscore.Rd | 55 +++-- man/step_other.Rd | 57 +++-- man/step_pca.Rd | 143 +++++++------- man/step_poly.Rd | 75 ++++--- man/step_range.Rd | 57 +++-- man/step_ratio.Rd | 77 ++++--- man/step_regex.Rd | 74 ++++--- man/step_relu.Rd |only man/step_rm.Rd | 41 ++-- man/step_scale.Rd | 56 +++-- man/step_shuffle.Rd | 42 ++-- man/step_spatialsign.Rd | 59 +++-- man/step_sqrt.Rd | 45 ++-- man/step_string2factor.Rd |only man/step_unorder.Rd |only man/step_window.Rd | 101 +++++----- man/step_zv.Rd |only man/summary.recipe.Rd | 8 man/terms_select.Rd | 18 - man/tidy.recipe.Rd |only tests/testthat/test-basics.R | 19 + tests/testthat/test_BoxCox.R | 59 +++-- tests/testthat/test_YeoJohnson.R | 79 ++++--- tests/testthat/test_bagimpute.R | 17 + tests/testthat/test_bin2factor.R | 4 tests/testthat/test_bs.R |only tests/testthat/test_center_scale.R | 19 + tests/testthat/test_classdist.R | 19 + tests/testthat/test_corr.R | 16 - tests/testthat/test_count.R |only tests/testthat/test_date.R | 26 +- tests/testthat/test_depth.R | 13 + tests/testthat/test_discretized.R | 27 ++ tests/testthat/test_dummies.R | 59 +++++ tests/testthat/test_factors2strings.R |only tests/testthat/test_formula.R |only tests/testthat/test_holiday.R | 2 tests/testthat/test_hyperbolic.R | 20 - tests/testthat/test_ica.R | 140 ++++++++----- tests/testthat/test_interact.R | 150 ++++++++++++-- tests/testthat/test_intercept.R | 2 tests/testthat/test_invlogit.R | 16 + tests/testthat/test_isomap.R | 8 tests/testthat/test_knnimpute.R | 33 ++- tests/testthat/test_kpca.R | 22 +- tests/testthat/test_lincomb.R | 24 +- tests/testthat/test_log.R | 20 - tests/testthat/test_logit.R | 14 - tests/testthat/test_lowerimpute.R |only tests/testthat/test_meanimpute.R | 37 ++- tests/testthat/test_modeimpute.R | 26 +- tests/testthat/test_ns.R | 26 +- tests/testthat/test_nzv.R | 33 +-- tests/testthat/test_ordinalscore.R | 20 - tests/testthat/test_other.R | 69 ++++-- tests/testthat/test_pca.R | 65 ++++-- tests/testthat/test_poly.R | 35 ++- tests/testthat/test_range.R | 94 +++++---- tests/testthat/test_ratio.R | 71 +++++-- tests/testthat/test_regex.R | 8 tests/testthat/test_relu.R |only tests/testthat/test_rm.R | 18 - tests/testthat/test_roll.R | 26 +- tests/testthat/test_shuffle.R | 16 - tests/testthat/test_sparsity.R |only tests/testthat/test_spatialsign.R | 18 - tests/testthat/test_sqrt.R | 12 - tests/testthat/test_string2factor.R |only tests/testthat/test_tidy.R |only tests/testthat/test_unorder.R |only tests/testthat/test_zv.R |only vignettes/Dummies.Rmd |only vignettes/Simple_Example.Rmd | 6 190 files changed, 6015 insertions(+), 3554 deletions(-)
Title: Class Unions, Matrix Operations, and Color Schemes for OOMPA
Description: Provides the class unions that must be
preloaded in order for the basic tools in the OOMPA (Object-Oriented
Microarray and Proteomics Analysis) project to be defined and loaded.
It also includes vectorized operations for row-by-row means,
variances, and t-tests. Finally, it provides new color schemes.
Details on the packages in the OOMPA project can be found at
<http://oompa.r-forge.r-project.org/>.
Author: Kevin R. Coombes
Maintainer: Kevin R. Coombes <krc@silicovore.com>
Diff between oompaBase versions 3.2.4 dated 2017-07-11 and 3.2.5 dated 2017-11-20
DESCRIPTION | 13 - MD5 | 36 ++-- NAMESPACE | 73 ++++---- NEWS | 223 +++++++++++++------------- R/b00-classunions.R | 52 +++--- R/b02-colorSchemes.R | 173 ++++++++++---------- R/b02-colors.R | 118 ++++++------- R/b03-matrixOps.R | 148 ++++++++--------- build/vignette.rds |binary inst/doc/oompa.R | 322 +++++++++++++++++++------------------- inst/doc/oompa.pdf |binary man/b02-0-ColorCoding-class.Rd | 226 +++++++++++++------------- man/b02-1-ColorCodedPair-class.Rd | 158 +++++++++--------- man/numnull.Rd | 32 +-- man/z01-matrixT.Rd | 142 ++++++++-------- man/z02-2-semanticColors.Rd | 100 +++++------ man/z02-colorSchemes.Rd | 169 ++++++++++--------- tests/testMatrixOps.R | 92 +++++----- tests/testMatrixOps.Rout.save | 158 +++++++++--------- 19 files changed, 1133 insertions(+), 1102 deletions(-)
Title: Rmetrics - Importing Economic and Financial Data
Description: Provides a collection of utility functions
to download and manage data sets from the Internet or from other
sources.
Author: Diethelm Wuertz [aut],
Tobias Setz [cre],
Yohan Chalabi [ctb]
Maintainer: Tobias Setz <tobias.setz@live.com>
Diff between fImport versions 3042.84 dated 2017-11-16 and 3042.85 dated 2017-11-20
DESCRIPTION | 6 +++--- MD5 | 4 ++-- man/import-fred.Rd | 2 ++ 3 files changed, 7 insertions(+), 5 deletions(-)
Title: Flexible Univariate Count Models Based on Renewal Processes
Description: Flexible univariate count models based on renewal
processes. The models may include covariates and can be specified
with familiar formula syntax as in glm().
Author: Tarak Kharrat, Georgi N. Boshnakov
Maintainer: Tarak Kharrat <tarak.kharrat@gmail.com>
Diff between Countr versions 3.2.8 dated 2016-12-20 and 3.4.1 dated 2017-11-20
Countr-3.2.8/Countr/R/Renewal_cstr.R |only Countr-3.2.8/Countr/R/Renewal_methods.R |only Countr-3.2.8/Countr/R/renewalIV.R |only Countr-3.2.8/Countr/R/renewalTools.R |only Countr-3.2.8/Countr/inst/doc/jss_paper.R |only Countr-3.2.8/Countr/inst/doc/jss_paper.Rnw |only Countr-3.2.8/Countr/inst/doc/jss_paper.pdf |only Countr-3.2.8/Countr/inst/examples/example-Insurance.R |only Countr-3.2.8/Countr/man/addBootSampleObject.renewal.Rd |only Countr-3.2.8/Countr/vignettes/REFERENCES.bib |only Countr-3.2.8/Countr/vignettes/jss.dtx |only Countr-3.2.8/Countr/vignettes/jss_paper.Rnw |only Countr-3.2.8/Countr/vignettes/jsslogo.jpg |only Countr-3.2.8/Countr/vignettes/result.RData |only Countr-3.4.1/Countr/DESCRIPTION | 18 Countr-3.4.1/Countr/MD5 | 198 +- Countr-3.4.1/Countr/NAMESPACE | 45 Countr-3.4.1/Countr/NEWS | 289 +-- Countr-3.4.1/Countr/R/Countr.R | 63 Countr-3.4.1/Countr/R/RcppExports.R | 942 +++++----- Countr-3.4.1/Countr/R/coefnames.R |only Countr-3.4.1/Countr/R/convCount_loglik.R | 230 +- Countr-3.4.1/Countr/R/convCount_moments.R | 242 +- Countr-3.4.1/Countr/R/convCount_probs.R | 352 +-- Countr-3.4.1/Countr/R/dWeibull.R | 414 ++-- Countr-3.4.1/Countr/R/dWeibullgamma.R | 456 ++-- Countr-3.4.1/Countr/R/data.R | 71 Countr-3.4.1/Countr/R/renewal_IV.R |only Countr-3.4.1/Countr/R/renewal_cstr.R |only Countr-3.4.1/Countr/R/renewal_methods.R |only Countr-3.4.1/Countr/R/renewal_tools.R |only Countr-3.4.1/Countr/R/tools.R |only Countr-3.4.1/Countr/build/partial.rdb |only Countr-3.4.1/Countr/build/vignette.rds |binary Countr-3.4.1/Countr/data/fertility.rda |binary Countr-3.4.1/Countr/data/football.rda |only Countr-3.4.1/Countr/inst/REFERENCES.bib |only Countr-3.4.1/Countr/inst/doc/ComputationalPerformance.Rnw |only Countr-3.4.1/Countr/inst/doc/ComputationalPerformance.pdf |only Countr-3.4.1/Countr/inst/doc/Countr_guide.Rnw |only Countr-3.4.1/Countr/inst/doc/Countr_guide.pdf |only Countr-3.4.1/Countr/inst/doc/Countr_guide_paper.R |only Countr-3.4.1/Countr/inst/doc/ModelSelectionAndComparison.Rnw |only Countr-3.4.1/Countr/inst/doc/ModelSelectionAndComparison.pdf |only Countr-3.4.1/Countr/inst/doc/Rnw |only Countr-3.4.1/Countr/inst/doc/VarianceCovariance.Rnw |only Countr-3.4.1/Countr/inst/doc/VarianceCovariance.pdf |only Countr-3.4.1/Countr/inst/doc/exampleFertility.Rnw |only Countr-3.4.1/Countr/inst/doc/exampleFertility.pdf |only Countr-3.4.1/Countr/inst/doc/exampleFootball.Rnw |only Countr-3.4.1/Countr/inst/doc/exampleFootball.pdf |only Countr-3.4.1/Countr/inst/doc/fertility.R |only Countr-3.4.1/Countr/inst/doc/football.R |only Countr-3.4.1/Countr/inst/doc/index.html |only Countr-3.4.1/Countr/inst/doc/org |only Countr-3.4.1/Countr/inst/doc/perf.R |only Countr-3.4.1/Countr/inst/doc/quine.R |only Countr-3.4.1/Countr/inst/doc/var_covar.R |only Countr-3.4.1/Countr/inst/examples/example-RenewalRegression.R | 220 +- Countr-3.4.1/Countr/inst/examples/example-RenewalRegression_anc.R | 38 Countr-3.4.1/Countr/inst/examples/example-convCount_Weibull.R | 253 +- Countr-3.4.1/Countr/inst/examples/example-data-MASS_insurance.R |only Countr-3.4.1/Countr/inst/examples/example-data-MASS_quine.R |only Countr-3.4.1/Countr/inst/examples/example-data-bids.R |only Countr-3.4.1/Countr/inst/examples/example-data-fertility.R |only Countr-3.4.1/Countr/inst/examples/example-data-football.R |only Countr-3.4.1/Countr/inst/examples/example-data-nmes.R |only Countr-3.4.1/Countr/inst/examples/example-methods.R | 173 - Countr-3.4.1/Countr/inst/include/Countr.h | 18 Countr-3.4.1/Countr/inst/include/Countr_RcppExports.h | 594 +++--- Countr-3.4.1/Countr/inst/include/Countr_types.h | 26 Countr-3.4.1/Countr/inst/include/built_in_distributions.h | 26 Countr-3.4.1/Countr/inst/include/dePril_conv.h | 30 Countr-3.4.1/Countr/inst/include/series_weibull.h | 96 - Countr-3.4.1/Countr/inst/include/utils.h | 16 Countr-3.4.1/Countr/man/Countr.Rd |only Countr-3.4.1/Countr/man/addBootSampleObject.Rd |only Countr-3.4.1/Countr/man/alphagen.Rd | 73 Countr-3.4.1/Countr/man/chiSq_gof.Rd |only Countr-3.4.1/Countr/man/chiSq_pearson.Rd |only Countr-3.4.1/Countr/man/compareToGLM.Rd |only Countr-3.4.1/Countr/man/count_table.Rd |only Countr-3.4.1/Countr/man/dCount_allProbs_bi.Rd | 113 - Countr-3.4.1/Countr/man/dCount_conv_bi.Rd | 217 +- Countr-3.4.1/Countr/man/dCount_conv_loglik_bi.Rd | 193 +- Countr-3.4.1/Countr/man/dCount_dePril_bi.Rd | 81 Countr-3.4.1/Countr/man/dCount_naive_bi.Rd | 85 Countr-3.4.1/Countr/man/dWeibullCount.Rd | 177 - Countr-3.4.1/Countr/man/dWeibullCount_mat.Rd | 121 - Countr-3.4.1/Countr/man/dWeibullgammaCount.Rd | 229 +- Countr-3.4.1/Countr/man/dWeibullgammaCount_mat.Rd | 33 Countr-3.4.1/Countr/man/dWeibullgammaCount_mat_Covariates.Rd | 53 Countr-3.4.1/Countr/man/dmodifiedCount_bi.Rd | 127 - Countr-3.4.1/Countr/man/evCount_conv_bi.Rd | 189 -- Countr-3.4.1/Countr/man/fertility.Rd | 68 Countr-3.4.1/Countr/man/football.Rd |only Countr-3.4.1/Countr/man/frequency_plot.Rd |only Countr-3.4.1/Countr/man/getParNames.Rd | 39 Countr-3.4.1/Countr/man/predict.renewal.Rd | 129 - Countr-3.4.1/Countr/man/renewal.Rd | 203 -- Countr-3.4.1/Countr/man/renewal.control.Rd | 78 Countr-3.4.1/Countr/man/renewal.convPars.Rd | 45 Countr-3.4.1/Countr/man/renewal.seriesPars.Rd | 51 Countr-3.4.1/Countr/man/renewal.weiMethod.Rd | 37 Countr-3.4.1/Countr/man/renewalCoef.Rd |only Countr-3.4.1/Countr/man/renewalCoefList.Rd |only Countr-3.4.1/Countr/man/renewalCount.Rd |only Countr-3.4.1/Countr/man/renewalNames.Rd |only Countr-3.4.1/Countr/man/renewal_methods.Rd | 221 +- Countr-3.4.1/Countr/man/residuals_plot.Rd |only Countr-3.4.1/Countr/man/se.coef.Rd | 93 Countr-3.4.1/Countr/man/surv.Rd | 129 - Countr-3.4.1/Countr/src/RcppExports.cpp | 788 ++++---- Countr-3.4.1/Countr/src/conv_dePril.cpp | 36 Countr-3.4.1/Countr/src/series_weibull.cpp | 2 Countr-3.4.1/Countr/tests/testthat/test-built_in_distributions.R | 54 Countr-3.4.1/Countr/tests/testthat/test-evCont_Weibull.R | 82 Countr-3.4.1/Countr/vignettes/.install_extras |only Countr-3.4.1/Countr/vignettes/ComputationalPerformance.Rnw |only Countr-3.4.1/Countr/vignettes/Countr_guide.Rnw |only Countr-3.4.1/Countr/vignettes/Countr_guide_paper.pdf |only Countr-3.4.1/Countr/vignettes/ModelSelectionAndComparison.Rnw |only Countr-3.4.1/Countr/vignettes/VarianceCovariance.Rnw |only Countr-3.4.1/Countr/vignettes/exampleFertility.Rnw |only Countr-3.4.1/Countr/vignettes/exampleFootball.Rnw |only Countr-3.4.1/Countr/vignettes/fertility.R |only Countr-3.4.1/Countr/vignettes/fertility.pdf |only Countr-3.4.1/Countr/vignettes/football.R |only Countr-3.4.1/Countr/vignettes/football.pdf |only Countr-3.4.1/Countr/vignettes/perf.R |only Countr-3.4.1/Countr/vignettes/perf.pdf |only Countr-3.4.1/Countr/vignettes/quine.R |only Countr-3.4.1/Countr/vignettes/quine.pdf |only Countr-3.4.1/Countr/vignettes/var_covar.R |only Countr-3.4.1/Countr/vignettes/var_covar.pdf |only 135 files changed, 4342 insertions(+), 4214 deletions(-)
Title: Community Ecology Analyses
Description: Autosimilarity curves, standardization of spatial extent, dissimilarity indexes that overweight rare species, phylogenetic and functional (pairwise and multisample) dissimilarity indexes and nestedness for phylogenetic, functional and other diversity metrics. This should be a complement to available packages, particularly 'vegan'.
Author: Adriano Sanches Melo
Maintainer: Adriano Sanches Melo <asm.adrimelo@gmail.com>
Diff between CommEcol versions 1.6.4 dated 2016-07-28 and 1.6.5 dated 2017-11-20
DESCRIPTION | 14 +++++++------- MD5 | 18 ++++++++++-------- NAMESPACE | 3 ++- R/standExtent.R |only data/japi.rda |binary data/sites4.6.rda |binary data/sites5.6.rda |binary data/sites6.6.rda |binary data/stairs6.rda |binary data/tree6.rda |binary man/standExtent.Rd |only 11 files changed, 19 insertions(+), 16 deletions(-)
Title: Qualitative Palettes with Many Colors
Description: Tools for creating, viewing, and assessing qualitative
palettes with many (20-30 or more) colors.
Author: Kevin R. Coombes, Guy Brock
Maintainer: Kevin R. Coombes <krc@silicovore.com>
Diff between Polychrome versions 0.9.3 dated 2017-06-06 and 1.0.0 dated 2017-11-20
Polychrome-0.9.3/Polychrome/inst/doc/creatingPalettes.R |only Polychrome-0.9.3/Polychrome/inst/doc/polychrome.R |only Polychrome-1.0.0/Polychrome/DESCRIPTION | 13 Polychrome-1.0.0/Polychrome/MD5 | 43 - Polychrome-1.0.0/Polychrome/NAMESPACE | 4 Polychrome-1.0.0/Polychrome/NEWS | 21 Polychrome-1.0.0/Polychrome/R/creator.R | 6 Polychrome-1.0.0/Polychrome/R/deficit.R |only Polychrome-1.0.0/Polychrome/R/palettes.R | 22 Polychrome-1.0.0/Polychrome/R/viewers.R | 14 Polychrome-1.0.0/Polychrome/build/vignette.rds |binary Polychrome-1.0.0/Polychrome/data/Dark24.rda |only Polychrome-1.0.0/Polychrome/data/Light24.rda |only Polychrome-1.0.0/Polychrome/data/alphabet.rda |binary Polychrome-1.0.0/Polychrome/data/glasbey.rda |binary Polychrome-1.0.0/Polychrome/data/iscc.rda |binary Polychrome-1.0.0/Polychrome/data/palette36.rda |binary Polychrome-1.0.0/Polychrome/inst/doc/color-deficits.Rmd |only Polychrome-1.0.0/Polychrome/inst/doc/color-deficits.html |only Polychrome-1.0.0/Polychrome/inst/doc/creatingPalettes.html | 525 ++++++------- Polychrome-1.0.0/Polychrome/inst/doc/polychrome.html | 290 +++---- Polychrome-1.0.0/Polychrome/inst/extData/light-dark.R |only Polychrome-1.0.0/Polychrome/man/colorDeficit.Rd |only Polychrome-1.0.0/Polychrome/man/createPalette.Rd | 10 Polychrome-1.0.0/Polychrome/man/custompal.Rd |only Polychrome-1.0.0/Polychrome/man/palettes.Rd | 20 Polychrome-1.0.0/Polychrome/tests/testDeficit.R |only Polychrome-1.0.0/Polychrome/tests/testDeficit.Rout.save |only Polychrome-1.0.0/Polychrome/vignettes/color-deficits.Rmd |only 29 files changed, 524 insertions(+), 444 deletions(-)
Title: Manage Massive Matrices with Shared Memory and Memory-Mapped
Files
Description: Create, store, access, and manipulate massive matrices.
Matrices are allocated to shared memory and may use memory-mapped
files. Packages 'biganalytics', 'bigtabulate', 'synchronicity', and
'bigalgebra' provide advanced functionality.
Author: Michael J. Kane <kaneplusplus@gmail.com>, John W. Emerson
<jayemerson@gmail.com>, Peter Haverty <haverty.peter@gene.com>, and Charles
Determan Jr. <cdetermanjr@gmail.com>
Maintainer: Michael J. Kane <bigmemoryauthors@gmail.com>
Diff between bigmemory versions 4.5.30 dated 2017-11-20 and 4.5.31 dated 2017-11-20
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- inst/doc/Overview.pdf |binary src/bigmemory.cpp | 5 ++++- 4 files changed, 11 insertions(+), 8 deletions(-)
Title: Unicode Text Processing
Description: Processing and printing 'UTF-8' encoded international text (Unicode). Functions to input, validate, normalize, encode, format, and display.
Author: Patrick O. Perry [aut, cph, cre],
Unicode, Inc. [cph, dtc] (Unicode Character Database)
Maintainer: Patrick O. Perry <pperry@stern.nyu.edu>
Diff between utf8 versions 1.0.0 dated 2017-11-07 and 1.1.0 dated 2017-11-20
DESCRIPTION | 6 - MD5 | 76 +++++++-------- NAMESPACE | 2 NEWS | 33 ++++++ R/coerce.R | 11 ++ R/output.R |only R/utf8.R | 4 R/utf8_encode.R | 9 - R/utf8_format.R | 7 - R/utf8_print.R | 100 +++++++++++--------- README.md | 25 +++-- inst/doc/utf8.Rmd | 6 - inst/doc/utf8.html | 4 man/output.Rd |only man/utf8-package.Rd | 7 + man/utf8_encode.Rd | 23 +++- man/utf8_format.Rd | 12 +- man/utf8_print.Rd | 23 +++- man/utf8_width.Rd | 22 ++-- src/as_utf8.c | 38 +++---- src/bytes.c | 34 +++++- src/init.c | 3 src/render_table.c | 51 ++++++---- src/rutf8.h | 45 +++------ src/string.c | 37 ++----- src/text.c | 35 +++++-- src/utf8_encode.c | 21 ++-- src/utf8_format.c | 23 ---- src/utf8_width.c | 2 src/utf8lite/src/render.c | 112 ++++++++++++++-------- src/utf8lite/src/utf8lite.h | 39 ++++++- src/utf8lite/tests/check_render.c | 27 +++-- src/util.c | 26 +++++ tests/testthat/helper-locale.R | 7 + tests/testthat/test-utf8_encode.R | 12 +- tests/testthat/test-utf8_format.R | 12 +- tests/testthat/test-utf8_print.R | 187 +++++++++++++++++++++++++++++++++++++- tests/testthat/test-utf8_valid.R | 6 - tests/testthat/test-utf8_width.R | 12 ++ vignettes/utf8.Rmd | 6 - 40 files changed, 745 insertions(+), 360 deletions(-)
Title: Local Polynomial Regression of State Dependent Covariates in
State-Space Models
Description: Facilitates local polynomial regression for state dependent covariates in state-space models. The functionality can also be used from 'C++' based model builder tools such as 'Rcpp'/'inline', 'TMB', or 'JAGS'.
Author: Christoffer Moesgaard Albertsen [aut, cre]
Maintainer: Christoffer Moesgaard Albertsen <cmoe@aqua.dtu.dk>
Diff between covafillr versions 0.4.1 dated 2017-05-04 and 0.4.2 dated 2017-11-20
DESCRIPTION | 9 + MD5 | 20 ++-- NEWS | 5 + R/RcppPlugin.R | 2 inst/examples/ggplot/ggplotexample.R | 4 inst/examples/interpolate |only inst/examples/interpolate_ssm |only inst/examples/tmbtest/tmbtest.R | 48 +++++++++- inst/examples/tmbtest/tmbtest.cpp | 5 - inst/include/covafill/dox/Doxyfile | 2 inst/include/covafill/src/Interpolate/tricubicInterpolation.hpp | 3 11 files changed, 78 insertions(+), 20 deletions(-)
Title: Survival Support Vector Analysis
Description: Performs support vectors analysis for data sets with survival
outcome. Three approaches are available in the package: The regression approach
takes censoring into account when formulating the inequality constraints of
the support vector problem. In the ranking approach, the inequality constraints
set the objective to maximize the concordance index for comparable pairs
of observations. The hybrid approach combines the regression and ranking
constraints in the same model.
Author: Cesaire J. K. Fouodo
Maintainer: Cesaire Fouodo <fouodo@imbs.uni-luebeck.de>
Diff between survivalsvm versions 0.0.2 dated 2017-06-14 and 0.0.3 dated 2017-11-20
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS.md | 6 +++++- R/hybrid.R | 2 +- R/kernels.R | 3 ++- R/predictions.R | 4 ++-- R/regression.R | 3 +++ R/survivalsvm.R | 3 +++ man/predict.survivalsvm.Rd | 4 ++-- 9 files changed, 30 insertions(+), 19 deletions(-)
Title: LASSO and Elastic Net (Adaptive) Penalized Least Squares,
Logistic Regression, HHSVM, Squared Hinge SVM and Expectile
Regression using a Fast GCD Algorithm
Description: A generalized coordinate descent (GCD) algorithm for computing the solution path of the hybrid Huberized support vector machine (HHSVM) and its generalization, including the LASSO and elastic net (adaptive) penalized least squares, logistic regression, HHSVM, squared hinge loss SVM and expectile regression.
Author: Yi Yang <yi.yang6@mcgill.ca>, Hui Zou <hzou@stat.umn.edu>
Maintainer: Yi Yang <yi.yang6@mcgill.ca>
Diff between gcdnet versions 1.0.4 dated 2013-11-19 and 1.0.5 dated 2017-11-20
ChangeLog | 7 DESCRIPTION | 24 +- MD5 | 76 ++++---- NAMESPACE | 26 ++ R/coef.erpath.R |only R/coef.hsvmpath.R | 7 R/coef.logitpath.R | 7 R/coef.lspath.R | 7 R/coef.sqsvmpath.R | 7 R/cv.erpath.R |only R/cv.gcdnet.R | 8 R/cv.hsvmpath.R | 6 R/cv.logitpath.R | 6 R/cv.lspath.R | 8 R/cv.sqsvmpath.R | 6 R/erpath.R |only R/gcdnet.R | 9 - R/loss.R | 16 - R/plot.gcdnet.R | 4 R/predict.erpath.R |only R/predict.hsvmpath.R | 7 R/predict.logitpath.R | 7 R/predict.lspath.R | 7 R/predict.sqsvmpath.R | 7 R/utilities.R | 19 -- man/FHT.Rd | 2 man/coef.cv.gcdnet.Rd | 6 man/coef.gcdnet.Rd | 7 man/cv.gcdnet.Rd | 46 ++++- man/gcdnet.Rd | 66 +++++-- man/plot.cv.gcdnet.Rd | 13 + man/plot.gcdnet.Rd | 6 man/predict.cv.gcdnet.Rd | 6 man/predict.gcdnet.Rd | 9 - man/print.gcdnet.Rd | 6 src/auxiliary.f90 | 6 src/erlassoNET.f90 |only src/hsvmlassoNET.f90 | 384 +++++++++++++++++++++++--------------------- src/loglassoNET.f90 | 25 +- src/lslassoNET.f90 | 25 +- src/registerDynamicSymbol.c |only src/sqsvmlassoNET.f90 | 25 +- 42 files changed, 498 insertions(+), 405 deletions(-)
Title: General Bivariate Copula Theory and Many Utility Functions
Description: Extensive functions for bivariate copula (bicopula) computations and related
operations concerning oft cited bicopula theory described by Nelsen (2006), Joe (2014), and
other selected works. The lower, upper, product, and select other bicopula are implemented.
Arbitrary bicopula expressions include the diagonal, survival copula, the dual of a copula,
co-copula, numerical bicopula density, and maximum likelihood estimation. Level
curves (sets), horizontal and vertical sections also are supported. Numerical derivatives and
inverses of a bicopula are provided; simulation by the conditional distribution method thus is
supported. Bicopula composition, convex combination, and products are provided. Support
extends to Kendall Function as well as the Lmoments thereof, Kendall Tau, Spearman Rho and
Footrule, Gini Gamma, Blomqvist Beta, Hoeffding Phi, Schweizer-Wolff Sigma, tail dependency
(including pseudo-polar representation) and tail order, skewness, and bivariate Lmoments.
Evaluators of positively/negatively quadrant dependency, left increasing and right
decreasing are available. Kullback-Leibler divergence, Vuong's procedure, Spectral Measure,
and Lcomoments for copula inference are available. Quantile and median regressions for
V with respect to U and U with respect to V are available. Empirical copulas (EC) are supported.
Author: William Asquith
Maintainer: William Asquith <william.asquith@ttu.edu>
Diff between copBasic versions 2.0.5 dated 2017-02-25 and 2.0.6 dated 2017-11-20
copBasic-2.0.5/copBasic/inst/3dcopula/README |only copBasic-2.0.6/copBasic/ChangeLog | 8 +++++++- copBasic-2.0.6/copBasic/DESCRIPTION | 8 ++++---- copBasic-2.0.6/copBasic/MD5 | 23 ++++++++++++++--------- copBasic-2.0.6/copBasic/NAMESPACE | 2 ++ copBasic-2.0.6/copBasic/R/CLcop.R |only copBasic-2.0.6/copBasic/R/convexCOP.R |only copBasic-2.0.6/copBasic/R/mleCOP.R | 8 +++++++- copBasic-2.0.6/copBasic/inst/3dcopula/README.txt |only copBasic-2.0.6/copBasic/inst/testdata |only copBasic-2.0.6/copBasic/man/CLcop.Rd |only copBasic-2.0.6/copBasic/man/GHcop.Rd | 2 +- copBasic-2.0.6/copBasic/man/convex2COP.Rd | 4 ++-- copBasic-2.0.6/copBasic/man/convexCOP.Rd |only copBasic-2.0.6/copBasic/man/copBasic-package.Rd | 17 ++++++++++++----- copBasic-2.0.6/copBasic/man/mleCOP.Rd | 17 ++++++++++++----- 16 files changed, 61 insertions(+), 28 deletions(-)
Title: Convert Statistical Analysis Objects into Tidy Data Frames
Description: Convert statistical analysis objects from R into tidy data frames,
so that they can more easily be combined, reshaped and otherwise processed
with tools like 'dplyr', 'tidyr' and 'ggplot2'. The package provides three
S3 generics: tidy, which summarizes a model's statistical findings such as
coefficients of a regression; augment, which adds columns to the original
data such as predictions, residuals and cluster assignments; and glance, which
provides a one-row summary of model-level statistics.
Author: David Robinson [aut, cre],
Matthieu Gomez [ctb],
Boris Demeshev [ctb],
Dieter Menne [ctb],
Benjamin Nutter [ctb],
Luke Johnston [ctb],
Ben Bolker [ctb],
Francois Briatte [ctb],
Jeffrey Arnold [ctb],
Jonah Gabry [ctb],
Luciano Selzer [ctb],
Gavin Simpson [ctb],
Jens Preussner [ctb],
Jay Hesselberth [ctb],
Hadley Wickham [ctb],
Matthew Lincoln [ctb]
Maintainer: David Robinson <admiral.david@gmail.com>
Diff between broom versions 0.4.2 dated 2017-02-13 and 0.4.3 dated 2017-11-20
broom-0.4.2/broom/R/lsmeans_tidiers.R |only broom-0.4.2/broom/man/lsmeans_tidiers.Rd |only broom-0.4.3/broom/DESCRIPTION | 21 - broom-0.4.3/broom/MD5 | 255 +++++++++++---------- broom-0.4.3/broom/NAMESPACE | 14 + broom-0.4.3/broom/R/augment.R | 2 broom-0.4.3/broom/R/boot_tidiers.R | 5 broom-0.4.3/broom/R/decompose_tidiers.R |only broom-0.4.3/broom/R/emmeans_tidiers.R |only broom-0.4.3/broom/R/gam_tidiers.R | 31 +- broom-0.4.3/broom/R/glance.R | 5 broom-0.4.3/broom/R/globals.R | 2 broom-0.4.3/broom/R/gmm_tidiers.R | 11 broom-0.4.3/broom/R/ivreg_tidiers.R |only broom-0.4.3/broom/R/lm_tidiers.R | 8 broom-0.4.3/broom/R/muhaz_tidiers.R |only broom-0.4.3/broom/R/nlme_tidiers.R | 2 broom-0.4.3/broom/R/speedlm_tidiers.R |only broom-0.4.3/broom/R/survival_tidiers.R | 113 +++++++++ broom-0.4.3/broom/R/utilities.R | 36 ++ broom-0.4.3/broom/build/vignette.rds |binary broom-0.4.3/broom/inst/doc/bootstrapping.html | 39 +-- broom-0.4.3/broom/inst/doc/broom_and_dplyr.html | 183 +++++++-------- broom-0.4.3/broom/man/Arima_tidiers.Rd | 3 broom-0.4.3/broom/man/aareg_tidiers.Rd | 4 broom-0.4.3/broom/man/acf_tidiers.Rd | 1 broom-0.4.3/broom/man/anova_tidiers.Rd | 1 broom-0.4.3/broom/man/auc_tidiers.Rd | 1 broom-0.4.3/broom/man/augment.Rd | 1 broom-0.4.3/broom/man/augment_columns.Rd | 1 broom-0.4.3/broom/man/betareg_tidiers.Rd | 5 broom-0.4.3/broom/man/biglm_tidiers.Rd | 3 broom-0.4.3/broom/man/binDesign_tidiers.Rd | 3 broom-0.4.3/broom/man/binWidth_tidiers.Rd | 1 broom-0.4.3/broom/man/boot_tidiers.Rd | 1 broom-0.4.3/broom/man/bootstrap.Rd | 1 broom-0.4.3/broom/man/brms_tidiers.Rd | 1 broom-0.4.3/broom/man/broom.Rd | 2 broom-0.4.3/broom/man/btergm_tidiers.Rd | 1 broom-0.4.3/broom/man/cch_tidiers.Rd | 3 broom-0.4.3/broom/man/compact.Rd | 1 broom-0.4.3/broom/man/confint.geeglm.Rd | 1 broom-0.4.3/broom/man/confint_tidy.Rd | 1 broom-0.4.3/broom/man/coxph_tidiers.Rd | 5 broom-0.4.3/broom/man/cv.glmnet_tidiers.Rd | 3 broom-0.4.3/broom/man/data.frame_tidiers.Rd | 5 broom-0.4.3/broom/man/decompose_tidiers.Rd |only broom-0.4.3/broom/man/emmeans_tidiers.Rd |only broom-0.4.3/broom/man/ergm_tidiers.Rd | 3 broom-0.4.3/broom/man/felm_tidiers.Rd | 5 broom-0.4.3/broom/man/finish_glance.Rd | 1 broom-0.4.3/broom/man/fitdistr_tidiers.Rd | 3 broom-0.4.3/broom/man/fix_data_frame.Rd | 1 broom-0.4.3/broom/man/gam_tidiers.Rd | 17 - broom-0.4.3/broom/man/gamlss_tidiers.Rd | 1 broom-0.4.3/broom/man/geeglm_tidiers.Rd | 1 broom-0.4.3/broom/man/glance.Rd | 4 broom-0.4.3/broom/man/glm_tidiers.Rd | 3 broom-0.4.3/broom/man/glmnet_tidiers.Rd | 3 broom-0.4.3/broom/man/gmm_tidiers.Rd | 3 broom-0.4.3/broom/man/htest_tidiers.Rd | 3 broom-0.4.3/broom/man/inflate.Rd | 10 broom-0.4.3/broom/man/insert_NAs.Rd | 1 broom-0.4.3/broom/man/ivreg_tidiers.Rd |only broom-0.4.3/broom/man/kappa_tidiers.Rd | 1 broom-0.4.3/broom/man/kde_tidiers.Rd | 1 broom-0.4.3/broom/man/kmeans_tidiers.Rd | 5 broom-0.4.3/broom/man/list_tidiers.Rd | 3 broom-0.4.3/broom/man/lm_tidiers.Rd | 7 broom-0.4.3/broom/man/lme4_tidiers.Rd | 5 broom-0.4.3/broom/man/lmodel2_tidiers.Rd | 3 broom-0.4.3/broom/man/loess_tidiers.Rd | 3 broom-0.4.3/broom/man/matrix_tidiers.Rd | 3 broom-0.4.3/broom/man/mclust_tidiers.Rd | 5 broom-0.4.3/broom/man/mcmc_tidiers.Rd | 3 broom-0.4.3/broom/man/mle2_tidiers.Rd | 1 broom-0.4.3/broom/man/muhaz_tidiers.Rd |only broom-0.4.3/broom/man/multcomp_tidiers.Rd | 5 broom-0.4.3/broom/man/multinom_tidiers.Rd | 3 broom-0.4.3/broom/man/nlme_tidiers.Rd | 7 broom-0.4.3/broom/man/nls_tidiers.Rd | 5 broom-0.4.3/broom/man/optim_tidiers.Rd | 3 broom-0.4.3/broom/man/orcutt_tidiers.Rd | 3 broom-0.4.3/broom/man/plm_tidiers.Rd | 5 broom-0.4.3/broom/man/poLCA_tidiers.Rd | 5 broom-0.4.3/broom/man/prcomp_tidiers.Rd | 9 broom-0.4.3/broom/man/process_ergm.Rd | 1 broom-0.4.3/broom/man/process_geeglm.Rd | 1 broom-0.4.3/broom/man/process_lm.Rd | 1 broom-0.4.3/broom/man/process_rq.Rd | 1 broom-0.4.3/broom/man/pyears_tidiers.Rd | 3 broom-0.4.3/broom/man/rcorr_tidiers.Rd | 1 broom-0.4.3/broom/man/ridgelm_tidiers.Rd | 3 broom-0.4.3/broom/man/rlm_tidiers.Rd | 3 broom-0.4.3/broom/man/robust_tidiers.Rd | 8 broom-0.4.3/broom/man/rowwise_df_tidiers.Rd | 11 broom-0.4.3/broom/man/rq_tidiers.Rd | 17 - broom-0.4.3/broom/man/rstanarm_tidiers.Rd | 3 broom-0.4.3/broom/man/sexpfit_tidiers.Rd | 3 broom-0.4.3/broom/man/smooth.spline_tidiers.Rd | 3 broom-0.4.3/broom/man/sp_tidiers.Rd | 11 broom-0.4.3/broom/man/sparse_tidiers.Rd | 3 broom-0.4.3/broom/man/speedlm_tidiers.Rd |only broom-0.4.3/broom/man/summary_tidiers.Rd | 3 broom-0.4.3/broom/man/survdiff_tidiers.Rd |only broom-0.4.3/broom/man/survfit_tidiers.Rd | 3 broom-0.4.3/broom/man/survreg_tidiers.Rd | 8 broom-0.4.3/broom/man/svd_tidiers.Rd | 1 broom-0.4.3/broom/man/tidy.NULL.Rd | 1 broom-0.4.3/broom/man/tidy.Rd | 1 broom-0.4.3/broom/man/tidy.TukeyHSD.Rd | 1 broom-0.4.3/broom/man/tidy.coeftest.Rd | 1 broom-0.4.3/broom/man/tidy.default.Rd | 1 broom-0.4.3/broom/man/tidy.density.Rd | 1 broom-0.4.3/broom/man/tidy.dist.Rd | 1 broom-0.4.3/broom/man/tidy.ftable.Rd | 1 broom-0.4.3/broom/man/tidy.manova.Rd | 1 broom-0.4.3/broom/man/tidy.map.Rd | 1 broom-0.4.3/broom/man/tidy.pairwise.htest.Rd | 1 broom-0.4.3/broom/man/tidy.power.htest.Rd | 1 broom-0.4.3/broom/man/tidy.spec.Rd | 1 broom-0.4.3/broom/man/tidy.table.Rd | 1 broom-0.4.3/broom/man/tidy.ts.Rd | 1 broom-0.4.3/broom/man/unrowname.Rd | 1 broom-0.4.3/broom/man/vector_tidiers.Rd | 3 broom-0.4.3/broom/man/xyz_tidiers.Rd | 3 broom-0.4.3/broom/man/zoo_tidiers.Rd | 3 broom-0.4.3/broom/tests/testthat/test-data.frame.R |only broom-0.4.3/broom/tests/testthat/test-dplyr.R | 6 broom-0.4.3/broom/tests/testthat/test-gam.R | 23 + broom-0.4.3/broom/tests/testthat/test-glmnet.R |only broom-0.4.3/broom/tests/testthat/test-ivreg.R |only broom-0.4.3/broom/tests/testthat/test-lm.R | 50 +++- broom-0.4.3/broom/tests/testthat/test-muhaz.R |only broom-0.4.3/broom/tests/testthat/test-speedlm.R |only broom-0.4.3/broom/tests/testthat/test-survdiff.R |only broom-0.4.3/broom/tests/testthat/test-survival.R |only broom-0.4.3/broom/tests/testthat/test-tidy.R | 21 + broom-0.4.3/broom/tests/testthat/test-vectors.R |only 139 files changed, 640 insertions(+), 493 deletions(-)
Title: Analyzing Real-Time Quantitative PCR Data
Description: Calculates the amplification efficiency and curves from real-time
quantitative PCR (Polymerase Chain Reaction) data. Estimates the relative
expression from PCR data using the double delta CT and the standard curve
methods Livak & Schmittgen (2001) <doi:10.1006/meth.2001.1262>. Tests for
statistical significance using two-group tests and linear regression
Yuan et al. (2006) <doi: 10.1186/1471-2105-7-85>.
Author: Mahmoud Ahmed [aut, cre]
Maintainer: Mahmoud Ahmed <mahmoud.s.fahmy@students.kasralainy.edu.eg>
Diff between pcr versions 1.0.0 dated 2017-11-03 and 1.1.0 dated 2017-11-20
DESCRIPTION | 12 - MD5 | 45 +++-- NAMESPACE | 6 NEWS.md | 7 R/analyses_fun.R | 117 +++++++++++++- R/assessment_fun.R | 69 +++----- R/plotting_fun.R |only R/testing_fun.R | 296 ++++++++++++++++++++++++++++--------- README.md | 12 - inst/doc/qpcr_analysis.R | 62 +++++-- inst/doc/qpcr_analysis.Rmd | 162 +++++++++++--------- inst/doc/qpcr_analysis.pdf |binary man/pcr_analyze.Rd | 32 +++- man/pcr_assess.Rd | 13 + man/pcr_curve.Rd | 20 ++ man/pcr_dct.Rd | 25 +++ man/pcr_ddct.Rd | 20 ++ man/pcr_lm.Rd |only man/pcr_test.Rd | 16 -- man/pcr_ttest.Rd |only man/pcr_wilcox.Rd |only tests/testthat/test_analyses_fun.R | 61 +++++++ tests/testthat/test_helper_fun.R | 2 tests/testthat/test_plotting_fun.R |only tests/testthat/test_testing_fun.R | 31 +++ vignettes/qpcr_analysis.Rmd | 162 +++++++++++--------- 26 files changed, 823 insertions(+), 347 deletions(-)
Title: Fast Access to Large ASCII Files
Description: Methods for fast access to large ASCII files. Currently the
following file formats are supported: comma separated format (CSV) and fixed
width format. It is assumed that the files are too large to fit into memory,
although the package can also be used to efficiently access files that do
fit into memory. Methods are provided to access and process files blockwise.
Furthermore, an opened file can be accessed as one would an ordinary
data.frame. The LaF vignette gives an overview of the functionality
provided.
Author: Jan van der Laan
Maintainer: Jan van der Laan <djvanderlaan@unrealizedtime.nl>
Diff between LaF versions 0.7.1 dated 2017-10-12 and 0.8.0 dated 2017-11-20
DESCRIPTION | 8 - MD5 | 68 ++++----- NEWS | 6 R/laf.R | 2 R/laf_column.R | 2 R/open.R | 26 ++- inst/doc/LaF-benchmark.pdf |binary inst/doc/LaF-manual.pdf |binary man/laf_open_csv.Rd | 5 man/laf_open_fwf.Rd | 11 + src/LaF.cpp | 10 + src/LaF.h | 6 src/column.cpp | 6 src/column.h | 4 src/csvreader.cpp | 5 src/doublecolumn.cpp | 6 src/doublecolumn.h | 3 src/file.cpp | 18 ++ src/file.h | 3 src/fwfreader.cpp | 21 ++ src/fwfreader.h | 3 src/init.cpp | 4 src/intcolumn.cpp | 6 src/intcolumn.h | 3 src/reader.cpp | 17 +- src/reader.h | 4 tests/testthat/test_bom.R |only tests/testthat/test_conversion.R | 23 +-- tests/testthat/test_csv.R | 178 +++++++++++------------ tests/testthat/test_fwf.R | 186 ++++++++++++------------- tests/testthat/test_ignore_failed_conversion.R |only tests/testthat/test_levels.R | 56 +++---- tests/testthat/test_meta.R | 170 ++++++++++++---------- tests/testthat/test_skip.R | 74 ++++----- tests/testthat/test_stats.R | 7 tests/testthat/test_trim.R | 9 - 36 files changed, 530 insertions(+), 420 deletions(-)
Title: Utility Functions for 'spatstat'
Description: Contains utility functions for the 'spatstat' package
which may also be useful for other purposes.
Author: Adrian Baddeley [aut, cre],
Rolf Turner [aut],
Ege Rubak [aut]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.utils versions 1.7-1 dated 2017-09-23 and 1.8-0 dated 2017-11-20
DESCRIPTION | 10 +++---- MD5 | 20 +++++++------- R/resolve.defaults.R | 5 ++- R/tapplysum.R | 65 +++++++++++++++++++++++++++++++++------------- inst/doc/packagesizes.txt | 2 - man/tapplysum.Rd | 3 +- src/init.c | 9 +++--- src/ply.c | 8 ++++- src/ply.h | 33 +++++++++++++++++------ src/proto.h | 1 tests/numerical.R | 1 11 files changed, 108 insertions(+), 49 deletions(-)
More information about spatstat.utils at CRAN
Permanent link
Title: Representative and Adequate Prioritization Toolkit in R
Description: Biodiversity is in crisis. The overarching aim of conservation
is to preserve biodiversity patterns and processes. To this end, protected
areas are established to buffer species and preserve biodiversity processes.
But resources are limited and so protected areas must be cost-effective.
This package contains tools to generate plans for protected areas
(prioritizations), using spatially explicit targets for biodiversity
patterns and processes. To obtain solutions in a feasible amount of time,
this package uses the commercial 'Gurobi' software package (obtained from
<http://www.gurobi.com/>). Additionally, the 'rgurobi' package can also be
installed to provide extra functionality (obtained from
<http://github.com/jeffreyhanson/rgurobi>). For more information on using
this package, see Hanson et al. (2017) <doi:10.1111/2041-210X.12862>.
Author: Jeffrey O Hanson [aut, cre],
Jonathan R Rhodes [aut],
Hugh P Possingham [aut],
Richard A Fuller [aut]
Maintainer: Jeffrey O Hanson <jeffrey.hanson@uqconnect.edu.au>
Diff between raptr versions 0.0.5 dated 2017-08-10 and 0.1.1 dated 2017-11-20
raptr-0.0.5/raptr/inst/vign |only raptr-0.1.1/raptr/DESCRIPTION | 45 raptr-0.1.1/raptr/MD5 | 250 - raptr-0.1.1/raptr/NAMESPACE | 95 raptr-0.1.1/raptr/NEWS.md | 61 raptr-0.1.1/raptr/R/AttributeSpace.R | 119 raptr-0.1.1/raptr/R/AttributeSpaces.R | 122 raptr-0.1.1/raptr/R/DemandPoints.R | 218 - raptr-0.1.1/raptr/R/GurobiOpts.R | 290 - raptr-0.1.1/raptr/R/ManualOpts.R | 93 raptr-0.1.1/raptr/R/PlanningUnitPoints.R | 74 raptr-0.1.1/raptr/R/RapData.R | 1976 +++++----- raptr-0.1.1/raptr/R/RapReliableOpts.R | 160 raptr-0.1.1/raptr/R/RapResults.R | 391 + raptr-0.1.1/raptr/R/RapSolved.R | 1643 ++++---- raptr-0.1.1/raptr/R/RapUnreliableOpts.R | 90 raptr-0.1.1/raptr/R/RapUnsolved.R | 164 raptr-0.1.1/raptr/R/SpatialPolygons2PolySet.R | 15 raptr-0.1.1/raptr/R/calcBoundaryData.R | 80 raptr-0.1.1/raptr/R/calcSpeciesAverageInPus.R | 87 raptr-0.1.1/raptr/R/data.R | 92 raptr-0.1.1/raptr/R/dependencies.R | 113 raptr-0.1.1/raptr/R/generics.R | 978 +++- raptr-0.1.1/raptr/R/misc.R | 353 + raptr-0.1.1/raptr/R/rap.R | 115 raptr-0.1.1/raptr/R/raptr-internal.R | 1578 ++++--- raptr-0.1.1/raptr/R/raptr.R | 49 raptr-0.1.1/raptr/R/rrap.proportion.held.R | 86 raptr-0.1.1/raptr/R/sim.pus.R | 79 raptr-0.1.1/raptr/R/sim.space.R | 43 raptr-0.1.1/raptr/R/sim.species.R | 49 raptr-0.1.1/raptr/R/urap.proportion.held.R | 44 raptr-0.1.1/raptr/R/zzz.R | 21 raptr-0.1.1/raptr/README.md | 88 raptr-0.1.1/raptr/build/vignette.rds |binary raptr-0.1.1/raptr/inst/CITATION |only raptr-0.1.1/raptr/inst/doc/raptr.Rmd | 760 +++ raptr-0.1.1/raptr/inst/doc/raptr.html | 1624 +++++++- raptr-0.1.1/raptr/man/AttributeSpace-class.Rd | 13 raptr-0.1.1/raptr/man/AttributeSpace.Rd | 27 raptr-0.1.1/raptr/man/AttributeSpaces-class.Rd | 10 raptr-0.1.1/raptr/man/AttributeSpaces.Rd | 41 raptr-0.1.1/raptr/man/DemandPoints-class.Rd | 3 raptr-0.1.1/raptr/man/DemandPoints.Rd | 15 raptr-0.1.1/raptr/man/GurobiOpts-class.Rd | 24 raptr-0.1.1/raptr/man/GurobiOpts.Rd | 31 raptr-0.1.1/raptr/man/ManualOpts-class.Rd | 4 raptr-0.1.1/raptr/man/ManualOpts.Rd | 6 raptr-0.1.1/raptr/man/PlanningUnitPoints-class.Rd | 4 raptr-0.1.1/raptr/man/PlanningUnitPoints.Rd | 9 raptr-0.1.1/raptr/man/PolySet-class.Rd | 1 raptr-0.1.1/raptr/man/RapData-class.Rd | 29 raptr-0.1.1/raptr/man/RapData.Rd | 122 raptr-0.1.1/raptr/man/RapOpts-class.Rd | 4 raptr-0.1.1/raptr/man/RapReliableOpts-class.Rd | 15 raptr-0.1.1/raptr/man/RapReliableOpts.Rd | 9 raptr-0.1.1/raptr/man/RapResults-class.Rd | 59 raptr-0.1.1/raptr/man/RapResults.Rd | 63 raptr-0.1.1/raptr/man/RapSolved-class.Rd | 14 raptr-0.1.1/raptr/man/RapSolved.Rd | 3 raptr-0.1.1/raptr/man/RapUnreliableOpts-class.Rd | 7 raptr-0.1.1/raptr/man/RapUnreliableOpts.Rd | 3 raptr-0.1.1/raptr/man/RapUnsolved-class.Rd | 7 raptr-0.1.1/raptr/man/RapUnsolved.Rd | 16 raptr-0.1.1/raptr/man/SolverOpts-class.Rd | 1 raptr-0.1.1/raptr/man/SpatialPolygons2PolySet.Rd | 21 raptr-0.1.1/raptr/man/amount.held.Rd | 20 raptr-0.1.1/raptr/man/amount.target.Rd | 14 raptr-0.1.1/raptr/man/as.list.Rd | 7 raptr-0.1.1/raptr/man/basemap.Rd | 10 raptr-0.1.1/raptr/man/blank.raster.Rd | 9 raptr-0.1.1/raptr/man/cache.Rd | 28 raptr-0.1.1/raptr/man/calcBoundaryData.Rd | 34 raptr-0.1.1/raptr/man/calcSpeciesAverageInPus.Rd | 41 raptr-0.1.1/raptr/man/casestudy_data.Rd | 32 raptr-0.1.1/raptr/man/dp.subset.Rd | 25 raptr-0.1.1/raptr/man/is.GurobiInstalled.Rd | 5 raptr-0.1.1/raptr/man/is.cached.Rd | 15 raptr-0.1.1/raptr/man/is.comparable.Rd | 9 raptr-0.1.1/raptr/man/is.gdalInstalled.Rd | 1 raptr-0.1.1/raptr/man/logging.file.Rd | 19 raptr-0.1.1/raptr/man/make.DemandPoints.Rd | 58 raptr-0.1.1/raptr/man/make.RapData.Rd | 57 raptr-0.1.1/raptr/man/maximum.targets.Rd | 13 raptr-0.1.1/raptr/man/names.Rd | 10 raptr-0.1.1/raptr/man/plot.Rd | 82 raptr-0.1.1/raptr/man/print.Rd | 32 raptr-0.1.1/raptr/man/prob.subset.Rd | 21 raptr-0.1.1/raptr/man/pu.subset.Rd | 19 raptr-0.1.1/raptr/man/randomPoints.Rd | 22 raptr-0.1.1/raptr/man/rap.Rd | 38 raptr-0.1.1/raptr/man/raptr.Rd | 49 raptr-0.1.1/raptr/man/rasterizeGDAL.Rd | 24 raptr-0.1.1/raptr/man/read.RapResults.Rd | 9 raptr-0.1.1/raptr/man/rrap.proportion.held.Rd | 21 raptr-0.1.1/raptr/man/score.Rd | 18 raptr-0.1.1/raptr/man/selections.Rd | 19 raptr-0.1.1/raptr/man/show.Rd | 40 raptr-0.1.1/raptr/man/sim.pus.Rd | 25 raptr-0.1.1/raptr/man/sim.space.Rd | 35 raptr-0.1.1/raptr/man/sim.species.Rd | 42 raptr-0.1.1/raptr/man/simulated_data.Rd | 47 raptr-0.1.1/raptr/man/solve.Rd | 38 raptr-0.1.1/raptr/man/space.held.Rd | 18 raptr-0.1.1/raptr/man/space.plot.Rd | 26 raptr-0.1.1/raptr/man/space.target.Rd | 19 raptr-0.1.1/raptr/man/spp.plot.Rd | 47 raptr-0.1.1/raptr/man/spp.subset.Rd | 17 raptr-0.1.1/raptr/man/summary.Rd | 50 raptr-0.1.1/raptr/man/update.Rd | 78 raptr-0.1.1/raptr/man/urap.proportion.held.Rd | 12 raptr-0.1.1/raptr/src/Makevars |only raptr-0.1.1/raptr/tests/testthat/functions.R | 471 +- raptr-0.1.1/raptr/tests/testthat/test-01-rapr-internal-test.R | 540 +- raptr-0.1.1/raptr/tests/testthat/test-02-misc.R | 100 raptr-0.1.1/raptr/tests/testthat/test-03-SolverOpts.R | 98 raptr-0.1.1/raptr/tests/testthat/test-04-RapOpts.R | 58 raptr-0.1.1/raptr/tests/testthat/test-05-simulate-data.R | 70 raptr-0.1.1/raptr/tests/testthat/test-06-PlanningUnitPoints.R | 18 raptr-0.1.1/raptr/tests/testthat/test-07-DemandPoints.R | 156 raptr-0.1.1/raptr/tests/testthat/test-08-AttributeSpace.R | 25 raptr-0.1.1/raptr/tests/testthat/test-09-AttributeSpaces.R | 41 raptr-0.1.1/raptr/tests/testthat/test-10-RapData.R | 545 +- raptr-0.1.1/raptr/tests/testthat/test-11-RapUnsolved.R | 967 ++-- raptr-0.1.1/raptr/tests/testthat/test-12-RapSolved.R | 296 - raptr-0.1.1/raptr/tests/testthat/test-13-rap.R | 234 - raptr-0.1.1/raptr/vignettes/raptr.Rmd | 760 +++ 127 files changed, 11516 insertions(+), 6724 deletions(-)
Title: Bridging the Gap Between Qualitative Data and Quantitative
Analysis
Description: Automates many of the tasks associated with quantitative discourse analysis of
transcripts containing discourse including frequency counts of sentence types,
words, sentences, turns of talk, syllables and other assorted analysis tasks. The
package provides parsing tools for preparing transcript data. Many functions enable
the user to aggregate data by any number of grouping variables, providing analysis
and seamless integration with other R packages that undertake higher level analysis
and visualization of text. This affords the user a more efficient and targeted
analysis. 'qdap' is designed for transcript analysis, however, many functions are
applicable to other areas of Text Mining/ Natural Language Processing.
Author: Bryan Goodrich [ctb],
Dason Kurkiewicz [ctb],
Tyler Rinker [aut, cre]
Maintainer: Tyler Rinker <tyler.rinker@gmail.com>
Diff between qdap versions 2.2.8 dated 2017-09-05 and 2.2.9 dated 2017-11-20
DESCRIPTION | 34 ++++----- MD5 | 72 +++++++++---------- NEWS | 6 - R/as.tdm.R | 79 +++++++++------------ R/replace_number.R | 2 R/wfm.R | 4 - build/vignette.rds |binary data/DATA.SPLIT.rda |binary data/DATA.rda |binary data/DATA2.rda |binary data/env.syl.rda |binary data/hamlet.rda |binary data/mraja1.rda |binary data/mraja1spl.rda |binary data/pres_debate_raw2012.rda |binary data/pres_debates2012.rda |binary data/raj.act.1.rda |binary data/raj.act.1POS.rda |binary data/raj.act.2.rda |binary data/raj.act.3.rda |binary data/raj.act.4.rda |binary data/raj.act.5.rda |binary data/raj.demographics.rda |binary data/raj.rda |binary data/rajPOS.rda |binary data/rajSPLIT.rda |binary data/raw.time.span.rda |binary data/sample.time.span.rda |binary inst/CITATION | 4 - inst/doc/cleaning_and_debugging.pdf |binary inst/doc/tm_package_compatibility.R | 14 ++- inst/doc/tm_package_compatibility.Rnw | 14 ++- inst/doc/tm_package_compatibility.pdf |binary man/as.tdm.Rd | 2 tests/testthat/test-as.tdm.R | 4 - tests/testthat/test-wfm.R | 121 ++++++++++++++++----------------- vignettes/tm_package_compatibility.Rnw | 14 ++- 37 files changed, 179 insertions(+), 191 deletions(-)
Title: Elo Ratings
Description: A flexible framework for calculating Elo ratings and resulting
rankings of any two-team-per-matchup system (chess, sports leagues, 'Go',
etc.). This implementation is capable of evaluating a variety of matchups,
Elo rating updates, and win probabilities, all based on the basic Elo
rating system.
Author: Ethan Heinzen [aut, cre]
Maintainer: Ethan Heinzen <heinzen.ethan@mayo.edu>
Diff between elo versions 0.1.2 dated 2017-08-16 and 1.0.0 dated 2017-11-20
elo-0.1.2/elo/R/elo.functions.R |only elo-0.1.2/elo/man/elo.functions.Rd |only elo-0.1.2/elo/tests/testthat/test_elo.calc.R |only elo-1.0.0/elo/DESCRIPTION | 12 elo-1.0.0/elo/MD5 | 71 + elo-1.0.0/elo/NAMESPACE | 30 elo-1.0.0/elo/NEWS.md | 45 + elo-1.0.0/elo/R/RcppExports.R | 16 elo-1.0.0/elo/R/auc.elo.run.R |only elo-1.0.0/elo/R/elo.R | 15 elo-1.0.0/elo/R/elo.calc.R |only elo-1.0.0/elo/R/elo.model.frame.R |only elo-1.0.0/elo/R/elo.prob.R |only elo-1.0.0/elo/R/elo.run.R | 157 +-- elo-1.0.0/elo/R/elo.run.helpers.R | 67 + elo-1.0.0/elo/R/elo.update.R |only elo-1.0.0/elo/R/internal.functions.R | 158 +-- elo-1.0.0/elo/R/predict.elo.run.R |only elo-1.0.0/elo/R/score.R | 25 elo-1.0.0/elo/R/summary.elo.run.R |only elo-1.0.0/elo/R/tournament.R | 41 elo-1.0.0/elo/README.md | 3 elo-1.0.0/elo/data/tournament.RData |binary elo-1.0.0/elo/inst/doc/elo.R | 38 elo-1.0.0/elo/inst/doc/elo.Rmd | 80 + elo-1.0.0/elo/inst/doc/elo.html | 601 ++++++++++---- elo-1.0.0/elo/man/auc.elo.run.Rd |only elo-1.0.0/elo/man/elo.Rd | 12 elo-1.0.0/elo/man/elo.calc.Rd |only elo-1.0.0/elo/man/elo.model.frame.Rd |only elo-1.0.0/elo/man/elo.prob.Rd |only elo-1.0.0/elo/man/elo.run.Rd | 41 elo-1.0.0/elo/man/elo.run.helpers.Rd | 36 elo-1.0.0/elo/man/elo.update.Rd |only elo-1.0.0/elo/man/predict.elo.run.Rd |only elo-1.0.0/elo/man/score.Rd | 12 elo-1.0.0/elo/man/summary.elo.run.Rd |only elo-1.0.0/elo/man/tournament.Rd | 2 elo-1.0.0/elo/src/RcppExports.cpp | 54 + elo-1.0.0/elo/src/asMatrix.cpp |only elo-1.0.0/elo/src/elo.cpp | 120 +- elo-1.0.0/elo/src/finalElos.cpp |only elo-1.0.0/elo/tests/testthat/helper-data.R |only elo-1.0.0/elo/tests/testthat/test_elo.model.frame.R |only elo-1.0.0/elo/tests/testthat/test_elo.run.R |only elo-1.0.0/elo/tests/testthat/test_elo.run_regress_group.R |only elo-1.0.0/elo/tests/testthat/test_elo_functions.R |only elo-1.0.0/elo/tests/testthat/test_summary.elo.run.R |only elo-1.0.0/elo/vignettes/elo.Rmd | 80 + 49 files changed, 1166 insertions(+), 550 deletions(-)
Title: Manage Massive Matrices with Shared Memory and Memory-Mapped
Files
Description: Create, store, access, and manipulate massive matrices.
Matrices are allocated to shared memory and may use memory-mapped
files. Packages 'biganalytics', 'bigtabulate', 'synchronicity', and
'bigalgebra' provide advanced functionality.
Author: Michael J. Kane <kaneplusplus@gmail.com>, John W. Emerson
<jayemerson@gmail.com>, Peter Haverty <haverty.peter@gene.com>, and Charles
Determan Jr. <cdetermanjr@gmail.com>
Maintainer: Michael J. Kane <bigmemoryauthors@gmail.com>
Diff between bigmemory versions 4.5.27 dated 2017-11-08 and 4.5.30 dated 2017-11-20
DESCRIPTION | 10 +-- MD5 | 12 ++-- NEWS | 6 ++ R/bigmemory.R | 98 ++++++++++++++++++++++++++++++++------- inst/doc/Overview.pdf |binary man/extract-methods.Rd | 27 ++++++++++ tests/testthat/test_assignment.R | 73 +++++++++++++++++++++++++++++ 7 files changed, 199 insertions(+), 27 deletions(-)
Title: Import Articles from 'Factiva' Using the 'tm' Text Mining
Framework
Description: Provides a 'tm' Source to create corpora from
articles exported from the Dow Jones 'Factiva' content provider as
XML or HTML files. It is able to read both text content and meta-data
information (including source, date, title, author, subject,
geographical coverage, company, industry, and various
provider-specific fields).
Author: Milan Bouchet-Valat [aut, cre],
Grigorij Ljubownikow [ctb]
Maintainer: Milan Bouchet-Valat <nalimilan@club.fr>
Diff between tm.plugin.factiva versions 1.6 dated 2017-02-08 and 1.7 dated 2017-11-20
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ NAMESPACE | 3 ++- NEWS | 3 +++ R/FactivaSource.R | 19 ++++++++----------- R/readFactivaHTML.R | 19 +++---------------- R/readFactivaXML.R | 48 ++++++++++++++++++++++++------------------------ 7 files changed, 51 insertions(+), 63 deletions(-)
More information about tm.plugin.factiva at CRAN
Permanent link
Title: Accesses Air Quality Data from the Open Data Platform OpenAQ
Description: Allows access to air quality data from the API of the OpenAQ
platform <https://docs.openaq.org/>, with the different services the API offers
(getting measurements for a given query, getting latest measurements, getting
lists of available countries/cities/locations).
Author: Maëlle Salmon [aut, cre],
Andrew MacDonald [ctb] (Andrew MacDonald reviewed the package for
rOpenSci, see https://github.com/ropensci/onboarding/issues/24),
Andy Teucher [ctb] (Andy Teucher reviewed the package for rOpenSci, see
https://github.com/ropensci/onboarding/issues/24),
Mikayla Murphy [ctb]
Maintainer: Maëlle Salmon <maelle.salmon@yahoo.se>
Diff between ropenaq versions 0.2.2 dated 2017-08-01 and 0.2.4 dated 2017-11-20
DESCRIPTION | 6 MD5 | 62 +- NEWS.md | 12 R/cities.R | 122 ++-- R/countries.R | 92 +-- R/latest.R | 250 +++++----- R/locations.R | 222 ++++---- R/measurements.R | 2 R/utils.R | 15 build/vignette.rds |binary inst/doc/Ropenaq-vignette.Rmd | 27 - inst/doc/Ropenaq-vignette.html | 27 - inst/doc/graphics_of_pm_25_concentrations_in_several_countries.Rmd | 140 ++--- inst/doc/graphics_of_pm_25_concentrations_in_several_countries.html | 4 inst/doc/mapping_openaq_monitors.Rmd | 150 +++--- inst/doc/mapping_openaq_monitors.html | 4 inst/doc/using_openair_package_with_openaq_data.R | 36 - inst/doc/using_openair_package_with_openaq_data.Rmd | 13 inst/doc/using_openair_package_with_openaq_data.html | 16 man/aq_measurements.Rd | 2 tests/testthat.R | 8 tests/testthat/test-async.R | 18 tests/testthat/test-buildQueries.R | 122 ++-- tests/testthat/test-cities.R | 56 +- tests/testthat/test-countries.R | 52 +- tests/testthat/test-latest.R | 6 tests/testthat/test-locations.R | 72 +- tests/testthat/test-measurements.R | 106 ++-- vignettes/Ropenaq-vignette.Rmd | 27 - vignettes/graphics_of_pm_25_concentrations_in_several_countries.Rmd | 140 ++--- vignettes/mapping_openaq_monitors.Rmd | 150 +++--- vignettes/using_openair_package_with_openaq_data.Rmd | 13 32 files changed, 981 insertions(+), 991 deletions(-)
Title: Parallel Ultra-Rapid p-Value Computation for Linear Regression
Interaction Terms
Description: Computes p-values for the interaction term in a very large number of linear regression models.
Author: Sophie Molnos [aut, cre]
Maintainer: Sophie Molnos <somolnos@gmail.com>
Diff between pulver versions 0.1.0 dated 2017-07-25 and 0.1.1 dated 2017-11-20
DESCRIPTION | 6 +++--- MD5 | 25 +++++++++++++------------ R/pulver.R | 25 ++++++++++++++++++++----- build/vignette.rds |binary inst/CITATION |only inst/doc/pulver.R | 6 +----- inst/doc/pulver.Rmd | 7 +------ inst/doc/pulver.html | 28 +++------------------------- man/pulverize.Rd | 6 +++--- man/read_databel.Rd | 2 +- man/write_databel.Rd | 2 +- tests/testthat/test-pulver.R | 16 ++++++++++++++++ tests/testthat/testing.R | 4 ++-- vignettes/pulver.Rmd | 7 +------ 14 files changed, 65 insertions(+), 69 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-11-05 1.1.2
2014-07-23 1.1.0