Title: Meta-Analysis of Medians
Description: Implements several methods to meta-analyze one-group or two-group
studies that report the median of the outcome. In the one-group context,
the methods of McGrath et al. (2018a) <doi:10.1002/sim.8013> estimate
the pooled median. In the two-group context, the methods of McGrath et al.
(2018b) <arXiv:1809.01278> estimate the pooled raw difference of medians
across groups.
Author: Sean McGrath [aut, cre] (<https://orcid.org/0000-0002-7281-3516>),
XiaoFei Zhao [aut],
Russell Steele [aut],
Andrea Benedetti [aut] (<https://orcid.org/0000-0002-8314-9497>)
Maintainer: Sean McGrath <sean.mcgrath@mail.mcgill.ca>
Diff between metamedian versions 0.1.1 dated 2018-11-23 and 0.1.2 dated 2019-02-10
DESCRIPTION | 22 ++++++++++++---------- MD5 | 15 ++++++++------- NEWS.md | 8 +++++++- R/print.qe.fit.R | 8 +++++++- R/qe.fit.R | 11 +++++++++++ R/qe.group.level.R | 15 +++++++++------ man/metamedian-deprecated.Rd |only man/print.qe.fit.Rd | 6 +++++- man/qe.fit.Rd | 7 +++++++ 9 files changed, 66 insertions(+), 26 deletions(-)
Title: Utilities for the Simulation and Analysis of Random Fields
Description: Various utilities are provided that might be used in spatial statistics and elsewhere. It delivers a method for solving linear equations that checks the sparsity of the matrix before any algorithm is used. Furthermore, it includes the Struve functions.
Author: Martin Schlather [aut, cre], Reinhard Furrer [ctb], Martin Kroll [ctb]
Maintainer: Martin Schlather <schlather@math.uni-mannheim.de>
Diff between RandomFieldsUtils versions 0.3.25 dated 2017-04-14 and 0.5 dated 2019-02-10
RandomFieldsUtils-0.3.25/RandomFieldsUtils/inst/include/init_RandomFieldsUtils.h |only RandomFieldsUtils-0.3.25/RandomFieldsUtils/src/diffusion.cc |only RandomFieldsUtils-0.3.25/RandomFieldsUtils/src/init_RandomFieldsUtils.c |only RandomFieldsUtils-0.3.25/RandomFieldsUtils/src/init_RandomFieldsUtils.h |only RandomFieldsUtils-0.5/RandomFieldsUtils/DESCRIPTION | 10 RandomFieldsUtils-0.5/RandomFieldsUtils/MD5 | 129 RandomFieldsUtils-0.5/RandomFieldsUtils/NAMESPACE | 13 RandomFieldsUtils-0.5/RandomFieldsUtils/R/RFoptions.R | 29 RandomFieldsUtils-0.5/RandomFieldsUtils/R/aaa_auto.R |only RandomFieldsUtils-0.5/RandomFieldsUtils/R/internal_use.R |only RandomFieldsUtils-0.5/RandomFieldsUtils/R/utils.R | 38 RandomFieldsUtils-0.5/RandomFieldsUtils/R/zzz.R | 8 RandomFieldsUtils-0.5/RandomFieldsUtils/inst/include/AutoRandomFieldsUtils.h |only RandomFieldsUtils-0.5/RandomFieldsUtils/inst/include/AutoRandomFieldsUtilsLocal.h |only RandomFieldsUtils-0.5/RandomFieldsUtils/inst/include/Basic_utils.h | 75 RandomFieldsUtils-0.5/RandomFieldsUtils/inst/include/General_utils.h | 67 RandomFieldsUtils-0.5/RandomFieldsUtils/inst/include/Options_utils.h | 60 RandomFieldsUtils-0.5/RandomFieldsUtils/inst/include/Solve.h | 29 RandomFieldsUtils-0.5/RandomFieldsUtils/inst/include/Utils.h |only RandomFieldsUtils-0.5/RandomFieldsUtils/inst/include/errors_messages.h | 256 + RandomFieldsUtils-0.5/RandomFieldsUtils/inst/include/intrinsics.h |only RandomFieldsUtils-0.5/RandomFieldsUtils/inst/include/kleinkram.h | 23 RandomFieldsUtils-0.5/RandomFieldsUtils/inst/include/linear.h |only RandomFieldsUtils-0.5/RandomFieldsUtils/inst/include/local1.h |only RandomFieldsUtils-0.5/RandomFieldsUtils/inst/include/local2.h |only RandomFieldsUtils-0.5/RandomFieldsUtils/inst/include/local3.h |only RandomFieldsUtils-0.5/RandomFieldsUtils/inst/include/scalar.h |only RandomFieldsUtils-0.5/RandomFieldsUtils/inst/include/win_linux_aux.h | 2 RandomFieldsUtils-0.5/RandomFieldsUtils/inst/include/zzz_RandomFieldsUtils.h |only RandomFieldsUtils-0.5/RandomFieldsUtils/inst/include/zzz_calls.h |only RandomFieldsUtils-0.5/RandomFieldsUtils/man/Print.Rd | 3 RandomFieldsUtils-0.5/RandomFieldsUtils/man/RFoptions.Rd | 184 + RandomFieldsUtils-0.5/RandomFieldsUtils/man/Struve.Rd | 4 RandomFieldsUtils-0.5/RandomFieldsUtils/man/cholPosDef.Rd | 72 RandomFieldsUtils-0.5/RandomFieldsUtils/man/confirm.Rd |only RandomFieldsUtils-0.5/RandomFieldsUtils/man/dbinorm.Rd |only RandomFieldsUtils-0.5/RandomFieldsUtils/man/fileexists.Rd | 3 RandomFieldsUtils-0.5/RandomFieldsUtils/man/gauss.Rd | 5 RandomFieldsUtils-0.5/RandomFieldsUtils/man/hostname.Rd | 12 RandomFieldsUtils-0.5/RandomFieldsUtils/man/macros |only RandomFieldsUtils-0.5/RandomFieldsUtils/man/matern.Rd | 7 RandomFieldsUtils-0.5/RandomFieldsUtils/man/nonstwm.Rd | 3 RandomFieldsUtils-0.5/RandomFieldsUtils/man/orderx.Rd | 3 RandomFieldsUtils-0.5/RandomFieldsUtils/man/rowMeansx.Rd |only RandomFieldsUtils-0.5/RandomFieldsUtils/man/sleep.Rd | 3 RandomFieldsUtils-0.5/RandomFieldsUtils/man/solvePosDef.Rd | 73 RandomFieldsUtils-0.5/RandomFieldsUtils/src/AutoRandomFieldsUtils.h |only RandomFieldsUtils-0.5/RandomFieldsUtils/src/AutoRandomFieldsUtilsLocal.h |only RandomFieldsUtils-0.5/RandomFieldsUtils/src/Basic_utils.h | 75 RandomFieldsUtils-0.5/RandomFieldsUtils/src/General_utils.h | 67 RandomFieldsUtils-0.5/RandomFieldsUtils/src/Makevars | 8 RandomFieldsUtils-0.5/RandomFieldsUtils/src/Options_utils.h | 60 RandomFieldsUtils-0.5/RandomFieldsUtils/src/RFoptions.cc | 285 + RandomFieldsUtils-0.5/RandomFieldsUtils/src/RandomFieldsUtils.h | 28 RandomFieldsUtils-0.5/RandomFieldsUtils/src/Solve.h | 29 RandomFieldsUtils-0.5/RandomFieldsUtils/src/Utils.h |only RandomFieldsUtils-0.5/RandomFieldsUtils/src/bckslvmodified.f | 21 RandomFieldsUtils-0.5/RandomFieldsUtils/src/brdomain.cc | 16 RandomFieldsUtils-0.5/RandomFieldsUtils/src/cholmodified.f | 21 RandomFieldsUtils-0.5/RandomFieldsUtils/src/errors_messages.h | 256 + RandomFieldsUtils-0.5/RandomFieldsUtils/src/intrinsics.h |only RandomFieldsUtils-0.5/RandomFieldsUtils/src/kleinkram.cc | 296 + RandomFieldsUtils-0.5/RandomFieldsUtils/src/kleinkram.h | 23 RandomFieldsUtils-0.5/RandomFieldsUtils/src/linear.cc |only RandomFieldsUtils-0.5/RandomFieldsUtils/src/linear.h |only RandomFieldsUtils-0.5/RandomFieldsUtils/src/maths.cc | 107 RandomFieldsUtils-0.5/RandomFieldsUtils/src/options.cc | 197 - RandomFieldsUtils-0.5/RandomFieldsUtils/src/own.cc | 41 RandomFieldsUtils-0.5/RandomFieldsUtils/src/own.h | 8 RandomFieldsUtils-0.5/RandomFieldsUtils/src/scalar.cc | 483 +-- RandomFieldsUtils-0.5/RandomFieldsUtils/src/scalar.h |only RandomFieldsUtils-0.5/RandomFieldsUtils/src/solve.cc | 1501 ++++++---- RandomFieldsUtils-0.5/RandomFieldsUtils/src/sort.cc | 175 - RandomFieldsUtils-0.5/RandomFieldsUtils/src/spamown.f | 21 RandomFieldsUtils-0.5/RandomFieldsUtils/src/utils.cc | 419 ++ RandomFieldsUtils-0.5/RandomFieldsUtils/src/win_linux_aux.cc | 8 RandomFieldsUtils-0.5/RandomFieldsUtils/src/win_linux_aux.h | 2 RandomFieldsUtils-0.5/RandomFieldsUtils/src/zzz.c |only RandomFieldsUtils-0.5/RandomFieldsUtils/src/zzz_RandomFieldsUtils.h |only RandomFieldsUtils-0.5/RandomFieldsUtils/src/zzz_calls.h |only 80 files changed, 3556 insertions(+), 1702 deletions(-)
More information about RandomFieldsUtils at CRAN
Permanent link
Title: Estimation of Optimal Portfolio Weights by Combining Simple
Portfolio Strategies
Description: Estimation of optimal portfolio weights as combination of simple portfolio strategies, like the tangency, global minimum variance (GMV) or naive (1/N) portfolio. It is based on a utility maximizing 8-fund rule. Popular special cases like the Kan-Zhou(2007) 2-fund and 3-fund rule or the Tu-Zhou(2011) estimator are nested.
Author: Florian Ziel
Maintainer: Florian Ziel <florian.ziel@uni-due.de>
Diff between CombinePortfolio versions 0.3 dated 2016-06-13 and 0.4 dated 2019-02-10
CHANGELOG | 10 +++++++--- DESCRIPTION | 12 ++++++------ MD5 | 10 +++++----- man/CombinePortfolio-package.Rd | 2 +- man/combination.rule.rd | 2 +- man/combination.rule.restriction.rd | 2 +- 6 files changed, 21 insertions(+), 17 deletions(-)
More information about CombinePortfolio at CRAN
Permanent link
Title: Tools for Making and Combining Functions
Description: Provides a suite of function-building tools centered around a
(forward) composition operator, %>>>%, which extends the semantics of the
'magrittr' %>% operator and supports 'tidyverse' quasiquotation. It enables
you to construct composite functions that can be inspected and transformed as
list-like objects. In conjunction with %>>>%, a compact function constructor,
fn(), and a function that performs partial application, partial(), are also
provided. Both support quasiquotation.
Author: Eugene Ha [aut, cre]
Maintainer: Eugene Ha <eha@posteo.de>
Diff between gestalt versions 0.1.5 dated 2018-11-06 and 0.1.6 dated 2019-02-10
DESCRIPTION | 15 +++++++-------- MD5 | 19 +++++++++++-------- NEWS |only R/closure.R |only R/compose.R | 2 +- R/utils.R | 8 +------- build/vignette.rds |binary man/compose.Rd | 2 +- tests/testthat/test-closure.R |only tests/testthat/test-compose.R | 2 +- tests/testthat/test-partial.R | 6 +++--- tests/testthat/test-print.R | 4 ++-- 12 files changed, 27 insertions(+), 31 deletions(-)
Title: 'eXtra' / 'eXperimental' Functionality for Robust Statistics
Description: Robustness -- 'eXperimental', 'eXtraneous', or 'eXtraordinary'
Functionality for Robust Statistics. In other words, methods which are not
yet well established, often related to methods in package 'robustbase'.
Author: Werner Stahel,
Martin Maechler [aut, cre] (<https://orcid.org/0000-0002-8685-9910>)
and potentially others
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between robustX versions 1.2-2 dated 2017-02-02 and 1.2-3 dated 2019-02-10
ChangeLog | 7 + DESCRIPTION | 17 +++- MD5 | 21 +++-- NAMESPACE | 3 R/BACON-alg.R | 173 +++++++++++++++++++++---------------------------- build |only man/BACON.Rd | 60 ++++++++++------ man/L1median.Rd | 12 ++- man/covNNC.Rd | 2 man/mvBACON.Rd | 17 +++- man/robustX-package.Rd | 31 +++----- tests/cov-ex.R | 70 ++++++++++++++++++- 12 files changed, 245 insertions(+), 168 deletions(-)
Title: Credit Risk Scorecard
Description: The `scorecard` package makes the development of credit risk scorecard
easier and efficient by providing functions for some common tasks,
such as data partition, variable selection, woe binning, scorecard scaling,
performance evaluation and report generation. These functions can also used
in the development of machine learning models.
The references including:
1. Refaat, M. (2011, ISBN: 9781447511199). Credit Risk Scorecard:
Development and Implementation Using SAS.
2. Siddiqi, N. (2006, ISBN: 9780471754510). Credit risk scorecards.
Developing and Implementing Intelligent Credit Scoring.
Author: Shichen Xie [aut, cre]
Maintainer: Shichen Xie <xie@shichen.name>
Diff between scorecard versions 0.2.1 dated 2019-01-14 and 0.2.3 dated 2019-02-10
DESCRIPTION | 6 - MD5 | 58 ++++++------- NEWS.md | 11 ++ R/condition_fun.R | 24 ++--- R/info_value.R | 4 R/one_hot.R | 6 - R/perf.R | 124 +++++++++++++++++----------- R/report.R | 18 ++-- R/scorecard.R | 18 ++-- R/split_df.R | 6 - R/var_filter.R | 11 ++ R/vif.R | 2 R/woebin.R | 224 ++++++++++++++++++++++++++++++++++++++------------- inst/doc/demo.html | 4 man/gains_table.Rd | 8 - man/iv.Rd | 2 man/one_hot.Rd | 2 man/perf_eva.Rd | 9 -- man/perf_psi.Rd | 10 +- man/report.Rd | 14 ++- man/scorecard.Rd | 2 man/scorecard2.Rd | 2 man/scorecard_ply.Rd | 10 +- man/split_df.Rd | 2 man/var_filter.Rd | 9 +- man/vif.Rd | 2 man/woebin.Rd | 31 ++++--- man/woebin_adj.Rd | 10 +- man/woebin_plot.Rd | 2 man/woebin_ply.Rd | 4 30 files changed, 412 insertions(+), 223 deletions(-)
Title: A Package for Statistical Analysis in Epidemiology
Description: Functions for demographic and epidemiological analysis in
the Lexis diagram, i.e. register and cohort follow-up data, in
particular representation, manipulation and simulation of multistate
data - the Lexis suite of functions, which includes interfaces to
'mstate', 'etm' and 'cmprsk' packages.
Also contains functions for Age-Period-Cohort and Lee-Carter
modeling and a function for interval censored data and some useful
functions for tabulation and plotting, as well as a number of
epidemiological data sets.
Author: Bendix Carstensen [aut, cre],
Martyn Plummer [aut],
Esa Laara [ctb],
Michael Hills [ctb]
Maintainer: Bendix Carstensen <b@bxc.dk>
Diff between Epi versions 2.32 dated 2018-08-23 and 2.34 dated 2019-02-10
CHANGES | 27 + DESCRIPTION | 10 MD5 | 98 ++--- NAMESPACE | 6 R/apc.fit.R | 77 ++-- R/bootLexis.R | 5 R/boxes.MS.R | 8 R/ci.lin.R | 49 -- R/cutLexis.R | 2 R/gen.exp.R | 12 R/lexis.R | 28 + R/mod.Lexis.R | 219 ++++++++---- data/DMepi.rda |binary data/pr.rda |only inst/doc/simLexis.R | 106 ++++-- inst/doc/simLexis.pdf |binary inst/doc/yll.pdf |binary man/DMepi.Rd | 17 man/apc.fit.Rd | 22 - man/bootLexis.Rd | 13 man/ci.lin.Rd | 38 +- man/detrend.Rd | 23 - man/diet.Rd | 6 man/effx.Rd | 2 man/in.span.Rd | 23 - man/mcutLexis.Rd | 6 man/mod.Lexis.Rd | 129 ++++--- man/poisreg.Rd | 4 man/pr.Rd |only man/simLexis.Rd | 10 man/start.Lexis.Rd | 56 ++- man/subset.Lexis.Rd | 2 man/transform.Lexis.Rd | 19 - vignettes/simLexis-boxes.pdf |binary vignettes/simLexis-comp-0.pdf |binary vignettes/simLexis-mort-int.pdf |binary vignettes/simLexis-pstate0.pdf |binary vignettes/simLexis-pstatex.pdf |binary vignettes/simLexis-pstatey.pdf |binary vignettes/simLexis.R | 106 ++++-- vignettes/simLexis.pdf |binary vignettes/simLexis.rnw | 57 ++- vignettes/simLexis.rwl | 87 ++-- vignettes/simLexis.tex | 697 ++++++++++++++++++++++++++-------------- vignettes/yll-imm.pdf |binary vignettes/yll-states.pdf |binary vignettes/yll-sus.pdf |binary vignettes/yll-tot.pdf |binary vignettes/yll.pdf |binary vignettes/yll.rwl | 10 vignettes/yll.tex | 316 ++++++++++-------- 51 files changed, 1466 insertions(+), 824 deletions(-)
Title: Network Analysis and Visualization
Description: Routines for simple graphs and network analysis. It can
handle large graphs very well and provides functions for generating random
and regular graphs, graph visualization, centrality methods and much more.
Author: See AUTHORS file.
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between igraph versions 1.2.2 dated 2018-07-27 and 1.2.3 dated 2019-02-10
DESCRIPTION | 12 MD5 | 440 ++++++++++++++++++------------------ inst/NEWS.md | 6 man/E.Rd | 1 man/V.Rd | 1 man/add_edges.Rd | 1 man/add_layout_.Rd | 1 man/add_vertices.Rd | 1 man/adjacent_vertices.Rd | 1 man/all_simple_paths.Rd | 4 man/are_adjacent.Rd | 1 man/arpack.Rd | 1 man/as.directed.Rd | 1 man/as_adjacency_matrix.Rd | 5 man/assortativity.Rd | 2 man/betweenness.Rd | 5 man/bfs.Rd | 7 man/bipartite_projection.Rd | 3 man/c.igraph.es.Rd | 1 man/c.igraph.vs.Rd | 1 man/categorical_pal.Rd | 1 man/centr_betw.Rd | 4 man/centr_betw_tmax.Rd | 1 man/centr_clo.Rd | 4 man/centr_clo_tmax.Rd | 1 man/centr_degree.Rd | 5 man/centr_degree_tmax.Rd | 5 man/centr_eigen.Rd | 1 man/centr_eigen_tmax.Rd | 1 man/centralize.Rd | 1 man/cliques.Rd | 4 man/closeness.Rd | 5 man/cluster_edge_betweenness.Rd | 6 man/cluster_infomap.Rd | 4 man/cluster_label_prop.Rd | 3 man/cluster_leading_eigen.Rd | 6 man/cluster_spinglass.Rd | 6 man/cohesive_blocks.Rd | 20 - man/communities.Rd | 22 - man/component_wise.Rd | 2 man/components.Rd | 3 man/consensus_tree.Rd | 1 man/contract.Rd | 3 man/count_isomorphisms.Rd | 1 man/count_motifs.Rd | 1 man/count_subgraph_isomorphisms.Rd | 4 man/degree.Rd | 1 man/delete_edge_attr.Rd | 1 man/delete_edges.Rd | 1 man/delete_graph_attr.Rd | 1 man/delete_vertex_attr.Rd | 1 man/delete_vertices.Rd | 1 man/dfs.Rd | 6 man/difference.igraph.es.Rd | 1 man/difference.igraph.vs.Rd | 1 man/disjoint_union.Rd | 1 man/distances.Rd | 12 man/diverging_pal.Rd | 1 man/each_edge.Rd | 1 man/eccentricity.Rd | 3 man/edge.Rd | 1 man/edge_attr-set.Rd | 1 man/edge_attr.Rd | 1 man/edge_attr_names.Rd | 1 man/ego.Rd | 9 man/eigen_centrality.Rd | 4 man/ends.Rd | 1 man/fit_hrg.Rd | 1 man/get.edge.ids.Rd | 4 man/gorder.Rd | 1 man/graph_attr-set.Rd | 1 man/graph_attr.Rd | 1 man/graph_attr_names.Rd | 1 man/graph_from_adjacency_matrix.Rd | 4 man/graph_from_atlas.Rd | 5 man/graph_from_data_frame.Rd | 1 man/graph_from_edgelist.Rd | 5 man/graph_from_graphdb.Rd | 4 man/graph_from_incidence_matrix.Rd | 6 man/graph_from_isomorphism_class.Rd | 1 man/graph_from_literal.Rd | 1 man/graphlet_basis.Rd | 5 man/gsize.Rd | 1 man/head_of.Rd | 1 man/hrg-methods.Rd | 1 man/hrg.Rd | 1 man/hrg_tree.Rd | 1 man/hub_score.Rd | 3 man/igraph-dollar.Rd | 2 man/igraph-es-attributes.Rd | 5 man/igraph-es-indexing.Rd | 2 man/igraph-es-indexing2.Rd | 2 man/igraph-minus.Rd | 1 man/igraph-vs-attributes.Rd | 6 man/igraph-vs-indexing.Rd | 2 man/igraph-vs-indexing2.Rd | 2 man/igraph_options.Rd | 2 man/incident.Rd | 1 man/incident_edges.Rd | 1 man/intersection.igraph.es.Rd | 1 man/intersection.igraph.vs.Rd | 1 man/is_degseq.Rd | 5 man/is_directed.Rd | 1 man/is_graphical.Rd | 5 man/is_printer_callback.Rd | 1 man/isomorphic.Rd | 8 man/isomorphism_class.Rd | 1 man/isomorphisms.Rd | 1 man/keeping_degseq.Rd | 1 man/layout_.Rd | 1 man/layout_as_bipartite.Rd | 1 man/layout_as_star.Rd | 1 man/layout_as_tree.Rd | 1 man/layout_in_circle.Rd | 1 man/layout_nicely.Rd | 1 man/layout_on_grid.Rd | 2 man/layout_on_sphere.Rd | 1 man/layout_randomly.Rd | 1 man/layout_with_dh.Rd | 1 man/layout_with_drl.Rd | 5 man/layout_with_fr.Rd | 6 man/layout_with_gem.Rd | 1 man/layout_with_graphopt.Rd | 7 man/layout_with_kk.Rd | 8 man/layout_with_lgl.Rd | 1 man/layout_with_mds.Rd | 4 man/layout_with_sugiyama.Rd | 4 man/local_scan.Rd | 5 man/make_bipartite_graph.Rd | 1 man/make_chordal_ring.Rd | 1 man/make_clusters.Rd | 4 man/make_empty_graph.Rd | 5 man/make_full_bipartite_graph.Rd | 4 man/make_full_citation_graph.Rd | 1 man/make_full_graph.Rd | 5 man/make_graph.Rd | 5 man/make_lattice.Rd | 5 man/make_ring.Rd | 1 man/make_star.Rd | 5 man/make_tree.Rd | 5 man/matching.Rd | 2 man/merge_coords.Rd | 2 man/motifs.Rd | 1 man/neighbors.Rd | 1 man/nexus.Rd | 6 man/norm_coords.Rd | 1 man/normalize.Rd | 6 man/page_rank.Rd | 7 man/path.Rd | 1 man/plot.igraph.Rd | 4 man/plot_dendrogram.communities.Rd | 5 man/plot_dendrogram.igraphHRG.Rd | 4 man/plus-.igraph.Rd | 1 man/power_centrality.Rd | 4 man/predict_edges.Rd | 1 man/print.igraph.Rd | 1 man/print.igraph.es.Rd | 1 man/print.igraph.vs.Rd | 1 man/print.igraphHRG.Rd | 5 man/print.igraphHRGConsensus.Rd | 1 man/printer_callback.Rd | 1 man/r_pal.Rd | 1 man/read_graph.Rd | 4 man/rev.igraph.es.Rd | 1 man/rev.igraph.vs.Rd | 1 man/rewire.Rd | 1 man/sample_bipartite.Rd | 4 man/sample_correlated_gnp.Rd | 3 man/sample_correlated_gnp_pair.Rd | 3 man/sample_dirichlet.Rd | 1 man/sample_fitness.Rd | 4 man/sample_fitness_pl.Rd | 5 man/sample_hrg.Rd | 1 man/sample_last_cit.Rd | 7 man/sample_motifs.Rd | 1 man/sample_pa.Rd | 3 man/sample_pa_age.Rd | 6 man/sample_pref.Rd | 10 man/sample_sbm.Rd | 3 man/sample_sphere_surface.Rd | 1 man/sample_sphere_volume.Rd | 1 man/sample_traits_callaway.Rd | 6 man/scan_stat.Rd | 1 man/scg.Rd | 5 man/scg_semi_proj.Rd | 3 man/sequential_pal.Rd | 1 man/set_edge_attr.Rd | 1 man/set_graph_attr.Rd | 1 man/set_vertex_attr.Rd | 1 man/similarity.Rd | 5 man/simplified.Rd | 1 man/simplify.Rd | 1 man/sir.Rd | 3 man/spectrum.Rd | 3 man/sub-.igraph.Rd | 1 man/sub-sub-.igraph.Rd | 5 man/subgraph.Rd | 2 man/subgraph_isomorphic.Rd | 8 man/subgraph_isomorphisms.Rd | 1 man/tail_of.Rd | 1 man/tkplot.Rd | 10 man/union.igraph.es.Rd | 1 man/union.igraph.vs.Rd | 1 man/unique.igraph.es.Rd | 1 man/unique.igraph.vs.Rd | 1 man/vertex.Rd | 1 man/vertex_attr-set.Rd | 1 man/vertex_attr.Rd | 1 man/vertex_attr_names.Rd | 1 man/vertex_connectivity.Rd | 3 man/with_edge_.Rd | 1 man/with_graph_.Rd | 1 man/with_igraph_opt.Rd | 1 man/with_vertex_.Rd | 1 man/without_attr.Rd | 1 man/without_loops.Rd | 1 man/without_multiples.Rd | 1 src/DensityGrid.cpp | 22 - src/DensityGrid_3d.cpp | 24 - tests/testthat/test_graphlets.R | 4 tests/testthat/test_layout.kk.R | 1 221 files changed, 590 insertions(+), 510 deletions(-)
Title: Simulation and Analysis of Contextual Multi-Armed Bandit
Policies
Description: Facilitates the simulation and evaluation of context-free
and contextual multi-Armed Bandit policies or algorithms to ease the
implementation, evaluation, and dissemination of both existing and
new bandit algorithms and policies.
Author: Robin van Emden [aut, cre] (<https://orcid.org/0000-0001-5820-8638>),
Maurits Kaptein [ctb] (<https://orcid.org/0000-0002-6316-7524>)
Maintainer: Robin van Emden <robinvanemden@gmail.com>
Diff between contextual versions 0.9.1 dated 2018-10-30 and 0.9.8 dated 2019-02-10
contextual-0.9.1/contextual/R/policy_cmab_bts_logit.R |only contextual-0.9.1/contextual/R/policy_cmab_epoch_greedy.R |only contextual-0.9.1/contextual/R/policy_cmab_epsilon_greedy.R |only contextual-0.9.1/contextual/R/policy_cmab_glmucb.R |only contextual-0.9.1/contextual/R/policy_cmab_linucb_disjoint.R |only contextual-0.9.1/contextual/R/policy_cmab_linucb_disjoint_optimized.R |only contextual-0.9.1/contextual/R/policy_cmab_linucb_general.R |only contextual-0.9.1/contextual/R/policy_cmab_linucb_hybrid.R |only contextual-0.9.1/contextual/R/policy_cmab_linucb_hybrid_optimized.R |only contextual-0.9.1/contextual/R/policy_cmab_ts.R |only contextual-0.9.1/contextual/R/policy_continuum_lif.R |only contextual-0.9.1/contextual/R/policy_mab_simplebts.R |only contextual-0.9.1/contextual/R/policy_mab_thompson_sampling.R |only contextual-0.9.1/contextual/demo/alt_par_backend_examples |only contextual-0.9.1/contextual/demo/demo_offline_cmab_alpha_linucb.R |only contextual-0.9.1/contextual/demo/replication_li_2010/demo_yahoo_cache |only contextual-0.9.1/contextual/demo/replication_package_jss_2018 |only contextual-0.9.1/contextual/inst/doc/contextual.R |only contextual-0.9.1/contextual/inst/doc/contextual.Rmd |only contextual-0.9.1/contextual/inst/doc/contextual.html |only contextual-0.9.1/contextual/inst/doc/posts.Rmd |only contextual-0.9.1/contextual/inst/doc/posts.html |only contextual-0.9.1/contextual/man/ContextualEpsilonGreedy.Rd |only contextual-0.9.1/contextual/man/ContextualThompsonSamplingPolicy.Rd |only contextual-0.9.1/contextual/man/GlmUCBPolicy.Rd |only contextual-0.9.1/contextual/man/SimpleBTSPolicy.Rd |only contextual-0.9.1/contextual/man/inv_logit.Rd |only contextual-0.9.1/contextual/tests/testthat/dinvgamma.rds |only contextual-0.9.1/contextual/tests/testthat/dinvgamma_log.rds |only contextual-0.9.1/contextual/tools |only contextual-0.9.1/contextual/vignettes/contextual-fig-1.png |only contextual-0.9.1/contextual/vignettes/contextual-fig-2.png |only contextual-0.9.1/contextual/vignettes/contextual.Rmd |only contextual-0.9.1/contextual/vignettes/contextual_cache |only contextual-0.9.1/contextual/vignettes/posts.Rmd |only contextual-0.9.8/contextual/DESCRIPTION | 14 contextual-0.9.8/contextual/MD5 | 507 ++++++---- contextual-0.9.8/contextual/NAMESPACE | 27 contextual-0.9.8/contextual/NEWS.md | 16 contextual-0.9.8/contextual/R/agent.R | 28 contextual-0.9.8/contextual/R/bandit.R | 7 contextual-0.9.8/contextual/R/bandit_basic_bernoulli.R | 7 contextual-0.9.8/contextual/R/bandit_basic_gaussian.R | 13 contextual-0.9.8/contextual/R/bandit_cmab_bernoulli.R | 9 contextual-0.9.8/contextual/R/bandit_cmab_binary.R | 13 contextual-0.9.8/contextual/R/bandit_cmab_hybrid.R | 17 contextual-0.9.8/contextual/R/bandit_cmab_linear.R | 18 contextual-0.9.8/contextual/R/bandit_cmab_logit.R | 10 contextual-0.9.8/contextual/R/bandit_cmab_precaching.R | 11 contextual-0.9.8/contextual/R/bandit_cmab_wheel.R | 21 contextual-0.9.8/contextual/R/bandit_continuum_function.R | 5 contextual-0.9.8/contextual/R/bandit_offline_bootstrapped_replay.R |only contextual-0.9.8/contextual/R/bandit_offline_direct_method.R |only contextual-0.9.8/contextual/R/bandit_offline_doubly_robust.R |only contextual-0.9.8/contextual/R/bandit_offline_propensity_weighting.R | 161 ++- contextual-0.9.8/contextual/R/bandit_offline_replay_evaluator.R | 187 +-- contextual-0.9.8/contextual/R/bandit_offline_replay_evaluator_lookup.R |only contextual-0.9.8/contextual/R/functions_generic.R | 45 contextual-0.9.8/contextual/R/functions_utility.R | 263 ++++- contextual-0.9.8/contextual/R/history.R | 241 ++-- contextual-0.9.8/contextual/R/plot.R | 187 +++ contextual-0.9.8/contextual/R/policy.R | 10 contextual-0.9.8/contextual/R/policy_cmab_lin_epoch_greedy.R |only contextual-0.9.8/contextual/R/policy_cmab_lin_epsilon_greedy.R |only contextual-0.9.8/contextual/R/policy_cmab_lin_ts_disjoint.R |only contextual-0.9.8/contextual/R/policy_cmab_lin_ucb_disjoint.R |only contextual-0.9.8/contextual/R/policy_cmab_lin_ucb_disjoint_optimized.R |only contextual-0.9.8/contextual/R/policy_cmab_lin_ucb_general.R |only contextual-0.9.8/contextual/R/policy_cmab_lin_ucb_hybrid.R |only contextual-0.9.8/contextual/R/policy_cmab_lin_ucb_hybrid_optimized.R |only contextual-0.9.8/contextual/R/policy_cmab_logit_ts_bootstrap.R |only contextual-0.9.8/contextual/R/policy_cmab_probit_ts.R |only contextual-0.9.8/contextual/R/policy_cont_lif.R |only contextual-0.9.8/contextual/R/policy_fixed.R |only contextual-0.9.8/contextual/R/policy_mab_epsilon_first.R | 49 contextual-0.9.8/contextual/R/policy_mab_epsilon_greedy.R | 20 contextual-0.9.8/contextual/R/policy_mab_exp3.R | 13 contextual-0.9.8/contextual/R/policy_mab_gittins_bl.R | 8 contextual-0.9.8/contextual/R/policy_mab_gradient.R |only contextual-0.9.8/contextual/R/policy_mab_softmax.R | 53 - contextual-0.9.8/contextual/R/policy_mab_ts.R |only contextual-0.9.8/contextual/R/policy_mab_ts_bootstrap.R |only contextual-0.9.8/contextual/R/policy_mab_ucb1.R | 49 contextual-0.9.8/contextual/R/policy_mab_ucb2.R |only contextual-0.9.8/contextual/R/policy_oracle.R | 13 contextual-0.9.8/contextual/R/policy_random.R | 13 contextual-0.9.8/contextual/R/simulator.R | 119 +- contextual-0.9.8/contextual/README.md | 92 + contextual-0.9.8/contextual/build/vignette.rds |binary contextual-0.9.8/contextual/demo/00Index | 10 contextual-0.9.8/contextual/demo/alternative_parallel_backends |only contextual-0.9.8/contextual/demo/demo_bandit_algorithms_for_website_optimization.R |only contextual-0.9.8/contextual/demo/demo_cmab_policy_comparison_linear_bandit.R | 16 contextual-0.9.8/contextual/demo/demo_cmab_policy_comparison_weight_bandit.R | 18 contextual-0.9.8/contextual/demo/demo_epsilon_greedy_policy.R | 18 contextual-0.9.8/contextual/demo/demo_mab_policy_comparison.R | 10 contextual-0.9.8/contextual/demo/demo_offline_cmab_alpha_linucb_direct_method.R |only contextual-0.9.8/contextual/demo/demo_offline_cmab_alpha_linucb_replay.R |only contextual-0.9.8/contextual/demo/demo_offline_direct_method.R |only contextual-0.9.8/contextual/demo/demo_offline_doubly_robust.R |only contextual-0.9.8/contextual/demo/demo_offline_propensity_score.R |only contextual-0.9.8/contextual/demo/demo_simpsons_paradox_propensity.R | 77 + contextual-0.9.8/contextual/demo/demo_sine_bandit.R | 58 - contextual-0.9.8/contextual/demo/demo_subsubclass.R | 26 contextual-0.9.8/contextual/demo/demo_sutton_barto.R |only contextual-0.9.8/contextual/demo/evaluations_on_public_datasets |only contextual-0.9.8/contextual/demo/replication_eckles_kaptein_2014 |only contextual-0.9.8/contextual/demo/replication_kruijswijk_2018 |only contextual-0.9.8/contextual/demo/replication_li_2010/2_run_simulation.R | 1 contextual-0.9.8/contextual/demo/replication_li_2010/3_plotter.R | 32 contextual-0.9.8/contextual/demo/replication_li_2010/alternative_db_scripts/2_run_the_simulation_on_monetdb.R | 1 contextual-0.9.8/contextual/demo/replication_li_2010/alternative_db_scripts/2_run_the_simulation_on_monetdb_lite.R | 1 contextual-0.9.8/contextual/demo/replication_li_2010/demo_yahoo_classes/yahoo_policy_random.R | 50 contextual-0.9.8/contextual/demo/replication_van_emden_2018 |only contextual-0.9.8/contextual/inst/doc/cmabs.R |only contextual-0.9.8/contextual/inst/doc/cmabs.Rmd |only contextual-0.9.8/contextual/inst/doc/cmabs.html |only contextual-0.9.8/contextual/inst/doc/cmabsoffline.R |only contextual-0.9.8/contextual/inst/doc/cmabsoffline.Rmd |only contextual-0.9.8/contextual/inst/doc/cmabsoffline.html |only contextual-0.9.8/contextual/inst/doc/eckles_kaptein.R |only contextual-0.9.8/contextual/inst/doc/eckles_kaptein.Rmd |only contextual-0.9.8/contextual/inst/doc/eckles_kaptein.html |only contextual-0.9.8/contextual/inst/doc/epsilongreedy.R |only contextual-0.9.8/contextual/inst/doc/epsilongreedy.Rmd |only contextual-0.9.8/contextual/inst/doc/epsilongreedy.html |only contextual-0.9.8/contextual/inst/doc/introduction.R |only contextual-0.9.8/contextual/inst/doc/introduction.Rmd |only contextual-0.9.8/contextual/inst/doc/introduction.html |only contextual-0.9.8/contextual/inst/doc/mabs.R |only contextual-0.9.8/contextual/inst/doc/mabs.Rmd |only contextual-0.9.8/contextual/inst/doc/mabs.html |only contextual-0.9.8/contextual/inst/doc/ml10m.R |only contextual-0.9.8/contextual/inst/doc/ml10m.Rmd |only contextual-0.9.8/contextual/inst/doc/ml10m.html |only contextual-0.9.8/contextual/inst/doc/offline_depaul_movies.R |only contextual-0.9.8/contextual/inst/doc/offline_depaul_movies.Rmd |only contextual-0.9.8/contextual/inst/doc/offline_depaul_movies.html |only contextual-0.9.8/contextual/inst/doc/replication.R |only contextual-0.9.8/contextual/inst/doc/replication.Rmd |only contextual-0.9.8/contextual/inst/doc/replication.html |only contextual-0.9.8/contextual/inst/doc/simpsons.R |only contextual-0.9.8/contextual/inst/doc/simpsons.Rmd |only contextual-0.9.8/contextual/inst/doc/simpsons.html |only contextual-0.9.8/contextual/inst/doc/sutton_barto.R |only contextual-0.9.8/contextual/inst/doc/sutton_barto.Rmd |only contextual-0.9.8/contextual/inst/doc/sutton_barto.html |only contextual-0.9.8/contextual/inst/doc/website_optimization.R |only contextual-0.9.8/contextual/inst/doc/website_optimization.Rmd |only contextual-0.9.8/contextual/inst/doc/website_optimization.html |only contextual-0.9.8/contextual/man/Agent.Rd | 5 contextual-0.9.8/contextual/man/Bandit.Rd | 7 contextual-0.9.8/contextual/man/BasicBernoulliBandit.Rd | 5 contextual-0.9.8/contextual/man/BasicGaussianBandit.Rd | 5 contextual-0.9.8/contextual/man/BootstrapTSPolicy.Rd |only contextual-0.9.8/contextual/man/ContextualBernoulliBandit.Rd | 7 contextual-0.9.8/contextual/man/ContextualBinaryBandit.Rd | 7 contextual-0.9.8/contextual/man/ContextualEpochGreedyPolicy.Rd | 7 contextual-0.9.8/contextual/man/ContextualEpsilonGreedyPolicy.Rd |only contextual-0.9.8/contextual/man/ContextualHybridBandit.Rd | 11 contextual-0.9.8/contextual/man/ContextualLinTSPolicy.Rd |only contextual-0.9.8/contextual/man/ContextualLinearBandit.Rd | 11 contextual-0.9.8/contextual/man/ContextualLogitBTSPolicy.Rd | 9 contextual-0.9.8/contextual/man/ContextualLogitBandit.Rd | 8 contextual-0.9.8/contextual/man/ContextualPrecachingBandit.Rd | 7 contextual-0.9.8/contextual/man/ContextualTSProbitPolicy.Rd |only contextual-0.9.8/contextual/man/ContextualWheelBandit.Rd | 11 contextual-0.9.8/contextual/man/ContinuumBandit.Rd | 5 contextual-0.9.8/contextual/man/EpsilonFirstPolicy.Rd | 33 contextual-0.9.8/contextual/man/EpsilonGreedyPolicy.Rd | 20 contextual-0.9.8/contextual/man/Exp3Policy.Rd | 13 contextual-0.9.8/contextual/man/FixedPolicy.Rd |only contextual-0.9.8/contextual/man/GittinsBrezziLaiPolicy.Rd | 8 contextual-0.9.8/contextual/man/GradientPolicy.Rd |only contextual-0.9.8/contextual/man/History.Rd | 71 - contextual-0.9.8/contextual/man/LifPolicy.Rd | 59 - contextual-0.9.8/contextual/man/LinUCBDisjointOptimizedPolicy.Rd | 32 contextual-0.9.8/contextual/man/LinUCBDisjointPolicy.Rd | 32 contextual-0.9.8/contextual/man/LinUCBGeneralPolicy.Rd | 7 contextual-0.9.8/contextual/man/LinUCBHybridOptimizedPolicy.Rd | 31 contextual-0.9.8/contextual/man/LinUCBHybridPolicy.Rd | 24 contextual-0.9.8/contextual/man/OfflineBootstrappedReplayBandit.Rd |only contextual-0.9.8/contextual/man/OfflineDirectMethodBandit.Rd |only contextual-0.9.8/contextual/man/OfflineDoublyRobustBandit.Rd |only contextual-0.9.8/contextual/man/OfflineLookupReplayEvaluatorBandit.Rd |only contextual-0.9.8/contextual/man/OfflinePropensityWeightingBandit.Rd | 96 + contextual-0.9.8/contextual/man/OfflineReplayEvaluatorBandit.Rd | 131 +- contextual-0.9.8/contextual/man/OraclePolicy.Rd | 11 contextual-0.9.8/contextual/man/Plot.Rd | 13 contextual-0.9.8/contextual/man/Policy.Rd | 7 contextual-0.9.8/contextual/man/RandomPolicy.Rd | 13 contextual-0.9.8/contextual/man/Simulator.Rd | 24 contextual-0.9.8/contextual/man/SoftmaxPolicy.Rd | 40 contextual-0.9.8/contextual/man/ThompsonSamplingPolicy.Rd | 27 contextual-0.9.8/contextual/man/UCB1Policy.Rd | 50 contextual-0.9.8/contextual/man/UCB2Policy.Rd |only contextual-0.9.8/contextual/man/clipr.Rd |only contextual-0.9.8/contextual/man/figures/cmab_all_medium.jpg |only contextual-0.9.8/contextual/man/get_arm_context.Rd | 2 contextual-0.9.8/contextual/man/get_full_context.Rd | 2 contextual-0.9.8/contextual/man/ind.Rd |only contextual-0.9.8/contextual/man/invlogit.Rd |only contextual-0.9.8/contextual/man/one_hot.Rd |only contextual-0.9.8/contextual/man/prob_winner.Rd |only contextual-0.9.8/contextual/man/sample_one_of.Rd | 4 contextual-0.9.8/contextual/man/set_external.Rd | 2 contextual-0.9.8/contextual/man/sim_post.Rd |only contextual-0.9.8/contextual/man/summary.history.Rd | 5 contextual-0.9.8/contextual/man/value_remaining.Rd |only contextual-0.9.8/contextual/man/which_max_list.Rd | 2 contextual-0.9.8/contextual/man/which_max_tied.Rd | 6 contextual-0.9.8/contextual/tests/figs/deps.txt | 4 contextual-0.9.8/contextual/tests/figs/plot/arm-plot.svg | 6 contextual-0.9.8/contextual/tests/figs/plot/arms-color.svg | 6 contextual-0.9.8/contextual/tests/figs/plot/arms-lims.svg | 6 contextual-0.9.8/contextual/tests/figs/plot/average-regret-plot.svg | 52 - contextual-0.9.8/contextual/tests/figs/plot/average-reward-plot.svg | 58 - contextual-0.9.8/contextual/tests/figs/plot/basic-cumulative-plot.svg | 52 - contextual-0.9.8/contextual/tests/figs/plot/color-and-lty-stepping.svg | 52 - contextual-0.9.8/contextual/tests/figs/plot/cumulative-sd-plot.svg | 12 contextual-0.9.8/contextual/tests/figs/plot/cumulative-traces-plot.svg | 64 - contextual-0.9.8/contextual/tests/figs/plot/legend-title-and-labels-plot.svg | 42 contextual-0.9.8/contextual/tests/figs/plot/limits-plot.svg | 50 contextual-0.9.8/contextual/tests/figs/plot/lwd-pot.svg | 76 - contextual-0.9.8/contextual/tests/figs/plot/only-sd-plot.svg | 30 contextual-0.9.8/contextual/tests/figs/plot/plot-inc-var-no-color.svg | 38 contextual-0.9.8/contextual/tests/figs/plot/traces-alpha-and-max-plot.svg | 76 - contextual-0.9.8/contextual/tests/figs/plot/traces-plot-smooth.svg | 66 - contextual-0.9.8/contextual/tests/figs/plot/ylim-plot.svg | 22 contextual-0.9.8/contextual/tests/testthat/dinvgamma1.rds |only contextual-0.9.8/contextual/tests/testthat/dinvgamma2.rds |only contextual-0.9.8/contextual/tests/testthat/history_context_test.ref | 110 +- contextual-0.9.8/contextual/tests/testthat/history_context_theta_test.ref | 110 +- contextual-0.9.8/contextual/tests/testthat/history_test.ref | 110 +- contextual-0.9.8/contextual/tests/testthat/history_theta_test.ref | 110 +- contextual-0.9.8/contextual/tests/testthat/logdiv.rds |only contextual-0.9.8/contextual/tests/testthat/summary_history.rds |binary contextual-0.9.8/contextual/tests/testthat/summary_history_limit.rds |binary contextual-0.9.8/contextual/tests/testthat/teardown_tests.R | 5 contextual-0.9.8/contextual/tests/testthat/test_agent.R | 8 contextual-0.9.8/contextual/tests/testthat/test_bandits.R | 187 +-- contextual-0.9.8/contextual/tests/testthat/test_history.R | 21 contextual-0.9.8/contextual/tests/testthat/test_plot.R | 16 contextual-0.9.8/contextual/tests/testthat/test_policies.R | 5 contextual-0.9.8/contextual/tests/testthat/test_utility_functions.R | 10 contextual-0.9.8/contextual/vignettes/1.jpg |only contextual-0.9.8/contextual/vignettes/Rplot.jpg |only contextual-0.9.8/contextual/vignettes/basic_epsilon_greedy.jpg |only contextual-0.9.8/contextual/vignettes/carskit_depaul.jpg |only contextual-0.9.8/contextual/vignettes/cmabs.Rmd |only contextual-0.9.8/contextual/vignettes/cmabs.jpg |only contextual-0.9.8/contextual/vignettes/cmabs_cache |only contextual-0.9.8/contextual/vignettes/cmabsoffline.Rmd |only contextual-0.9.8/contextual/vignettes/cmabsoffline_cache |only contextual-0.9.8/contextual/vignettes/contextual-fig-1.jpg |only contextual-0.9.8/contextual/vignettes/contextual-fig-2.jpg |only contextual-0.9.8/contextual/vignettes/eckles_kaptein.Rmd |only contextual-0.9.8/contextual/vignettes/eckles_kaptein_0.jpg |only contextual-0.9.8/contextual/vignettes/eckles_kaptein_1.jpg |only contextual-0.9.8/contextual/vignettes/eckles_kaptein_cache |only contextual-0.9.8/contextual/vignettes/eg_average_reward.jpg |only contextual-0.9.8/contextual/vignettes/eg_cumulative_reward.jpg |only contextual-0.9.8/contextual/vignettes/eg_incorrect.jpg |only contextual-0.9.8/contextual/vignettes/eg_optimal_action.jpg |only contextual-0.9.8/contextual/vignettes/epsilongreedy.Rmd |only contextual-0.9.8/contextual/vignettes/epsilongreedy_cache |only contextual-0.9.8/contextual/vignettes/introduction.Rmd |only contextual-0.9.8/contextual/vignettes/introduction_cache |only contextual-0.9.8/contextual/vignettes/linucboffline.jpg |only contextual-0.9.8/contextual/vignettes/mabs.Rmd |only contextual-0.9.8/contextual/vignettes/mabs.jpg |only contextual-0.9.8/contextual/vignettes/mabs_cache |only contextual-0.9.8/contextual/vignettes/ml10m.Rmd |only contextual-0.9.8/contextual/vignettes/ml10m.jpg |only contextual-0.9.8/contextual/vignettes/ml10m_cache |only contextual-0.9.8/contextual/vignettes/offline_depaul_movies.Rmd |only contextual-0.9.8/contextual/vignettes/offline_depaul_movies_cache |only contextual-0.9.8/contextual/vignettes/replication-fig-1.jpg |only contextual-0.9.8/contextual/vignettes/replication-fig-2.jpg |only contextual-0.9.8/contextual/vignettes/replication.Rmd |only contextual-0.9.8/contextual/vignettes/replication_cache |only contextual-0.9.8/contextual/vignettes/simpsons.Rmd |only contextual-0.9.8/contextual/vignettes/simpsons_cache |only contextual-0.9.8/contextual/vignettes/softmax_average_reward.jpg |only contextual-0.9.8/contextual/vignettes/softmax_cumulative_reward.jpg |only contextual-0.9.8/contextual/vignettes/softmax_optimal_action.jpg |only contextual-0.9.8/contextual/vignettes/sutton_barto.Rmd |only contextual-0.9.8/contextual/vignettes/sutton_barto_cache |only contextual-0.9.8/contextual/vignettes/sutton_eg_1.jpg |only contextual-0.9.8/contextual/vignettes/sutton_eg_2.jpg |only contextual-0.9.8/contextual/vignettes/sutton_gradient.jpg |only contextual-0.9.8/contextual/vignettes/sutton_optimistic.jpg |only contextual-0.9.8/contextual/vignettes/sutton_ucb.jpg |only contextual-0.9.8/contextual/vignettes/sutton_violin.jpg |only contextual-0.9.8/contextual/vignettes/ucb_average_reward.jpg |only contextual-0.9.8/contextual/vignettes/ucb_cumulative_reward.jpg |only contextual-0.9.8/contextual/vignettes/ucb_optimal_action.jpg |only contextual-0.9.8/contextual/vignettes/website_optimization.Rmd |only contextual-0.9.8/contextual/vignettes/website_optimization_cache |only 299 files changed, 2871 insertions(+), 1967 deletions(-)
Title: How to Handle your Missing Data
Description: How to deal with missing data?Based on the concept of almost functional dependencies, a method is proposed to fill missing data, as well as help you see what data is missing.
The user can specify a measure of error and how many combinations he wish to test the dependencies against, the closer to the length of the dataset, the more precise.
But the higher the number, the more time it will take for the process to finish.
If the program cannot predict with the accuracy determined by the user it shall not fill the data, the user then can choose to increase the error or deal with the data another way.
Author: Rafael Silva Pereira
Maintainer: Rafael Silva Pereira <r.s.p.models@gmail.com>
Diff between cleanerR versions 0.1.0 dated 2019-01-30 and 0.1.1 dated 2019-02-10
cleanerR-0.1.0/cleanerR/man/Complete_dataset.Rd |only cleanerR-0.1.0/cleanerR/man/autoComplete.Rd |only cleanerR-0.1.0/cleanerR/man/best_vector.Rd |only cleanerR-0.1.0/cleanerR/man/candidates.Rd |only cleanerR-0.1.0/cleanerR/man/generate_candidates.Rd |only cleanerR-0.1.1/cleanerR/DESCRIPTION | 8 cleanerR-0.1.1/cleanerR/MD5 | 43 cleanerR-0.1.1/cleanerR/NAMESPACE | 25 cleanerR-0.1.1/cleanerR/R/Encontrar_candidatos_dataset_v1.R | 1054 +++++++++--- cleanerR-0.1.1/cleanerR/R/globals.R |only cleanerR-0.1.1/cleanerR/inst/doc/my-vignette.R | 8 cleanerR-0.1.1/cleanerR/inst/doc/my-vignette.Rmd | 52 cleanerR-0.1.1/cleanerR/inst/doc/my-vignette.html | 74 cleanerR-0.1.1/cleanerR/man/AutoComplete.Rd |only cleanerR-0.1.1/cleanerR/man/AutoCompleteTable.Rd |only cleanerR-0.1.1/cleanerR/man/BestAccuracy.Rd | 2 cleanerR-0.1.1/cleanerR/man/BestAccuracyTable.Rd |only cleanerR-0.1.1/cleanerR/man/BestVector.Rd |only cleanerR-0.1.1/cleanerR/man/BestVectorTable.Rd |only cleanerR-0.1.1/cleanerR/man/Candidates.Rd |only cleanerR-0.1.1/cleanerR/man/CandidatesTable.Rd |only cleanerR-0.1.1/cleanerR/man/CompleteDataset.Rd |only cleanerR-0.1.1/cleanerR/man/CompleteDatasetTable.Rd |only cleanerR-0.1.1/cleanerR/man/GenerateCandidates.Rd |only cleanerR-0.1.1/cleanerR/man/GenerateCandidatesTable.Rd |only cleanerR-0.1.1/cleanerR/man/MeanAccuracy.Rd | 4 cleanerR-0.1.1/cleanerR/man/MeanAccuracyTable.Rd |only cleanerR-0.1.1/cleanerR/man/NA_VALUES.Rd | 2 cleanerR-0.1.1/cleanerR/man/WorstAccuracy.Rd | 3 cleanerR-0.1.1/cleanerR/man/WorstAccuracyTable.Rd |only cleanerR-0.1.1/cleanerR/tests/testthat/tests.R | 7 cleanerR-0.1.1/cleanerR/vignettes/my-vignette.Rmd | 52 32 files changed, 1016 insertions(+), 318 deletions(-)
Title: Functional Input Validation
Description: A set of basic tools to transform functions into functions with
input validation checks, in a manner suitable for both programmatic and
interactive use.
Author: Eugene Ha [aut, cre]
Maintainer: Eugene Ha <eha@posteo.de>
Diff between valaddin versions 0.1.2 dated 2017-08-11 and 1.0.0 dated 2019-02-10
valaddin-0.1.2/valaddin/R/future.R |only valaddin-0.1.2/valaddin/man/bare-type-checkers.Rd |only valaddin-0.1.2/valaddin/man/scalar-type-checkers.Rd |only valaddin-1.0.0/valaddin/DESCRIPTION | 18 valaddin-1.0.0/valaddin/LICENSE | 2 valaddin-1.0.0/valaddin/MD5 | 65 valaddin-1.0.0/valaddin/NEWS |only valaddin-1.0.0/valaddin/NEWS.md | 16 valaddin-1.0.0/valaddin/R/checkers.R | 343 ++-- valaddin-1.0.0/valaddin/R/checklist.R | 13 valaddin-1.0.0/valaddin/R/firmly.R | 7 valaddin-1.0.0/valaddin/R/formulas.R |only valaddin-1.0.0/valaddin/R/pipe.R |only valaddin-1.0.0/valaddin/R/scope.R | 13 valaddin-1.0.0/valaddin/R/utils.R | 3 valaddin-1.0.0/valaddin/README.md | 161 + valaddin-1.0.0/valaddin/build/vignette.rds |binary valaddin-1.0.0/valaddin/inst/doc/valaddin.R | 2 valaddin-1.0.0/valaddin/inst/doc/valaddin.Rmd | 2 valaddin-1.0.0/valaddin/inst/doc/valaddin.html | 1208 +++++++-------- valaddin-1.0.0/valaddin/man/checklist.Rd | 4 valaddin-1.0.0/valaddin/man/components.Rd | 36 valaddin-1.0.0/valaddin/man/firmly.Rd | 285 +-- valaddin-1.0.0/valaddin/man/input-validators.Rd | 32 valaddin-1.0.0/valaddin/man/misc-checkers.Rd | 47 valaddin-1.0.0/valaddin/man/scalar-checkers.Rd |only valaddin-1.0.0/valaddin/man/type-checkers.Rd | 32 valaddin-1.0.0/valaddin/man/valaddin.Rd | 14 valaddin-1.0.0/valaddin/man/validate.Rd | 1 valaddin-1.0.0/valaddin/tests/testthat/helper.R | 50 valaddin-1.0.0/valaddin/tests/testthat/test-checkers.R | 335 +++- valaddin-1.0.0/valaddin/tests/testthat/test-checklist.R | 2 valaddin-1.0.0/valaddin/tests/testthat/test-components.R | 2 valaddin-1.0.0/valaddin/tests/testthat/test-firmly.R | 6 valaddin-1.0.0/valaddin/tests/testthat/test-print.R | 6 valaddin-1.0.0/valaddin/tests/testthat/test-validation.R | 14 valaddin-1.0.0/valaddin/vignettes/valaddin.Rmd | 2 37 files changed, 1456 insertions(+), 1265 deletions(-)
Title: Geographically Weighted Logistic Elastic Net Regression
Description: Fit a geographically weighted logistic elastic net regression. Detailed explanations can be found in Yoneoka et al. (2016): New algorithm for constructing area-based index with geographical heterogeneities and variable selection: An application to gastric cancer screening <doi:10.1038/srep26582>.
Author: Daisuke Yoneoka, Eiko Saito
Maintainer: Daisuke Yoneoka <blue.sky.sea.dy@gmail.com>
Diff between GWLelast versions 1.2.1 dated 2018-05-06 and 1.2.2 dated 2019-02-10
DESCRIPTION | 6 +++--- LICENSE | 4 ++-- MD5 | 6 +++--- NAMESPACE | 19 ++++++------------- 4 files changed, 14 insertions(+), 21 deletions(-)
Title: Nonparametric Bounds for the Average Causal Effect Due to Balke
and Pearl and Extensions
Description: Implementation of the nonparametric bounds for the average causal
effect under an instrumental variable model by Balke and Pearl (Bounds on
Treatment Effects from Studies with Imperfect Compliance, JASA, 1997, 92,
439, 1171-1176). The package can calculate bounds for a binary outcome, a
binary treatment/phenotype, and an instrument with either 2 or 3
categories. The package implements bounds for situations where these 3
variables are measured in the same dataset (trivariate data) or where the
outcome and instrument are measured in one study and the
treatment/phenotype and instrument are measured in another study
(bivariate data).
Author: Tom Palmer [aut, cre] (<https://orcid.org/0000-0003-4655-4511>),
Roland Ramsahai [aut] (<https://orcid.org/0000-0002-7349-1977>),
Vanessa Didelez [aut] (<https://orcid.org/0000-0001-8587-7706>),
Nuala Sheehan [aut] (<https://orcid.org/0000-0001-9094-2605>)
Maintainer: Tom Palmer <tom.palmer@lancaster.ac.uk>
Diff between bpbounds versions 0.1.1 dated 2018-12-19 and 0.1.3 dated 2019-02-10
DESCRIPTION | 16 +++++++++------- MD5 | 10 +++++----- NEWS.md | 12 ++++++++++-- R/runExample.R | 2 +- inst/doc/bpbounds.html | 28 ++++++++++++++++++++++++---- man/runExample.Rd | 2 +- 6 files changed, 50 insertions(+), 20 deletions(-)
Title: Self Contained Units of Source Code
Description: Provides modules as an organizational unit for source code. Modules
enforce to be more rigorous when defining dependencies and have
a local search path. They can be used as a sub unit within packages
or in scripts.
Author: Sebastian Warnholz [aut, cre]
Maintainer: Sebastian Warnholz <wahani@gmail.com>
Diff between modules versions 0.7.0 dated 2018-07-15 and 0.8.0 dated 2019-02-10
DESCRIPTION | 12 LICENSE | 2 MD5 | 61 +- NAMESPACE | 3 NEWS | 13 R/base-override.R |only R/export.R | 45 + R/expose.R | 35 + R/extend.R | 51 +- R/getSearchPath.R | 53 ++ R/import.R | 49 +- R/module-class.R | 8 R/module-helper.R | 27 - R/module.R | 86 +-- R/use.R | 68 ++ build/vignette.rds |binary inst/doc/modulesAsFiles.R |only inst/doc/modulesAsFiles.Rmd |only inst/doc/modulesAsFiles.html |only inst/doc/modulesAsObjects.R |only inst/doc/modulesAsObjects.Rmd |only inst/doc/modulesAsObjects.html |only inst/doc/modulesInR.R | 123 ----- inst/doc/modulesInR.Rmd | 319 +++---------- inst/doc/modulesInR.html | 636 +++++++++++++++----------- man/export.Rd |only man/expose.Rd |only man/extend.Rd |only man/import.Rd |only man/module.Rd | 112 +--- man/modulecoerce.Rd | 4 man/use.Rd |only man/utilityFunctions.Rd | 20 tests/testthat/test-base-override.R |only tests/testthat/test-getSearchPathContent.R |only tests/testthat/test-getSearchPathDuplicates.R |only tests/testthat/test-import.R | 11 vignettes/modulesAsFiles.Rmd |only vignettes/modulesAsObjects.Rmd |only vignettes/modulesInR.Rmd | 319 +++---------- 40 files changed, 1093 insertions(+), 964 deletions(-)
Title: R Logging Package
Description: Pure R implementation of the ubiquitous log4j package. It offers hierarchic
loggers, multiple handlers per logger, level based filtering, space handling in messages
and custom formatting.
Author: Mario Frasca [aut],
Walerian Sokolowski [cre]
Maintainer: Walerian Sokolowski <r-logging@wlogsolutions.com>
Diff between logging versions 0.9-106 dated 2019-01-23 and 0.9-107 dated 2019-02-10
DESCRIPTION | 6 ++-- MD5 | 12 +++++--- NAMESPACE | 2 + R/logger.R | 56 ++++++++++++++++++++++++++++++++++++++++ R/oo.R | 66 ++++++++++-------------------------------------- R/utils.R | 53 ++++++++++++++++++++++++++++++++++++++ man/resetMsgComposer.Rd |only man/setMsgComposer.Rd |only 8 files changed, 136 insertions(+), 59 deletions(-)
Title: Adherence to Medications
Description: Computation of adherence to medications from Electronic Health care
Data and visualization of individual medication histories and adherence
patterns. The package implements a set of S3 classes and
functions consistent with current adherence guidelines and definitions.
It allows the computation of different measures of
adherence (as defined in the literature, but also several original ones),
their publication-quality plotting,
the estimation of event duration and time to initiation,
the interactive exploration of patient medication history and
the real-time estimation of adherence given various parameter settings.
It scales from very small datasets stored in flat CSV files to very large
databases and from single-thread processing on mid-range consumer
laptops to parallel processing on large heterogeneous computing clusters.
It exposes a standardized interface allowing it to be used from other
programming languages and platforms, such as Python.
Author: Dan Dediu [aut, cre],
Alexandra Dima [aut],
Samuel Allemann [aut]
Maintainer: Dan Dediu <ddediu@gmail.com>
Diff between AdhereR versions 0.3.1 dated 2018-11-25 and 0.4 dated 2019-02-10
AdhereR-0.3.1/AdhereR/vignettes/interactive-plotting.jpg |only AdhereR-0.4/AdhereR/DESCRIPTION | 14 AdhereR-0.4/AdhereR/MD5 | 86 AdhereR-0.4/AdhereR/NAMESPACE | 40 AdhereR-0.4/AdhereR/R/adherer.R | 1593 ++- AdhereR-0.4/AdhereR/R/matching_function.R | 54 AdhereR-0.4/AdhereR/inst/doc/AdhereR-overview.R | 12 AdhereR-0.4/AdhereR/inst/doc/AdhereR-overview.Rmd | 19 AdhereR-0.4/AdhereR/inst/doc/AdhereR-overview.html | 80 AdhereR-0.4/AdhereR/inst/doc/calling-AdhereR-from-python3.html | 28 AdhereR-0.4/AdhereR/inst/interactivePlotShiny/app.R | 4448 +++++++++- AdhereR-0.4/AdhereR/inst/interactivePlotShiny/r-code-highlight.css |only AdhereR-0.4/AdhereR/inst/interactivePlotShiny/www |only AdhereR-0.4/AdhereR/inst/specialVignettes/adherer_with_databases.jpg |binary AdhereR-0.4/AdhereR/inst/specialVignettes/adherer_with_databases.pptx |binary AdhereR-0.4/AdhereR/man/CMA0.Rd | 21 AdhereR-0.4/AdhereR/man/CMA1.Rd | 14 AdhereR-0.4/AdhereR/man/CMA2.Rd | 17 AdhereR-0.4/AdhereR/man/CMA5.Rd | 8 AdhereR-0.4/AdhereR/man/CMA6.Rd | 8 AdhereR-0.4/AdhereR/man/CMA7.Rd | 8 AdhereR-0.4/AdhereR/man/CMA8.Rd | 8 AdhereR-0.4/AdhereR/man/CMA9.Rd | 8 AdhereR-0.4/AdhereR/man/compute_event_durations.Rd | 32 AdhereR-0.4/AdhereR/man/plot.CMA0.Rd | 67 AdhereR-0.4/AdhereR/man/plot.CMA1.Rd | 48 AdhereR-0.4/AdhereR/man/plot.CMA_per_episode.Rd | 35 AdhereR-0.4/AdhereR/man/plot_interactive_cma.Rd | 17 AdhereR-0.4/AdhereR/man/time_to_initiation.Rd | 2 AdhereR-0.4/AdhereR/vignettes/AdhereR-overview.Rmd | 19 30 files changed, 5682 insertions(+), 1004 deletions(-)
Title: An Image Processing Toolkit
Description: Incorporates functions for image preprocessing, filtering and image recognition. The package takes advantage of 'RcppArmadillo' to speed up computationally intensive functions. The histogram of oriented gradients descriptor is a modification of the 'findHOGFeatures' function of the 'SimpleCV' computer vision platform, the average_hash(), dhash() and phash() functions are based on the 'ImageHash' python library. The Gabor Feature Extraction functions are based on 'Matlab' code of the paper, "CloudID: Trustworthy cloud-based and cross-enterprise biometric identification" by M. Haghighat, S. Zonouz, M. Abdel-Mottaleb, Expert Systems with Applications, vol. 42, no. 21, pp. 7905-7916, 2015, <doi:10.1016/j.eswa.2015.06.025>. The 'SLIC' and 'SLICO' superpixel algorithms were explained in detail in (i) "SLIC Superpixels Compared to State-of-the-art Superpixel Methods", Radhakrishna Achanta, Appu Shaji, Kevin Smith, Aurelien Lucchi, Pascal Fua, and Sabine Suesstrunk, IEEE Transactions on Pattern Analysis and Machine Intelligence, vol. 34, num. 11, p. 2274-2282, May 2012, <doi:10.1109/TPAMI.2012.120> and (ii) "SLIC Superpixels", Radhakrishna Achanta, Appu Shaji, Kevin Smith, Aurelien Lucchi, Pascal Fua, and Sabine Suesstrunk, EPFL Technical Report no. 149300, June 2010.
Author: Lampros Mouselimis [aut, cre],
Sight Machine [cph] (findHOGFeatures function of the SimpleCV computer
vision platform),
Johannes Buchner [cph] (average_hash, dhash and phash functions of the
ImageHash python library),
Mohammad Haghighat [cph] (Gabor Feature Extraction),
Radhakrishna Achanta [cph] (Author of the C++ code of the SLIC and
SLICO algorithms (for commercial use please contact the author))
Maintainer: Lampros Mouselimis <mouselimislampros@gmail.com>
Diff between OpenImageR versions 1.1.4 dated 2019-01-07 and 1.1.5 dated 2019-02-10
OpenImageR-1.1.4/OpenImageR/man/norm_range_gauss.Rd |only OpenImageR-1.1.4/OpenImageR/tests/testthat/test-normalized_gauss.R |only OpenImageR-1.1.5/OpenImageR/DESCRIPTION | 8 +- OpenImageR-1.1.5/OpenImageR/MD5 | 20 ++--- OpenImageR-1.1.5/OpenImageR/NAMESPACE | 2 OpenImageR-1.1.5/OpenImageR/NEWS.md | 5 + OpenImageR-1.1.5/OpenImageR/R/open_image_rscript.R | 40 ++++++---- OpenImageR-1.1.5/OpenImageR/README.md | 2 OpenImageR-1.1.5/OpenImageR/inst/doc/Gabor_Feature_Extraction.html | 4 - OpenImageR-1.1.5/OpenImageR/inst/doc/Image_segmentation_superpixels_clustering.html | 4 - OpenImageR-1.1.5/OpenImageR/inst/doc/The_OpenImageR_package.html | 18 ++-- OpenImageR-1.1.5/OpenImageR/man/norm_matrix_range.Rd |only OpenImageR-1.1.5/OpenImageR/tests/testthat/test-norm_matrix_range.R |only 13 files changed, 61 insertions(+), 42 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-12-23 0.4.4
Title: Inventory Analytics and Cost Calculations
Description: Facilitate inventory analysis calculations,pricing and promotions calculations.
the package includes calculations of inventory metrics, profit calculations and ABC analysis calculations.
This version has only normal and Poisson distributions but I am hoping that other distributions will follow in later versions.
The functions are referenced from :
1-Harris, Ford W. (1913). "How many parts to make at once". Factory, The Magazine of Management. <isbn10: 135–136, 152>.
2- Nahmias, S. Production and Operations Analysis. McGraw-Hill International Edition. <isbn: 0-07- 2231265-3. Chapter 4>.
3-Silver, E.A., Pyke, D.F., Peterson, R. Inventory Management and Production Planning and Scheduling. <isbn: 978-0471119470>.
4-Ballou, R.H. Business Logistics Management. <isbn: 978-0130661845>. Chapter 9.
5-MIT Micromasters Program.
For further details or correspondence :<https://www.linkedin.com/in/haythamomar/>, <www.rescaleanalytics.com>.
Author: Haytham Omar [aut, cre]
Maintainer: Haytham Omar <haytham@rescaleanalytics.com>
Diff between inventorize versions 1.0.0 dated 2019-01-17 and 1.0.1 dated 2019-02-10
DESCRIPTION | 19 ++++--- MD5 | 102 +++++++++++++++++++++++------------------- NAMESPACE | 8 +++ R/ABC.R | 15 ++---- R/CSOE.R | 25 ++++------ R/CriticalRatio.R | 4 - R/EPN_singleperiod.R | 6 +- R/EPP_singleperiod.R | 7 +- R/EUSnorm_singleperiod.R | 6 +- R/MPN_singleperiod.R | 8 +-- R/MPP_singleperiod.R | 6 -- R/TQpractical.R | 7 +- R/TRC.R | 6 +- R/dl.sigmadl.R | 12 ++-- R/elasticity.R |only R/eoq.R | 12 +--- R/eoqsenstivity.R | 12 +--- R/inventorize.R | 2 R/inventorymetricsCIS.R | 6 +- R/inventorymetricsCSL.R | 7 +- R/inventorymetricsIFR.R | 8 +-- R/product_mix.R |only R/product_mix_storelevel.R |only R/profit_max.R |only R/reorderpoint_ltv.R |only R/reorderpoint_normal.R |only R/revenue_max.R |only R/saftey_stock_normal.R | 29 +++++------ R/safteystock_CIS_normal.R | 6 +- R/safteystock_CSL_normal.R | 13 +---- R/total.logistics.cost.R | 6 +- man/ABC.Rd | 7 +- man/CSOE.Rd | 18 ++++--- man/CriticalRatio.Rd | 4 - man/EPN_singleperiod.Rd | 6 +- man/EPP_singleperiod.Rd | 5 -- man/EUSnorm_singleperiod.Rd | 6 +- man/MPN_singleperiod.Rd | 6 +- man/MPP_singleperiod.Rd | 5 -- man/TQpractical.Rd | 6 -- man/TRC.Rd | 4 - man/dl.sigmadl.Rd | 10 ++-- man/elasticity.Rd |only man/eoq.Rd | 8 +-- man/eoqsenstivity.Rd | 9 +-- man/inventorize.Rd | 2 man/inventorymetricsCIS.Rd | 6 +- man/inventorymetricsCSL.Rd | 7 +- man/inventorymetricsIFR.Rd | 7 +- man/productmix.Rd |only man/productmix_storelevel.Rd |only man/profit_max.Rd |only man/reorderpoint_ltv.Rd |only man/reorderpoint_normal.Rd |only man/revenue_max.Rd |only man/saftey_stock_normal.Rd | 6 +- man/safteystock_CIS_normal.Rd | 6 +- man/safteystock_CSL_normal.Rd | 13 +---- man/total.logistics.cost.Rd | 4 - 59 files changed, 229 insertions(+), 248 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-10-22 0.1.1
2018-08-29 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-09-11 0.1.3.2
2018-06-18 0.1.3.1
2018-02-05 0.1.3
2018-01-04 0.1.1
2017-11-12 0.1
Title: Ratio-of-Uniforms Simulation with Transformation
Description: Uses the generalized ratio-of-uniforms (RU) method to simulate
from univariate and (low-dimensional) multivariate continuous distributions.
The user specifies the log-density, up to an additive constant. The RU
algorithm is applied after relocation of mode of the density to zero, and
the user can choose a tuning parameter r. For details see Wakefield, Gelfand
and Smith (1991) <DOI:10.1007/BF01889987>, Efficient generation of random
variates via the ratio-of-uniforms method, Statistics and Computing (1991)
1, 129-133. A Box-Cox variable transformation can be used to make the input
density suitable for the RU method and to improve efficiency. In the
multivariate case rotation of axes can also be used to improve efficiency.
From version 1.2.0 the 'Rcpp' package
<https://cran.r-project.org/package=Rcpp> can be used to improve efficiency.
Author: Paul J. Northrop [aut, cre, cph]
Maintainer: Paul J. Northrop <p.northrop@ucl.ac.uk>
Diff between rust versions 1.3.5 dated 2018-05-16 and 1.3.6 dated 2019-02-10
rust-1.3.5/rust/inst/doc/rust-using-rcpp-vignette.R |only rust-1.3.5/rust/inst/doc/rust-using-rcpp-vignette.Rmd |only rust-1.3.5/rust/inst/doc/rust-using-rcpp-vignette.html |only rust-1.3.5/rust/inst/doc/rust-vignette.R |only rust-1.3.5/rust/inst/doc/rust-vignette.Rmd |only rust-1.3.5/rust/inst/doc/rust-vignette.html |only rust-1.3.5/rust/inst/doc/rust-when-to-use-vignette.R |only rust-1.3.5/rust/inst/doc/rust-when-to-use-vignette.Rmd |only rust-1.3.5/rust/inst/doc/rust-when-to-use-vignette.html |only rust-1.3.5/rust/vignettes/rust-using-rcpp-vignette.Rmd |only rust-1.3.5/rust/vignettes/rust-vignette.Rmd |only rust-1.3.5/rust/vignettes/rust-when-to-use-vignette.Rmd |only rust-1.3.6/rust/DESCRIPTION | 11 rust-1.3.6/rust/MD5 | 68 rust-1.3.6/rust/NEWS.md | 222 - rust-1.3.6/rust/R/box_cox_functions.R | 1246 +++---- rust-1.3.6/rust/R/box_cox_functions_rcpp.R | 1156 +++---- rust-1.3.6/rust/R/ru_sampling.R | 2012 ++++++------ rust-1.3.6/rust/R/ru_sampling_rcpp.R | 2124 ++++++------- rust-1.3.6/rust/R/rust.R | 114 rust-1.3.6/rust/R/sample_diagnostics.R | 2 rust-1.3.6/rust/build/vignette.rds |binary rust-1.3.6/rust/inst/doc/rust-a-vignette.R |only rust-1.3.6/rust/inst/doc/rust-a-vignette.Rmd |only rust-1.3.6/rust/inst/doc/rust-a-vignette.html |only rust-1.3.6/rust/inst/doc/rust-b-when-to-use-vignette.R |only rust-1.3.6/rust/inst/doc/rust-b-when-to-use-vignette.Rmd |only rust-1.3.6/rust/inst/doc/rust-b-when-to-use-vignette.html |only rust-1.3.6/rust/inst/doc/rust-c-using-rcpp-vignette.R |only rust-1.3.6/rust/inst/doc/rust-c-using-rcpp-vignette.Rmd |only rust-1.3.6/rust/inst/doc/rust-c-using-rcpp-vignette.html |only rust-1.3.6/rust/inst/include/rust.h | 18 rust-1.3.6/rust/inst/include/rust_RcppExports.h | 2260 +++++++------- rust-1.3.6/rust/man/find_lambda.Rd | 2 rust-1.3.6/rust/man/find_lambda_one_d.Rd | 9 rust-1.3.6/rust/man/find_lambda_one_d_rcpp.Rd | 10 rust-1.3.6/rust/man/find_lambda_rcpp.Rd | 4 rust-1.3.6/rust/man/plot.ru.Rd | 7 rust-1.3.6/rust/man/print.summary.ru.Rd | 2 rust-1.3.6/rust/man/ru.Rd | 18 rust-1.3.6/rust/man/ru_rcpp.Rd | 22 rust-1.3.6/rust/man/rust.Rd | 2 rust-1.3.6/rust/src/RcppExports.cpp | 220 + rust-1.3.6/rust/vignettes/rust-a-vignette.Rmd |only rust-1.3.6/rust/vignettes/rust-b-when-to-use-vignette.Rmd |only rust-1.3.6/rust/vignettes/rust-c-using-rcpp-vignette.Rmd |only rust-1.3.6/rust/vignettes/rust.bib | 422 +- 47 files changed, 5150 insertions(+), 4801 deletions(-)
Title: Tools for Data Diagnosis, Exploration, Transformation
Description: A collection of tools that support data diagnosis, exploration, and transformation.
Data diagnostics provides information and visualization of missing values and outliers and
unique and negative values to help you understand the distribution and quality of your data.
Data exploration provides information and visualization of the descriptive statistics of
univariate variables, normality tests and outliers, correlation of two variables, and
relationship between target variable and predictor. Data transformation supports binning
for categorizing continuous variables, imputates missing values and outliers, resolving skewness.
And it creates automated reports that support these three tasks.
Author: Choonghyun Ryu [aut, cre]
Maintainer: Choonghyun Ryu <choonghyun.ryu@gmail.com>
Diff between dlookr versions 0.3.2 dated 2018-07-21 and 0.3.8 dated 2019-02-10
DESCRIPTION | 23 LICENSE |only MD5 | 122 - NAMESPACE | 2 NEWS | 91 + R/EDA.R | 66 R/correlate.R | 91 + R/diagnose.R | 79 - R/discribe.R | 30 R/imputation.R | 2 R/normality.R | 63 R/target_by.R | 55 R/tbl_dbi.R | 36 R/transform.R | 46 R/utils.R | 6 build/vignette.rds |binary inst/doc/EDA.R | 27 inst/doc/EDA.Rmd | 27 inst/doc/EDA.html | 2066 +++++++++++++++++-------------- inst/doc/diagonosis.R | 7 inst/doc/diagonosis.Rmd | 7 inst/doc/diagonosis.html | 1052 +++++++++------ inst/doc/transformation.R | 12 inst/doc/transformation.Rmd | 12 inst/doc/transformation.html | 1565 +++++++++++++---------- inst/report/01_Diagnose.Rnw | 239 +-- inst/report/01_Diagnose_KR.Rnw |only inst/report/02_RunEDA.Rnw | 33 inst/report/02_RunEDA_KR.Rnw |only inst/report/03_Transformation.Rnw | 15 inst/report/03_Transformation_KR.Rnw |only inst/report/DataDiagnosis_Report.Rnw | 2 inst/report/DataDiagnosis_Report_KR.Rnw |only inst/report/Diagnosis_Report.Rmd | 122 + inst/report/Diagnosis_Report_KR.Rmd |only inst/report/EDA_Report.Rmd | 2 inst/report/EDA_Report.Rnw | 3 inst/report/EDA_Report_KR.Rmd |only inst/report/EDA_Report_KR.Rnw |only inst/report/Transformation_Report.Rmd | 4 inst/report/Transformation_Report.Rnw | 2 inst/report/Transformation_Report_KR.Rmd |only inst/report/Transformation_Report_KR.Rnw |only man/binning.Rd | 4 man/correlate.tbl_dbi.Rd | 1 man/describe.tbl_dbi.Rd | 1 man/diagnose.tbl_dbi.Rd | 1 man/diagnose_category.tbl_dbi.Rd | 1 man/diagnose_numeric.tbl_dbi.Rd | 1 man/diagnose_outlier.tbl_dbi.Rd | 1 man/diagnose_report.data.frame.Rd | 13 man/diagnose_report.tbl_dbi.Rd | 10 man/dlookr-package.Rd | 7 man/eda_report.data.frame.Rd | 21 man/eda_report.tbl_dbi.Rd | 11 man/get_column_info.Rd | 1 man/normality.tbl_dbi.Rd | 31 man/plot.optimal_bins.Rd | 4 man/plot_correlate.tbl_dbi.Rd | 1 man/plot_normality.tbl_dbi.Rd | 1 man/plot_outlier.tbl_dbi.Rd | 1 man/target_by.tbl_dbi.Rd | 1 man/transform.Rd | 4 man/transformation_report.Rd | 8 vignettes/EDA.Rmd | 27 vignettes/diagonosis.Rmd | 7 vignettes/transformation.Rmd | 12 67 files changed, 3595 insertions(+), 2484 deletions(-)
Title: Thermodynamic Calculations and Diagrams for Geochemistry
Description: An integrated set of tools for thermodynamic calculations in
aqueous geochemistry and geobiochemistry. Functions are provided for writing
balanced reactions to form species from user-selected basis species and for
calculating the standard molal properties of species and reactions, including
the standard Gibbs energy and equilibrium constant. Calculations of the
non-equilibrium chemical affinity and equilibrium chemical activity of species
can be portrayed on diagrams as a function of temperature, pressure, or
activity of basis species; in two dimensions, this gives a maximum affinity or
predominance diagram. The diagrams have formatted chemical formulas and axis
labels, and water stability limits can be added to Eh-pH, oxygen fugacity-
temperature, and other diagrams with a redox variable. The package has been
developed to handle common calculations in aqueous geochemistry, such as
solubility due to complexation of metal ions, mineral buffers of redox or pH,
and changing the basis species across a diagram ("mosaic diagrams"). CHNOSZ
also has unique capabilities for comparing the compositional and thermodynamic
properties of different proteins.
Author: Jeffrey Dick [aut, cre] (<https://orcid.org/0000-0002-0687-5890>),
R Core Team [ctb] (code derived from R's pmax())
Maintainer: Jeffrey Dick <j3ffdick@gmail.com>
Diff between CHNOSZ versions 1.1.3 dated 2017-11-12 and 1.2.0 dated 2019-02-10
CHNOSZ-1.1.3/CHNOSZ/demo/activity_ratios.R |only CHNOSZ-1.1.3/CHNOSZ/inst/doc/wjd.R |only CHNOSZ-1.1.3/CHNOSZ/inst/doc/wjd.Rnw |only CHNOSZ-1.1.3/CHNOSZ/inst/doc/wjd.pdf |only CHNOSZ-1.1.3/CHNOSZ/inst/extdata/OBIGT/Berman_cr.csv.xz |only CHNOSZ-1.1.3/CHNOSZ/inst/extdata/OBIGT/SUPCRTBL.csv |only CHNOSZ-1.1.3/CHNOSZ/vignettes/dayhoff.pdf |only CHNOSZ-1.1.3/CHNOSZ/vignettes/wjd.Rnw |only CHNOSZ-1.1.3/CHNOSZ/vignettes/wjd.lyx |only CHNOSZ-1.2.0/CHNOSZ/DESCRIPTION | 40 CHNOSZ-1.2.0/CHNOSZ/MD5 | 298 ++-- CHNOSZ-1.2.0/CHNOSZ/NAMESPACE | 14 CHNOSZ-1.2.0/CHNOSZ/R/NaCl.R |only CHNOSZ-1.2.0/CHNOSZ/R/affinity.R | 44 CHNOSZ-1.2.0/CHNOSZ/R/basis.R | 34 CHNOSZ-1.2.0/CHNOSZ/R/berman.R | 85 - CHNOSZ-1.2.0/CHNOSZ/R/cgl.R | 2 CHNOSZ-1.2.0/CHNOSZ/R/diagram.R | 223 ++- CHNOSZ-1.2.0/CHNOSZ/R/equilibrate.R | 24 CHNOSZ-1.2.0/CHNOSZ/R/examples.R | 12 CHNOSZ-1.2.0/CHNOSZ/R/info.R | 27 CHNOSZ-1.2.0/CHNOSZ/R/makeup.R | 9 CHNOSZ-1.2.0/CHNOSZ/R/mosaic.R | 218 ++- CHNOSZ-1.2.0/CHNOSZ/R/nonideal.R | 227 ++- CHNOSZ-1.2.0/CHNOSZ/R/palply.R | 2 CHNOSZ-1.2.0/CHNOSZ/R/protein.info.R | 49 CHNOSZ-1.2.0/CHNOSZ/R/solubility.R |only CHNOSZ-1.2.0/CHNOSZ/R/subcrt.R | 307 ++-- CHNOSZ-1.2.0/CHNOSZ/R/swap.basis.R | 18 CHNOSZ-1.2.0/CHNOSZ/R/util.affinity.R | 61 CHNOSZ-1.2.0/CHNOSZ/R/util.data.R | 59 CHNOSZ-1.2.0/CHNOSZ/R/util.expression.R | 111 + CHNOSZ-1.2.0/CHNOSZ/R/util.fasta.R | 91 - CHNOSZ-1.2.0/CHNOSZ/R/util.misc.R | 16 CHNOSZ-1.2.0/CHNOSZ/R/util.plot.R | 44 CHNOSZ-1.2.0/CHNOSZ/R/util.units.R | 2 CHNOSZ-1.2.0/CHNOSZ/R/water.R | 10 CHNOSZ-1.2.0/CHNOSZ/build/vignette.rds |binary CHNOSZ-1.2.0/CHNOSZ/data/OBIGT.R | 4 CHNOSZ-1.2.0/CHNOSZ/data/opt.csv | 4 CHNOSZ-1.2.0/CHNOSZ/data/refs.csv | 66 - CHNOSZ-1.2.0/CHNOSZ/data/thermo.R | 4 CHNOSZ-1.2.0/CHNOSZ/demo/00Index | 7 CHNOSZ-1.2.0/CHNOSZ/demo/DEW.R | 44 CHNOSZ-1.2.0/CHNOSZ/demo/Shh.R | 6 CHNOSZ-1.2.0/CHNOSZ/demo/TCA.R | 5 CHNOSZ-1.2.0/CHNOSZ/demo/adenine.R | 3 CHNOSZ-1.2.0/CHNOSZ/demo/affinity.R | 2 CHNOSZ-1.2.0/CHNOSZ/demo/bison.R |only CHNOSZ-1.2.0/CHNOSZ/demo/buffer.R | 4 CHNOSZ-1.2.0/CHNOSZ/demo/bugstab.R | 4 CHNOSZ-1.2.0/CHNOSZ/demo/copper.R | 10 CHNOSZ-1.2.0/CHNOSZ/demo/glycinate.R |only CHNOSZ-1.2.0/CHNOSZ/demo/go-IU.R | 62 - CHNOSZ-1.2.0/CHNOSZ/demo/gold.R |only CHNOSZ-1.2.0/CHNOSZ/demo/lambda.R | 3 CHNOSZ-1.2.0/CHNOSZ/demo/mosaic.R | 37 CHNOSZ-1.2.0/CHNOSZ/demo/protein.equil.R | 6 CHNOSZ-1.2.0/CHNOSZ/demo/saturation.R |only CHNOSZ-1.2.0/CHNOSZ/demo/solubility.R | 141 +- CHNOSZ-1.2.0/CHNOSZ/demo/sources.R | 10 CHNOSZ-1.2.0/CHNOSZ/demo/yeastgfp.R | 8 CHNOSZ-1.2.0/CHNOSZ/inst/CHECKLIST | 10 CHNOSZ-1.2.0/CHNOSZ/inst/CITATION | 11 CHNOSZ-1.2.0/CHNOSZ/inst/NEWS | 280 ++++ CHNOSZ-1.2.0/CHNOSZ/inst/doc/anintro.R | 154 +- CHNOSZ-1.2.0/CHNOSZ/inst/doc/anintro.Rmd | 252 ++-- CHNOSZ-1.2.0/CHNOSZ/inst/doc/anintro.html | 803 ++++++------- CHNOSZ-1.2.0/CHNOSZ/inst/doc/eos-regress.R | 34 CHNOSZ-1.2.0/CHNOSZ/inst/doc/eos-regress.Rmd | 57 CHNOSZ-1.2.0/CHNOSZ/inst/doc/eos-regress.html | 102 - CHNOSZ-1.2.0/CHNOSZ/inst/doc/equilibrium.R | 5 CHNOSZ-1.2.0/CHNOSZ/inst/doc/equilibrium.Rnw | 46 CHNOSZ-1.2.0/CHNOSZ/inst/doc/equilibrium.pdf |binary CHNOSZ-1.2.0/CHNOSZ/inst/doc/hotspring.R | 7 CHNOSZ-1.2.0/CHNOSZ/inst/doc/hotspring.Rnw | 23 CHNOSZ-1.2.0/CHNOSZ/inst/doc/hotspring.pdf |binary CHNOSZ-1.2.0/CHNOSZ/inst/doc/mklinks.sh |only CHNOSZ-1.2.0/CHNOSZ/inst/doc/obigt.R | 54 CHNOSZ-1.2.0/CHNOSZ/inst/doc/obigt.Rmd | 66 - CHNOSZ-1.2.0/CHNOSZ/inst/doc/obigt.html | 608 ++++++--- CHNOSZ-1.2.0/CHNOSZ/inst/extdata/Berman/BDat17.csv | 4 CHNOSZ-1.2.0/CHNOSZ/inst/extdata/Berman/Ber88.csv | 136 +- CHNOSZ-1.2.0/CHNOSZ/inst/extdata/Berman/Ber90.csv | 10 CHNOSZ-1.2.0/CHNOSZ/inst/extdata/Berman/DS10.csv | 12 CHNOSZ-1.2.0/CHNOSZ/inst/extdata/Berman/FDM+14.csv | 4 CHNOSZ-1.2.0/CHNOSZ/inst/extdata/Berman/JUN92.csv | 6 CHNOSZ-1.2.0/CHNOSZ/inst/extdata/Berman/SHD91.csv | 24 CHNOSZ-1.2.0/CHNOSZ/inst/extdata/Berman/ZS92.csv | 22 CHNOSZ-1.2.0/CHNOSZ/inst/extdata/Berman/sympy.R |only CHNOSZ-1.2.0/CHNOSZ/inst/extdata/Berman/testing |only CHNOSZ-1.2.0/CHNOSZ/inst/extdata/OBIGT/Berman_cr.csv |only CHNOSZ-1.2.0/CHNOSZ/inst/extdata/OBIGT/OldAA.csv |only CHNOSZ-1.2.0/CHNOSZ/inst/extdata/OBIGT/SLOP98.csv |only CHNOSZ-1.2.0/CHNOSZ/inst/extdata/OBIGT/SUPCRT92.csv |only CHNOSZ-1.2.0/CHNOSZ/inst/extdata/OBIGT/biotic_aq.csv.xz |binary CHNOSZ-1.2.0/CHNOSZ/inst/extdata/OBIGT/inorganic_aq.csv.xz |binary CHNOSZ-1.2.0/CHNOSZ/inst/extdata/OBIGT/inorganic_cr.csv.xz |binary CHNOSZ-1.2.0/CHNOSZ/inst/extdata/OBIGT/organic_aq.csv.xz |binary CHNOSZ-1.2.0/CHNOSZ/inst/extdata/thermo/SK95.csv |only CHNOSZ-1.2.0/CHNOSZ/inst/extdata/thermo/obigt_check.csv | 465 +++---- CHNOSZ-1.2.0/CHNOSZ/man/CHNOSZ-package.Rd | 2 CHNOSZ-1.2.0/CHNOSZ/man/NaCl.Rd |only CHNOSZ-1.2.0/CHNOSZ/man/add.obigt.Rd | 20 CHNOSZ-1.2.0/CHNOSZ/man/affinity.Rd | 14 CHNOSZ-1.2.0/CHNOSZ/man/basis.Rd | 10 CHNOSZ-1.2.0/CHNOSZ/man/berman.Rd | 168 +- CHNOSZ-1.2.0/CHNOSZ/man/buffer.Rd | 12 CHNOSZ-1.2.0/CHNOSZ/man/data.Rd | 10 CHNOSZ-1.2.0/CHNOSZ/man/diagram.Rd | 109 + CHNOSZ-1.2.0/CHNOSZ/man/equilibrate.Rd | 7 CHNOSZ-1.2.0/CHNOSZ/man/examples.Rd | 66 - CHNOSZ-1.2.0/CHNOSZ/man/extdata.Rd | 20 CHNOSZ-1.2.0/CHNOSZ/man/info.Rd | 3 CHNOSZ-1.2.0/CHNOSZ/man/macros/macros.Rd | 12 CHNOSZ-1.2.0/CHNOSZ/man/mosaic.Rd | 54 CHNOSZ-1.2.0/CHNOSZ/man/nonideal.Rd | 95 - CHNOSZ-1.2.0/CHNOSZ/man/protein.Rd | 5 CHNOSZ-1.2.0/CHNOSZ/man/solubility.Rd |only CHNOSZ-1.2.0/CHNOSZ/man/subcrt.Rd | 20 CHNOSZ-1.2.0/CHNOSZ/man/util.data.Rd | 12 CHNOSZ-1.2.0/CHNOSZ/man/util.expression.Rd | 43 CHNOSZ-1.2.0/CHNOSZ/man/util.fasta.Rd | 4 CHNOSZ-1.2.0/CHNOSZ/man/util.misc.Rd | 26 CHNOSZ-1.2.0/CHNOSZ/man/util.plot.Rd | 15 CHNOSZ-1.2.0/CHNOSZ/src/count_letters.c |only CHNOSZ-1.2.0/CHNOSZ/src/init.c | 13 CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-add.protein.R | 7 CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-affinity.R | 41 CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-basis.R | 12 CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-berman.R | 48 CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-diagram.R | 13 CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-equilibrate.R | 45 CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-info.R | 12 CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-ionize.aa.R | 4 CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-logmolality.R | 69 - CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-makeup.R | 6 CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-mosaic.R | 35 CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-nonideal.R | 55 CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-protein.info.R | 28 CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-recalculate.R |only CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-revisit.R | 5 CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-solubility.R |only CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-subcrt.R | 73 - CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-swap.basis.R | 26 CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-util.R | 2 CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-util.affinity.R | 3 CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-util.data.R | 2 CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-util.seq.R | 6 CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-water.lines.R | 2 CHNOSZ-1.2.0/CHNOSZ/tests/testthat/test-wjd.R | 8 CHNOSZ-1.2.0/CHNOSZ/vignettes/.install_extras |only CHNOSZ-1.2.0/CHNOSZ/vignettes/CHNOSZ.dia |binary CHNOSZ-1.2.0/CHNOSZ/vignettes/CHNOSZ.png |binary CHNOSZ-1.2.0/CHNOSZ/vignettes/anintro.Rmd | 252 ++-- CHNOSZ-1.2.0/CHNOSZ/vignettes/eos-regress.Rmd | 57 CHNOSZ-1.2.0/CHNOSZ/vignettes/equilibrium.Rnw | 46 CHNOSZ-1.2.0/CHNOSZ/vignettes/equilibrium.lyx | 86 - CHNOSZ-1.2.0/CHNOSZ/vignettes/hotspring.Rnw | 23 CHNOSZ-1.2.0/CHNOSZ/vignettes/hotspring.lyx | 84 + CHNOSZ-1.2.0/CHNOSZ/vignettes/mklinks.sh |only CHNOSZ-1.2.0/CHNOSZ/vignettes/obigt.Rmd | 66 - CHNOSZ-1.2.0/CHNOSZ/vignettes/obigt.bib | 319 +++-- CHNOSZ-1.2.0/CHNOSZ/vignettes/vig.bib | 236 ++- 164 files changed, 4909 insertions(+), 3154 deletions(-)