Title: Obtaining Star Schemas from Flat Tables
Description: Data in multidimensional systems is obtained from
operational systems and is transformed to adapt it to the new
structure. Frequently, the operations to be performed aim to
transform a flat table into a star schema. Transformations can
be carried out using professional ETL (extract, transform and
load) tools or tools intended for data transformation for end
users. With the tools mentioned, this transformation can be
carried out, but it requires a lot of work. The main objective
this package is to define transformations that allow obtaining
star schemas from flat tables easily. In addition, it includes
basic data cleaning, dimension enrichment, incremental data
refresh and query operations, adapted to this context.
Author: Jose Samos [aut, cre, cph] (<https://orcid.org/0000-0002-4457-3439>)
Maintainer: Jose Samos <jsamos@ugr.es>
Diff between starschemar versions 1.1.0 dated 2020-09-13 and 1.2.0 dated 2020-09-25
DESCRIPTION | 6 MD5 | 73 NAMESPACE | 6 NEWS.md | 6 R/constellation_get_star_schema.R |only R/data.R | 38 R/dimensional_query_filter_dimension.R | 2 R/dimensional_query_run_query.R | 17 R/dimensional_query_select_fact.R | 4 R/multistar_as_flat_table.R | 30 R/star_schema_enrich_dimension.R | 56 README.md | 389 ++-- data/ft_london_boroughs.rda |only data/ft_usa_city_county.rda |only data/ft_usa_states.rda |only data/ms_mrs.rda |binary inst/CITATION | 2 inst/doc/starschemar.R | 414 +++- inst/doc/starschemar.Rmd | 631 ++++-- inst/doc/starschemar.html | 2023 +++++++++++++-------- man/enrich_dimension_export.Rd | 1 man/enrich_dimension_import.Rd | 3 man/enrich_dimension_import_test.Rd |only man/filter_dimension.Rd | 2 man/filter_fact_rows.Rd | 2 man/ft_london_boroughs.Rd |only man/ft_usa_city_county.Rd |only man/ft_usa_states.Rd |only man/get_star_schema.Rd |only man/get_star_schema_names.Rd |only man/incremental_refresh_constellation.Rd | 2 man/incremental_refresh_star_schema.Rd | 2 man/ms_mrs.Rd | 4 man/ms_mrs_test.Rd | 2 man/multistar_as_flat_table.Rd | 24 man/purge_dimensions_constellation.Rd | 2 man/purge_dimensions_star_schema.Rd | 2 man/run_query.Rd | 14 man/select_fact.Rd | 4 tests/testthat/test-enrich_dimension_import_test.R |only tests/testthat/test-get_star_schema.R |only tests/testthat/test-get_star_schema_names.R |only tests/testthat/test-multistar_as_flat_table.R | 7 vignettes/starschemar.Rmd | 631 ++++-- 44 files changed, 2941 insertions(+), 1458 deletions(-)
Title: Distributions for Ecological Models in 'nimble'
Description: Common ecological distributions for 'nimble' models in the form of nimbleFunction objects.
Includes Cormack-Jolly-Seber, occupancy, dynamic occupancy, hidden Markov, dynamic hidden Markov, and N-mixture models.
(Jolly (1965) <DOI: 10.2307/2333826>, Seber (1965) <DOI: 10.2307/2333827>, Turek et al. (2016) <doi:10.1007/s10651-016-0353-z>).
Author: Benjamin R. Goldstein [aut, cre],
Daniel Turek [aut],
Lauren Ponisio [aut],
Perry de Valpine [aut]
Maintainer: Benjamin R. Goldstein <ben.goldstein@berkeley.edu>
Diff between nimbleEcology versions 0.3.0 dated 2020-05-29 and 0.3.1 dated 2020-09-25
DESCRIPTION | 8 MD5 | 10 R/dNmixture.R | 222 +++++++++++---------- build/vignette.rds |binary inst/NEWS | 5 inst/doc/Introduction_to_nimbleEcology.html | 296 ++++++++++++++-------------- 6 files changed, 296 insertions(+), 245 deletions(-)
Title: Functions that Apply to Rows and Columns of Matrices (and to
Vectors)
Description: High-performing functions operating on rows and columns of matrices, e.g. col / rowMedians(), col / rowRanks(), and col / rowSds(). Functions optimized per data type and for subsetted calculations such that both memory usage and processing time is minimized. There are also optimized vector-based methods, e.g. binMeans(), madDiff() and weightedMedian().
Author: Henrik Bengtsson [aut, cre, cph],
Hector Corrada Bravo [ctb],
Robert Gentleman [ctb],
Ola Hossjer [ctb],
Harris Jaffee [ctb],
Dongcan Jiang [ctb],
Peter Langfelder [ctb],
Peter Hickey [ctb],
Brian Montgomery [ctb],
Constantin Ahlmann-Eltze [ctb]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between matrixStats versions 0.56.0 dated 2020-03-13 and 0.57.0 dated 2020-09-25
DESCRIPTION | 14 ++-- MD5 | 50 ++++++++-------- NEWS | 25 +++++++- R/rowAlls.R | 66 ++++++++++++++-------- R/rowCollapse.R | 12 ++-- build/vignette.rds |binary inst/doc/matrixStats-methods.html | 2 man/rowAlls.Rd | 44 ++------------ man/rowAvgsPerColSet.Rd | 22 +------ man/rowCounts.Rd | 22 +------ man/rowDiffs.Rd | 22 +------ man/rowProds.Rd | 20 +----- man/rowQuantiles.Rd | 24 +------- man/rowRanks.Rd | 22 +------ man/rowSds.Rd | 46 ++------------- man/rowVars.Rd | 22 +------ man/varDiff.Rd | 113 ++++++++------------------------------ man/weightedMad.Rd | 35 ++--------- man/weightedMedian.Rd | 11 --- man/x_OP_y.Rd | 24 +------- src/rowCumprods.c | 4 - tests/anyMissing.R | 3 - tests/rowAllAnys.R | 49 ++++++++-------- tests/rowAvgsPerColSet.R | 96 ++++++++++++++++---------------- tests/rowCollapse_subset.R | 31 +++++----- tests/rowCumprods.R | 17 +++-- 26 files changed, 290 insertions(+), 506 deletions(-)
Title: Exchange Commands Between R and 'JavaScript'
Description: An 'httpuv' based bridge between R and 'JavaScript'. Provides an easy way to exchange commands and data between a web page and a currently running R session.
Author: Svetlana Ovchinnikova [aut, cre],
Simon Anders [aut]
Maintainer: Svetlana Ovchinnikova <s.ovchinnikova@zmbh.uni-heidelberg.de>
Diff between jrc versions 0.3.1 dated 2020-02-07 and 0.4.0 dated 2020-09-25
DESCRIPTION | 12 +- MD5 | 25 +++--- NAMESPACE | 2 NEWS.md | 10 ++ R/jrc.R | 187 +++++++++++++++++++++++++++++++++------------- man/App.Rd | 10 ++ man/allowDirectories.Rd |only man/allowFunctions.Rd | 3 man/allowVariables.Rd | 3 man/callFunction.Rd | 1 man/closeSession.Rd | 3 man/getSessionVariable.Rd | 3 man/limitStorage.Rd | 3 man/openPage.Rd | 7 + 14 files changed, 195 insertions(+), 74 deletions(-)
Title: Analyze Group Patterns using Graph Theory in Educational
Settings
Description: Analyzes group patterns using discourse analysis data with graph theory mathematics. Takes the order of which individuals talk and converts it to a network edge and weight list. Returns the density, centrality, centralization, and subgroup information for each group. Based on the analytical framework laid out in Chai et al. (2019) <doi:10.1187/cbe.18-11-0222>.
Author: Albert Chai [aut],
Andrew Lee [aut],
Joshua Le [aut, cre],
Katherine Ly [ctb],
Kevin Banh [ctb],
Priya Pahal [ctb],
Stanley Lo [aut]
Maintainer: Joshua Le <jpl038@ucsd.edu>
Diff between discourseGT versions 1.0.0 dated 2020-02-17 and 1.1.0 dated 2020-09-25
discourseGT-1.0.0/discourseGT/R/run_all.R |only discourseGT-1.0.0/discourseGT/man/run_all.Rd |only discourseGT-1.1.0/discourseGT/DESCRIPTION | 20 +- discourseGT-1.1.0/discourseGT/LICENSE | 4 discourseGT-1.1.0/discourseGT/MD5 | 50 +++---- discourseGT-1.1.0/discourseGT/NAMESPACE | 1 discourseGT-1.1.0/discourseGT/R/coreNetAnalysis.R | 32 +--- discourseGT-1.1.0/discourseGT/R/graphicalPlot.R | 27 ++- discourseGT-1.1.0/discourseGT/R/plotGraphs.R | 7 - discourseGT-1.1.0/discourseGT/R/plotGraphs2.R | 10 - discourseGT-1.1.0/discourseGT/R/plotNGTData.R | 98 +++++++++++--- discourseGT-1.1.0/discourseGT/R/prepareGraphs.R | 26 +-- discourseGT-1.1.0/discourseGT/R/subgroupsNetAnalysis.R | 19 -- discourseGT-1.1.0/discourseGT/R/summaryNet.R | 13 - discourseGT-1.1.0/discourseGT/R/tabulate_edges.R | 26 ++- discourseGT-1.1.0/discourseGT/R/writeData.R | 13 - discourseGT-1.1.0/discourseGT/README.md | 6 discourseGT-1.1.0/discourseGT/man/coreNetAnalysis.Rd | 5 discourseGT-1.1.0/discourseGT/man/graphicalPlot.Rd | 24 ++- discourseGT-1.1.0/discourseGT/man/plotGraphs.Rd | 5 discourseGT-1.1.0/discourseGT/man/plotGraphs2.Rd | 5 discourseGT-1.1.0/discourseGT/man/plotNGTData.Rd | 6 discourseGT-1.1.0/discourseGT/man/prepareGraphs.Rd | 19 -- discourseGT-1.1.0/discourseGT/man/subgroupsNetAnalysis.Rd | 5 discourseGT-1.1.0/discourseGT/man/summaryNet.Rd | 5 discourseGT-1.1.0/discourseGT/man/tabulate_edges.Rd | 8 - discourseGT-1.1.0/discourseGT/man/writeData.Rd | 5 27 files changed, 241 insertions(+), 198 deletions(-)
Title: RDF Library Bindings in R
Description: Provides methods to parse, query and serialize information
stored in the Resource Description Framework (RDF). RDF is described at <https://www.w3.org/TR/rdf-primer/>.
This package supports RDF by implementing an R interface to the Redland RDF C library,
described at <http://librdf.org/docs/api/index.html>. In brief, RDF provides a structured graph
consisting of Statements composed of Subject, Predicate, and Object Nodes.
Author: Matthew B. Jones [aut, cre],
Peter Slaughter [aut],
Jeroen Ooms [aut],
Carl Boettiger [aut],
Scott Chamberlain [aut],
David Beckett [cph],
University of Bristol [cph],
Regents of the University of California [cph]
Maintainer: Matthew B. Jones <jones@nceas.ucsb.edu>
Diff between redland versions 1.0.17-11 dated 2019-10-13 and 1.0.17-12 dated 2020-09-25
DESCRIPTION | 12 MD5 | 526 +++++++++--------- NEWS | 11 R/Node.R | 4 R/redland-package.R | 2 README.md | 30 - build/vignette.rds |binary configure | 9 inst/doc/redland_overview.R | 8 inst/doc/redland_overview.Rmd | 4 inst/doc/redland_overview.html | 105 ++- man/Model-initialize.Rd | 1 man/Node-initialize.Rd | 4 man/Parser-initialize.Rd | 10 man/Query-initialize.Rd | 11 man/QueryResults-initialize.Rd | 1 man/Serializer-initialize.Rd | 10 man/Statement-initialize.Rd | 16 man/Storage-initialize.Rd | 10 man/World-initialize.Rd | 1 man/addStatement.Rd | 1 man/executeQuery.Rd | 1 man/freeModel.Rd | 1 man/freeParser.Rd | 1 man/freeQuery.Rd | 1 man/freeQueryResults.Rd | 1 man/freeSerializer.Rd | 1 man/freeStatement.Rd | 1 man/freeStorage.Rd | 1 man/freeWorld.Rd | 1 man/getBlankNodeId.Rd | 1 man/getNodeType.Rd | 1 man/getNodeValue.Rd | 3 man/getQueryResultsLimit.Rd | 1 man/getResults.Rd | 1 man/getTermType.Rd | 1 man/librdf_copyright_string.Rd | 2 man/librdf_copyright_string_get.Rd | 2 man/librdf_digest_final.Rd | 2 man/librdf_digest_init.Rd | 2 man/librdf_digest_to_string.Rd | 2 man/librdf_digest_update.Rd | 2 man/librdf_digest_update_string.Rd | 2 man/librdf_free_digest.Rd | 2 man/librdf_free_hash.Rd | 2 man/librdf_free_iterator.Rd | 2 man/librdf_free_model.Rd | 2 man/librdf_free_node.Rd | 2 man/librdf_free_parser.Rd | 2 man/librdf_free_query.Rd | 2 man/librdf_free_query_results.Rd | 2 man/librdf_free_serializer.Rd | 2 man/librdf_free_statement.Rd | 2 man/librdf_free_storage.Rd | 2 man/librdf_free_stream.Rd | 2 man/librdf_free_uri.Rd | 2 man/librdf_free_world.Rd | 2 man/librdf_hash_to_string.Rd | 2 man/librdf_internal_test_error.Rd | 2 man/librdf_internal_test_warning.Rd | 2 man/librdf_iterator_end.Rd | 2 man/librdf_iterator_get_context.Rd | 2 man/librdf_iterator_get_object.Rd | 2 man/librdf_iterator_next.Rd | 2 man/librdf_log_message_code.Rd | 2 man/librdf_log_message_facility.Rd | 2 man/librdf_log_message_level.Rd | 2 man/librdf_log_message_locator.Rd | 2 man/librdf_log_message_message.Rd | 2 man/librdf_model_add.Rd | 2 man/librdf_model_add_statement.Rd | 2 man/librdf_model_add_statements.Rd | 2 man/librdf_model_add_string_literal_statement.Rd | 2 man/librdf_model_add_typed_literal_statement.Rd | 2 man/librdf_model_as_stream.Rd | 2 man/librdf_model_contains_context.Rd | 2 man/librdf_model_contains_statement.Rd | 2 man/librdf_model_context_add_statement.Rd | 2 man/librdf_model_context_add_statements.Rd | 2 man/librdf_model_context_as_stream.Rd | 2 man/librdf_model_context_remove_statement.Rd | 2 man/librdf_model_context_remove_statements.Rd | 2 man/librdf_model_find_statements.Rd | 2 man/librdf_model_find_statements_in_context.Rd | 2 man/librdf_model_get_arc.Rd | 2 man/librdf_model_get_arcs.Rd | 2 man/librdf_model_get_arcs_in.Rd | 2 man/librdf_model_get_arcs_out.Rd | 2 man/librdf_model_get_contexts.Rd | 2 man/librdf_model_get_feature.Rd | 2 man/librdf_model_get_source.Rd | 2 man/librdf_model_get_sources.Rd | 2 man/librdf_model_get_target.Rd | 2 man/librdf_model_get_targets.Rd | 2 man/librdf_model_has_arc_in.Rd | 2 man/librdf_model_has_arc_out.Rd | 2 man/librdf_model_load.Rd | 2 man/librdf_model_query_execute.Rd | 2 man/librdf_model_remove_statement.Rd | 2 man/librdf_model_set_feature.Rd | 2 man/librdf_model_size.Rd | 2 man/librdf_model_sync.Rd | 2 man/librdf_model_to_string.Rd | 2 man/librdf_model_transaction_commit.Rd | 2 man/librdf_model_transaction_rollback.Rd | 2 man/librdf_model_transaction_start.Rd | 2 man/librdf_new_digest.Rd | 2 man/librdf_new_hash.Rd | 2 man/librdf_new_hash_from_array_of_strings.Rd | 2 man/librdf_new_hash_from_string.Rd | 2 man/librdf_new_model.Rd | 2 man/librdf_new_model_from_model.Rd | 2 man/librdf_new_model_with_options.Rd | 2 man/librdf_new_node.Rd | 2 man/librdf_new_node_from_blank_identifier.Rd | 2 man/librdf_new_node_from_literal.Rd | 2 man/librdf_new_node_from_node.Rd | 2 man/librdf_new_node_from_normalised_uri_string.Rd | 2 man/librdf_new_node_from_typed_literal.Rd | 2 man/librdf_new_node_from_uri.Rd | 2 man/librdf_new_node_from_uri_local_name.Rd | 2 man/librdf_new_node_from_uri_string.Rd | 2 man/librdf_new_parser.Rd | 2 man/librdf_new_query.Rd | 2 man/librdf_new_query_from_query.Rd | 2 man/librdf_new_serializer.Rd | 2 man/librdf_new_statement.Rd | 2 man/librdf_new_statement_from_nodes.Rd | 2 man/librdf_new_statement_from_statement.Rd | 2 man/librdf_new_storage.Rd | 2 man/librdf_new_storage_from_storage.Rd | 2 man/librdf_new_uri.Rd | 2 man/librdf_new_uri_from_filename.Rd | 2 man/librdf_new_uri_from_uri.Rd | 2 man/librdf_new_world.Rd | 2 man/librdf_node_equals.Rd | 2 man/librdf_node_get_blank_identifier.Rd | 2 man/librdf_node_get_li_ordinal.Rd | 2 man/librdf_node_get_literal_value.Rd | 2 man/librdf_node_get_literal_value_as_latin1.Rd | 2 man/librdf_node_get_literal_value_datatype_uri.Rd | 2 man/librdf_node_get_literal_value_is_wf_xml.Rd | 2 man/librdf_node_get_literal_value_language.Rd | 2 man/librdf_node_get_type.Rd | 2 man/librdf_node_get_uri.Rd | 2 man/librdf_node_is_blank.Rd | 2 man/librdf_node_is_literal.Rd | 2 man/librdf_node_is_resource.Rd | 2 man/librdf_parser_check_name.Rd | 2 man/librdf_parser_get_accept_header.Rd | 2 man/librdf_parser_get_feature.Rd | 2 man/librdf_parser_get_namespaces_seen_count.Rd | 2 man/librdf_parser_get_namespaces_seen_prefix.Rd | 2 man/librdf_parser_get_namespaces_seen_uri.Rd | 2 man/librdf_parser_guess_name2.Rd | 2 man/librdf_parser_parse_as_stream.Rd | 2 man/librdf_parser_parse_counted_string_as_stream.Rd | 2 man/librdf_parser_parse_counted_string_into_model.Rd | 2 man/librdf_parser_parse_into_model.Rd | 2 man/librdf_parser_parse_string_as_stream.Rd | 2 man/librdf_parser_parse_string_into_model.Rd | 2 man/librdf_parser_set_feature.Rd | 2 man/librdf_query_execute.Rd | 2 man/librdf_query_get_limit.Rd | 2 man/librdf_query_get_offset.Rd | 2 man/librdf_query_results_as_stream.Rd | 2 man/librdf_query_results_finished.Rd | 2 man/librdf_query_results_get_binding_name.Rd | 2 man/librdf_query_results_get_binding_value.Rd | 2 man/librdf_query_results_get_binding_value_by_name.Rd | 2 man/librdf_query_results_get_bindings_count.Rd | 2 man/librdf_query_results_get_boolean.Rd | 2 man/librdf_query_results_get_count.Rd | 2 man/librdf_query_results_is_bindings.Rd | 2 man/librdf_query_results_is_boolean.Rd | 2 man/librdf_query_results_is_graph.Rd | 2 man/librdf_query_results_is_syntax.Rd | 2 man/librdf_query_results_next.Rd | 2 man/librdf_query_results_to_file2.Rd | 2 man/librdf_query_results_to_string2.Rd | 2 man/librdf_query_set_limit.Rd | 2 man/librdf_query_set_offset.Rd | 2 man/librdf_serializer_check_name.Rd | 2 man/librdf_serializer_get_feature.Rd | 2 man/librdf_serializer_serialize_model_to_file.Rd | 2 man/librdf_serializer_serialize_model_to_string.Rd | 2 man/librdf_serializer_serialize_stream_to_file.Rd | 2 man/librdf_serializer_serialize_stream_to_string.Rd | 2 man/librdf_serializer_set_feature.Rd | 2 man/librdf_serializer_set_namespace.Rd | 2 man/librdf_short_copyright_string.Rd | 2 man/librdf_short_copyright_string_get.Rd | 2 man/librdf_statement_equals.Rd | 2 man/librdf_statement_get_object.Rd | 2 man/librdf_statement_get_predicate.Rd | 2 man/librdf_statement_get_subject.Rd | 2 man/librdf_statement_is_complete.Rd | 2 man/librdf_statement_match.Rd | 2 man/librdf_statement_set_object.Rd | 2 man/librdf_statement_set_predicate.Rd | 2 man/librdf_statement_set_subject.Rd | 2 man/librdf_stream_end.Rd | 2 man/librdf_stream_get_object.Rd | 2 man/librdf_stream_next.Rd | 2 man/librdf_uri_compare.Rd | 2 man/librdf_uri_equals.Rd | 2 man/librdf_uri_to_string.Rd | 2 man/librdf_version_decimal.Rd | 2 man/librdf_version_decimal_get.Rd | 2 man/librdf_version_major.Rd | 2 man/librdf_version_major_get.Rd | 2 man/librdf_version_minor.Rd | 2 man/librdf_version_minor_get.Rd | 2 man/librdf_version_release.Rd | 2 man/librdf_version_release_get.Rd | 2 man/librdf_version_string.Rd | 2 man/librdf_version_string_get.Rd | 2 man/librdf_world_get_feature.Rd | 2 man/librdf_world_open.Rd | 2 man/librdf_world_set_feature.Rd | 2 man/librdf_world_set_logger.Rd | 2 man/parseFileIntoModel.Rd | 4 man/raptor_locator_byte.Rd | 2 man/raptor_locator_column.Rd | 2 man/raptor_locator_file.Rd | 2 man/raptor_locator_line.Rd | 2 man/raptor_locator_uri.Rd | 2 man/raptor_version_decimal.Rd | 2 man/raptor_version_decimal_get.Rd | 2 man/raptor_version_major.Rd | 2 man/raptor_version_major_get.Rd | 2 man/raptor_version_minor.Rd | 2 man/raptor_version_minor_get.Rd | 2 man/raptor_version_release.Rd | 2 man/raptor_version_release_get.Rd | 2 man/raptor_version_string.Rd | 2 man/raptor_version_string_get.Rd | 2 man/rasqal_version_decimal.Rd | 2 man/rasqal_version_decimal_get.Rd | 2 man/rasqal_version_major.Rd | 2 man/rasqal_version_major_get.Rd | 2 man/rasqal_version_minor.Rd | 2 man/rasqal_version_minor_get.Rd | 2 man/rasqal_version_release.Rd | 2 man/rasqal_version_release_get.Rd | 2 man/rasqal_version_string.Rd | 2 man/rasqal_version_string_get.Rd | 2 man/redland.Rd | 3 man/roclet_process.roclet_mergeNamespace.Rd | 3 man/serializeToCharacter.Rd | 4 man/serializeToFile.Rd | 4 man/setNameSpace.Rd | 4 man/setQueryResultsLimit.Rd | 1 man/writeResults.Rd | 12 tests/testthat/test.Model.R | 1 tests/testthat/test.Node.R | 1 tests/testthat/test.Parser.R | 1 tests/testthat/test.Query.R | 1 tests/testthat/test.Serializer.R | 5 tests/testthat/test.Statement.R | 1 tests/testthat/test.Storage.R | 2 tests/testthat/test.World.R | 1 tests/testthat/test.redland_base.R | 6 vignettes/redland_overview.Rmd | 4 264 files changed, 642 insertions(+), 629 deletions(-)
Title: Lists of Numeric Atomic Objects
Description: Create and manipulate numeric list ('nlist') objects.
An 'nlist' is an S3 list of uniquely named numeric objects.
An numeric object is an integer or double vector, matrix or array.
An 'nlists' object is a S3 class list of 'nlist' objects with the
same names, dimensionalities and typeofs. Numeric list objects are of
interest because they are the raw data inputs for analytic engines
such as 'JAGS', 'STAN' and 'TMB'. Numeric lists objects, which are
useful for storing multiple realizations of of simulated data sets,
can be converted to coda::mcmc and coda::mcmc.list objects.
Author: Joe Thorley [aut, cre] (<https://orcid.org/0000-0002-7683-4592>),
Poisson Consulting [cph, fnd]
Maintainer: Joe Thorley <joe@poissonconsulting.ca>
Diff between nlist versions 0.2.0 dated 2020-06-25 and 0.3.0 dated 2020-09-25
nlist-0.2.0/nlist/man/as.mcmc.list.nlist.Rd |only nlist-0.2.0/nlist/man/as.mcmc.list.nlists.Rd |only nlist-0.2.0/nlist/man/as.mcmc.nlist.Rd |only nlist-0.2.0/nlist/man/as.mcmc.nlists.Rd |only nlist-0.3.0/nlist/DESCRIPTION | 12 - nlist-0.3.0/nlist/MD5 | 127 +++++++++------- nlist-0.3.0/nlist/NAMESPACE | 44 +++++ nlist-0.3.0/nlist/NEWS.md | 9 + nlist-0.3.0/nlist/R/as-list.R |only nlist-0.3.0/nlist/R/as-mcmc-list.R | 59 +++++-- nlist-0.3.0/nlist/R/as-mcmc.R | 56 ++++++- nlist-0.3.0/nlist/R/as-nlist.R | 29 +++ nlist-0.3.0/nlist/R/as-nlists.R | 11 + nlist-0.3.0/nlist/R/as-term-frame.R | 6 nlist-0.3.0/nlist/R/as-term.R | 13 + nlist-0.3.0/nlist/R/bind-iterations.R |only nlist-0.3.0/nlist/R/brackets.R | 5 nlist-0.3.0/nlist/R/c.R | 4 nlist-0.3.0/nlist/R/chk.R | 5 nlist-0.3.0/nlist/R/collapse-chains.R | 15 + nlist-0.3.0/nlist/R/complete-terms.R |only nlist-0.3.0/nlist/R/extras.R |only nlist-0.3.0/nlist/R/internal.R | 5 nlist-0.3.0/nlist/R/nchains.R | 8 + nlist-0.3.0/nlist/R/niters.R | 8 + nlist-0.3.0/nlist/R/npdims.R | 4 nlist-0.3.0/nlist/R/nterms.R | 8 + nlist-0.3.0/nlist/R/params.R | 2 nlist-0.3.0/nlist/R/pars.R | 28 +++ nlist-0.3.0/nlist/R/pdims.R | 8 + nlist-0.3.0/nlist/R/set-pars.R | 30 +++ nlist-0.3.0/nlist/R/sort.R |only nlist-0.3.0/nlist/R/split-chains.R | 6 nlist-0.3.0/nlist/R/subset.R | 91 +++++++++++ nlist-0.3.0/nlist/R/tidy.R | 16 ++ nlist-0.3.0/nlist/R/utils.R |only nlist-0.3.0/nlist/R/vld.R | 2 nlist-0.3.0/nlist/build/nlist.pdf |binary nlist-0.3.0/nlist/man/as_mcmc.Rd |only nlist-0.3.0/nlist/man/as_mcmc_list.Rd |only nlist-0.3.0/nlist/man/as_nlist.Rd | 10 + nlist-0.3.0/nlist/man/as_nlists.Rd | 5 nlist-0.3.0/nlist/man/as_term.mcmc.Rd |only nlist-0.3.0/nlist/man/bind_iterations.mcmc.Rd |only nlist-0.3.0/nlist/man/bind_iterations.mcmc.list.Rd |only nlist-0.3.0/nlist/man/collapse_chains.mcmc.Rd |only nlist-0.3.0/nlist/man/collapse_chains.mcmc.list.Rd |only nlist-0.3.0/nlist/man/collapse_chains.nlist.Rd | 1 nlist-0.3.0/nlist/man/collapse_chains.nlists.Rd | 1 nlist-0.3.0/nlist/man/complete_terms.mcmc.Rd |only nlist-0.3.0/nlist/man/estimates.nlist.Rd | 1 nlist-0.3.0/nlist/man/estimates.nlists.Rd | 1 nlist-0.3.0/nlist/man/nchains.mcmc.Rd |only nlist-0.3.0/nlist/man/nchains.mcmc.list.Rd |only nlist-0.3.0/nlist/man/niters.mcmc.Rd |only nlist-0.3.0/nlist/man/niters.mcmc.list.Rd |only nlist-0.3.0/nlist/man/npdims.mcmc.list.Rd |only nlist-0.3.0/nlist/man/nterms.mcmc.Rd |only nlist-0.3.0/nlist/man/nterms.mcmc.list.Rd |only nlist-0.3.0/nlist/man/params.Rd | 4 nlist-0.3.0/nlist/man/pars.mcmc.Rd |only nlist-0.3.0/nlist/man/pars.mcmc.list.Rd |only nlist-0.3.0/nlist/man/pdims.mcmc.Rd |only nlist-0.3.0/nlist/man/pdims.mcmc.list.Rd |only nlist-0.3.0/nlist/man/reexports.Rd | 16 +- nlist-0.3.0/nlist/man/set_pars.mcmc.Rd |only nlist-0.3.0/nlist/man/set_pars.mcmc.list.Rd |only nlist-0.3.0/nlist/man/set_pars.nlist.Rd | 8 - nlist-0.3.0/nlist/man/set_pars.nlists.Rd | 8 - nlist-0.3.0/nlist/man/split_chains.nlists.Rd | 8 - nlist-0.3.0/nlist/man/subset.mcmc.Rd |only nlist-0.3.0/nlist/man/subset.mcmc.list.Rd |only nlist-0.3.0/nlist/man/tidy.mcmc.Rd |only nlist-0.3.0/nlist/man/tidy.mcmc.list.Rd |only nlist-0.3.0/nlist/tests/testthat/test-as-list.R |only nlist-0.3.0/nlist/tests/testthat/test-as-mcmc-list.R | 133 ++++++++++++++++- nlist-0.3.0/nlist/tests/testthat/test-as-mcmc.R | 124 +++++++++++++++ nlist-0.3.0/nlist/tests/testthat/test-as-nlist.R | 20 ++ nlist-0.3.0/nlist/tests/testthat/test-as-nlists.R | 16 ++ nlist-0.3.0/nlist/tests/testthat/test-c.R | 4 nlist-0.3.0/nlist/tests/testthat/test-complete-terms.R |only nlist-0.3.0/nlist/tests/testthat/test-split-chains.R | 3 nlist-0.3.0/nlist/tests/testthat/test-subset.R | 41 +++++ 83 files changed, 892 insertions(+), 123 deletions(-)
Title: Sparklyr Extension for 'Flint'
Description: This sparklyr extension makes 'Flint' time series library
functionalities (<https://github.com/twosigma/flint>) easily accessible
through R.
Author: Yitao Li [aut, cre] (<https://orcid.org/0000-0002-1261-905X>)
Maintainer: Yitao Li <yitao@rstudio.com>
Diff between sparklyr.flint versions 0.1.1 dated 2020-08-24 and 0.2.0 dated 2020-09-25
sparklyr.flint-0.1.1/sparklyr.flint/man/fromRDD.Rd |only sparklyr.flint-0.1.1/sparklyr.flint/man/fromSDF.Rd |only sparklyr.flint-0.2.0/sparklyr.flint/DESCRIPTION | 15 sparklyr.flint-0.2.0/sparklyr.flint/MD5 | 81 + sparklyr.flint-0.2.0/sparklyr.flint/NAMESPACE | 22 sparklyr.flint-0.2.0/sparklyr.flint/NEWS.md | 14 sparklyr.flint-0.2.0/sparklyr.flint/R/asof_join.R |only sparklyr.flint-0.2.0/sparklyr.flint/R/ols_regression.R |only sparklyr.flint-0.2.0/sparklyr.flint/R/reexports.R |only sparklyr.flint-0.2.0/sparklyr.flint/R/sdf_utils.R | 176 +++- sparklyr.flint-0.2.0/sparklyr.flint/R/summarizers.R | 408 ++++++++-- sparklyr.flint-0.2.0/sparklyr.flint/R/window_exprs.R | 14 sparklyr.flint-0.2.0/sparklyr.flint/man/asof_future_left_join.Rd |only sparklyr.flint-0.2.0/sparklyr.flint/man/asof_join.Rd |only sparklyr.flint-0.2.0/sparklyr.flint/man/asof_left_join.Rd |only sparklyr.flint-0.2.0/sparklyr.flint/man/collect.ts_rdd.Rd | 13 sparklyr.flint-0.2.0/sparklyr.flint/man/from_rdd.Rd |only sparklyr.flint-0.2.0/sparklyr.flint/man/from_sdf.Rd |only sparklyr.flint-0.2.0/sparklyr.flint/man/ols_regression.Rd |only sparklyr.flint-0.2.0/sparklyr.flint/man/spark_connection.Rd |only sparklyr.flint-0.2.0/sparklyr.flint/man/spark_connection.ts_rdd.Rd |only sparklyr.flint-0.2.0/sparklyr.flint/man/spark_dataframe.Rd |only sparklyr.flint-0.2.0/sparklyr.flint/man/spark_dataframe.ts_rdd.Rd |only sparklyr.flint-0.2.0/sparklyr.flint/man/spark_jobj.Rd |only sparklyr.flint-0.2.0/sparklyr.flint/man/spark_jobj.ts_rdd.Rd |only sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_avg.Rd | 24 sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_corr.Rd | 34 sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_corr2.Rd | 40 sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_count.Rd | 32 sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_covar.Rd | 26 sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_dot_product.Rd | 26 sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_ema_half_life.Rd |only sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_ewma.Rd |only sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_geometric_mean.Rd |only sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_kurtosis.Rd |only sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_max.Rd | 26 sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_min.Rd | 26 sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_nth_central_moment.Rd | 40 sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_nth_moment.Rd | 40 sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_product.Rd | 24 sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_quantile.Rd | 26 sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_skewness.Rd |only sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_stddev.Rd | 26 sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_sum.Rd | 24 sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_var.Rd | 26 sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_weighted_avg.Rd | 24 sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_weighted_corr.Rd | 35 sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_weighted_covar.Rd | 26 sparklyr.flint-0.2.0/sparklyr.flint/man/summarize_z_score.Rd | 43 - sparklyr.flint-0.2.0/sparklyr.flint/man/summarizers.Rd | 30 sparklyr.flint-0.2.0/sparklyr.flint/man/to_sdf.Rd |only sparklyr.flint-0.2.0/sparklyr.flint/man/ts_rdd_builder.Rd | 11 sparklyr.flint-0.2.0/sparklyr.flint/man/window_exprs.Rd | 13 53 files changed, 1070 insertions(+), 295 deletions(-)
More information about sparklyr.flint at CRAN
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Title: Measuring Disparity
Description: A modular package for measuring disparity (multidimensional space occupancy). Disparity can be calculated from any matrix defining a multidimensional space. The package provides a set of implemented metrics to measure properties of the space and allows users to provide and test their own metrics (Guillerme (2018) <doi:10.1111/2041-210X.13022>). The package also provides functions for looking at disparity in a serial way (e.g. disparity through time - Guillerme and Cooper (2018) <doi:10.1111/pala.12364>) or per groups as well as visualising the results. Finally, this package provides several statistical tests for disparity analysis.
Author: Thomas Guillerme [aut, cre, cph],
Mark N Puttick [aut, cph]
Maintainer: Thomas Guillerme <guillert@tcd.ie>
Diff between dispRity versions 1.4.2 dated 2020-09-04 and 1.5.0 dated 2020-09-25
dispRity-1.4.2/dispRity/R/sequential.test.R |only dispRity-1.4.2/dispRity/R/sequential.test_fun.R |only dispRity-1.5.0/dispRity/DESCRIPTION | 13 dispRity-1.5.0/dispRity/MD5 | 97 dispRity-1.5.0/dispRity/NAMESPACE | 14 dispRity-1.5.0/dispRity/NEWS.md | 28 dispRity-1.5.0/dispRity/R/Claddis.ordination.R | 13 dispRity-1.5.0/dispRity/R/Claddis.ordination_fun.R | 2 dispRity-1.5.0/dispRity/R/char.diff.R | 13 dispRity-1.5.0/dispRity/R/char.diff_fun.R | 8 dispRity-1.5.0/dispRity/R/chrono.subsets.R | 3 dispRity-1.5.0/dispRity/R/chrono.subsets_fun.R | 13 dispRity-1.5.0/dispRity/R/dispRity-package.R | 4 dispRity-1.5.0/dispRity/R/dispRity.R | 108 dispRity-1.5.0/dispRity/R/dispRity.metric.R | 171 - dispRity-1.5.0/dispRity/R/dispRity.utilities.R | 12 dispRity-1.5.0/dispRity/R/dispRity.utilities_fun.R | 52 dispRity-1.5.0/dispRity/R/dispRity_fun.R | 129 dispRity-1.5.0/dispRity/R/dtt.dispRity.R | 10 dispRity-1.5.0/dispRity/R/fit.ace.model.R |only dispRity-1.5.0/dispRity/R/make.demo.data.R | 4 dispRity-1.5.0/dispRity/R/make.metric.R | 60 dispRity-1.5.0/dispRity/R/model.test.R | 9 dispRity-1.5.0/dispRity/R/model.test.sim.R | 3 dispRity-1.5.0/dispRity/R/model.test.wrapper.R | 7 dispRity-1.5.0/dispRity/R/model.test_fun.R | 20 dispRity-1.5.0/dispRity/R/multi.ace.R |only dispRity-1.5.0/dispRity/R/multi.ace_fun.R |only dispRity-1.5.0/dispRity/R/plot.dispRity.R | 595 +-- dispRity-1.5.0/dispRity/R/plot.dispRity_fun.R | 1564 ++++++---- dispRity-1.5.0/dispRity/R/print.dispRity.R | 40 dispRity-1.5.0/dispRity/R/reduce.space.R |only dispRity-1.5.0/dispRity/R/reduce.space_fun.R |only dispRity-1.5.0/dispRity/R/sanitizing.R | 7 dispRity-1.5.0/dispRity/R/summary.dispRity.R | 112 dispRity-1.5.0/dispRity/R/summary.dispRity_fun.R | 31 dispRity-1.5.0/dispRity/R/test.metric.R |only dispRity-1.5.0/dispRity/R/test.metric_fun.R |only dispRity-1.5.0/dispRity/R/zzz.R | 2 dispRity-1.5.0/dispRity/data/BeckLee_disparity.rda |binary dispRity-1.5.0/dispRity/data/disparity.rda |binary dispRity-1.5.0/dispRity/inst/References.bib | 26 dispRity-1.5.0/dispRity/inst/vignettes/dispRity_workhop_code.Rmd |only dispRity-1.5.0/dispRity/man/BeckLee.Rd | 2 dispRity-1.5.0/dispRity/man/dispRity.Rd | 20 dispRity-1.5.0/dispRity/man/dispRity.metric.Rd | 76 dispRity-1.5.0/dispRity/man/dtt.dispRity.Rd | 3 dispRity-1.5.0/dispRity/man/make.metric.Rd | 17 dispRity-1.5.0/dispRity/man/model.test.Rd | 3 dispRity-1.5.0/dispRity/man/model.test.sim.Rd | 2 dispRity-1.5.0/dispRity/man/model.test.wrapper.Rd | 2 dispRity-1.5.0/dispRity/man/multi.ace.Rd |only dispRity-1.5.0/dispRity/man/plot.dispRity.Rd | 71 dispRity-1.5.0/dispRity/man/reduce.space.Rd |only dispRity-1.5.0/dispRity/man/rescale.dispRity.Rd | 2 dispRity-1.5.0/dispRity/man/test.metric.Rd |only 56 files changed, 2082 insertions(+), 1286 deletions(-)
Title: Create, Manipulate and Query Parameter Terms
Description: Creates, manipulates, queries and repairs vectors
of parameter terms. Parameter terms are the labels used to reference
values in vectors, matrices and arrays. They represent the names in
coefficient tables and the column names in 'mcmc' and 'mcmc.list'
objects.
Author: Joe Thorley [aut, cre] (<https://orcid.org/0000-0002-7683-4592>),
Kirill Müller [aut] (<https://orcid.org/0000-0002-1416-3412>),
Ayla Pearson [ctb] (<https://orcid.org/0000-0001-7388-1222>),
Poisson Consulting [cph, fnd]
Maintainer: Joe Thorley <joe@poissonconsulting.ca>
Diff between term versions 0.2.0 dated 2020-06-20 and 0.3.0 dated 2020-09-25
term-0.2.0/term/R/FIXME.R |only term-0.2.0/term/R/npdims-terms.R |only term-0.2.0/term/R/sys.R |only term-0.2.0/term/R/vec-cast.R |only term-0.2.0/term/man/vec_cast.term.Rd |only term-0.2.0/term/man/vec_ptype2.term.Rd |only term-0.2.0/term/tests/testthat/out/print.txt |only term-0.2.0/term/tests/testthat/test-base.R |only term-0.2.0/term/tests/testthat/test-in-inconsistent-terms.R |only term-0.2.0/term/tests/testthat/test-npdims-terms.R |only term-0.3.0/term/DESCRIPTION | 15 term-0.3.0/term/MD5 | 204 +++++++----- term-0.3.0/term/NAMESPACE | 67 +++ term-0.3.0/term/NEWS.md | 29 + term-0.3.0/term/R/anyNA.R |only term-0.3.0/term/R/anyduplicated.R |only term-0.3.0/term/R/as-character.R |only term-0.3.0/term/R/as-data-frame.R |only term-0.3.0/term/R/as-term-rcrd.R |only term-0.3.0/term/R/as-term.R | 35 +- term-0.3.0/term/R/chk.R | 31 + term-0.3.0/term/R/complete-terms.R | 29 + term-0.3.0/term/R/consistent-term.R | 7 term-0.3.0/term/R/deprecated.R | 4 term-0.3.0/term/R/dims.R | 10 term-0.3.0/term/R/extras.R |only term-0.3.0/term/R/format.R | 6 term-0.3.0/term/R/internal.R | 88 +++++ term-0.3.0/term/R/is-incomplete-terms.R | 3 term-0.3.0/term/R/is-inconsistent-terms.R | 10 term-0.3.0/term/R/is.R | 18 + term-0.3.0/term/R/is.na.R |only term-0.3.0/term/R/levels.R |only term-0.3.0/term/R/namespace.R | 7 term-0.3.0/term/R/new-term-rcrd.R |only term-0.3.0/term/R/normalize-terms.R |only term-0.3.0/term/R/npdims.R | 14 term-0.3.0/term/R/nterms.R | 36 +- term-0.3.0/term/R/params.R | 4 term-0.3.0/term/R/pars-terms.R | 22 - term-0.3.0/term/R/pars.R | 45 +- term-0.3.0/term/R/pdims.R | 19 - term-0.3.0/term/R/print.R |only term-0.3.0/term/R/rep.R | 4 term-0.3.0/term/R/repair-terms.R | 32 - term-0.3.0/term/R/scalar-term.R |only term-0.3.0/term/R/set-pars.R | 9 term-0.3.0/term/R/subset.R | 40 ++ term-0.3.0/term/R/summary.R |only term-0.3.0/term/R/term-rcrd.R |only term-0.3.0/term/R/term.R | 28 - term-0.3.0/term/R/tindex.R | 22 - term-0.3.0/term/R/unique.R |only term-0.3.0/term/R/valid-term.R | 22 - term-0.3.0/term/R/vec-cast-character.R |only term-0.3.0/term/R/vec-cast-term-rcrd.R |only term-0.3.0/term/R/vec-cast-term.R |only term-0.3.0/term/R/vec-proxy-compare.R | 5 term-0.3.0/term/R/vec-ptype2.R | 15 term-0.3.0/term/R/vld.R | 40 ++ term-0.3.0/term/README.md | 2 term-0.3.0/term/build |only term-0.3.0/term/man/NA_term_rcrd_.Rd |only term-0.3.0/term/man/as_term.Rd | 6 term-0.3.0/term/man/as_term_rcrd.Rd |only term-0.3.0/term/man/chk_term.Rd | 19 + term-0.3.0/term/man/complete_terms.Rd | 12 term-0.3.0/term/man/dims.term_rcrd.Rd |only term-0.3.0/term/man/figures/lifecycle-superseded.svg |only term-0.3.0/term/man/is_inconsistent_terms.Rd | 1 term-0.3.0/term/man/is_term_rcrd.Rd |only term-0.3.0/term/man/new_term_rcrd.Rd |only term-0.3.0/term/man/normalize_terms.Rd |only term-0.3.0/term/man/npdims.term.Rd | 23 - term-0.3.0/term/man/nterms.default.Rd |only term-0.3.0/term/man/nterms.term.Rd | 7 term-0.3.0/term/man/nterms.term_rcrd.Rd |only term-0.3.0/term/man/params.Rd | 5 term-0.3.0/term/man/pars.default.Rd | 5 term-0.3.0/term/man/pars.term.Rd | 1 term-0.3.0/term/man/pars.term_rcrd.Rd |only term-0.3.0/term/man/pars_terms.Rd | 3 term-0.3.0/term/man/pdims.term.Rd | 2 term-0.3.0/term/man/pdims.term_rcrd.Rd |only term-0.3.0/term/man/reexports.Rd | 2 term-0.3.0/term/man/repair_terms.Rd | 13 term-0.3.0/term/man/scalar_term.Rd |only term-0.3.0/term/man/set_pars.term.Rd | 6 term-0.3.0/term/man/subset.term.Rd | 3 term-0.3.0/term/man/subset.term_rcrd.Rd |only term-0.3.0/term/man/term_rcrd.Rd |only term-0.3.0/term/man/tindex.Rd | 2 term-0.3.0/term/man/valid_term.Rd | 4 term-0.3.0/term/man/vld_term.Rd | 19 - term-0.3.0/term/tests/testthat/out/print-term-rcrd.txt |only term-0.3.0/term/tests/testthat/out/print-term.txt |only term-0.3.0/term/tests/testthat/test-anyduplicated.R |only term-0.3.0/term/tests/testthat/test-as-data-frame.R |only term-0.3.0/term/tests/testthat/test-as-term-rcrd.R |only term-0.3.0/term/tests/testthat/test-as-term.R | 13 term-0.3.0/term/tests/testthat/test-chk.R | 13 term-0.3.0/term/tests/testthat/test-complete-terms.R | 30 + term-0.3.0/term/tests/testthat/test-consistent-term.R | 20 + term-0.3.0/term/tests/testthat/test-deprecated.R | 10 term-0.3.0/term/tests/testthat/test-dims.R | 7 term-0.3.0/term/tests/testthat/test-inconsistent-terms.R |only term-0.3.0/term/tests/testthat/test-internal.R | 18 + term-0.3.0/term/tests/testthat/test-is-incomplete-terms.R | 2 term-0.3.0/term/tests/testthat/test-is-na.R |only term-0.3.0/term/tests/testthat/test-is.R | 6 term-0.3.0/term/tests/testthat/test-levels.R |only term-0.3.0/term/tests/testthat/test-new-term-rcrd.R |only term-0.3.0/term/tests/testthat/test-normalize-terms.R |only term-0.3.0/term/tests/testthat/test-npars.R | 20 - term-0.3.0/term/tests/testthat/test-npdims.R | 22 - term-0.3.0/term/tests/testthat/test-nterms.R | 15 term-0.3.0/term/tests/testthat/test-pars-terms.R | 23 - term-0.3.0/term/tests/testthat/test-pars.R | 49 +- term-0.3.0/term/tests/testthat/test-pdims.R | 15 term-0.3.0/term/tests/testthat/test-print.R | 8 term-0.3.0/term/tests/testthat/test-rep.R | 8 term-0.3.0/term/tests/testthat/test-repair-terms.R | 19 + term-0.3.0/term/tests/testthat/test-scalar-term.R | 23 + term-0.3.0/term/tests/testthat/test-subset.R | 43 ++ term-0.3.0/term/tests/testthat/test-summary.R |only term-0.3.0/term/tests/testthat/test-term-rcrd.R |only term-0.3.0/term/tests/testthat/test-tindex.R | 8 term-0.3.0/term/tests/testthat/test-unique.R | 14 term-0.3.0/term/tests/testthat/test-valid-term.R | 34 +- term-0.3.0/term/tests/testthat/test-vec-cast.R |only term-0.3.0/term/tests/testthat/test-vld.R | 32 + 131 files changed, 1052 insertions(+), 455 deletions(-)
Title: Maximum Likelihood Estimates of Gaussian Processes
Description: Maximum likelihood Gaussian process modeling for
univariate and multi-dimensional outputs with diagnostic plots
following Santner et al (2003) <doi:10.1007/978-1-4757-3799-8>.
Contact the maintainer for a package version that includes
sensitivity analysis.
Author: Garrett M. Dancik
Maintainer: Garrett M. Dancik <dancikg@easternct.edu>
Diff between mlegp versions 3.1.7 dated 2018-04-14 and 3.1.8 dated 2020-09-25
CHANGES | 5 +++ DESCRIPTION | 8 +++--- MD5 | 54 +++++++++++++++++++++--------------------- R/createGP.R | 3 +- R/mlegp.R | 1 R/mlegp2.R | 17 +++++++------ R/summary.gp.list.R | 2 - man/CV.Rd | 2 - man/createGP.Rd | 2 - man/createWindow.Rd | 2 - man/gp.list.Rd | 2 - man/is.gp.Rd | 2 - man/mlegp-internal.Rd | 2 - man/mlegp-naming-functions.Rd | 2 - man/mlegp-package.Rd | 2 - man/mlegp-svd-functions.Rd | 2 - man/mlegp.Rd | 5 +++ man/nugget.Rd | 2 - man/paramLookup.Rd | 2 - man/plot.gp.Rd | 2 - man/plot.gp.list.Rd | 2 - man/plotObservedEffects.Rd | 2 - man/predict.gp.Rd | 2 - man/print.gp.Rd | 2 - man/print.gp.list.Rd | 2 - man/summary.gp.Rd | 2 - man/summary.gp.list.Rd | 2 - man/uniqueSummary.Rd | 2 - 28 files changed, 72 insertions(+), 63 deletions(-)
Title: "Eating the Liver of Data Science"
Description: Provides a collection of helper functions that make various techniques from data science more user-friendly for non-experts. In this way, our aim is to allow non-experts to become familiar with the techniques with only a minimal level of coding knowledge. Indeed, following an ancient Persian idiom, we refer to this as "eating the liver of data science" which could be interpreted as "getting intimately close with data science". Examples of procedures we include are: data partitioning for out-of-sample testing, computing Mean Squared Error (MSE) for quantifying prediction accuracy, and data transformation (z-score and min-max). Besides such helper functions, the package also includes several interesting datasets that are useful for multivariate analysis.
Author: Reza Mohammadi [aut, cre] (<https://orcid.org/0000-0001-9538-0648>),
Kevin Burke [aut]
Maintainer: Reza Mohammadi <a.mohammadi@uva.nl>
Diff between liver versions 1.1 dated 2020-09-10 and 1.2 dated 2020-09-25
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++++-------- NAMESPACE | 9 +++++++-- NEWS.md | 5 +++++ R/kNN.R |only R/mse.R | 3 +++ data/bank.RData |only man/adult.Rd | 2 +- man/bank.Rd |only man/churn.Rd | 2 +- man/churnTel.Rd | 2 +- man/classifyRisk.Rd | 2 +- man/kNN.Rd |only 13 files changed, 35 insertions(+), 18 deletions(-)
Title: Phylogenetic Ridge Regression Methods for Comparative Studies
Description: Functions for phylogenetic analysis (Castiglione et al, 2018 <doi:10.1111/2041-210X.12954>). The functions perform the estimation of phenotypic evolutionary rates, identification of phenotypic evolutionary rate shifts, quantification of direction and size of evolutionary change in multivariate traits, the computation of ontogenetic shape vectors and test for morphological convergence.
Author: Pasquale Raia, Silvia Castiglione, Carmela Serio, Alessandro Mondanaro, Marina Melchionna, Mirko Di Febbraro, Antonio Profico, Francesco Carotenuto
Maintainer: Pasquale Raia <pasquale.raia@unina.it>
Diff between RRphylo versions 2.4.7 dated 2020-07-13 and 2.4.11 dated 2020-09-25
RRphylo-2.4.11/RRphylo/DESCRIPTION | 14 RRphylo-2.4.11/RRphylo/MD5 | 107 ++- RRphylo-2.4.11/RRphylo/NAMESPACE | 6 RRphylo-2.4.11/RRphylo/R/DataSimians.R |only RRphylo-2.4.11/RRphylo/R/PGLS_fossil.R | 8 RRphylo-2.4.11/RRphylo/R/RRphylo.R | 183 ++++-- RRphylo-2.4.11/RRphylo/R/StableTraitsR.R | 7 RRphylo-2.4.11/RRphylo/R/conv.map.R |only RRphylo-2.4.11/RRphylo/R/cutPhylo.R | 37 + RRphylo-2.4.11/RRphylo/R/distNodes.R | 7 RRphylo-2.4.11/RRphylo/R/getMommy.R | 8 RRphylo-2.4.11/RRphylo/R/getSis.R | 9 RRphylo-2.4.11/RRphylo/R/makeFossil.R | 8 RRphylo-2.4.11/RRphylo/R/makeL.R | 7 RRphylo-2.4.11/RRphylo/R/makeL1.R | 7 RRphylo-2.4.11/RRphylo/R/overfitRR.R | 22 RRphylo-2.4.11/RRphylo/R/phyloclust.R | 8 RRphylo-2.4.11/RRphylo/R/plotRates.R | 1 RRphylo-2.4.11/RRphylo/R/random.evolvability.test.R |only RRphylo-2.4.11/RRphylo/R/scaleTree.R | 8 RRphylo-2.4.11/RRphylo/R/search.conv.R | 9 RRphylo-2.4.11/RRphylo/R/search.shift.R | 1 RRphylo-2.4.11/RRphylo/R/search.trend.R | 465 +++++++++-------- RRphylo-2.4.11/RRphylo/R/setBM.R | 8 RRphylo-2.4.11/RRphylo/R/sizedsubtree.R | 11 RRphylo-2.4.11/RRphylo/R/swap.phylo.R | 7 RRphylo-2.4.11/RRphylo/R/swapONE.R | 9 RRphylo-2.4.11/RRphylo/build/vignette.rds |binary RRphylo-2.4.11/RRphylo/data/DataSimians.rda |only RRphylo-2.4.11/RRphylo/inst/doc/RRphylo.R | 136 +++- RRphylo-2.4.11/RRphylo/inst/doc/RRphylo.Rmd | 47 + RRphylo-2.4.11/RRphylo/inst/doc/RRphylo.html | 120 ++-- RRphylo-2.4.11/RRphylo/inst/doc/Tree-Manipulation.R |only RRphylo-2.4.11/RRphylo/inst/doc/Tree-Manipulation.Rmd |only RRphylo-2.4.11/RRphylo/inst/doc/Tree-Manipulation.html |only RRphylo-2.4.11/RRphylo/inst/doc/overfitRR.R | 10 RRphylo-2.4.11/RRphylo/inst/doc/overfitRR.Rmd | 10 RRphylo-2.4.11/RRphylo/inst/doc/overfitRR.html | 96 +-- RRphylo-2.4.11/RRphylo/inst/doc/search.trend.R | 39 + RRphylo-2.4.11/RRphylo/inst/doc/search.trend.Rmd | 45 + RRphylo-2.4.11/RRphylo/inst/doc/search.trend.html | 119 ++-- RRphylo-2.4.11/RRphylo/man/DataSimians.Rd |only RRphylo-2.4.11/RRphylo/man/PGLS_fossil.Rd | 3 RRphylo-2.4.11/RRphylo/man/RRphylo.Rd | 54 + RRphylo-2.4.11/RRphylo/man/conv.map.Rd |only RRphylo-2.4.11/RRphylo/man/cutPhylo.Rd | 20 RRphylo-2.4.11/RRphylo/man/overfitRR.Rd | 16 RRphylo-2.4.11/RRphylo/man/plotRates.Rd | 3 RRphylo-2.4.11/RRphylo/man/random.evolvability.test.Rd |only RRphylo-2.4.11/RRphylo/man/scaleTree.Rd | 3 RRphylo-2.4.11/RRphylo/man/search.conv.Rd | 3 RRphylo-2.4.11/RRphylo/man/search.shift.Rd | 3 RRphylo-2.4.11/RRphylo/man/search.trend.Rd | 70 +- RRphylo-2.4.11/RRphylo/man/swapONE.Rd | 2 RRphylo-2.4.11/RRphylo/vignettes/RRphylo.Rmd | 47 + RRphylo-2.4.11/RRphylo/vignettes/Tree-Manipulation.Rmd |only RRphylo-2.4.11/RRphylo/vignettes/overfitRR.Rmd | 10 RRphylo-2.4.11/RRphylo/vignettes/search.trend.Rmd | 45 + RRphylo-2.4.7/RRphylo/inst/doc/scaleTree.R |only RRphylo-2.4.7/RRphylo/inst/doc/scaleTree.Rmd |only RRphylo-2.4.7/RRphylo/inst/doc/scaleTree.html |only RRphylo-2.4.7/RRphylo/vignettes/scaleTree.Rmd |only 62 files changed, 1265 insertions(+), 593 deletions(-)
Title: Confirmatory Adaptive Clinical Trial Design and Analysis
Description: Design and analysis of confirmatory adaptive clinical trials with continuous, binary, and survival endpoints according to the methods described in the monograph by Wassmer and Brannath (2016) <doi:10.1007/978-3-319-32562-0>. This includes classical group sequential as well as multi-stage adaptive hypotheses tests that are based on the combination testing principle.
Author: Gernot Wassmer [aut],
Friedrich Pahlke [aut, cre]
Maintainer: Friedrich Pahlke <friedrich.pahlke@rpact.com>
Diff between rpact versions 3.0.0 dated 2020-09-07 and 3.0.1 dated 2020-09-25
DESCRIPTION | 11 MD5 | 93 - NEWS.md | 24 R/class_analysis_results.R | 8 R/class_core_parameter_set.R | 47 R/class_simulation_results.R | 138 +- R/class_summary.R | 479 +++++---- R/f_analysis_multiarm_means.R | 6 R/f_analysis_multiarm_rates.R | 6 R/f_analysis_multiarm_survival.R | 7 R/f_core_assertions.R | 40 R/f_core_constants.R | 7 R/f_core_output_formats.R | 27 R/f_core_plot.R | 44 R/f_core_utilities.R | 103 + R/f_design_fisher_combination_test.R | 10 R/f_design_group_sequential.R | 12 R/f_design_sample_size_calculator.R | 12 R/f_design_utilities.R | 9 R/f_simulation_base_means.R | 11 R/f_simulation_base_rates.R | 13 R/f_simulation_multiarm.R | 34 R/f_simulation_multiarm_means.R | 78 - R/f_simulation_multiarm_rates.R | 113 +- R/f_simulation_multiarm_survival.R | 179 +-- R/parameter_descriptions.R | 10 R/pkgname.R | 4 README.md | 65 + build |only inst/doc |only inst/tests/testthat/test-f_simulation_base_rates.R | 9 inst/tests/testthat/test-f_simulation_multiarm_means.R | 122 +- inst/tests/testthat/test-f_simulation_multiarm_rates.R | 724 +++++++------- inst/tests/testthat/test-f_simulation_multiarm_survival.R | 512 ++++----- man/AnalysisResults_summary.Rd | 1 man/ParameterSet_summary.Rd | 1 man/Trial_Design_Set_summary.Rd | 1 man/getSimulationMultiArmMeans.Rd | 8 man/getSimulationMultiArmRates.Rd | 30 man/getSimulationMultiArmSurvival.Rd | 4 man/param_rValue.Rd | 2 man/param_typeOfSelection.Rd | 2 man/utilitiesForPiecewiseExponentialDistribution.Rd | 2 tests/testthat/test-f_simulation_base_rates.R | 7 tests/testthat/test-f_simulation_multiarm_means.R | 122 +- tests/testthat/test-f_simulation_multiarm_rates.R | 724 +++++++------- tests/testthat/test-f_simulation_multiarm_survival.R | 512 ++++----- vignettes |only 48 files changed, 2453 insertions(+), 1920 deletions(-)
Title: Rapid Realistic Routing with 'R5'
Description: Rapid realistic routing on multimodal transport networks (walk,
bike, public transport and car) using 'R5', the Rapid Realistic
Routing on Real-world and Reimagined networks
<https://github.com/conveyal/r5>. The package allows users to
generate detailed routing analysis or calculate travel time matrices
using seamless parallel computing on top of the R5 Java machine.
Author: Marcus Saraiva [aut] (<https://orcid.org/0000-0001-6218-2338>),
Rafael H. M. Pereira [aut, cre]
(<https://orcid.org/0000-0003-2125-7465>),
Daniel Herszenhut [aut] (<https://orcid.org/0000-0001-8066-1105>),
Carlos Kaue Vieira Braga [aut]
(<https://orcid.org/0000-0002-6104-7297>),
Ipea - Institue for Applied Economic Research [cph, fnd]
Maintainer: Rafael H. M. Pereira <rafa.pereira.br@gmail.com>
Diff between r5r versions 0.1.0 dated 2020-09-18 and 0.1-1 dated 2020-09-25
DESCRIPTION | 12 MD5 | 49 - NEWS.md |only R/detailed_itineraries.R | 3 R/download_r5.R | 18 R/setup_r5.R | 228 ++++---- R/street_network_to_sf.R | 94 +-- R/travel_time_matrix.R | 9 R/utils.R | 6 build/vignette.rds |binary inst/doc/intro_to_r5r.R | 6 inst/doc/intro_to_r5r.Rmd | 436 ++++++++-------- inst/doc/intro_to_r5r.html | 762 ++++++++++++----------------- inst/extdata/network.dat |binary inst/extdata/poa_osm.pbf.mapdb |binary inst/extdata/poa_osm.pbf.mapdb.p |binary man/detailed_itineraries.Rd | 3 man/travel_time_matrix.Rd | 9 tests/testthat/test-detailed_itineraries.R | 3 tests/testthat/test-download_r5.R | 2 tests/testthat/test-setup_r5.R | 1 tests/testthat/test-stop_r5.R | 88 +-- tests/testthat/test-street_network_to_sf.R | 51 - tests/testthat/test-travel_time_matrix.R | 423 ++++++++-------- tests/testthat/test-utils.R | 304 +++++------ vignettes/intro_to_r5r.Rmd | 436 ++++++++-------- 26 files changed, 1419 insertions(+), 1524 deletions(-)
Title: Robust Tests for Equal Correlation
Description: There are 6 novel robust tests for equal correlation. They are all based on logistic regressions. The score statistic U is proportion to difference of two correlations based on different types of correlation in 6 methods. The ST1() is based on Pearson correlation. ST2() improved ST1() by using median absolute deviation. ST3() utilized type M correlation and ST4() used Spearman correlation. ST5() and ST6() used two different ways to combine ST3() and ST4(). We highly recommend ST5() according to the article titled ''New Statistical Methods for Constructing Robust Differential Correlation Networks to characterize the interactions among microRNAs'' published in Scientific Reports. Please see the reference: Yu et al. (2019) <doi:10.1038/s41598-019-40167-8>.
Author: Danyang Yu, Weiliang Qiu, Zeyu Zhang, Kimberly Glass, Jessica Su, Dawn L. DeMeo, Kelan Tantisira, Scott T. Weiss
Maintainer: Danyang Yu <dyu33@jhu.edu>
Diff between corTest versions 1.0.4 dated 2020-07-19 and 1.0.7 dated 2020-09-25
DESCRIPTION | 12 +- MD5 | 18 ++- NAMESPACE | 37 ++++++ NEWS |only R/corTest.R | 249 +++++++++++++++++++++++++++++++++++++++++++++++ R/data.R |only R/genEset.R |only R/plotDiffCor.R |only data |only man/construct_network.Rd |only man/es.Rd |only man/genEset.Rd |only man/generate_data.Rd |only man/plotDiffCor.Rd |only man/st6.Rd | 108 ++++++++++---------- 15 files changed, 360 insertions(+), 64 deletions(-)
Title: Connect to 'AWS Athena' using R 'AWS SDK' 'paws' ('DBI'
Interface)
Description: Designed to be compatible with the 'R' package 'DBI' (Database Interface)
when connecting to Amazon Web Service ('AWS') Athena <https://aws.amazon.com/athena/>.
To do this the 'R' 'AWS' Software Development Kit ('SDK') 'paws'
<https://github.com/paws-r/paws> is used as a driver.
Author: Dyfan Jones [aut, cre]
Maintainer: Dyfan Jones <dyfan.r.jones@gmail.com>
Diff between noctua versions 1.8.0 dated 2020-08-10 and 1.8.1 dated 2020-09-25
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS.md | 6 ++++++ R/Connection.R | 4 ++-- R/Options.R | 2 +- R/Result.R | 10 ++++++---- R/View.R | 4 ++-- tests/testthat/test-dplyr-compute.R | 6 ++++++ 8 files changed, 34 insertions(+), 20 deletions(-)
Title: Recommended Learners for 'mlr3'
Description: Recommended Learners for 'mlr3'. Extends 'mlr3' and 'mlr3proba'
with interfaces to essential machine learning packages on CRAN. This
includes, but is not limited to: (penalized) linear and logistic
regression, linear and quadratic discriminant analysis, k-nearest
neighbors, naive Bayes, support vector machines, and gradient
boosting.
Author: Michel Lang [cre, aut] (<https://orcid.org/0000-0001-9754-0393>),
Quay Au [aut] (<https://orcid.org/0000-0002-5252-8902>),
Stefan Coors [aut] (<https://orcid.org/0000-0002-7465-2146>),
Patrick Schratz [aut] (<https://orcid.org/0000-0003-0748-6624>)
Maintainer: Michel Lang <michellang@gmail.com>
Diff between mlr3learners versions 0.3.0 dated 2020-08-29 and 0.4.0 dated 2020-09-25
DESCRIPTION | 10 ++-- MD5 | 66 ++++++++++++++++---------------- NEWS.md | 7 +++ R/LearnerClassifCVGlmnet.R | 13 +++--- R/LearnerClassifGlmnet.R | 11 ++--- R/LearnerClassifKKNN.R | 4 - R/LearnerClassifLDA.R | 4 - R/LearnerClassifLogReg.R | 4 - R/LearnerClassifMultinom.R | 4 - R/LearnerClassifNaiveBayes.R | 4 - R/LearnerClassifQDA.R | 4 - R/LearnerClassifRanger.R | 4 - R/LearnerClassifSVM.R | 3 - R/LearnerClassifXgboost.R | 7 +-- R/LearnerRegrCVGlmnet.R | 4 - R/LearnerRegrGlmnet.R | 4 - R/LearnerRegrKKNN.R | 2 R/LearnerRegrKM.R | 8 +-- R/LearnerRegrLM.R | 7 +-- R/LearnerRegrRanger.R | 2 R/LearnerRegrSVM.R | 2 R/LearnerRegrXgboost.R | 2 R/LearnerSurvCVGlmnet.R | 4 - R/LearnerSurvGlmnet.R | 4 - R/LearnerSurvRanger.R | 5 +- R/LearnerSurvXgboost.R | 6 +- R/helpers.R | 13 ++++++ build/partial.rdb |binary man/mlr_learners_regr.km.Rd | 5 +- tests/testthat/test_classif_cv_glmnet.R | 17 +++++++- tests/testthat/test_classif_glmnet.R | 17 +++++++- tests/testthat/test_regr_km.R | 2 tests/testthat/test_surv_cv_glmnet.R | 2 tests/testthat/test_surv_glmnet.R | 2 34 files changed, 153 insertions(+), 100 deletions(-)
Title: Tufte's Styles for R Markdown Documents
Description: Provides R Markdown output formats to use Tufte styles for PDF and HTML output.
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
JJ Allaire [aut],
Andrzej Oles [ctb],
Dave Liepmann [ctb] (Tufte CSS in
inst/rmarkdown/templates/tufte_html/resources),
RStudio, PBC [cph]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between tufte versions 0.6 dated 2020-05-08 and 0.7 dated 2020-09-25
DESCRIPTION | 10 ++++---- MD5 | 12 +++++----- R/handout.R | 2 - README.md | 2 - inst/rmarkdown/templates/tufte_handout/resources/tufte-handout.tex | 9 +++++++ inst/rmarkdown/templates/tufte_html/skeleton/skeleton.Rmd | 12 +++++----- man/tufte_handout.Rd | 2 - 7 files changed, 29 insertions(+), 20 deletions(-)
Title: Multidimensional Penalized Splines for Survival and Net Survival
Models
Description: Fits hazard and excess hazard models with multidimensional penalized splines allowing for
time-dependent effects, non-linear effects and interactions between several continuous covariates. In survival and net survival analysis, in addition to modelling the effect of time (via the baseline hazard), one has often to deal with several continuous covariates and model their functional forms, their time-dependent effects, and their interactions. Model specification becomes therefore a complex problem and penalized regression splines represent an appealing solution to that problem as splines offer the required flexibility while penalization limits overfitting issues. Current implementations of penalized survival models can be slow or unstable and sometimes lack some key features like taking into account expected mortality to provide net survival and excess hazard estimates. In contrast, survPen provides an automated, fast, and stable implementation (thanks to explicit calculation of the derivatives of the likelihood) and offers a unified framework for
multidimensional penalized hazard and excess hazard models. survPen may be of interest to those who 1) analyse any kind of time-to-event data: mortality, disease relapse, machinery breakdown, unemployment, etc 2) wish to describe the associated hazard and to understand which predictors impact its dynamics.
See Fauvernier et al. (2019a) <doi:10.21105/joss.01434> for an overview of the package and Fauvernier et al. (2019b) <doi:10.1111/rssc.12368> for the method.
Author: Mathieu Fauvernier [aut, cre], Laurent Roche [aut], Laurent Remontet [aut], Zoe Uhry [ctb], Nadine Bossard [ctb]
Maintainer: Mathieu Fauvernier <mathieu.fauvernier@gmail.com>
Diff between survPen versions 1.5.0 dated 2020-05-25 and 1.5.1 dated 2020-09-25
survPen-1.5.0/survPen/R/survPenV1_50.r |only survPen-1.5.1/survPen/DESCRIPTION | 8 survPen-1.5.1/survPen/MD5 | 76 +- survPen-1.5.1/survPen/NAMESPACE | 1 survPen-1.5.1/survPen/NEWS | 55 + survPen-1.5.1/survPen/R/survPenV1_51.r |only survPen-1.5.1/survPen/build/vignette.rds |binary survPen-1.5.1/survPen/inst/doc/survival_analysis_with_survPen.html | 374 ++-------- survPen-1.5.1/survPen/man/NR.beta.Rd | 2 survPen-1.5.1/survPen/man/NR.rho.Rd | 2 survPen-1.5.1/survPen/man/constraint.Rd | 2 survPen-1.5.1/survPen/man/cor.var.Rd | 2 survPen-1.5.1/survPen/man/crs.FP.Rd | 2 survPen-1.5.1/survPen/man/crs.Rd | 2 survPen-1.5.1/survPen/man/datCancer.Rd | 2 survPen-1.5.1/survPen/man/design.matrix.Rd | 2 survPen-1.5.1/survPen/man/instr.Rd | 2 survPen-1.5.1/survPen/man/inv.repam.Rd | 2 survPen-1.5.1/survPen/man/model.cons.Rd | 2 survPen-1.5.1/survPen/man/predict.survPen.Rd | 2 survPen-1.5.1/survPen/man/print.summary.survPen.Rd | 13 survPen-1.5.1/survPen/man/rd.Rd | 2 survPen-1.5.1/survPen/man/repam.Rd | 2 survPen-1.5.1/survPen/man/smf.Rd | 2 survPen-1.5.1/survPen/man/smooth.cons.Rd | 2 survPen-1.5.1/survPen/man/smooth.cons.integral.Rd | 2 survPen-1.5.1/survPen/man/smooth.spec.Rd | 2 survPen-1.5.1/survPen/man/summary.survPen.Rd | 2 survPen-1.5.1/survPen/man/survPen.Rd | 2 survPen-1.5.1/survPen/man/survPen.fit.Rd | 2 survPen-1.5.1/survPen/man/survPenObject.Rd | 2 survPen-1.5.1/survPen/man/tensor.in.Rd | 2 survPen-1.5.1/survPen/man/tensor.prod.S.Rd | 2 survPen-1.5.1/survPen/man/tensor.prod.X.Rd | 2 survPen-1.5.1/survPen/src/Makevars | 4 survPen-1.5.1/survPen/src/Makevars.win | 3 survPen-1.5.1/survPen/tests/compar_LAML_LCV.pdf |only survPen-1.5.1/survPen/tests/compar_several_mods.pdf |only survPen-1.5.1/survPen/tests/compar_tensor_tint.pdf |only survPen-1.5.1/survPen/tests/compar_total_excess.pdf |only survPen-1.5.1/survPen/tests/compar_total_excess_CI.pdf |only survPen-1.5.1/survPen/tests/compar_unpen_pen.pdf |only survPen-1.5.1/survPen/tests/output_tests_survPen.lis |only survPen-1.5.1/survPen/tests/test_survPen.r |only 44 files changed, 249 insertions(+), 335 deletions(-)
Title: Visualizations for 'mlr3'
Description: Provides visualizations for 'mlr3' objects such as
tasks, predictions, resample results or benchmark results via the
autoplot() generic of 'ggplot2'. The returned 'ggplot' objects are
intended to provide sensible defaults, yet can easily be customized to
create camera-ready figures. Visualizations include barplots,
boxplots, histograms, ROC curves, and Precision-Recall curves.
Author: Michel Lang [cre, aut] (<https://orcid.org/0000-0001-9754-0393>),
Patrick Schratz [aut] (<https://orcid.org/0000-0003-0748-6624>),
Raphael Sonabend [aut] (<https://orcid.org/0000-0001-9225-4654>)
Maintainer: Michel Lang <michellang@gmail.com>
Diff between mlr3viz versions 0.2.0 dated 2020-08-07 and 0.3.0 dated 2020-09-25
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++--------- NEWS.md | 4 ++++ R/BenchmarkResult.R | 8 ++++---- R/LearnerClasssifRpart.R | 10 +++++++++- R/LearnerRegrRpart.R | 3 ++- R/as_precrec.R | 3 ++- man/autoplot.BenchmarkResult.Rd | 4 ++-- man/autoplot.LearnerClassifRpart.Rd | 7 +++++++ tests/testthat/test_BenchmarkResult.R | 4 ++-- 10 files changed, 46 insertions(+), 25 deletions(-)
Title: Identification and Classification of the Most Influential Nodes
Description: Contains functions for the classification and ranking of top candidate features, reconstruction of networks from
adjacency matrices and data frames, analysis of the topology of the network
and calculation of centrality measures, and identification of the most
influential nodes. Also, a function is provided for running SIRIR model, which
is the combination of leave-one-out cross validation technique and the conventional SIR model, on a network to unsupervisedly rank the true influence of vertices. Additionally, some functions have been provided for the assessment
of dependence and correlation of two network centrality measures as well as
the conditional probability of deviation from their corresponding means in opposite direction.
Fred Viole and David Nawrocki (2013, ISBN:1490523995).
Csardi G, Nepusz T (2006). "The igraph software package for complex network research." InterJournal, Complex Systems, 1695.
Adopted algorithms and sources are referenced in function document.
Author: Adrian (Abbas) Salavaty [aut, cre], Mirana Ramialison [ths], Peter D. Currie [ths]
Maintainer: Adrian Salavaty <abbas.salavaty@gmail.com>
Diff between influential versions 1.1.2 dated 2020-06-26 and 2.0.0 dated 2020-09-25
DESCRIPTION | 14 MD5 | 72 - NAMESPACE | 4 NEWS.md | 40 R/data.R | 6 R/functions.R | 1748 ++++++++++++++++++++++++---- README.md | 53 build/vignette.rds |binary inst/CITATION | 2 inst/doc/Vignettes.R | 458 +++++-- inst/doc/Vignettes.Rmd | 664 ++++++++-- inst/doc/Vignettes.html | 2277 +++++++++++++++++++++---------------- man/betweenness.Rd | 7 man/cent_network.vis.Rd |only man/centrality.measures.Rd | 2 man/clusterRank.Rd | 6 man/coexpression.adjacency.Rd | 2 man/coexpression.data.Rd | 2 man/collective.influence.Rd | 6 man/degree.Rd | 7 man/exir.Rd | 48 man/exir.vis.Rd |only man/figures |only man/graph_from_adjacency_matrix.Rd | 6 man/graph_from_data_frame.Rd | 6 man/graph_from_incidence_matrix.Rd |only man/h_index.Rd | 6 man/hubness.score.Rd | 2 man/influential-package.Rd | 10 man/ivi.Rd | 3 man/ivi.from.indices.Rd | 3 man/lh_index.Rd | 6 man/neighborhood.connectivity.Rd | 6 man/sif2igraph.Rd | 8 man/sirir.Rd | 18 man/spreading.score.Rd | 2 vignettes/Sample_SIF.sif |only vignettes/Vignettes.Rmd | 664 ++++++++-- vignettes/influentialVignette.css |only 39 files changed, 4442 insertions(+), 1716 deletions(-)
Title: Calculation and Visualization of the Impact Effect Size Measure
Description: A non-parametric effect size measure capturing changes in central tendency or shape of data distributions. The package provides the necessary functions to calculate and plot the Impact effect size measure between two groups.
Author: Jorn Lotsch[aut,cre], Alfred Ultsch[aut]
Maintainer: Jorn Lotsch <j.loetsch@em.uni-frankfurt.de>
Diff between ImpactEffectsize versions 0.6.0 dated 2020-07-18 and 0.6.1 dated 2020-09-25
DESCRIPTION | 7 ++++--- MD5 | 3 ++- inst |only 3 files changed, 6 insertions(+), 4 deletions(-)
More information about ImpactEffectsize at CRAN
Permanent link
Title: Functional Time Series Analysis
Description: Functions for visualizing, modeling, forecasting and hypothesis testing of functional time series.
Author: Rob Hyndman [aut] (<https://orcid.org/0000-0002-2140-5352>),
Han Lin Shang [aut, cre, cph] (<https://orcid.org/0000-0003-1769-6430>)
Maintainer: Han Lin Shang <hanlin.shang@mq.edu.au>
Diff between ftsa versions 5.8 dated 2020-06-15 and 5.9 dated 2020-09-25
ChangeLog | 7 DESCRIPTION | 8 MD5 | 11 - R/dmfpca.R | 3 R/dynamic_FLR.R | 516 +++++++++++++++++++++++++++----------------------------- R/plsPI_var.R |only man/pm_10_GR.Rd | 2 7 files changed, 276 insertions(+), 271 deletions(-)
Title: High-Throughput Toxicokinetics
Description: Generic models and chemical-specific data for simulation and
statistical analysis of chemical toxicokinetics ("TK") as
described by Pearce et al. (2017) <doi:10.18637/jss.v079.i04>.
Chemical-specific in vitro data have been obtained from relatively
high throughput experiments. Both physiologically-based ("PBTK")
and empirical (for example, one compartment) "TK" models can be
parameterized with the data provided for thousands of chemicals,
multiple exposure routes, and various species. The models consist
of systems of ordinary differential equations which are solved
using compiled (C-based) code for speed. A Monte Carlo sampler is
included, which allows for simulating human biological variability
(Ring et al., 2017 <doi:10.1016/j.envint.2017.06.004>)
and propagating parameter uncertainty. Calibrated methods are
included for predicting tissue:plasma partition coefficients and
volume of distribution
(Pearce et al., 2017 <doi:10.1007/s10928-017-9548-7>).
These functions and data provide a set of tools for
in vitro-in vivo extrapolation ("IVIVE") of high throughput
screening data (for example, Tox21, ToxCast) to real-world
exposures via reverse dosimetry (also known as "RTK")
(Wetmore et al., 2015 <doi:10.1093/toxsci/kfv171>).
Author: John Wambaugh [aut, cre] (<https://orcid.org/0000-0002-4024-534X>),
Robert Pearce [aut] (<https://orcid.org/0000-0003-3168-4049>),
Caroline Ring [aut] (<https://orcid.org/0000-0002-0463-1251>),
Greg Honda [aut] (<https://orcid.org/0000-0001-7713-9850>),
Mark Sfeir [aut],
Matt Linakis [aut] (<https://orcid.org/0000-0003-0526-2395>),
Jimena Davis [ctb],
James Sluka [ctb] (<https://orcid.org/0000-0002-5901-1404>),
Nisha Sipes [ctb] (<https://orcid.org/0000-0003-4203-6426>),
Barbara Wetmore [ctb] (<https://orcid.org/0000-0002-6878-5348>),
Woodrow Setzer [ctb] (<https://orcid.org/0000-0002-6709-9186>)
Maintainer: John Wambaugh <wambaugh.john@epa.gov>
Diff between httk versions 2.0.2 dated 2020-07-19 and 2.0.3 dated 2020-09-25
httk-2.0.2/httk/R/calc_stats.R |only httk-2.0.2/httk/R/vLiverPBPKfetus_inits.R |only httk-2.0.2/httk/tests/solve_gas_crude_test.R |only httk-2.0.2/httk/tests/solve_gas_crude_test.Rout.save |only httk-2.0.3/httk/DESCRIPTION | 50 httk-2.0.3/httk/MD5 | 357 httk-2.0.3/httk/NAMESPACE | 1 httk-2.0.3/httk/NEWS | 20 httk-2.0.3/httk/R/Parameterize_gas_PBTK.R | 750 httk-2.0.3/httk/R/add_chemtable.R | 249 httk-2.0.3/httk/R/armitage.R | 744 httk-2.0.3/httk/R/available_rblood2plasma.R | 246 httk-2.0.3/httk/R/calc_analytic_css.R | 536 httk-2.0.3/httk/R/calc_analytic_css_1comp.R | 292 httk-2.0.3/httk/R/calc_analytic_css_3comp.R | 354 httk-2.0.3/httk/R/calc_analytic_css_3compss.R | 436 httk-2.0.3/httk/R/calc_analytic_css_pbtk.R | 388 httk-2.0.3/httk/R/calc_css.R | 576 httk-2.0.3/httk/R/calc_elimination_rate.R | 306 httk-2.0.3/httk/R/calc_hep_bioavailability.R | 172 httk-2.0.3/httk/R/calc_hep_clearance.R | 683 httk-2.0.3/httk/R/calc_hep_fu.R | 170 httk-2.0.3/httk/R/calc_mc_css.R | 680 httk-2.0.3/httk/R/calc_mc_oral_equiv.R | 359 httk-2.0.3/httk/R/calc_mc_tk.R | 472 httk-2.0.3/httk/R/calc_rblood2plasma.R | 326 httk-2.0.3/httk/R/calc_tkstats.R |only httk-2.0.3/httk/R/calc_total_clearance.R | 178 httk-2.0.3/httk/R/calc_volume_of_distribution.R | 404 httk-2.0.3/httk/R/create_mc_samples.R | 824 httk-2.0.3/httk/R/data.R | 2902 - httk-2.0.3/httk/R/export_pbtk_sbml.R | 1116 httk-2.0.3/httk/R/get_chem_id.R | 286 httk-2.0.3/httk/R/get_cheminfo.R | 206 httk-2.0.3/httk/R/get_invitroPK_param.R | 168 httk-2.0.3/httk/R/get_physchem_param.R | 322 httk-2.0.3/httk/R/get_rblood2plasma.R | 160 httk-2.0.3/httk/R/get_weight_class.R | 268 httk-2.0.3/httk/R/honda.ivive.R | 198 httk-2.0.3/httk/R/httk-package.R | 172 httk-2.0.3/httk/R/in.list.R | 422 httk-2.0.3/httk/R/invitro_mc.R | 25 httk-2.0.3/httk/R/ionization_functions.R | 532 httk-2.0.3/httk/R/parameterize_1comp.R | 418 httk-2.0.3/httk/R/parameterize_3comp.R | 230 httk-2.0.3/httk/R/parameterize_pbtk.R | 688 httk-2.0.3/httk/R/parameterize_schmitt.R | 547 httk-2.0.3/httk/R/parameterize_steadystate.R | 670 httk-2.0.3/httk/R/predict_partitioning_schmitt.R | 616 httk-2.0.3/httk/R/solve_1comp.R | 314 httk-2.0.3/httk/R/solve_3comp.R | 326 httk-2.0.3/httk/R/solve_gas_pbtk.R | 660 httk-2.0.3/httk/R/solve_model.R | 1108 httk-2.0.3/httk/R/solve_pbtk.R | 376 httk-2.0.3/httk/R/sysdata.rda |binary httk-2.0.3/httk/build/httk.pdf |22982 +++++----- httk-2.0.3/httk/build/vignette.rds |binary httk-2.0.3/httk/data/Frank2018.RData |binary httk-2.0.3/httk/data/Linakis2020.RData |binary httk-2.0.3/httk/data/Tables.RData |binary httk-2.0.3/httk/data/armitage_input.RData |binary httk-2.0.3/httk/data/httkpop.RData |binary httk-2.0.3/httk/data/vignettes.RData |binary httk-2.0.3/httk/data/wambaugh2019.RData |binary httk-2.0.3/httk/data/well_param.RData |binary httk-2.0.3/httk/inst/doc/Frank2018.html | 184 httk-2.0.3/httk/inst/doc/Honda2019.html | 2 httk-2.0.3/httk/inst/doc/Linakis2020.html | 2149 httk-2.0.3/httk/inst/doc/Pearce2017.html | 84 httk-2.0.3/httk/inst/doc/Ring_2017_vignette01_subpopulations.html | 4 httk-2.0.3/httk/inst/doc/Ring_2017_vignette02_evalmodelsubpop.html | 4 httk-2.0.3/httk/inst/doc/Ring_2017_vignette03_paper_fig2.html | 4 httk-2.0.3/httk/inst/doc/Ring_2017_vignette04_paper_fig3.html | 4 httk-2.0.3/httk/inst/doc/Ring_2017_vignette05b_plothowgatejohnson.html | 4 httk-2.0.3/httk/inst/doc/Ring_2017_vignette06_aerplotting.Rmd | 2 httk-2.0.3/httk/inst/doc/Ring_2017_vignette06_aerplotting.html | 6 httk-2.0.3/httk/inst/doc/Ring_2017_vignette_05a_virtualstudypops.html | 4 httk-2.0.3/httk/inst/doc/Wambaugh2018.html | 210 httk-2.0.3/httk/inst/doc/Wambaugh2019.html | 4 httk-2.0.3/httk/man/EPA.ref.Rd | 48 httk-2.0.3/httk/man/Frank2018invivo.Rd | 64 httk-2.0.3/httk/man/Obach2008.Rd | 44 httk-2.0.3/httk/man/Tables.Rdata.stamp.Rd | 42 httk-2.0.3/httk/man/Wetmore.data.Rd | 94 httk-2.0.3/httk/man/Wetmore2012.Rd | 52 httk-2.0.3/httk/man/add_chemtable.Rd | 14 httk-2.0.3/httk/man/age_dist_smooth.Rd | 60 httk-2.0.3/httk/man/armitage_eval.Rd | 208 httk-2.0.3/httk/man/armitage_input.Rd | 76 httk-2.0.3/httk/man/augment.table.Rd |only httk-2.0.3/httk/man/available_rblood2plasma.Rd | 126 httk-2.0.3/httk/man/bmiage.Rd | 90 httk-2.0.3/httk/man/calc_analytic_css.Rd | 2 httk-2.0.3/httk/man/calc_analytic_css_1comp.Rd | 2 httk-2.0.3/httk/man/calc_analytic_css_3comp.Rd | 2 httk-2.0.3/httk/man/calc_analytic_css_3compss.Rd | 2 httk-2.0.3/httk/man/calc_analytic_css_pbtk.Rd | 2 httk-2.0.3/httk/man/calc_css.Rd | 334 httk-2.0.3/httk/man/calc_elimination_rate.Rd | 184 httk-2.0.3/httk/man/calc_hep_bioavailability.Rd | 110 httk-2.0.3/httk/man/calc_hep_clearance.Rd | 164 httk-2.0.3/httk/man/calc_hep_fu.Rd | 112 httk-2.0.3/httk/man/calc_hepatic_clearance.Rd | 168 httk-2.0.3/httk/man/calc_ionization.Rd | 156 httk-2.0.3/httk/man/calc_mc_css.Rd | 2 httk-2.0.3/httk/man/calc_mc_oral_equiv.Rd | 2 httk-2.0.3/httk/man/calc_mc_tk.Rd | 2 httk-2.0.3/httk/man/calc_rblood2plasma.Rd | 180 httk-2.0.3/httk/man/calc_stats.Rd | 250 httk-2.0.3/httk/man/calc_tkstats.Rd |only httk-2.0.3/httk/man/calc_total_clearance.Rd | 150 httk-2.0.3/httk/man/calc_vdist.Rd | 172 httk-2.0.3/httk/man/chem.invivo.PK.aggregate.data.Rd | 52 httk-2.0.3/httk/man/chem.invivo.PK.data.Rd | 416 httk-2.0.3/httk/man/chem.invivo.PK.summary.data.Rd | 414 httk-2.0.3/httk/man/chem.lists.Rd | 80 httk-2.0.3/httk/man/chem.physical_and_invitro.data.Rd | 260 httk-2.0.3/httk/man/concentration_data_Linakis2020.Rd | 50 httk-2.0.3/httk/man/create_mc_samples.Rd | 2 httk-2.0.3/httk/man/get_chem_id.Rd | 50 httk-2.0.3/httk/man/get_invitroPK_param.Rd | 78 httk-2.0.3/httk/man/get_lit_cheminfo.Rd | 126 httk-2.0.3/httk/man/get_lit_css.Rd | 168 httk-2.0.3/httk/man/get_lit_oral_equiv.Rd | 194 httk-2.0.3/httk/man/get_physchem_param.Rd | 70 httk-2.0.3/httk/man/get_rblood2plasma.Rd | 98 httk-2.0.3/httk/man/honda.ivive.Rd | 110 httk-2.0.3/httk/man/howgate.Rd | 48 httk-2.0.3/httk/man/httk-package.Rd | 112 httk-2.0.3/httk/man/in.list.Rd | 220 httk-2.0.3/httk/man/is.httk.Rd | 210 httk-2.0.3/httk/man/johnson.Rd | 50 httk-2.0.3/httk/man/mcnally_dt.Rd | 80 httk-2.0.3/httk/man/metabolism_data_Linakis2020.Rd | 50 httk-2.0.3/httk/man/monte_carlo.Rd | 306 httk-2.0.3/httk/man/nhanes_mec_svy.Rd | 80 httk-2.0.3/httk/man/onlyp.Rd | 48 httk-2.0.3/httk/man/parameterize_1comp.Rd | 2 httk-2.0.3/httk/man/parameterize_3comp.Rd | 226 httk-2.0.3/httk/man/parameterize_gas_pbtk.Rd | 364 httk-2.0.3/httk/man/parameterize_pbtk.Rd | 2 httk-2.0.3/httk/man/parameterize_schmitt.Rd | 184 httk-2.0.3/httk/man/parameterize_steadystate.Rd | 2 httk-2.0.3/httk/man/pc.data.Rd | 132 httk-2.0.3/httk/man/pharma.Rd | 54 httk-2.0.3/httk/man/physiology.data.Rd | 72 httk-2.0.3/httk/man/predict_partitioning_schmitt.Rd | 222 httk-2.0.3/httk/man/scale_dosing.Rd | 74 httk-2.0.3/httk/man/set_httk_precision.Rd | 58 httk-2.0.3/httk/man/sipes2017.Rd | 66 httk-2.0.3/httk/man/solve_1comp.Rd | 2 httk-2.0.3/httk/man/solve_3comp.Rd | 2 httk-2.0.3/httk/man/solve_gas_pbtk.Rd | 9 httk-2.0.3/httk/man/solve_model.Rd | 346 httk-2.0.3/httk/man/solve_pbtk.Rd | 2 httk-2.0.3/httk/man/spline_heightweight.Rd | 72 httk-2.0.3/httk/man/spline_hematocrit.Rd | 66 httk-2.0.3/httk/man/spline_serumcreat.Rd | 74 httk-2.0.3/httk/man/supptab1_Linakis2020.Rd | 50 httk-2.0.3/httk/man/supptab2_Linakis2020.Rd | 50 httk-2.0.3/httk/man/tissue.data.Rd | 96 httk-2.0.3/httk/man/wambaugh2019.Rd | 124 httk-2.0.3/httk/man/wambaugh2019.nhanes.Rd | 84 httk-2.0.3/httk/man/wambaugh2019.raw.Rd | 200 httk-2.0.3/httk/man/wambaugh2019.seem3.Rd | 68 httk-2.0.3/httk/man/wambaugh2019.tox21.Rd | 102 httk-2.0.3/httk/man/well_param.Rd | 81 httk-2.0.3/httk/man/wfl.Rd | 80 httk-2.0.3/httk/src/init.c | 7 httk-2.0.3/httk/tests/1comp_test.Rout.save | 256 httk-2.0.3/httk/tests/3comp_test.Rout.save | 346 httk-2.0.3/httk/tests/3compss_test.Rout.save | 120 httk-2.0.3/httk/tests/adddata_test.Rout.save | 156 httk-2.0.3/httk/tests/cheminfo_test.R | 9 httk-2.0.3/httk/tests/cheminfo_test.Rout.save | 119 httk-2.0.3/httk/tests/httk2.0_test.Rout.save | 744 httk-2.0.3/httk/tests/ivive_test.R | 136 httk-2.0.3/httk/tests/ivive_test.Rout.save | 156 httk-2.0.3/httk/tests/montecarlo_tests.Rout.save | 402 httk-2.0.3/httk/tests/other_tests.Rout.save | 40 httk-2.0.3/httk/tests/pbtk_test.Rout.save | 242 httk-2.0.3/httk/tests/solve_gas_test.R |only httk-2.0.3/httk/tests/solve_gas_test.Rout.save |only httk-2.0.3/httk/vignettes/Ring_2017_vignette06_aerplotting.Rmd | 2 184 files changed, 30472 insertions(+), 29465 deletions(-)
Title: The 'Monaco' Editor in 'Shiny'
Description: A 'Shiny' app including the 'Monaco' editor. The 'Monaco' editor is the code editor which powers 'VS Code'. It is particularly well developed for 'JavaScript'. In addition to the 'Monaco' editor features, the app provides prettifiers and minifiers for multiple languages, 'SCSS' and 'TypeScript' compilers, code checking for 'C' and 'C++' (requires 'cppcheck').
Author: Stéphane Laurent [aut, cre],
Microsoft Corporation [ctb, cph] (Monaco Editor),
Brijesh Brittu [ctb, cph] (monaco-ace-tokenizer),
James Long and contributors [ctb, cph] (Prettier),
Leandro Vital [ctb, cph] (Bootstrap Flash Alert),
Daniel Eden [ctb, cph] (animate.css),
Adam Schwartz [ctb, cph] (chrome-tabs),
David DeSandro [ctb, cph] (Draggabilly),
JakubPawlowicz.com [ctb, cph] (clean-css),
Mihai Bazon [ctb, cph] (terser),
Juriy "kangax" Zaytsev [ctb, cph] (HTMLMinifier),
Rodney Rehm [ctb, cph] (Sass.js),
Rich Harris [ctb, cph] (svg-parser),
Lionel Tzatzkin [ctb, cph] (scale-that-svg),
Andrei Kashcha [ctb, cph] (panzoom),
Vitaly Puzrin [ctb, cph] (markdown-it),
Alex Kocharin [ctb, cph] (markdown-it),
John Schlinkert [ctb, cph] (word-wrap),
Terence Eden [ctb, cph] (SuperTinyIcons),
www.jeasyui.com [ctb, cph] (EasyUI)
Maintainer: Stéphane Laurent <laurent_step@outlook.fr>
Diff between shinyMonacoEditor versions 0.1.0 dated 2020-09-09 and 1.0.0 dated 2020-09-25
DESCRIPTION | 24 LICENSE.note | 79 MD5 | 66 NEWS.md | 11 README.md | 5 inst/shinyApp/server.R | 193 inst/shinyApp/ui.R | 67 inst/shinyApp/www/chrome-tabs/chrome-tabs.css | 4 inst/shinyApp/www/chrome-tabs/mock-browser.css | 7 inst/shinyApp/www/css/shinyMonacoEditor.css | 148 inst/shinyApp/www/icons/freeicons/freeicon.eot |only inst/shinyApp/www/icons/freeicons/freeicon.ttf |only inst/shinyApp/www/icons/freeicons/freeicon.woff |only inst/shinyApp/www/icons/freeicons/freeicons.css |only inst/shinyApp/www/icons/freeicons/wifi-off.svg |only inst/shinyApp/www/jQuery-simple-slider |only inst/shinyApp/www/jquery-easyui |only inst/shinyApp/www/js/chromeTabs.js | 10 inst/shinyApp/www/js/customMessageHandlers.js | 290 inst/shinyApp/www/js/docReady.js | 172 inst/shinyApp/www/js/functions.js | 69 inst/shinyApp/www/js/globalVariables.js | 5 inst/shinyApp/www/js/shinyMonacoEditor.js | 537 inst/shinyApp/www/panzoom |only inst/shinyApp/www/prettier/parser-babel.js | 2 inst/shinyApp/www/prettier/parser-html.js | 30 inst/shinyApp/www/prettier/parser-markdown.js | 8 inst/shinyApp/www/prettier/parser-postcss.js | 4 inst/shinyApp/www/prettier/parser-typescript.js | 6 inst/shinyApp/www/prettier/parser-yaml.js | 25 inst/shinyApp/www/prettier/standalone.js |32938 ------------------------ inst/shinyApp/www/scale-that-svg |only 32 files changed, 1514 insertions(+), 33186 deletions(-)
More information about shinyMonacoEditor at CRAN
Permanent link
Title: Interactive Graphics for QTL Experiments
Description: Web-based interactive charts (using D3.js) for the analysis of
experimental crosses to identify genetic loci (quantitative trait
loci, QTL) contributing to variation in quantitative traits.
Broman (2015) <doi:10.1534/genetics.114.172742>.
Author: Karl W Broman [aut, cre] (<https://orcid.org/0000-0002-4914-6671>),
Michael Bostock [ctb, cph] (d3.js library in htmlwidgets/lib,
https://d3js.org),
jQuery Foundation [cph] (jQuery library in htmlwidgets/lib,
https://jquery.com),
jQuery contributors [ctb] (jQuery library in htmlwidgets/lib; see
https://github.com/jquery/jquery/blob/master/AUTHORS.txt),
jQuery UI contributors [ctb] (jQuery UI library in htmlwidgets/lib; see
https://jqueryui.com/about/)
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between qtlcharts versions 0.11-6 dated 2019-02-05 and 0.12-10 dated 2020-09-25
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45 + qtlcharts-0.12-10/qtlcharts/inst/htmlwidgets/package.json | 6 qtlcharts-0.12-10/qtlcharts/inst/htmlwidgets/scat2scat.coffee | 2 qtlcharts-0.12-10/qtlcharts/inst/htmlwidgets/scat2scat.js | 8 qtlcharts-0.12-10/qtlcharts/inst/htmlwidgets/scat2scat.yaml | 17 qtlcharts-0.12-10/qtlcharts/man/cbindQTLeffects.Rd | 4 qtlcharts-0.12-10/qtlcharts/man/estQTLeffects.Rd | 12 qtlcharts-0.12-10/qtlcharts/man/geneExpr.Rd | 6 qtlcharts-0.12-10/qtlcharts/man/grav.Rd | 8 qtlcharts-0.12-10/qtlcharts/man/iboxplot.Rd | 16 qtlcharts-0.12-10/qtlcharts/man/idotplot.Rd | 7 qtlcharts-0.12-10/qtlcharts/man/iheatmap.Rd | 10 qtlcharts-0.12-10/qtlcharts/man/ipleiotropy.Rd | 40 - qtlcharts-0.12-10/qtlcharts/man/iplot.Rd | 9 qtlcharts-0.12-10/qtlcharts/man/iplotCorr.Rd | 40 - qtlcharts-0.12-10/qtlcharts/man/iplotCurves.Rd | 15 qtlcharts-0.12-10/qtlcharts/man/iplotMScanone.Rd | 37 - qtlcharts-0.12-10/qtlcharts/man/iplotMap.Rd | 13 qtlcharts-0.12-10/qtlcharts/man/iplotPXG.Rd | 30 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qtlcharts-0.12-10/qtlcharts/tests/Rmdtest/iplotMScanone.Rmd | 2 qtlcharts-0.12-10/qtlcharts/tests/Rmdtest/iplotMap.Rmd | 2 qtlcharts-0.12-10/qtlcharts/tests/Rmdtest/iplotPXG.Rmd | 2 qtlcharts-0.12-10/qtlcharts/tests/Rmdtest/iplotRF.Rmd | 2 qtlcharts-0.12-10/qtlcharts/tests/Rmdtest/iplotScanone.Rmd | 2 qtlcharts-0.12-10/qtlcharts/tests/Rmdtest/iplotScantwo.Rmd | 2 qtlcharts-0.12-10/qtlcharts/tests/Rmdtest/itriplot.Rmd | 2 qtlcharts-0.12-10/qtlcharts/tests/Rmdtest/scat2scat.Rmd | 2 160 files changed, 2068 insertions(+), 1601 deletions(-)
Title: Magnetic Resonance Binning, Integration and Normalization
Description: Nuclear Magnetic Resonance is widely used in Life Science
research. The package (<http://www.kleinomicslab.com/software>) converts 1D or 2D data into a matrix of values
suitable for further data analysis and performs basic processing steps in a
reproducible way. Negative values, a common issue in such data, are replaced
by positive values. All used parameters are stored in a readable text file
and can be restored from that file to enable exact reproduction of the data
at a later time.
Author: Matthias Klein [aut, cre] (<https://orcid.org/0000-0001-7455-5381>)
Maintainer: Matthias Klein <klein.663@osu.edu>
Diff between mrbin versions 1.4.2 dated 2020-06-01 and 1.4.3 dated 2020-09-25
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 5 +++++ R/mrbin.R | 26 ++++++++++++++------------ inst/doc/mrbin.Rnw | 2 +- inst/doc/mrbin.pdf |binary vignettes/mrbin.Rnw | 2 +- 7 files changed, 30 insertions(+), 23 deletions(-)
Title: Easily Process a Batch of Cox Models
Description: A tool to operate a batch of univariate or multivariate
Cox models and return tidy result.
Author: Shixiang Wang [aut, cre] (<https://orcid.org/0000-0001-9855-7357>)
Maintainer: Shixiang Wang <w_shixiang@163.com>
Diff between ezcox versions 0.7.0 dated 2020-07-01 and 0.8.0 dated 2020-09-25
DESCRIPTION | 6 MD5 | 66 +- NEWS.md | 118 ++-- R/clean_model_dir.R | 36 - R/cox_panel.R | 72 +- R/ezcox.R | 474 ++++++++--------- R/ezcox_parallel.R | 246 ++++----- R/ezgrp.R | 226 ++++---- R/filter_ezcox.R | 114 ++-- R/get_models.R | 128 ++-- R/show_forest.R | 157 +++-- R/show_models.R | 170 +++--- R/utils.R | 16 R/zzz.R | 30 - README.md | 308 +++++------ build/vignette.rds |binary inst/CITATION | 32 - inst/doc/ezcox.R | 96 +-- inst/doc/ezcox.Rmd | 226 ++++---- inst/doc/ezcox.html | 1065 +++++++++++++++++++-------------------- inst/doc/ezforest.R | 46 - inst/doc/ezforest.Rmd | 70 +- inst/doc/ezforest.html | 770 +++++++++++++--------------- inst/doc/ezgroup.R | 30 - inst/doc/ezgroup.Rmd | 56 +- inst/doc/ezgroup.html | 824 ++++++++++++++++-------------- man/ezcox.Rd | 158 ++--- man/ezcox_group.Rd | 124 ++-- man/show_forest.Rd | 166 +++--- man/show_models.Rd | 100 +-- tests/testthat/test-test_ezcox.R | 108 +-- vignettes/ezcox.Rmd | 226 ++++---- vignettes/ezforest.Rmd | 70 +- vignettes/ezgroup.Rmd | 56 +- 34 files changed, 3245 insertions(+), 3145 deletions(-)
Title: Interactive Conditional Visualization for Supervised and
Unsupervised Models in Shiny
Description: Constructs a shiny app function with interactive displays for conditional visualization of models,
data and density functions. An extended version of package 'condvis'.
Mark O'Connell, Catherine B. Hurley, Katarina Domijan (2017) <doi:10.18637/jss.v081.i05>.
Author: Catherine Hurley [aut, cre],
Mark OConnell [aut],
Katarina Domijan [aut]
Maintainer: Catherine Hurley <catherine.hurley@mu.ie>
Diff between condvis2 versions 0.1.0 dated 2019-06-28 and 0.1.1 dated 2020-09-25
condvis2-0.1.0/condvis2/man/condtour.Rd |only condvis2-0.1.1/condvis2/DESCRIPTION | 19 condvis2-0.1.1/condvis2/MD5 | 96 +- condvis2-0.1.1/condvis2/NAMESPACE | 16 condvis2-0.1.1/condvis2/NEWS.md |only condvis2-0.1.1/condvis2/R/CVpredict.R | 314 +++++- condvis2-0.1.1/condvis2/R/arrangeC.R | 47 - condvis2-0.1.1/condvis2/R/cluspath.R |only condvis2-0.1.1/condvis2/R/colours.R |only condvis2-0.1.1/condvis2/R/conditionplots.R | 81 + condvis2-0.1.1/condvis2/R/condpath.R | 341 +------ condvis2-0.1.1/condvis2/R/createServer.R | 163 ++- condvis2-0.1.1/condvis2/R/createUI.R | 92 +- condvis2-0.1.1/condvis2/R/diagnostics.R | 7 condvis2-0.1.1/condvis2/R/fitpath.R |only condvis2-0.1.1/condvis2/R/helper.R | 157 +-- condvis2-0.1.1/condvis2/R/sectionplot3dprobs.R | 375 +++++--- condvis2-0.1.1/condvis2/R/sectionplots.R | 642 ++++++++------ condvis2-0.1.1/condvis2/R/similarityweight.R | 217 +++- condvis2-0.1.1/condvis2/build/vignette.rds |binary condvis2-0.1.1/condvis2/inst/doc/Keras.R | 63 - condvis2-0.1.1/condvis2/inst/doc/Keras.Rmd | 34 condvis2-0.1.1/condvis2/inst/doc/Keras.html | 346 ++++--- condvis2-0.1.1/condvis2/inst/doc/introduction.R | 38 condvis2-0.1.1/condvis2/inst/doc/introduction.Rmd | 23 condvis2-0.1.1/condvis2/inst/doc/introduction.html | 150 +-- condvis2-0.1.1/condvis2/inst/doc/mclust.R | 46 - condvis2-0.1.1/condvis2/inst/doc/mclust.Rmd | 21 condvis2-0.1.1/condvis2/inst/doc/mclust.html | 195 ++-- condvis2-0.1.1/condvis2/inst/doc/mlr.R |only condvis2-0.1.1/condvis2/inst/doc/mlr.Rmd |only condvis2-0.1.1/condvis2/inst/doc/mlr.html |only condvis2-0.1.1/condvis2/inst/doc/parsnip.R |only condvis2-0.1.1/condvis2/inst/doc/parsnip.Rmd |only condvis2-0.1.1/condvis2/inst/doc/parsnip.html |only condvis2-0.1.1/condvis2/man/CVpredict.Rd | 414 +++++++-- condvis2-0.1.1/condvis2/man/clusPath.Rd |only condvis2-0.1.1/condvis2/man/conditionPlot.Rd | 11 condvis2-0.1.1/condvis2/man/condvis.Rd | 39 condvis2-0.1.1/condvis2/man/createCVServer.Rd | 43 condvis2-0.1.1/condvis2/man/createCVUI.Rd | 23 condvis2-0.1.1/condvis2/man/fitPath.Rd |only condvis2-0.1.1/condvis2/man/medoid.Rd |only condvis2-0.1.1/condvis2/man/plotTourDiagnostics.Rd | 10 condvis2-0.1.1/condvis2/man/sectionPlot.Rd | 46 - condvis2-0.1.1/condvis2/man/similarityweight.Rd | 15 condvis2-0.1.1/condvis2/man/tours.Rd |only condvis2-0.1.1/condvis2/man/weightcolor.Rd | 2 condvis2-0.1.1/condvis2/tests |only condvis2-0.1.1/condvis2/vignettes/Keras.Rmd | 34 condvis2-0.1.1/condvis2/vignettes/introduction.Rmd | 23 condvis2-0.1.1/condvis2/vignettes/mclust.Rmd | 21 condvis2-0.1.1/condvis2/vignettes/mlr.Rmd |only condvis2-0.1.1/condvis2/vignettes/parsnip.Rmd |only condvis2-0.1.1/condvis2/vignettes/vignettefigs/Boston.png |binary condvis2-0.1.1/condvis2/vignettes/vignettefigs/Pima.png |binary 56 files changed, 2642 insertions(+), 1522 deletions(-)
Title: Critical Line Algorithm in Pure R
Description: Implements 'Markowitz' Critical Line Algorithm ('CLA') for classical
mean-variance portfolio optimization, see Markowitz (1952) <doi:10.2307/2975974>.
Care has been taken for correctness in light of previous buggy implementations.
Author: Yanhao Shi <syhelena@163.com>,
Martin Maechler <maechler@stat.math.ethz.ch>
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between CLA versions 0.96-0 dated 2020-09-07 and 0.96-1 dated 2020-09-25
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- build/partial.rdb |binary tests/SP500-ex.R | 14 ++++++++------ 4 files changed, 15 insertions(+), 13 deletions(-)
Title: Subset Partitioning via Anticlustering
Description: The method of anticlustering partitions a pool of
elements into groups (i.e., anticlusters) in such a way that the
between-group similarity is maximized and -- at the same time -- the
within-group heterogeneity is maximized. This reverses the logic of
cluster analysis that strives for high within-group homogeneity and
low similarity of the different groups. Computationally,
anticlustering is accomplished by maximizing instead of minimizing a
clustering objective function, such as the intra-cluster variance
(used in k-means clustering) or the sum of pairwise distances within
clusters. The function anticlustering() implements exact and
heuristic anticlustering algorithms as described in Papenberg and Klau
(2020; <doi:10.1037/met0000301>). The exact approach requires that the
GNU linear programming kit
(<https://www.gnu.org/software/glpk/glpk.html>) is available and the R
package 'Rglpk' (<https://cran.R-project.org/package=Rglpk>) is
installed. Some other functions are available to solve classical
clustering problems. The function balanced_clustering() applies a
cluster analysis under size constraints, i.e., creates equal-sized
clusters. The function matching() can be used for (unrestricted,
bipartite, or K-partite) matching. The function wce() can be used
optimally solve the (weighted) cluster editing problem, also known as
correlation clustering, clique partitioning problem or transitivity
clustering.
Author: Martin Papenberg [aut, cre] (<https://orcid.org/0000-0002-9900-4268>),
Meik Michalke [ctb] (centroid based clustering algorithm),
Gunnar W. Klau [ths],
Juliane V. Tkotz [ctb] (package logo)
Maintainer: Martin Papenberg <martin.papenberg@hhu.de>
Diff between anticlust versions 0.5.0 dated 2020-06-29 and 0.5.3 dated 2020-09-25
DESCRIPTION | 14 +- MD5 | 40 ++++-- NAMESPACE | 1 R/categorical-variable-handling.R | 2 R/exact-anticlustering.R | 2 R/exchange-method-generic.R | 5 R/exchange-method-kmeans-anticlustering.R | 6 R/input-validation.R | 59 ++++++--- R/objective-kplus.R |only R/repeated-exchange.R |only R/sample-by-category.R | 49 ++++++- R/wrapper-anticlustering.R | 176 +++++++++++++++++++--------- R/wrapper-clustering.R | 2 build |only inst/doc |only man/anticlustering.Rd | 134 ++++++++++++++------- man/categorical_sampling.Rd | 12 + man/kplus_objective.Rd |only man/schaper2019.Rd | 6 tests/testthat/test-argument-K.R |only tests/testthat/test-exchange-method.R | 18 ++ tests/testthat/test-kplus-criterion.R |only tests/testthat/test-local-updating-kmeans.R |only tests/testthat/test-repeated-exchange.R |only vignettes |only 25 files changed, 371 insertions(+), 155 deletions(-)
Title: Fitting Point Process Models via the Palm Likelihood
Description: Functions to fit point process models using the Palm likelihood. First proposed by Tanaka, Ogata, and Stoyan (2008) <DOI:10.1002/bimj.200610339>, maximisation of the Palm likelihood can provide computationally efficient parameter estimation for point process models in situations where the full likelihood is intractable. This package is chiefly focused on Neyman-Scott point processes, but can also fit the void processes proposed by Jones-Todd et al. (2019) <DOI:10.1002/sim.8046>. The development of this package was motivated by the analysis of capture-recapture surveys on which individuals cannot be identified---the data from which can conceptually be seen as a clustered point process (Stevenson, Borchers, and Fewster, 2019 <DOI:10.1111/biom.12983>). As such, some of the functions in this package are specifically for the estimation of cetacean density from two-camera aerial surveys.
Author: Ben Stevenson <ben.stevenson@auckland.ac.nz>
Maintainer: Ben Stevenson <ben.stevenson@auckland.ac.nz>
Diff between palm versions 1.1.3 dated 2018-12-08 and 1.1.4 dated 2020-09-25
palm-1.1.3/palm/src/palm_init.c |only palm-1.1.4/palm/DESCRIPTION | 14 ++++----- palm-1.1.4/palm/MD5 | 44 +++++++++++++++---------------- palm-1.1.4/palm/NAMESPACE | 7 ---- palm-1.1.4/palm/NEWS | 14 +++++++-- palm-1.1.4/palm/R/RcppExports.R | 4 ++ palm-1.1.4/palm/R/fit-ns.r | 18 +++++------- palm-1.1.4/palm/R/methods.r | 1 palm-1.1.4/palm/R/palm.r | 16 +++++------ palm-1.1.4/palm/R/refclass.r | 24 +++++++++------- palm-1.1.4/palm/man/coef.palm.Rd | 3 -- palm-1.1.4/palm/man/confint.palm.Rd | 3 -- palm-1.1.4/palm/man/example.1D.Rd | 4 ++ palm-1.1.4/palm/man/example.2D.Rd | 4 ++ palm-1.1.4/palm/man/example.twocamera.Rd | 4 ++ palm-1.1.4/palm/man/fit.ns.Rd | 33 +++++++++++++++-------- palm-1.1.4/palm/man/fit.twocamera.Rd | 21 +++++++++++--- palm-1.1.4/palm/man/fit.void.Rd | 16 ++++++++--- palm-1.1.4/palm/man/palm.Rd | 14 ++++----- palm-1.1.4/palm/man/plot.palm.Rd | 3 -- palm-1.1.4/palm/man/porpoise.data.Rd | 4 ++ palm-1.1.4/palm/man/sim.ns.Rd | 14 +++++++-- palm-1.1.4/palm/src/RcppExports.cpp | 26 ++++++++++++++++++ palm-1.1.4/palm/src/euc_distances.cpp |only 24 files changed, 182 insertions(+), 109 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-03-25 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-03-25 0.1.1
2020-03-15 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-03-21 0.1.2
2019-12-02 0.1.1
2019-11-25 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-06-28 1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-09-15 0.1.8
2020-09-11 0.1.6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-09-23 1.5.2
2020-09-18 1.5.1
2020-09-11 1.5.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-03-03 2.0.1
2014-07-16 2.0
2013-10-29 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-05-13 3.1.11
2018-04-12 3.1.10
2018-03-30 3.1.9
2016-08-23 3.1.7
2016-06-25 3.1.6
Title: A Simple Package for Testing R Packages
Description: Provides two convenience functions assert() and test_pkg() to
facilitate testing R packages.
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
Steven Mortimer [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between testit versions 0.11 dated 2019-11-12 and 0.12 dated 2020-09-25
DESCRIPTION | 8 ++++---- MD5 | 13 +++++++------ NEWS | 6 ++++++ R/testit.R | 25 ++++++++++++++++++++++++- R/utils.R | 10 ++++++++-- R/zzz.R |only README.md | 2 +- man/assert.Rd | 2 +- 8 files changed, 51 insertions(+), 15 deletions(-)
Title: Extra String Manipulation Functions
Description: There are some things that I wish were easier with
the 'stringr' or 'stringi' packages. The foremost of these is the
extraction of numbers from strings. 'stringr' and 'stringi' make you
figure out the regular expression for yourself; 'strex' takes care of
this for you. There are many other handy functionalities in 'strex'.
Contributions to this package are encouraged: it is intended as a
miscellany of string manipulation functions that cannot be found in
'stringi' or 'stringr'.
Author: Rory Nolan [aut, cre] (<https://orcid.org/0000-0002-5239-4043>)
Maintainer: Rory Nolan <rorynoolan@gmail.com>
Diff between strex versions 1.2.0 dated 2019-09-13 and 1.3.0 dated 2020-09-25
strex-1.2.0/strex/R/RcppExports.R |only strex-1.2.0/strex/R/all-equal.R |only strex-1.2.0/strex/configure |only strex-1.2.0/strex/configure.win |only strex-1.2.0/strex/src/RcppExports.cpp |only strex-1.2.0/strex/src/arg-match.cpp |only strex-1.2.0/strex/src/interleave.cpp |only strex-1.2.0/strex/src/list-utils.cpp |only strex-1.2.0/strex/src/mymath.h |only strex-1.2.0/strex/src/split-by-nums.cpp |only strex-1.2.0/strex/src/stod.cpp |only strex-1.2.0/strex/src/stod.h |only strex-1.2.0/strex/src/substrs.cpp |only strex-1.2.0/strex/src/substrs.h |only strex-1.2.0/strex/tests/testthat/test-RcppExports.R |only strex-1.2.0/strex/tools |only strex-1.3.0/strex/DESCRIPTION | 17 -- strex-1.3.0/strex/MD5 | 145 ++++++++---------- strex-1.3.0/strex/NAMESPACE | 4 strex-1.3.0/strex/R/after.R | 2 strex-1.3.0/strex/R/alphord.R | 16 +- strex-1.3.0/strex/R/arg-match.R | 78 +++++---- strex-1.3.0/strex/R/c-wrappers.R |only strex-1.3.0/strex/R/currency.R | 20 +- strex-1.3.0/strex/R/extract-non-nums.R | 8 - strex-1.3.0/strex/R/extract-nums.R | 13 - strex-1.3.0/strex/R/locate.R | 26 +-- strex-1.3.0/strex/R/split-by-nums.R | 5 strex-1.3.0/strex/R/strex-package.R | 9 - strex-1.3.0/strex/R/trim.R | 73 +++++++-- strex-1.3.0/strex/R/utils.R | 151 +++++++++---------- strex-1.3.0/strex/README.md | 6 strex-1.3.0/strex/build/partial.rdb |binary strex-1.3.0/strex/build/vignette.rds |binary strex-1.3.0/strex/inst/WORDLIST | 2 strex-1.3.0/strex/inst/doc/alphordering-numbers.R | 10 - strex-1.3.0/strex/inst/doc/alphordering-numbers.Rmd | 2 strex-1.3.0/strex/inst/doc/alphordering-numbers.html | 17 -- strex-1.3.0/strex/inst/doc/argument-matching.R | 18 +- strex-1.3.0/strex/inst/doc/argument-matching.html | 33 +--- strex-1.3.0/strex/inst/doc/before-and-after.R | 12 - strex-1.3.0/strex/inst/doc/before-and-after.html | 15 - strex-1.3.0/strex/inst/doc/important-miscellany.R | 30 +-- strex-1.3.0/strex/inst/doc/important-miscellany.html | 62 +++---- strex-1.3.0/strex/inst/doc/numbers-in-strings.R | 32 ++-- strex-1.3.0/strex/inst/doc/numbers-in-strings.Rmd | 10 - strex-1.3.0/strex/inst/doc/numbers-in-strings.html | 127 +++++++-------- strex-1.3.0/strex/man/before-and-after.Rd | 7 strex-1.3.0/strex/man/currency.Rd | 8 - strex-1.3.0/strex/man/str_before_last_dot.Rd | 3 strex-1.3.0/strex/man/str_elem.Rd | 5 strex-1.3.0/strex/man/str_elems.Rd | 5 strex-1.3.0/strex/man/str_extract_non_numerics.Rd | 14 + strex-1.3.0/strex/man/str_extract_numbers.Rd | 23 +- strex-1.3.0/strex/man/str_locate_braces.Rd | 13 - strex-1.3.0/strex/man/str_locate_nth.Rd | 7 strex-1.3.0/strex/man/str_match_arg.Rd | 18 +- strex-1.3.0/strex/man/str_nth_non_numeric.Rd | 41 +++-- strex-1.3.0/strex/man/str_nth_number.Rd | 48 ++++-- strex-1.3.0/strex/man/str_nth_number_after_mth.Rd | 150 +++++++++++++----- strex-1.3.0/strex/man/str_nth_number_before_mth.Rd | 150 +++++++++++++----- strex-1.3.0/strex/man/str_paste_elems.Rd | 5 strex-1.3.0/strex/man/str_remove_quoted.Rd | 7 strex-1.3.0/strex/man/str_singleize.Rd | 9 - strex-1.3.0/strex/man/str_split_by_numbers.Rd | 14 + strex-1.3.0/strex/man/str_split_camel_case.Rd | 3 strex-1.3.0/strex/man/str_trim_anything.Rd | 9 - strex-1.3.0/strex/src/arg-match.c |only strex-1.3.0/strex/src/fullocate.c |only strex-1.3.0/strex/src/init.c |only strex-1.3.0/strex/src/interleave.c |only strex-1.3.0/strex/src/list-utils.c |only strex-1.3.0/strex/src/list-utils.h |only strex-1.3.0/strex/src/matrix-utils.c |only strex-1.3.0/strex/src/pairlist-utils.c |only strex-1.3.0/strex/src/pairlist-utils.h |only strex-1.3.0/strex/src/stringi-imports.h |only strex-1.3.0/strex/src/vec-utils.c |only strex-1.3.0/strex/tests/testthat/test-arg-match.R | 2 strex-1.3.0/strex/tests/testthat/test-c-wrappers.R |only strex-1.3.0/strex/tests/testthat/test-currency.R | 52 ++---- strex-1.3.0/strex/tests/testthat/test-extract-nums.R | 6 strex-1.3.0/strex/tests/testthat/test-trim.R | 11 + strex-1.3.0/strex/tests/testthat/test-utils.R | 48 ++---- strex-1.3.0/strex/vignettes/alphordering-numbers.Rmd | 2 strex-1.3.0/strex/vignettes/numbers-in-strings.Rmd | 10 - 86 files changed, 919 insertions(+), 694 deletions(-)
Title: Utilities for Working with NEON Data
Description: NEON data packages can be accessed through the NEON Data Portal <https://data.neonscience.org/home>
or through the NEON Data API (see <https://data.neonscience.org/data-api> for documentation). Data delivered from
the Data Portal are provided as monthly zip files packaged within a parent zip file, while individual files
can be accessed from the API. This package provides tools that aid in discovering, downloading, and reformatting
data prior to use in analyses. This includes downloading data via the API, merging data tables by type, and
converting formats. For more information, see the readme file at <https://github.com/NEONScience/NEON-utilities>.
Author: Claire Lunch [aut, cre, ctb],
Christine Laney [aut, ctb],
Nathan Mietkiewicz [aut, ctb],
Eric Sokol [aut, ctb],
Kaelin Cawley [aut, ctb],
NEON (National Ecological Observatory Network) [aut]
Maintainer: Claire Lunch <clunch@battelleecology.org>
Diff between neonUtilities versions 1.3.6 dated 2020-07-26 and 1.3.7 dated 2020-09-25
neonUtilities-1.3.6/neonUtilities/R/getFilesize.R |only neonUtilities-1.3.6/neonUtilities/man/getFilesize.Rd |only neonUtilities-1.3.7/neonUtilities/DESCRIPTION | 14 ++-- neonUtilities-1.3.7/neonUtilities/MD5 | 32 +++++------ neonUtilities-1.3.7/neonUtilities/NAMESPACE | 4 - neonUtilities-1.3.7/neonUtilities/R/byFileAOP.R | 6 +- neonUtilities-1.3.7/neonUtilities/R/byTileAOP.R | 6 +- neonUtilities-1.3.7/neonUtilities/R/convByteSize.R |only neonUtilities-1.3.7/neonUtilities/R/getAvg.R | 2 neonUtilities-1.3.7/neonUtilities/R/getRecentPublication.R | 2 neonUtilities-1.3.7/neonUtilities/R/getTimeIndex.R |only neonUtilities-1.3.7/neonUtilities/R/loadByProduct.R | 9 ++- neonUtilities-1.3.7/neonUtilities/R/stackDataFilesParallel.R | 4 + neonUtilities-1.3.7/neonUtilities/R/zipsByProduct.R | 21 +++++-- neonUtilities-1.3.7/neonUtilities/R/zipsByURI.R | 2 neonUtilities-1.3.7/neonUtilities/README.md | 10 +++ neonUtilities-1.3.7/neonUtilities/man/convByteSize.Rd |only neonUtilities-1.3.7/neonUtilities/man/getTimeIndex.Rd |only neonUtilities-1.3.7/neonUtilities/man/loadByProduct.Rd | 9 ++- neonUtilities-1.3.7/neonUtilities/man/zipsByProduct.Rd | 10 ++- 20 files changed, 82 insertions(+), 49 deletions(-)
Title: Syntax Highlighting and Automatic Linking
Description: Syntax highlighting of R code, specifically designed
for the needs of 'RMarkdown' packages like 'pkgdown', 'hugodown', and
'bookdown'. It includes linking of function calls to their documentation
on the web, and automatic translation of ANSI escapes in output to the
equivalent HTML.
Author: Hadley Wickham [aut, cre],
RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between downlit versions 0.1.0 dated 2020-09-01 and 0.2.0 dated 2020-09-25
DESCRIPTION | 8 +- MD5 | 43 ++++++------- NEWS.md |only R/downlit-html.R | 33 ++++++++- R/downlit-md.R | 19 ++++- R/highlight.R | 109 ++++++++++++++++++++++++++------- R/link.R | 5 + R/metadata.R | 24 ++++++- R/utils.R | 16 ++++ README.md | 14 +++- man/downlit-package.Rd | 1 man/downlit_html_path.Rd | 9 ++ man/downlit_md_path.Rd | 2 tests/testthat/test-downlit-html.R | 14 ++++ tests/testthat/test-downlit-html.txt | 3 tests/testthat/test-downlit-md-v20.txt | 3 tests/testthat/test-downlit-md-v21.txt | 3 tests/testthat/test-downlit-md.R | 14 ++++ tests/testthat/test-evaluate.txt | 10 +-- tests/testthat/test-highlight.R | 25 ++++++- tests/testthat/test-highlight.txt | 20 +++--- tests/testthat/test-link.R | 6 - tests/testthat/test-metadata.R | 2 23 files changed, 295 insertions(+), 88 deletions(-)
Title: An Interface for Content-Based Identifiers
Description: An interface for creating, registering, and resolving content-based
identifiers for data management. Content-based identifiers rely on
the 'cryptographic' hashes to refer to the files they identify, thus,
anyone possessing the file can compute the identifier using a
well-known standard algorithm, such as 'SHA256'. By registering
a URL at which the content is accessible to a public archive, such
as <https://hash-archive.org>, the content identifier can serve
many functions typically associated with A Digital Object Identifier
('DOI'). Unlike location-based identifiers like 'DOIs', content-based
identifiers permit the same content to be registered in many locations.
Author: Carl Boettiger [aut, cre] (<https://orcid.org/0000-0002-1642-628X>),
Jorrit Poelen [aut] (<https://orcid.org/0000-0003-3138-4118>),
NSF OAC 1839201 [fnd]
(https://www.nsf.gov/awardsearch/showAward?AWD_ID=1839201)
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between contentid versions 0.0.7 dated 2020-09-08 and 0.0.8 dated 2020-09-25
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- NEWS.md | 4 ++++ R/query_sources.R | 31 +++++++++++++++++-------------- R/tsv_registry.R | 8 ++++---- build/vignette.rds |binary inst/doc/intro.Rmd | 2 +- inst/doc/intro.html | 2 +- vignettes/intro.Rmd | 2 +- vignettes/intro.Rmd-source | 2 +- 10 files changed, 41 insertions(+), 34 deletions(-)