Title: R Interface to Experigen
Description: Provides convenience functions to communicate with
an Experigen server: Experigen (<http://github.com/aquincum/experigen>)
is an online framework for creating linguistic experiments,
and it stores the results on a dedicated server. This package can be
used to retrieve the results from the server, and it is especially
helpful with registered experiments, as authentication with the server
has to happen.
Author: Daniel Szeredi [aut, cre]
Maintainer: Daniel Szeredi <daniel@szeredi.hu>
Diff between Rexperigen versions 0.2.0 dated 2016-03-22 and 0.2.1 dated 2016-08-25
DESCRIPTION | 14 +++++++++----- MD5 | 6 +++--- NEWS.md | 6 ++++++ R/download.R | 4 ++++ 4 files changed, 22 insertions(+), 8 deletions(-)
Title: Tools for Phoneticians and Phonologists
Description: Tools for phoneticians and phonologists, including functions for normalization and plotting of vowels.
Author: Daniel R. McCloy
Maintainer: Daniel R. McCloy <drmccloy@uw.edu>
Diff between phonR versions 1.0-3 dated 2015-04-19 and 1.0-7 dated 2016-08-25
DESCRIPTION | 10 MD5 | 12 NAMESPACE | 3 R/phonR.R | 1113 +++++++++++++++++++++++++++++++----------------------- inst/CITATION | 9 man/normVowels.Rd | 4 man/plotVowels.Rd | 24 - 7 files changed, 678 insertions(+), 497 deletions(-)
Title: Portfolio Allocation and Risk Management Applications
Description: Provision of a set of models and methods for use in the allocation and management of capital in financial portfolios.
Author: Alexios Ghalanos [aut, cre],
Bernhard Pfaff [ctb],
Miguel Sousa Lobo [ctb] (SOCP),
Lieven Vandenberghe [ctb] (SOCP),
Stephen Boyd [ctb] (SOCP),
Herve Lebret [ctb] (SOCP)
Maintainer: Alexios Ghalanos <alexios@4dscape.com>
Diff between parma versions 1.5-2 dated 2015-07-02 and 1.5-3 dated 2016-08-25
.Rinstignore | 20 Changelog | 112 DESCRIPTION | 35 MD5 | 98 NAMESPACE | 43 R/Socp.R |only R/p-GNLP.R | 660 +-- R/p-LP.R | 1402 +++---- R/p-MILP.R | 1276 +++--- R/p-NLP.R | 1854 +++++----- R/p-QP.R | 388 +- R/p-SOCP.R | 2206 ++++++------ R/p-Utility.R | 458 +- R/p-classes.R | 54 R/p-cmaes.R | 2940 ++++++++-------- R/p-constraints.R | 930 ++--- R/p-fun.R | 490 +- R/p-main.R | 2388 ++++++------- R/p-methods.R | 680 +-- R/p-timeseries.R | 198 - R/zzz.R | 44 README.md | 10 build/vignette.rds |binary inst/doc/Portfolio_Optimization_in_parma.Rnw | 80 inst/doc/Portfolio_Optimization_in_parma.pdf |binary inst/parma.tests/parma.tests.R | 4000 ++++++++++----------- man/Socp.Rd |only man/SocpControl.Rd |only man/SocpPhase1.Rd |only man/SocpPhase2.Rd |only man/cmaes-solver.Rd | 184 - man/constraints.Rd | 146 man/etfdata.Rd | 38 man/parma-package.Rd | 164 man/parmaPort-class.Rd | 112 man/parmaSpec-class.Rd | 86 man/parmafrontier-methods.Rd | 100 man/parmasolve-methods.Rd | 102 man/parmaspec-methods.Rd | 264 - man/parmautility-methods.Rd | 90 man/riskfun.Rd | 74 src |only vignettes/Portfolio_Optimization_in_parma.Rnw | 80 vignettes/Portfolio_Optimization_in_parma.tex | 82 vignettes/frontier.tex | 12 vignettes/lpmutility.tex | 8 vignettes/lpnlp1.tex | 52 vignettes/lpnlp2.tex | 52 vignettes/mam.tex | 10 vignettes/parma.tex | 1922 +++++----- vignettes/parmabib.bib | 4748 +++++++++++++------------- vignettes/riskcompare.tex | 48 vignettes/solvers.tex | 82 53 files changed, 14426 insertions(+), 14396 deletions(-)
Title: Goodness of Fit Tests for Logistic Regression Models
Description: Functions to assess the goodness of fit of binary, multinomial and ordinal logistic models.
Included are the Hosmer-Lemeshow tests (binary, multinomial and ordinal) and the Lipsitz and
Pulkstenis-Robinson tests (ordinal).
Author: Matthew Jay [aut, cre]
Maintainer: Matthew Jay <matthew.jay.15@ucl.ac.uk>
Diff between generalhoslem versions 1.2.2 dated 2016-08-03 and 1.2.3 dated 2016-08-25
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/lipsitz.test.R | 9 +++------ R/pulkrob.chisq.R | 4 ++-- R/pulkrob.deviance.R | 2 +- build/partial.rdb |binary man/lipsitz.test.Rd | 8 ++++---- 7 files changed, 20 insertions(+), 23 deletions(-)
Title: Interface to 'Digital Ocean'
Description: Provides a set of functions for interacting with the 'Digital
Ocean' 'API' at <https://developers.digitalocean.com/documentation/v2>, including
creating images, destroying them, 'rebooting', getting details on regions, and
available images.
Author: Scott Chamberlain [aut, cre],
Hadley Wickham [aut],
Winston Chang [aut],
Bob Rudis [ctb],
RStudio [cph]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between analogsea versions 0.3.0 dated 2015-10-02 and 0.4.0 dated 2016-08-25
DESCRIPTION | 21 +++-- LICENSE | 2 MD5 | 157 ++++++++++++++++++++++++------------------- NAMESPACE | 22 +++++- NEWS.md |only R/account.R | 13 +-- R/actions.R | 16 +++- R/analogsea-package.R | 7 + R/debian.R | 2 R/do_oauth.R | 7 + R/docklet.R | 67 +++++++++++++++++- R/droplet-actions.R | 76 +++++++++++++++----- R/droplet-ssh.R | 12 +++ R/droplet.R | 2 R/droplets.R | 13 +++ R/droplets_cost.R |only R/droplets_create.R |only R/httr.R | 22 +++++- R/is_port_open.R |only R/onload.R |only R/sizes.R | 4 - R/tags.R |only R/zzz.R | 6 + README.md | 18 ++-- build/vignette.rds |binary inst/doc/doapi.Rmd | 2 inst/doc/doapi.html | 2 inst/examples |only man/account.Rd | 2 man/action.Rd | 2 man/actions.Rd | 2 man/adjectives.Rd | 2 man/analogsea-package.Rd | 6 + man/cloud_config.Rd | 2 man/debian.Rd | 6 - man/do_oauth.Rd | 4 - man/do_options.Rd | 2 man/docklet_create.Rd | 43 ++++++++++- man/domain_create.Rd | 10 +- man/domain_records.Rd | 10 +- man/domains.Rd | 2 man/droplet.Rd | 2 man/droplet_action.Rd | 10 ++ man/droplet_actions.Rd | 2 man/droplet_create.Rd | 22 ++++-- man/droplet_delete.Rd | 15 +++- man/droplet_do_actions.Rd |only man/droplet_execute.Rd | 2 man/droplet_freeze.Rd | 12 +-- man/droplet_kernels_list.Rd | 2 man/droplet_modify.Rd | 2 man/droplet_reuse.Rd | 2 man/droplet_snapshot.Rd | 2 man/droplet_ssh.Rd | 4 - man/droplet_upgrades_list.Rd | 2 man/droplet_wait.Rd | 2 man/droplets.Rd | 14 +++ man/droplets_cost.Rd |only man/droplets_create.Rd |only man/httr-verbs.Rd | 5 + man/image_actions.Rd | 2 man/image_convert.Rd | 2 man/image_delete.Rd | 2 man/image_transfer.Rd | 2 man/images.Rd | 2 man/key-crud.Rd | 2 man/keys.Rd | 2 man/neighbors.Rd | 2 man/nouns.Rd | 2 man/pipe.Rd | 2 man/rate_limit.Rd | 2 man/regions.Rd | 2 man/resize.Rd | 2 man/sizes.Rd | 2 man/standardise_keys.Rd | 2 man/tag_create.Rd |only man/tag_delete.Rd |only man/tag_rename.Rd |only man/tag_resource.Rd |only man/tag_resource_delete.Rd |only man/tags.Rd |only man/words.Rd | 2 tests/testthat/test-images.R | 2 vignettes/doapi.Rmd | 2 84 files changed, 493 insertions(+), 207 deletions(-)
Title: Wrapper for MUMPS Library
Description: Exported class can be used for storing sparse matrix
and solving corresponding linear system with one or many right
hand sides. There is a possibility to do separately symbolic analysis,
LU factorization and system solving.
Author: Serguei Sokol
Maintainer: Serguei Sokol <sokol@insa-toulouse.fr>
Diff between rmumps versions 5.0.1.9-1 dated 2016-04-14 and 5.0.1.10 dated 2016-08-25
DESCRIPTION | 8 MD5 | 36 +-- NEWS | 12 + configure.win | 28 +- man/rmumps-package.Rd | 2 src/Makevars | 2 src/Makevars.win | 2 src/lib/MUMPS_5.0.1/Makefile.inc | 12 - src/lib/MUMPS_5.0.1/Makefile.inc.win | 314 ++++++++++++++-------------- src/lib/MUMPS_5.0.1/libseq/Makefile | 2 src/lib/MUMPS_5.0.1/libseq/mpi.f | 33 ++ src/lib/MUMPS_5.0.1/src/Makefile | 2 src/lib/MUMPS_5.0.1/src/dana_aux.F | 4 src/lib/MUMPS_5.0.1/src/dana_driver.F | 24 +- src/lib/MUMPS_5.0.1/src/dfac_distrib_ELT.F | 14 - src/lib/MUMPS_5.0.1/src/dfac_process_band.F | 2 src/lib/MUMPS_5.0.1/src/dtype3_root.F | 10 src/lib/Makefile.win | 7 src/rmumps_module.cpp | 20 - 19 files changed, 281 insertions(+), 253 deletions(-)
Title: Supervised, Unsupervised, Semi-Supervised Classification with
MIXture MODelling (Interface of MIXMOD Software)
Description: Interface of MIXMOD software for supervised, unsupervised and semi-Supervised classification with MIXture MODelling.
Author: Florent Langrognet [aut, cre],
Remi Lebret [aut],
Christian Poli [aut],
Serge Iovleff [aut],
Benjamin Auder [ctb],
C. Biernacki [ctb],
G. Celeux [ctb],
G. Govaert [ctb]
Maintainer: Florent Langrognet <florent.langrognet@univ-fcomte.fr>
Diff between Rmixmod versions 2.1.0 dated 2016-07-11 and 2.1.1 dated 2016-08-25
Rmixmod-2.1.0/Rmixmod/src/Makevars.old |only Rmixmod-2.1.0/Rmixmod/src/mixmod_iostream/DomClusteringProject.cpp |only Rmixmod-2.1.0/Rmixmod/src/mixmod_iostream/DomClusteringProject.h |only Rmixmod-2.1.0/Rmixmod/src/mixmod_iostream/DomDAProject.cpp |only Rmixmod-2.1.0/Rmixmod/src/mixmod_iostream/DomDAProject.h |only Rmixmod-2.1.0/Rmixmod/src/mixmod_iostream/NodeClusteringInput.cpp |only Rmixmod-2.1.0/Rmixmod/src/mixmod_iostream/NodeClusteringInput.h |only Rmixmod-2.1.0/Rmixmod/src/mixmod_iostream/NodeClusteringOutput.cpp |only Rmixmod-2.1.0/Rmixmod/src/mixmod_iostream/NodeClusteringOutput.h |only Rmixmod-2.1.0/Rmixmod/src/mixmod_iostream/myIOStreamUtil.cpp_ |only Rmixmod-2.1.0/Rmixmod/src/mixmod_iostream/newdev |only Rmixmod-2.1.0/Rmixmod/src/mixmod_iostream/newdev2 |only Rmixmod-2.1.0/Rmixmod/src/myClusteringOutputHandling.h.txt |only Rmixmod-2.1.0/Rmixmod/src/myClusteringOutputHandling.txt |only Rmixmod-2.1.0/Rmixmod/src/myclusteringMain.txt |only Rmixmod-2.1.0/Rmixmod/tests/init-param+partition |only Rmixmod-2.1.0/Rmixmod/tests/init-param+partition. |only Rmixmod-2.1.0/Rmixmod/tests/init-param+partition.tar |only Rmixmod-2.1.0/Rmixmod/tests/mass |only Rmixmod-2.1.1/Rmixmod/DESCRIPTION | 15 Rmixmod-2.1.1/Rmixmod/MD5 | 144 +---- Rmixmod-2.1.1/Rmixmod/NEWS |only Rmixmod-2.1.1/Rmixmod/R/Mixmod.R | 9 Rmixmod-2.1.1/Rmixmod/R/MixmodLearn.R | 4 Rmixmod-2.1.1/Rmixmod/R/Rmixmod.R | 4 Rmixmod-2.1.1/Rmixmod/R/Strategy.R | 8 Rmixmod-2.1.1/Rmixmod/R/zzz.R | 4 Rmixmod-2.1.1/Rmixmod/configure | 9 Rmixmod-2.1.1/Rmixmod/configure.ac | 11 Rmixmod-2.1.1/Rmixmod/inst/XML_specs/label_or_partition.xsd | 2 Rmixmod-2.1.1/Rmixmod/inst/XML_specs/label_or_partition_group.xsd |only Rmixmod-2.1.1/Rmixmod/inst/XML_specs/project.xsd | 72 +- Rmixmod-2.1.1/Rmixmod/man/titanic.Rd | 23 Rmixmod-2.1.1/Rmixmod/src/LearnOutputHandling.cpp | 47 + Rmixmod-2.1.1/Rmixmod/src/LearnOutputHandling.h | 6 Rmixmod-2.1.1/Rmixmod/src/clusteringMain.cpp | 125 +++- Rmixmod-2.1.1/Rmixmod/src/learnMain.cpp | 207 +++++-- Rmixmod-2.1.1/Rmixmod/src/mixmod_iostream/DomLabel.cpp | 97 +++ Rmixmod-2.1.1/Rmixmod/src/mixmod_iostream/DomLabel.h | 3 Rmixmod-2.1.1/Rmixmod/src/mixmod_iostream/DomOpProject.cpp |only Rmixmod-2.1.1/Rmixmod/src/mixmod_iostream/DomOpProject.h |only Rmixmod-2.1.1/Rmixmod/src/mixmod_iostream/DomParameter.cpp | 49 + Rmixmod-2.1.1/Rmixmod/src/mixmod_iostream/DomParameter.h | 3 Rmixmod-2.1.1/Rmixmod/src/mixmod_iostream/IOStreamUtil.cpp | 269 +++++++--- Rmixmod-2.1.1/Rmixmod/src/mixmod_iostream/IOStreamUtil.h | 51 + Rmixmod-2.1.1/Rmixmod/src/mixmod_iostream/NodeInput.cpp | 16 Rmixmod-2.1.1/Rmixmod/src/mixmod_iostream/NodeInput.h | 10 Rmixmod-2.1.1/Rmixmod/src/mixmod_iostream/NodeOpInput.cpp |only Rmixmod-2.1.1/Rmixmod/src/mixmod_iostream/NodeOpInput.h |only Rmixmod-2.1.1/Rmixmod/src/mixmod_iostream/NodeOpOutput.cpp |only Rmixmod-2.1.1/Rmixmod/src/mixmod_iostream/NodeOpOutput.h |only Rmixmod-2.1.1/Rmixmod/src/mixmod_iostream/NodeOutput.cpp | 3 Rmixmod-2.1.1/Rmixmod/src/mixmod_iostream/NodeOutput.h | 2 Rmixmod-2.1.1/Rmixmod/src/mixmod_iostream/to_be_removed |only Rmixmod-2.1.1/Rmixmod/tests/Rplots.pdf |binary 55 files changed, 806 insertions(+), 387 deletions(-)
Title: Outright Tool for the Analysis of Spatial Inequalities and
Segregation
Description: A set of indexes and tests for the analysis of social segregation.
Author: Mihai Tivadar <mihai.tivadar@irstea.fr>
Maintainer: Mihai Tivadar <mihai.tivadar@irstea.fr>
Diff between OasisR versions 2.0.0 dated 2016-07-05 and 2.0.1 dated 2016-08-25
DESCRIPTION | 8 +- MD5 | 16 +++-- NAMESPACE | 2 R/SegFunctions.R | 96 ++++++++++++++++++++++++++++---- inst/doc/Dimensions_of_segregation.html | 4 - man/DPxx.Rd | 5 - man/HLoc.Rd | 3 - man/LQ.Rd | 3 - man/LShannon.Rd |only man/LSimpson.Rd |only 10 files changed, 109 insertions(+), 28 deletions(-)
Title: Network Enrichment Analysis
Description: Performs network enrichment analysis against functional gene sets.
Benchmarks networks. Renders raw gene profile matrices of dimensionality 'Ngenes
x Nsamples' into the space of gene set (typically pathway) enrichment scores of
dimensionality 'Npathways x Nsamples'.
Author: Andrey Alexeyenko [aut, cph, ths],
Ashwini Jeggari [aut, cre]
Maintainer: Ashwini Jeggari <ashwinipriya.jeggari@ki.se>
Diff between NEArender versions 1.0 dated 2016-04-19 and 1.4 dated 2016-08-25
DESCRIPTION | 21 ++++++++++++--------- MD5 | 31 ++++++++++++++++++++----------- NAMESPACE | 6 ++++++ R/benchmark.r | 11 ++++++----- R/connectivity.r |only R/gsea-render.r | 4 ++-- R/heatplot.r | 2 +- R/nea-data.r | 2 +- R/nea-render.r | 6 ++---- R/topology2nd.r |only build |only inst |only man/benchmark.Rd | 9 +++++---- man/connectivity.Rd |only man/gsea.render.Rd | 4 ++-- man/nea.render.Rd | 8 +++----- man/set.heat.Rd | 2 +- man/topology2nd.Rd |only vignettes |only 19 files changed, 61 insertions(+), 45 deletions(-)
Title: R Bindings to the Feather 'API'
Description: Read and write feather files, a lightweight binary columnar
data store designed for maximum speed.
Author: Hadley Wickham [aut, cre],
RStudio [cph],
Feather developers [ctb] (Bundled feather library),
Google [ctb] (Bundled flatbuffers code),
LevelDB Authors [ctb]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between feather versions 0.0.1 dated 2016-05-17 and 0.3.0 dated 2016-08-25
DESCRIPTION | 10 MD5 | 128 ++++++-- NAMESPACE | 2 NEWS.md |only R/RcppExports.R | 4 R/class.R | 5 R/feather.R | 7 README.md | 20 + configure |only inst/feather/iris.feather |binary inst/feather/mtcars.feather |binary src/Makevars | 4 src/RcppExports.cpp | 10 src/feather-read.cpp | 32 +- src/feather-types.cpp | 81 +++-- src/feather-types.h | 8 src/feather-write.cpp | 14 src/feather/CMakeFiles |only src/feather/CMakeLists.txt |only src/feather/CTestTestfile.cmake |only src/feather/Makefile |only src/feather/api.h | 1 src/feather/buffer.cc | 2 src/feather/buffer.h | 3 src/feather/cmake_install.cmake |only src/feather/common.h | 18 + src/feather/compatibility.h |only src/feather/feather-c.cc | 3 src/feather/io.cc | 471 ++++++++++++++++++++++++++++----- src/feather/io.h | 82 ++--- src/feather/metadata.cc | 35 +- src/feather/metadata.fbs |only src/feather/metadata.h | 5 src/feather/reader.cc | 30 +- src/feather/reader.h | 2 src/feather/status.cc | 2 src/feather/tests |only src/feather/writer.cc | 36 +- tests/testthat/test-class.R | 7 tests/testthat/test-read.R | 11 tests/testthat/test-roundtrip-vector.R | 13 41 files changed, 801 insertions(+), 245 deletions(-)
Title: Exploratory and Descriptive Event-Based Data Analysis
Description: Functions for exploratory and descriptive analysis of event based
data. Can be used to import and export Xes-files, the IEEE eXtensible Event
Stream standard. Provides methods for describing and selecting process data,
and for preparing event log data for process mining.
Author: Gert Janssenswillen
Maintainer: Gert Janssenswillen <gert.janssenswillen@uhasselt.be>
Diff between edeaR versions 0.4.2 dated 2016-08-01 and 0.4.3 dated 2016-08-25
edeaR-0.4.2/edeaR/R/resource_activity_involvement.R |only edeaR-0.4.2/edeaR/R/start_activity_resource_activity.R |only edeaR-0.4.2/edeaR/man/resource_activity_involvement.Rd |only edeaR-0.4.3/edeaR/DESCRIPTION | 8 - edeaR-0.4.3/edeaR/MD5 | 75 ++++++----- edeaR-0.4.3/edeaR/NAMESPACE | 3 edeaR-0.4.3/edeaR/R/activities.R | 9 - edeaR-0.4.3/edeaR/R/activity_presence.R | 10 - edeaR-0.4.3/edeaR/R/activity_specialization.R | 11 + edeaR-0.4.3/edeaR/R/activity_specialization_activity.R | 2 edeaR-0.4.3/edeaR/R/activity_type_frequence.R | 2 edeaR-0.4.3/edeaR/R/edeaR.R | 2 edeaR-0.4.3/edeaR/R/filter_activity_frequency.R | 4 edeaR-0.4.3/edeaR/R/filter_processing_time.R |only edeaR-0.4.3/edeaR/R/filter_processing_time_percentile.R |only edeaR-0.4.3/edeaR/R/filter_processing_time_threshold.R |only edeaR-0.4.3/edeaR/R/filter_throughput_time.R | 8 - edeaR-0.4.3/edeaR/R/filter_throughput_time_threshold.R | 7 - edeaR-0.4.3/edeaR/R/number_of_selfloops_log.R | 4 edeaR-0.4.3/edeaR/R/processing_time.R | 4 edeaR-0.4.3/edeaR/R/processing_time_activity.R | 20 +- edeaR-0.4.3/edeaR/R/processing_time_resource.R | 28 ++-- edeaR-0.4.3/edeaR/R/processing_time_resource_activity.R | 39 +++-- edeaR-0.4.3/edeaR/R/repetitions_activity.R | 3 edeaR-0.4.3/edeaR/R/resource_frequency.R | 6 edeaR-0.4.3/edeaR/R/resource_frequency_log.R | 10 - edeaR-0.4.3/edeaR/R/resource_frequency_resource_activity.R | 39 ++++- edeaR-0.4.3/edeaR/R/resource_involvement.R | 28 +--- edeaR-0.4.3/edeaR/R/resource_involvement_resource.R |only edeaR-0.4.3/edeaR/R/resource_involvement_resource_activity.R |only edeaR-0.4.3/edeaR/R/resources.R |only edeaR-0.4.3/edeaR/R/selfloops.R | 24 +-- edeaR-0.4.3/edeaR/R/size_of_selfloops.R | 9 - edeaR-0.4.3/edeaR/R/size_of_selfloops_activity.R | 44 ++++++ edeaR-0.4.3/edeaR/R/size_of_selfloops_trace.R | 35 ++++- edeaR-0.4.3/edeaR/R/start_activities_resource_activity.R |only edeaR-0.4.3/edeaR/R/summary_statistics.R |only edeaR-0.4.3/edeaR/man/activity_specialization.Rd | 8 + edeaR-0.4.3/edeaR/man/activity_type_frequency.Rd | 2 edeaR-0.4.3/edeaR/man/filter_processing_time.Rd |only edeaR-0.4.3/edeaR/man/filter_throughput_time.Rd | 5 edeaR-0.4.3/edeaR/man/resource_frequency.Rd | 4 edeaR-0.4.3/edeaR/man/resource_involvement.Rd | 6 edeaR-0.4.3/edeaR/man/resources.Rd |only edeaR-0.4.3/edeaR/man/size_of_selfloops.Rd | 4 45 files changed, 303 insertions(+), 160 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-01-06 0.3.1
2015-03-31 0.2.11
Title: 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra
Library
Description: 'Armadillo' is a templated C++ linear algebra library (by Conrad
Sanderson) that aims towards a good balance between speed and ease of use. Integer,
floating point and complex numbers are supported, as well as a subset of
trigonometric and statistics functions. Various matrix decompositions are
provided through optional integration with LAPACK and ATLAS libraries.
The 'RcppArmadillo' package includes the header files from the templated
'Armadillo' library. Thus users do not need to install 'Armadillo' itself in
order to use 'RcppArmadillo'. 'Armadillo' is licensed under the MPL 2.0, while
'RcppArmadillo' (the 'Rcpp' bindings/bridge to Armadillo) is licensed under the
GNU GPL version 2 or later, as is the rest of 'Rcpp'.
Author: Dirk Eddelbuettel, Romain Francois and Doug Bates
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppArmadillo versions 0.7.200.2.0 dated 2016-07-24 and 0.7.400.2.0 dated 2016-08-25
ChangeLog | 37 ++++ DESCRIPTION | 8 MD5 | 125 +++++++------- inst/NEWS.Rd | 24 ++ inst/doc/RcppArmadillo-intro.pdf |binary inst/doc/RcppArmadillo-unitTests.pdf |binary inst/include/armadillo | 11 + inst/include/armadillo_bits/Base_bones.hpp | 4 inst/include/armadillo_bits/Base_meat.hpp | 10 - inst/include/armadillo_bits/Col_bones.hpp | 3 inst/include/armadillo_bits/Col_meat.hpp | 32 +++ inst/include/armadillo_bits/Cube_bones.hpp | 2 inst/include/armadillo_bits/Cube_meat.hpp | 26 +++ inst/include/armadillo_bits/Mat_bones.hpp | 2 inst/include/armadillo_bits/Mat_meat.hpp | 24 ++ inst/include/armadillo_bits/Row_bones.hpp | 3 inst/include/armadillo_bits/Row_meat.hpp | 32 +++ inst/include/armadillo_bits/SpMat_bones.hpp | 4 inst/include/armadillo_bits/SpMat_meat.hpp | 23 ++ inst/include/armadillo_bits/SpSubview_bones.hpp | 4 inst/include/armadillo_bits/SpSubview_meat.hpp | 70 ++++++++ inst/include/armadillo_bits/arma_version.hpp | 4 inst/include/armadillo_bits/arrayops_bones.hpp | 7 inst/include/armadillo_bits/arrayops_meat.hpp | 30 +++ inst/include/armadillo_bits/auxlib_meat.hpp | 4 inst/include/armadillo_bits/compiler_setup.hpp | 24 +- inst/include/armadillo_bits/diagview_bones.hpp | 4 inst/include/armadillo_bits/diagview_meat.hpp | 33 +++ inst/include/armadillo_bits/fn_det.hpp | 8 inst/include/armadillo_bits/fn_expmat.hpp | 38 ++++ inst/include/armadillo_bits/fn_index_max.hpp |only inst/include/armadillo_bits/fn_index_min.hpp |only inst/include/armadillo_bits/fn_inv.hpp | 48 ++++- inst/include/armadillo_bits/fn_logmat.hpp | 37 ++++ inst/include/armadillo_bits/fn_misc.hpp | 67 ------- inst/include/armadillo_bits/fn_orth_null.hpp |only inst/include/armadillo_bits/fn_pinv.hpp | 38 ++-- inst/include/armadillo_bits/fn_solve.hpp | 28 ++- inst/include/armadillo_bits/fn_sort.hpp | 39 +++- inst/include/armadillo_bits/fn_sort_index.hpp | 69 ++++++-- inst/include/armadillo_bits/fn_sqrtmat.hpp | 37 ++++ inst/include/armadillo_bits/op_expmat_bones.hpp | 13 + inst/include/armadillo_bits/op_expmat_meat.hpp | 66 +++++++ inst/include/armadillo_bits/op_index_max_bones.hpp |only inst/include/armadillo_bits/op_index_max_meat.hpp |only inst/include/armadillo_bits/op_index_min_bones.hpp |only inst/include/armadillo_bits/op_index_min_meat.hpp |only inst/include/armadillo_bits/op_inv_meat.hpp | 2 inst/include/armadillo_bits/op_logmat_bones.hpp | 13 + inst/include/armadillo_bits/op_logmat_meat.hpp | 69 ++++++++ inst/include/armadillo_bits/op_max_meat.hpp | 4 inst/include/armadillo_bits/op_min_meat.hpp | 4 inst/include/armadillo_bits/op_misc_bones.hpp | 20 -- inst/include/armadillo_bits/op_misc_meat.hpp | 110 ------------ inst/include/armadillo_bits/op_orth_null_bones.hpp |only inst/include/armadillo_bits/op_orth_null_meat.hpp |only inst/include/armadillo_bits/op_pinv_bones.hpp | 4 inst/include/armadillo_bits/op_pinv_meat.hpp | 36 +++- inst/include/armadillo_bits/op_sqrtmat_bones.hpp | 13 + inst/include/armadillo_bits/op_sqrtmat_meat.hpp | 69 ++++++++ inst/include/armadillo_bits/spop_max_meat.hpp | 4 inst/include/armadillo_bits/spop_min_meat.hpp | 4 inst/include/armadillo_bits/subview_bones.hpp | 13 + inst/include/armadillo_bits/subview_cube_bones.hpp | 2 inst/include/armadillo_bits/subview_cube_meat.hpp | 22 ++ inst/include/armadillo_bits/subview_elem1_bones.hpp | 4 inst/include/armadillo_bits/subview_elem1_meat.hpp | 54 ++++++ inst/include/armadillo_bits/subview_meat.hpp | 172 ++++++++++++++++++++ 68 files changed, 1299 insertions(+), 358 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-11-12 1.8.0
2014-03-06 1.6.5
2014-02-20 1.5.3
2014-01-29 1.4.2
2013-12-12 1.3.3
2013-11-26 1.2.6
2013-10-31 1.1.3
Title: 'rgl' in 'htmlwidgets' Framework
Description: The contents of this package have
been merged into rgl, so it is no longer needed.
Author: Duncan Murdoch
Maintainer: Duncan Murdoch <murdoch.duncan@gmail.com>
Diff between rglwidget versions 0.1.1434 dated 2015-12-28 and 0.2 dated 2016-08-25
rglwidget-0.1.1434/rglwidget/R/Sweave_knitr.R |only rglwidget-0.1.1434/rglwidget/R/convertScene.R |only rglwidget-0.1.1434/rglwidget/R/playwidget.R |only rglwidget-0.1.1434/rglwidget/R/rglcontroller.R |only rglwidget-0.1.1434/rglwidget/R/rglwidget.R |only rglwidget-0.1.1434/rglwidget/R/webGL.R |only rglwidget-0.1.1434/rglwidget/R/webGLcontrols.R |only rglwidget-0.1.1434/rglwidget/demo |only rglwidget-0.1.1434/rglwidget/inst |only rglwidget-0.1.1434/rglwidget/man |only rglwidget-0.1.1434/rglwidget/vignettes |only rglwidget-0.2/rglwidget/DESCRIPTION | 16 +++------ rglwidget-0.2/rglwidget/MD5 | 41 +------------------------ rglwidget-0.2/rglwidget/NAMESPACE | 30 ------------------ rglwidget-0.2/rglwidget/R/zzz.R |only 15 files changed, 10 insertions(+), 77 deletions(-)
Title: 3D Visualization Using OpenGL
Description: Provides medium to high level functions for 3D interactive graphics, including
functions modelled on base graphics (plot3d(), etc.) as well as functions for
constructing representations of geometric objects (cube3d(), etc.). Output
may be on screen using OpenGL, or to various standard 3D file formats including
WebGL, PLY, OBJ, STL as well as 2D image formats, including PNG, Postscript, SVG, PGF.
Author: Daniel Adler <dadler@uni-goettingen.de>, Duncan Murdoch <murdoch@stats.uwo.ca>, and others (see README)
Maintainer: Duncan Murdoch <murdoch@stats.uwo.ca>
Diff between rgl versions 0.95.1441 dated 2016-01-04 and 0.96.0 dated 2016-08-25
rgl-0.95.1441/rgl/inst/doc/CanvasMatrix.js |only rgl-0.96.0/rgl/DESCRIPTION | 27 rgl-0.96.0/rgl/MD5 | 165 +- rgl-0.96.0/rgl/NAMESPACE | 44 rgl-0.96.0/rgl/R/Sweave_knitr.R | 113 + rgl-0.96.0/rgl/R/animate.R | 22 rgl-0.96.0/rgl/R/arrow3d.R |only rgl-0.96.0/rgl/R/asy.R |only rgl-0.96.0/rgl/R/axes.R | 12 rgl-0.96.0/rgl/R/bgplot3d.R | 12 rgl-0.96.0/rgl/R/conversions.R |only rgl-0.96.0/rgl/R/convertScene.R |only rgl-0.96.0/rgl/R/cylinder3d.R | 54 rgl-0.96.0/rgl/R/device.R | 12 rgl-0.96.0/rgl/R/getscene.R | 2 rgl-0.96.0/rgl/R/grid3d.R | 4 rgl-0.96.0/rgl/R/hooks.R |only rgl-0.96.0/rgl/R/mesh3d.R | 78 rgl-0.96.0/rgl/R/pch3d.R |only rgl-0.96.0/rgl/R/persp3d.R | 12 rgl-0.96.0/rgl/R/playwidget.R |only rgl-0.96.0/rgl/R/plot3d.R | 20 rgl-0.96.0/rgl/R/ply.R | 4 rgl-0.96.0/rgl/R/r3d.rgl.R | 10 rgl-0.96.0/rgl/R/rglcontroller.R |only rgl-0.96.0/rgl/R/rglwidget.R |only rgl-0.96.0/rgl/R/scene.R | 70 rgl-0.96.0/rgl/R/shapelist3d.R | 7 rgl-0.96.0/rgl/R/subscenes.R | 10 rgl-0.96.0/rgl/R/webGL.R | 100 + rgl-0.96.0/rgl/R/webGLcontrols.R | 516 ++++++ rgl-0.96.0/rgl/R/zzz.R | 8 rgl-0.96.0/rgl/build/vignette.rds |binary rgl-0.96.0/rgl/demo/00Index | 3 rgl-0.96.0/rgl/demo/rglExamples.R |only rgl-0.96.0/rgl/demo/shinyDemo.R |only rgl-0.96.0/rgl/demo/simpleShinyRgl.R |only rgl-0.96.0/rgl/inst/NEWS | 289 ++- rgl-0.96.0/rgl/inst/doc/WebGL.R |only rgl-0.96.0/rgl/inst/doc/WebGL.Rmd | 40 rgl-0.96.0/rgl/inst/doc/WebGL.html | 1294 ++++++++++++---- rgl-0.96.0/rgl/inst/doc/rgl.R |only rgl-0.96.0/rgl/inst/doc/rgl.Rmd | 127 + rgl-0.96.0/rgl/inst/doc/rgl.html | 2322 ++++++++++++++++++++--------- rgl-0.96.0/rgl/inst/htmlwidgets |only rgl-0.96.0/rgl/inst/initNotes.txt |only rgl-0.96.0/rgl/inst/shinyDemo |only rgl-0.96.0/rgl/inst/shinySimple |only rgl-0.96.0/rgl/man/ageControl.Rd |only rgl-0.96.0/rgl/man/ageSetter.Rd | 3 rgl-0.96.0/rgl/man/arrow3d.Rd |only rgl-0.96.0/rgl/man/attributes.Rd | 9 rgl-0.96.0/rgl/man/callbacks.Rd | 1 rgl-0.96.0/rgl/man/check3d.Rd | 9 rgl-0.96.0/rgl/man/clipplaneControl.Rd |only rgl-0.96.0/rgl/man/cylinder3d.Rd | 25 rgl-0.96.0/rgl/man/elementId2Prefix.Rd |only rgl-0.96.0/rgl/man/import.Rd |only rgl-0.96.0/rgl/man/mesh3d.Rd | 8 rgl-0.96.0/rgl/man/par3dinterp.Rd | 11 rgl-0.96.0/rgl/man/pch3d.Rd |only rgl-0.96.0/rgl/man/persp3d.Rd | 3 rgl-0.96.0/rgl/man/persp3d.deldir.Rd |only rgl-0.96.0/rgl/man/play3d.Rd | 5 rgl-0.96.0/rgl/man/playwidget.Rd |only rgl-0.96.0/rgl/man/plot3d.Rd | 2 rgl-0.96.0/rgl/man/propertyControl.Rd |only rgl-0.96.0/rgl/man/propertySetter.Rd | 4 rgl-0.96.0/rgl/man/readSTL.Rd | 2 rgl-0.96.0/rgl/man/rgl.attrib.info.Rd |only rgl-0.96.0/rgl/man/rglIds.Rd |only rgl-0.96.0/rgl/man/rglToLattice.Rd |only rgl-0.96.0/rgl/man/rglwidget.Rd |only rgl-0.96.0/rgl/man/scene.Rd | 2 rgl-0.96.0/rgl/man/scene3d.Rd | 17 rgl-0.96.0/rgl/man/sceneChange.Rd |only rgl-0.96.0/rgl/man/select3d.Rd | 10 rgl-0.96.0/rgl/man/shiny.Rd |only rgl-0.96.0/rgl/man/spheres.Rd | 5 rgl-0.96.0/rgl/man/spin3d.Rd | 11 rgl-0.96.0/rgl/man/subdivision3d.Rd | 16 rgl-0.96.0/rgl/man/vertexControl.Rd |only rgl-0.96.0/rgl/man/webGLcontrols.Rd | 2 rgl-0.96.0/rgl/man/writeASY.Rd |only rgl-0.96.0/rgl/man/writeOBJ.Rd | 4 rgl-0.96.0/rgl/man/writePLY.Rd | 2 rgl-0.96.0/rgl/man/writeWebGL.Rd | 31 rgl-0.96.0/rgl/po |only rgl-0.96.0/rgl/src/Background.cpp | 30 rgl-0.96.0/rgl/src/Background.h | 5 rgl-0.96.0/rgl/src/SceneNode.h | 5 rgl-0.96.0/rgl/src/api.cpp | 17 rgl-0.96.0/rgl/src/ext/ftgl/FTInternals.h | 6 rgl-0.96.0/rgl/src/scene.cpp | 10 rgl-0.96.0/rgl/tests/demos.R | 3 rgl-0.96.0/rgl/vignettes/WebGL.Rmd | 40 rgl-0.96.0/rgl/vignettes/rgl.Rmd | 127 + rgl-0.96.0/rgl/vignettes/setup.R | 5 98 files changed, 4372 insertions(+), 1435 deletions(-)
Title: A Visual Tool for Behaviour Analysis
Description: A graphical tool designed to visualize and to give an overview of behavioural observations realized on individuals or groups. Visualization of raw data during experimental observations of the realization of a procedure. It graphically presents an overview of individuals and group actions usually acquired from timestamps during video recorded sessions. Options of the package allow adding graphical information as statistical indicators (mean, standard deviation, quantile or statistical test) but also for each action green or black zones providing visual information about the accuracy of the realized actions.
Author: Nastasia Fouret [aut, cre, cph],
Mederic Descoins [aut, cph],
CEPOI - EA 7388 [cph]
Maintainer: Nastasia Fouret <nastasia.fouret@chu-reunion.fr>
Diff between ViSiElse versions 1.0.1 dated 2016-03-07 and 1.2.0 dated 2016-08-25
ViSiElse-1.0.1/ViSiElse/R/buildViSiGrid.r |only ViSiElse-1.0.1/ViSiElse/R/intubation.R |only ViSiElse-1.0.1/ViSiElse/data |only ViSiElse-1.0.1/ViSiElse/inst/doc/example_intubation.R |only ViSiElse-1.0.1/ViSiElse/inst/doc/example_intubation.Rmd |only ViSiElse-1.0.1/ViSiElse/inst/doc/example_intubation.html |only ViSiElse-1.0.1/ViSiElse/inst/doc/introduction_ViSiElse.R |only ViSiElse-1.0.1/ViSiElse/inst/doc/introduction_ViSiElse.Rmd |only ViSiElse-1.0.1/ViSiElse/inst/doc/introduction_ViSiElse.html |only ViSiElse-1.0.1/ViSiElse/man/buildViSiGrid.Rd |only ViSiElse-1.0.1/ViSiElse/man/changeShoworder-ViSibook-methods.Rd |only ViSiElse-1.0.1/ViSiElse/man/intubation.Rd |only ViSiElse-1.0.1/ViSiElse/vignettes/example_intubation.Rmd |only ViSiElse-1.0.1/ViSiElse/vignettes/introduction_ViSiElse.Rmd |only ViSiElse-1.2.0/ViSiElse/DESCRIPTION | 8 ViSiElse-1.2.0/ViSiElse/MD5 | 70 ViSiElse-1.2.0/ViSiElse/NAMESPACE | 4 ViSiElse-1.2.0/ViSiElse/R/ConvertoViSibook.r | 4 ViSiElse-1.2.0/ViSiElse/R/MATgrid.r | 51 ViSiElse-1.2.0/ViSiElse/R/ViSibook.r | 199 +- ViSiElse-1.2.0/ViSiElse/R/ViSibookfromDATA.R |only ViSiElse-1.2.0/ViSiElse/R/ViSigrid.r | 4 ViSiElse-1.2.0/ViSiElse/R/initialize.ViSibook.r | 4 ViSiElse-1.2.0/ViSiElse/R/legend_action.R |only ViSiElse-1.2.0/ViSiElse/R/legendbottom.R |only ViSiElse-1.2.0/ViSiElse/R/legendgridtimes.R |only ViSiElse-1.2.0/ViSiElse/R/plot.ViSibook.R | 3 ViSiElse-1.2.0/ViSiElse/R/plot.ViSigrid.r | 755 ---------- ViSiElse-1.2.0/ViSiElse/R/plotInformersTests.R |only ViSiElse-1.2.0/ViSiElse/R/plot_long_informer.R |only ViSiElse-1.2.0/ViSiElse/R/plotblackzoneP.R |only ViSiElse-1.2.0/ViSiElse/R/plotgreenzoneP.R |only ViSiElse-1.2.0/ViSiElse/R/print.Visibook.r | 2 ViSiElse-1.2.0/ViSiElse/R/summary.ViSigrid.r | 2 ViSiElse-1.2.0/ViSiElse/R/visielse.r |only ViSiElse-1.2.0/ViSiElse/build/vignette.rds |binary ViSiElse-1.2.0/ViSiElse/inst/doc/ViSiElSe_Step_by_Step.R |only ViSiElse-1.2.0/ViSiElse/inst/doc/ViSiElSe_Step_by_Step.Rmd |only ViSiElse-1.2.0/ViSiElse/inst/doc/ViSiElSe_Step_by_Step.html |only ViSiElse-1.2.0/ViSiElse/man/ConvertoViSibook.Rd | 3 ViSiElse-1.2.0/ViSiElse/man/ViSiElse.Rd | 284 +++ ViSiElse-1.2.0/ViSiElse/man/ViSibook-class.Rd | 15 ViSiElse-1.2.0/ViSiElse/man/ViSibookfromDATA.Rd |only ViSiElse-1.2.0/ViSiElse/man/ViSigrid-class.Rd | 4 ViSiElse-1.2.0/ViSiElse/man/dim-ViSibook-methods.Rd | 2 ViSiElse-1.2.0/ViSiElse/man/plot-ViSibook-methods.Rd | 3 ViSiElse-1.2.0/ViSiElse/man/plot-ViSigrid-methods.Rd | 25 ViSiElse-1.2.0/ViSiElse/man/print-ViSibook-methods.Rd | 2 ViSiElse-1.2.0/ViSiElse/man/summary-ViSigrid-methods.Rd | 2 ViSiElse-1.2.0/ViSiElse/vignettes/ViSiElSe_Step_by_Step.Rmd |only 50 files changed, 465 insertions(+), 981 deletions(-)
Title: Blind Source Separation Methods for Tensor-Valued Observations
Description: Contains several utility functions for manipulating tensor-valued data (centering, multiplication from a single mode etc.) and the implementations of the following blind source separation methods for tensor-valued data: 'tPCA', 'tFOBI', 'tJADE', 'tgFOBI', 'tgJADE' and 'tSOBI'.
Author: Joni Virta, Bing Li, Klaus Nordhausen, Hannu Oja
Maintainer: Joni Virta <jomivi@utu.fi>
Diff between tensorBSS versions 0.1 dated 2016-04-18 and 0.2 dated 2016-08-25
DESCRIPTION | 10 +++++----- MD5 | 8 +++++--- NAMESPACE | 2 +- R/tPCA.R |only man/tPCA.Rd |only man/tensorBSS-package.Rd | 6 +++--- 6 files changed, 14 insertions(+), 12 deletions(-)
Title: Normal (1-d) Mixture Models (S3 Classes and Methods)
Description: Onedimensional Normal Mixture Models Classes, for, e.g.,
density estimation or clustering algorithms research and teaching;
providing the widely used Marron-Wand densities. Now fitting to data
by ML (Maximum Likelihood) or EM estimation.
Author: Martin Mächler
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between nor1mix versions 1.2-1 dated 2015-07-27 and 1.2-2 dated 2016-08-25
ChangeLog | 6 ++++++ DESCRIPTION | 12 ++++++------ MD5 | 16 ++++++++-------- R/norMix.R | 10 ++++++---- R/norMixEM.R | 6 +++--- README | 2 +- TODO | 2 ++ man/plot.norMix.Rd | 7 ++++++- man/pnorMix.Rd | 3 +-- 9 files changed, 39 insertions(+), 25 deletions(-)
Title: Clinical Trial Simulations
Description: Provides a general framework for clinical trial simulations based
on the Clinical Scenario Evaluation (CSE) approach. The package supports a
broad class of data models (including clinical trials with continuous, binary,
survival-type and count-type endpoints as well as multivariate outcomes that are
based on combinations of different endpoints), analysis strategies and commonly
used evaluation criteria.
Author: Gautier Paux, Alex Dmitrienko.
Maintainer: Gautier Paux <gautier@paux.fr>
Diff between Mediana versions 1.0.2 dated 2015-11-16 and 1.0.3 dated 2016-08-25
DESCRIPTION | 8 +-- MD5 | 95 +++++++++++++++++++++++++-------------------- NAMESPACE | 5 ++ R/BetaDist.R |only R/CSE.default.R | 12 ++--- R/CreateDataStack.R | 11 +++-- R/CreateDataStructure.R | 22 +++++++--- R/CreateReportStructure.R | 72 ++++++++++++++++++++++++++-------- R/CreateTableCriterion.R |only R/CreateTableDesign.R | 7 ++- R/DataStack.R |only R/DataStack.default.R |only R/ExtractDataStack.R |only R/FisherTest.R | 2 R/GenerateData.R |only R/GenerateData.default.R |only R/GeneratePatients.R | 21 ++++++--- R/GenerateReport.default.R | 12 ++--- R/LogrankTest.R | 6 ++ R/MixtureGatekeepingAdj.R |only R/NormalParamAdj.R | 18 +++++--- R/PerformAnalysis.R | 14 +++--- R/PropTestNI.R |only R/TTestNI.R | 4 - R/TruncatedExpoDist.R |only R/summary.CSE.R | 4 - README.md | 15 ++++++- man/AnalysisModel.Rd | 2 man/CSE.Rd | 27 +++++++++++- man/Criterion.Rd | 2 man/CustomLabel.Rd | 2 man/DataModel.Rd | 2 man/DataStack.Rd |only man/Design.Rd | 13 +++++- man/EvaluationModel.Rd | 2 man/Event.Rd | 2 man/ExtractDataStack.Rd |only man/GenerateData.Rd |only man/GenerateReport.Rd | 2 man/Mediana-package.Rd | 4 - man/MultAdj.Rd | 2 man/MultAdjProc.Rd | 3 - man/MultAjdStrategy.Rd | 2 man/OutcomeDist.Rd | 4 + man/PresentationModel.Rd | 2 man/Project.Rd | 2 man/Sample.Rd | 2 man/SampleSize.Rd | 2 man/Section.Rd | 2 man/SimParameters.Rd | 2 man/Statistic.Rd | 2 man/Subsection.Rd | 2 man/Table.Rd | 2 man/Test.Rd | 5 +- man/families.Rd | 2 55 files changed, 279 insertions(+), 143 deletions(-)
Title: Joint Modeling of Longitudinal and Time-to-Event Data under a
Bayesian Approach
Description: Shared parameter models for the joint modeling of longitudinal and time-to-event data using MCMC.
Author: Dimitris Rizopoulos <d.rizopoulos@erasmusmc.nl>
Maintainer: Dimitris Rizopoulos <d.rizopoulos@erasmusmc.nl>
Diff between JMbayes versions 0.7-9 dated 2016-03-25 and 0.8-0 dated 2016-08-25
DESCRIPTION | 8 +-- MD5 | 47 ++++++++++---------- NAMESPACE | 8 ++- R/aucJM.JMbayes.R | 4 - R/aucJM.coxph.R | 17 ++++++- R/dynInfo.R | 5 +- R/dynPred_lme.R |only R/marglogLik.R | 4 - R/prederrJM.JMbayes.R | 115 +++++++++++++++++++++++++------------------------ R/prederrJM.coxph.R | 73 ++++++++++++++++--------------- R/predict.JMbayes.R | 2 R/rocJM.JMbayes.R | 7 +- R/runDynPred.R | 2 demo/server.R | 5 -- inst/CITATION |only inst/NEWS | 6 ++ man/IndvPred.Rd |only man/JMbayes.Rd | 8 ++- man/aucJM.Rd | 8 +-- man/bma.combine.Rd | 4 + man/dynCJM.Rd | 8 +-- man/jointModelBayes.Rd | 4 + man/plot-survfitJM.Rd | 4 + man/prederrJM.Rd | 16 +++--- man/predict.Rd | 4 + man/survfitJM.Rd | 4 + 26 files changed, 210 insertions(+), 153 deletions(-)
Title: Hidden State Speciation and Extinction
Description: Sets up and executes a HiSSE model (Hidden State Speciation and Extinction) on a phylogeny and character sets to test for hidden shifts in trait dependent rates of diversification.
Author: Jeremy M. Beaulieu <jbeaulieu@nimbios.org>, Brian O'Meara <bomeara@utk.edu>
Maintainer: Jeremy Beaulieu <jbeaulieu@nimbios.org>
Diff between hisse versions 1.7 dated 2016-06-14 and 1.8 dated 2016-08-25
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/hisseNull4.R | 2 +- build/vignette.rds |binary inst/doc/hisse-vignette.html | 19 ++++++++++--------- 5 files changed, 19 insertions(+), 18 deletions(-)
Title: General Purpose Interface to 'Elasticsearch'
Description: Connect to 'Elasticsearch', a 'NoSQL' database built on the 'Java'
Virtual Machine. Interacts with the 'Elasticsearch' 'HTTP' 'API'
(<https://www.elastic.co/products/elasticsearch>), including functions for
setting connection details to 'Elasticsearch' instances, loading bulk data,
searching for documents with both 'HTTP' query variables and 'JSON' based body
requests. In addition, 'elastic' provides functions for interacting with 'APIs'
for 'indices', documents, nodes, clusters, an interface to the cat 'API', and
more.
Author: Scott Chamberlain [aut, cre]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between elastic versions 0.7.4 dated 2016-08-17 and 0.7.6 dated 2016-08-25
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- NEWS.md | 10 ++++++++++ R/connect.R | 11 ++++++++--- R/mapping.R | 4 ++++ R/ping.r | 1 + man/connect.Rd | 9 +++++++-- man/ping.Rd | 3 +++ tests/testthat/test-mappings.R | 4 ++-- tests/testthat/test-mtermvectors.R | 8 +++++--- tests/testthat/test-search_template.R | 22 ++++++++++++++++++---- tests/testthat/test-termvectors.R | 5 ++++- 12 files changed, 76 insertions(+), 29 deletions(-)
Title: Hierarchical Bayesian ANOVA Models
Description: It covers several Bayesian Analysis of Variance (BANOVA) models used in analysis of experimental designs in which both within- and between- subjects factors are manipulated. They can be applied to data that are common in the behavioral sciences and related fields. The package includes: Hierarchical Bayes ANOVA models with normal response, t response, Binomial(Bernoulli) response, Poisson response, ordered multinomial response and multinomial response variables. All models accommodate unobserved heterogeneity by including a normal distribution of the parameters across individuals. Outputs of the package include tables of sums of squares, effect sizes and p-values, and tables of means, which are easily interpretable for behavioral researchers. BANOVA uses JAGS as the computational platform.
Author: Chen Dong, Michel Wedel
Maintainer: Chen Dong <cdong@math.umd.edu>
Diff between BANOVA versions 0.6 dated 2016-08-01 and 0.7 dated 2016-08-25
DESCRIPTION | 11 - MD5 | 75 ++++---- NEWS |only R/BANOVA.BernNormal.R | 5 R/BANOVA.BinNormal.R | 5 R/BANOVA.MultiNormal.R | 10 + R/BANOVA.NormalNormal.R | 9 - R/BANOVA.PNormal.R | 22 ++ R/BANOVA.TNormal.R | 5 R/BANOVA.ordMultiNormal.R | 5 R/JAGSgen.PNormal.R | 26 +- R/conv.geweke.heidel.R | 14 + R/multi.print.table.means.R | 172 +++++++++++-------- R/pValues.R | 26 +- R/predict.BANOVA.Poisson.R | 12 - R/predict.means.R | 284 +++++++++++++++++--------------- R/print.conv.diag.R | 10 - R/print.summary.BANOVA.Bern.R | 3 R/print.summary.BANOVA.Bin.R | 3 R/print.summary.BANOVA.Multinomial.R | 3 R/print.summary.BANOVA.Normal.R | 3 R/print.summary.BANOVA.Poisson.R | 3 R/print.summary.BANOVA.T.R | 3 R/print.summary.BANOVA.ordMultinomial.R | 3 R/print.table.means.R | 275 +++++++++++++++++------------- R/printCoefmat.R | 12 - R/ssquares.R | 4 R/summary.BANOVA.Bern.R | 2 R/summary.BANOVA.Bin.R | 2 R/summary.BANOVA.Multinomial.R | 2 R/summary.BANOVA.Normal.R | 2 R/summary.BANOVA.Poisson.R | 2 R/summary.BANOVA.T.R | 2 R/summary.BANOVA.ordMultinomial.R | 2 R/table.ANCOVA.R | 6 R/table.coefficients.R | 115 ++++++------ R/table.means.R | 14 - R/table.pvalue.R | 45 ++--- man/BANOVA-package.Rd | 4 39 files changed, 687 insertions(+), 514 deletions(-)