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. Beaulieu and O'Meara (2016) <doi:10.1093/sysbio/syw022>.
Author: Jeremy Beaulieu [aut, cre],
Brian O'Meara [aut],
Daniel Caetano [aut]
Maintainer: Jeremy Beaulieu <jbeaulieu@nimbios.org>
Diff between hisse versions 1.8.6 dated 2018-09-25 and 1.8.7 dated 2018-10-18
DESCRIPTION | 10 MD5 | 106 +- NAMESPACE | 24 R/FindGenerations.R |only R/GenerateValues.R |only R/fgeohisse.R |only R/geohisse.R | 22 R/getModelAveEqFreqs.R | 72 + R/getModelAveTipRates.R | 17 R/hisse.R | 18 R/hisseLikelihood.R |only R/hisseNull4.R | 2 R/marginRecon.R | 1051 ++++++++++++++++++++------- R/muhisse.R |only R/plotContMapHiSSE.R |only R/plotHisse.R | 1180 +++++++++++++++++++++---------- R/supportRegion.R | 67 - R/supportRegionGeoSSE.R | 4 R/supportRegionMuHiSSE.R |only R/transMat.R | 6 R/transMatMuHiSSE.R |only R/transMatfGeoHiSSE.R |only build/vignette.rds |binary inst/doc/GeoHiSSE-vignette.R | 10 inst/doc/GeoHiSSE-vignette.Rmd | 52 + inst/doc/GeoHiSSE-vignette.pdf |binary inst/doc/MuHiSSE-vignette.R |only inst/doc/MuHiSSE-vignette.Rmd |only inst/doc/MuHiSSE-vignette.pdf |only inst/doc/hisse-fisse-type1-vignette.Rmd | 1 inst/doc/hisse-fisse-type1-vignette.pdf |binary inst/doc/hisse-vignette.R | 6 inst/doc/hisse-vignette.Rmd | 15 inst/doc/hisse-vignette.pdf |binary man/GeoHiSSE.Rd | 32 man/MuHiSSE.Rd |only man/fGeoHiSSE.Rd |only man/hisse.Rd | 2 man/makeHiSSELikelihood.Rd |only man/marginReconGeoSSE.Rd | 2 man/marginReconMuHiSSE.Rd |only man/marginReconfGeoSSE.Rd |only man/modelAveEqFreqs.Rd | 8 man/modelAveRates.Rd | 4 man/plotGeoHiSSE.Rd | 78 +- man/plotHisse.Rd | 55 - man/plotMuHiSSE.Rd |only man/supportRegionMuHiSSE.Rd |only man/transMatMakerGeoHiSSE.Rd | 1 man/transMatMakerMuHiSSE.Rd |only src/canonical-musse-ext-derivs.c |only src/fcanonical_geosse-ext-derivs.c |only src/fgeohisse-ext-derivs.c |only src/fnotclasse-ext-derivs.c |only src/fnotclasse-more-ext-derivs.c |only src/geohisse-ext-derivs.c | 2 src/muhisse-ext-derivs.c |only src/notclasse-ext-derivs.c | 1 src/notclasse-more-ext-derivs.c | 4 src/registerDynamicSymbol.c | 30 tests/testthat/test_likelihood.R | 106 ++ vignettes/GeoHiSSE-vignette.Rmd | 52 + vignettes/GeoHiSSE-vignette.html | 66 + vignettes/MuHiSSE-vignette.Rmd |only vignettes/MuHiSSE-vignette.html |only vignettes/hisse-fisse-type1-vignette.Rmd | 1 vignettes/hisse-vignette.Rmd | 15 vignettes/hisse-vignette.html | 12 68 files changed, 2205 insertions(+), 929 deletions(-)
Title: Bayesian Nonparametric Spectral Density Estimation Using
B-Spline Priors
Description: Implementation of a Metropolis-within-Gibbs MCMC algorithm to flexibly estimate the spectral density of a stationary time series. The algorithm updates a nonparametric B-spline prior using the Whittle likelihood to produce pseudo-posterior samples and is based on the work presented in Edwards, M.C., Meyer, R. and Christensen, N., Statistics and Computing (2018). <doi.org/10.1007/s11222-017-9796-9>.
Author: Matthew C. Edwards [aut, cre],
Renate Meyer [aut],
Nelson Christensen [aut]
Maintainer: Matthew C. Edwards <matt.edwards@auckland.ac.nz>
Diff between bsplinePsd versions 0.5.0 dated 2018-04-06 and 0.6.0 dated 2018-10-18
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 6 ++++++ R/RcppExports.R | 4 ++++ R/gibbs_bspline.R | 30 ++++++++++++++++++------------ src/RcppExports.cpp | 13 +++++++++++++ src/internal_beyondWhittle.cpp | 17 +++++++++++++++++ 7 files changed, 68 insertions(+), 22 deletions(-)
Title: Make Fake Data
Description: Make fake data, supporting addresses, person names, dates,
times, colors, coordinates, currencies, digital object identifiers
('DOIs'), jobs, phone numbers, 'DNA' sequences, doubles and integers
from distributions and within a range.
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>),
Kyle Voytovich [aut],
Martin Pedersen [ctb],
Brooke Anderson [rev] (Brooke Anderson reviewed the package for
rOpenSci, see https://github.com/ropensci/onboarding/issues/94),
Tristan Mahr [rev] (Tristan Mahr reviewed the package for rOpenSci, see
https://github.com/ropensci/onboarding/issues/94)
Maintainer: Scott Chamberlain <myrmecocystus+r@gmail.com>
Diff between charlatan versions 0.2.2 dated 2018-07-06 and 0.3.0 dated 2018-10-18
charlatan-0.2.2/charlatan/R/person-provider-dk_DK.R |only charlatan-0.3.0/charlatan/DESCRIPTION | 43 charlatan-0.3.0/charlatan/MD5 | 107 charlatan-0.3.0/charlatan/NEWS.md | 18 charlatan-0.3.0/charlatan/R/address-provider.R | 8 charlatan-0.3.0/charlatan/R/available_locales.R | 25 charlatan-0.3.0/charlatan/R/color-provider.R | 8 charlatan-0.3.0/charlatan/R/color.R | 2 charlatan-0.3.0/charlatan/R/company-provider.R | 16 charlatan-0.3.0/charlatan/R/file-provider.R | 16 charlatan-0.3.0/charlatan/R/internet-provider.R | 16 charlatan-0.3.0/charlatan/R/job.R | 5 charlatan-0.3.0/charlatan/R/jobs-provider-da_DK.R |only charlatan-0.3.0/charlatan/R/jobs-provider-fr_FR.R | 50 charlatan-0.3.0/charlatan/R/jobs-provider.R | 14 charlatan-0.3.0/charlatan/R/lorem-provider.R | 14 charlatan-0.3.0/charlatan/R/name.R | 4 charlatan-0.3.0/charlatan/R/person-provider-bg_BG.R | 1 charlatan-0.3.0/charlatan/R/person-provider-da_DK.R |only charlatan-0.3.0/charlatan/R/person-provider-de_DE.R | 4 charlatan-0.3.0/charlatan/R/person-provider-es_ES.R | 40 charlatan-0.3.0/charlatan/R/person-provider-es_MX.R | 4 charlatan-0.3.0/charlatan/R/person-provider-fa_IR.R | 11 charlatan-0.3.0/charlatan/R/person-provider-fr_FR.R | 487 charlatan-0.3.0/charlatan/R/person-provider-ko_KR.R | 2 charlatan-0.3.0/charlatan/R/person-provider-lv_LV.R | 124 charlatan-0.3.0/charlatan/R/person-provider-ne_NP.R | 2 charlatan-0.3.0/charlatan/R/person-provider-nl_NL.R | 4 charlatan-0.3.0/charlatan/R/person-provider-no_NO.R | 12 charlatan-0.3.0/charlatan/R/person-provider-pl_PL.R | 7776 +++++----- charlatan-0.3.0/charlatan/R/person-provider.R | 27 charlatan-0.3.0/charlatan/R/phone-number-provider-all.R | 25 charlatan-0.3.0/charlatan/R/phone_number.R | 4 charlatan-0.3.0/charlatan/R/phonenumbers-provider.R | 22 charlatan-0.3.0/charlatan/R/useragent-provider.R | 14 charlatan-0.3.0/charlatan/README.md | 141 charlatan-0.3.0/charlatan/data/available_locales_df.rda |binary charlatan-0.3.0/charlatan/inst/doc/charlatan_vignette.html | 194 charlatan-0.3.0/charlatan/man/AddressProvider.Rd | 4 charlatan-0.3.0/charlatan/man/ColorProvider.Rd | 4 charlatan-0.3.0/charlatan/man/CompanyProvider.Rd | 4 charlatan-0.3.0/charlatan/man/FileProvider.Rd | 6 charlatan-0.3.0/charlatan/man/InternetProvider.Rd | 4 charlatan-0.3.0/charlatan/man/JobProvider.Rd | 6 charlatan-0.3.0/charlatan/man/LoremProvider.Rd | 4 charlatan-0.3.0/charlatan/man/PersonProvider.Rd | 6 charlatan-0.3.0/charlatan/man/PhoneNumberProvider.Rd | 4 charlatan-0.3.0/charlatan/man/UserAgentProvider.Rd | 4 charlatan-0.3.0/charlatan/man/available_locales_df.Rd | 10 charlatan-0.3.0/charlatan/man/ch_color.Rd | 2 charlatan-0.3.0/charlatan/man/ch_job.Rd | 5 charlatan-0.3.0/charlatan/man/ch_name.Rd | 4 charlatan-0.3.0/charlatan/man/ch_phone_number.Rd | 4 charlatan-0.3.0/charlatan/tests/testthat/test-charlatan_locales.R | 17 charlatan-0.3.0/charlatan/tests/testthat/test-fraudster.R | 4 charlatan-0.3.0/charlatan/tests/testthat/test-person.R | 41 56 files changed, 4955 insertions(+), 4418 deletions(-)
Title: Evaluation of Surrogate Endpoints in Clinical Trials
Description: In a clinical trial, it frequently occurs that the most credible outcome to evaluate the effectiveness of a new therapy (the true endpoint) is difficult to measure. In such a situation, it can be an effective strategy to replace the true endpoint by a (bio)marker that is easier to measure and that allows for a prediction of the treatment effect on the true endpoint (a surrogate endpoint). The package 'Surrogate' allows for an evaluation of the appropriateness of a candidate surrogate endpoint based on the meta-analytic, information-theoretic, and causal-inference frameworks. Part of this software has been developed using funding provided from the European Union's Seventh Framework Programme for research, technological development and demonstration under Grant Agreement no 602552.
Author: Wim Van der Elst, Paul Meyvisch, Alvaro Florez Poveda, Ariel Alonso, Hannah M. Ensor, Christopher J. Weir & Geert Molenberghs
Maintainer: Wim Van der Elst <Wim.vanderelst@gmail.com>
Diff between Surrogate versions 1.0 dated 2018-10-10 and 1.1 dated 2018-10-18
DESCRIPTION | 6 +++--- MD5 | 10 ++++++---- NEWS | 4 ++-- R/PROC.BinBin.R |only R/plot.PPE.BinBin.R | 15 +-------------- man/PROC.BinBin.Rd |only man/plot.PPE.BinBin.Rd | 10 +++------- 7 files changed, 15 insertions(+), 30 deletions(-)
Title: General Purpose Optimization in R using C++
Description: Perform general purpose optimization in R using C++. A unified
wrapper interface is provided to call C functions of the five optimization
algorithms ('Nelder-Mead', 'BFGS', 'CG', 'L-BFGS-B' and 'SANN') underlying
optim().
Author: Yi Pan [aut, cre]
Maintainer: Yi Pan <ypan1988@gmail.com>
Diff between roptim versions 0.1.0 dated 2018-09-30 and 0.1.1 dated 2018-10-18
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- R/RcppExports.R | 4 ++-- R/zzz.R | 2 +- inst/include/roptim.h | 4 ++-- inst/include/samin.h | 2 +- man/example2_tsp_sann.Rd | 4 ++-- man/roptim.Rd | 2 +- src/roptim.h | 4 ++-- src/roptim_examples.cpp | 11 ++++++----- src/samin.h | 2 +- 11 files changed, 32 insertions(+), 31 deletions(-)
Title: Test Coverage for Packages
Description: Track and report code coverage for your package and (optionally)
upload the results to a coverage service like 'Codecov' <http://codecov.io> or
'Coveralls' <http://coveralls.io>. Code coverage is a measure of the amount of
code being exercised by a set of tests. It is an indirect measure of test
quality and completeness. This package is compatible with any testing
methodology or framework and tracks coverage of both R code and compiled
C/C++/FORTRAN code.
Author: Jim Hester [aut, cre],
Willem Ligtenberg [ctb],
Kirill Müller [ctb],
Henrik Bengtsson [ctb],
Steve Peak [ctb],
Kirill Sevastyanenko [ctb],
Jon Clayden [ctb],
Robert Flight [ctb],
Eric Brown [ctb],
Brodie Gaslam [ctb],
Will Beasley [ctb],
Robert Krzyzanowski [ctb],
Markus Wamser [ctb],
Karl Forner [ctb],
Gergely Daróczi [ctb],
Jouni Helske [ctb],
Kun Ren [ctb],
Jeroen Ooms [ctb],
Ken Williams [ctb],
Chris Campbell [ctb],
David Hugh-Jones [ctb],
Qin Wang [ctb],
Ivan Sagalaev [ctb, cph] (highlight.js library),
Mark Otto [ctb] (Bootstrap library),
Jacob Thornton [ctb] (Bootstrap library),
Bootstrap contributors [ctb] (Bootstrap library),
Twitter, Inc [cph] (Bootstrap library)
Maintainer: Jim Hester <james.f.hester@gmail.com>
Diff between covr versions 3.2.0 dated 2018-09-21 and 3.2.1 dated 2018-10-18
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 4 ++++ R/parallel.R | 2 ++ R/utils.R | 4 ++++ README.md | 2 +- inst/doc/how_it_works.html | 4 ++-- 7 files changed, 22 insertions(+), 12 deletions(-)
Title: Natural Language Processing Utilities
Description: Utilities for Natural Language Processing.
Author: Kurt Hornik [aut, cre] (<https://orcid.org/0000-0003-4198-9911>)
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between NLPutils versions 0.0-4 dated 2016-12-08 and 0.0-5 dated 2018-10-18
DESCRIPTION | 13 +++++++------ MD5 | 10 +++++----- man/diversity.Rd | 2 +- man/formality.Rd | 2 +- man/polarity.Rd | 2 +- man/stem.Rd | 2 +- 6 files changed, 16 insertions(+), 15 deletions(-)
Title: Natural Language Processing Infrastructure
Description: Basic classes and methods for Natural Language Processing.
Author: Kurt Hornik [aut, cre] (<https://orcid.org/0000-0003-4198-9911>)
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between NLP versions 0.1-11 dated 2017-08-15 and 0.2-0 dated 2018-10-18
DESCRIPTION | 12 ++-- MD5 | 60 +++++++++++++----------- NAMESPACE | 26 +++++++++- R/annotation.R | 88 ++++++++++++++++++++++++++--------- R/annotators.R | 29 ++++++----- R/aptd.R | 93 +++++++++++++++++--------------------- R/cleannlp.R |only R/language.R | 10 ++-- R/spacyr.R |only R/string.R | 44 +++++++++++++---- R/sysdata.rda |binary R/tokenize.R | 4 - R/ttd.R | 15 ++---- R/udpipe.R |only inst/texts/stanford.rds |binary man/AnnotatedPlainTextDocument.Rd | 39 +++++++-------- man/Annotation.Rd | 2 man/CoNLLTextDocument.Rd | 11 ++-- man/CoNLLUTextDocument.Rd | 2 man/TaggedTextDocument.Rd | 4 - man/TextDocument.Rd | 1 man/Tokenizer.Rd | 4 - man/Tree.Rd | 2 man/WordListDocument.Rd | 10 ++-- man/annotate.Rd | 6 +- man/annotations_in_spans.Rd | 2 man/datetime.Rd | 4 - man/features.Rd |only man/language.Rd | 12 ++-- man/ngrams.Rd | 2 man/tagsets.Rd | 21 ++------ man/tokenizers.Rd | 2 man/viewers.Rd | 26 +++++++--- 33 files changed, 311 insertions(+), 220 deletions(-)
Title: Quantified Risk Assessment Toolkit
Description: An open source risk analysis toolkit based on the OpenFAIR taxonomy
<https://www2.opengroup.org/ogsys/catalog/C13K> and risk assessment standard
<https://www2.opengroup.org/ogsys/catalog/C13G>. Empowers an organization to
perform a quantifiable, repeatable, and data-driven risk review.
Author: David Severski [aut, cre] (<https://orcid.org/0000-0001-7867-0459>)
Maintainer: David Severski <davidski@deadheaven.com>
Diff between evaluator versions 0.3.0 dated 2018-07-02 and 0.3.1 dated 2018-10-18
DESCRIPTION | 10 - MD5 | 61 +++++----- NAMESPACE | 1 NEWS.md | 16 ++ R/evaluator.R | 5 R/load_data.R | 39 ++++++ R/summarize.R | 2 build/vignette.rds |binary inst/doc/process.html | 10 - inst/doc/usage.html | 10 - inst/openfair_example/tests/openfair_example-expected/001.json | 6 inst/rmd/analyze_risk.Rmd | 34 +++-- inst/rmd/risk_dashboard.Rmd | 32 +++-- man/compare_tef_vuln.Rd | 1 man/evaluator.Rd | 5 man/generate_report.Rd | 4 man/get_mean_control_strength.Rd | 1 man/import_capabilities.Rd | 4 man/import_scenarios.Rd | 4 man/import_spreadsheet.Rd | 5 man/openfair_tef_tc_diff_lm.Rd | 1 man/read_quantitative_inputs.Rd |only man/run_simulations.Rd | 3 man/sample_diff.Rd | 1 man/sample_lef.Rd | 1 man/sample_lm.Rd | 1 man/sample_tc.Rd | 1 man/sample_tef.Rd | 1 man/sample_vuln.Rd | 1 man/select_loss_opportunities.Rd | 1 tests/testthat/test-openfair-example.R | 5 tests/testthat/test-reports.R | 4 32 files changed, 175 insertions(+), 95 deletions(-)
Title: Automated Cleaning of Occurrence Records from Biological
Collections
Description: Automated flagging of common spatial and temporal errors in biological and paleontological collection data, for the use in conservation, ecology and paleontology. Includes automated tests to easily flag (and exclude) records assigned to country or province centroid, the open ocean, the headquarters of the Global Biodiversity Information Facility, urban areas or the location of biodiversity institutions (museums, zoos, botanical gardens, universities). Furthermore identifies per species outlier coordinates, zero coordinates, identical latitude/longitude and invalid coordinates. Also implements an algorithm to identify data sets with a significant proportion of rounded coordinates. Especially suited for large data sets.
Author: Alexander Zizka [aut, cre],
Daniele Silvestro [ctb],
Tobias Andermann [ctb],
Josue Azevedo [ctb],
Camila Duarte Ritter [ctb],
Daniel Edler [ctb],
Harith Farooq [ctb],
Andrei Herdean [ctb],
Maria Ariza [ctb],
Ruud Scharn [ctb],
Sten Svanteson [ctb],
Niklas Wengstrom [ctb],
Vera Zizka [ctb],
Alexandre Antonelli [ctb],
Irene Steves [rev] (Irene reviewed the package for ropensci, see
<https://github.com/ropensci/onboarding/issues/210>),
Francisco Rodriguez-Sanchez [rev] (Francisco reviewed the package for
ropensci, see <https://github.com/ropensci/onboarding/issues/210>)
Maintainer: Alexander Zizka <zizka.alexander@gmail.com>
Diff between CoordinateCleaner versions 1.0-7 dated 2018-03-23 and 2.0-2 dated 2018-10-18
CoordinateCleaner-1.0-7/CoordinateCleaner/R/WritePyRate.R |only CoordinateCleaner-1.0-7/CoordinateCleaner/R/dc_ddmm.R |only CoordinateCleaner-1.0-7/CoordinateCleaner/R/dc_round.R |only CoordinateCleaner-1.0-7/CoordinateCleaner/R/internal_CleanCoordinatesDS.R |only CoordinateCleaner-1.0-7/CoordinateCleaner/R/internal_WritePyRate.R |only CoordinateCleaner-1.0-7/CoordinateCleaner/R/tc_equal.R |only CoordinateCleaner-1.0-7/CoordinateCleaner/R/tc_outl.R |only CoordinateCleaner-1.0-7/CoordinateCleaner/R/tc_range.R |only CoordinateCleaner-1.0-7/CoordinateCleaner/build/partial.rdb |only CoordinateCleaner-1.0-7/CoordinateCleaner/data/capitals.rda |only CoordinateCleaner-1.0-7/CoordinateCleaner/data/centroids.rda |only CoordinateCleaner-1.0-7/CoordinateCleaner/data/datalist |only CoordinateCleaner-1.0-7/CoordinateCleaner/data/landmass.rda |only CoordinateCleaner-1.0-7/CoordinateCleaner/man/CleanCoordinates.Rd |only CoordinateCleaner-1.0-7/CoordinateCleaner/man/CleanCoordinatesDS.Rd |only CoordinateCleaner-1.0-7/CoordinateCleaner/man/CleanCoordinatesFOS.Rd |only CoordinateCleaner-1.0-7/CoordinateCleaner/man/WritePyRate.Rd |only CoordinateCleaner-1.0-7/CoordinateCleaner/man/capitals.Rd |only CoordinateCleaner-1.0-7/CoordinateCleaner/man/centroids.Rd |only CoordinateCleaner-1.0-7/CoordinateCleaner/man/dc_ddmm.Rd |only CoordinateCleaner-1.0-7/CoordinateCleaner/man/dc_round.Rd |only CoordinateCleaner-1.0-7/CoordinateCleaner/man/landmass.Rd |only CoordinateCleaner-1.0-7/CoordinateCleaner/man/tc_equal.Rd |only CoordinateCleaner-1.0-7/CoordinateCleaner/man/tc_outl.Rd |only CoordinateCleaner-1.0-7/CoordinateCleaner/man/tc_range.Rd |only CoordinateCleaner-2.0-2/CoordinateCleaner/DESCRIPTION | 63 + CoordinateCleaner-2.0-2/CoordinateCleaner/MD5 | 147 ++-- CoordinateCleaner-2.0-2/CoordinateCleaner/NAMESPACE | 105 ++ CoordinateCleaner-2.0-2/CoordinateCleaner/NEWS.md |only CoordinateCleaner-2.0-2/CoordinateCleaner/R/CleanCoordinates.R | 304 ++------ CoordinateCleaner-2.0-2/CoordinateCleaner/R/CleanCoordinatesDS.R | 145 ---- CoordinateCleaner-2.0-2/CoordinateCleaner/R/CleanCoordinatesFOS.R | 280 +------ CoordinateCleaner-2.0-2/CoordinateCleaner/R/CoordinateCleaner-package.R |only CoordinateCleaner-2.0-2/CoordinateCleaner/R/cc_cap.R | 196 ++++- CoordinateCleaner-2.0-2/CoordinateCleaner/R/cc_cen.R | 206 ++++- CoordinateCleaner-2.0-2/CoordinateCleaner/R/cc_coun.R | 129 ++- CoordinateCleaner-2.0-2/CoordinateCleaner/R/cc_dupl.R | 82 +- CoordinateCleaner-2.0-2/CoordinateCleaner/R/cc_equ.R | 85 +- CoordinateCleaner-2.0-2/CoordinateCleaner/R/cc_gbif.R | 144 +++ CoordinateCleaner-2.0-2/CoordinateCleaner/R/cc_inst.R | 221 +++++- CoordinateCleaner-2.0-2/CoordinateCleaner/R/cc_iucn.R |only CoordinateCleaner-2.0-2/CoordinateCleaner/R/cc_outl.R | 362 +++++++--- CoordinateCleaner-2.0-2/CoordinateCleaner/R/cc_sea.R | 146 +++- CoordinateCleaner-2.0-2/CoordinateCleaner/R/cc_urb.R | 138 ++- CoordinateCleaner-2.0-2/CoordinateCleaner/R/cc_val.R | 91 +- CoordinateCleaner-2.0-2/CoordinateCleaner/R/cc_zero.R | 93 +- CoordinateCleaner-2.0-2/CoordinateCleaner/R/cd_ddmm.R |only CoordinateCleaner-2.0-2/CoordinateCleaner/R/cd_round.R |only CoordinateCleaner-2.0-2/CoordinateCleaner/R/cf_age.R |only CoordinateCleaner-2.0-2/CoordinateCleaner/R/cf_equal.R |only CoordinateCleaner-2.0-2/CoordinateCleaner/R/cf_outl.R |only CoordinateCleaner-2.0-2/CoordinateCleaner/R/cf_range.R |only CoordinateCleaner-2.0-2/CoordinateCleaner/R/clean_coordinates.R |only CoordinateCleaner-2.0-2/CoordinateCleaner/R/clean_dataset.R |only CoordinateCleaner-2.0-2/CoordinateCleaner/R/clean_fossils.R |only CoordinateCleaner-2.0-2/CoordinateCleaner/R/internal_clean_coordinate.R |only CoordinateCleaner-2.0-2/CoordinateCleaner/R/internal_clean_dataset.R |only CoordinateCleaner-2.0-2/CoordinateCleaner/R/internal_write_pyrate.R |only CoordinateCleaner-2.0-2/CoordinateCleaner/R/methods.spatialvalid.R | 252 ++++-- CoordinateCleaner-2.0-2/CoordinateCleaner/R/write_pyrate.R |only CoordinateCleaner-2.0-2/CoordinateCleaner/README.md |only CoordinateCleaner-2.0-2/CoordinateCleaner/build/vignette.rds |only CoordinateCleaner-2.0-2/CoordinateCleaner/data/buffland.rda |only CoordinateCleaner-2.0-2/CoordinateCleaner/data/countryref.rda |binary CoordinateCleaner-2.0-2/CoordinateCleaner/data/institutions.rda |binary CoordinateCleaner-2.0-2/CoordinateCleaner/data/pbdb_example.rda |only CoordinateCleaner-2.0-2/CoordinateCleaner/inst |only CoordinateCleaner-2.0-2/CoordinateCleaner/man/CoordinateCleaner-deprecated.Rd |only CoordinateCleaner-2.0-2/CoordinateCleaner/man/CoordinateCleaner-package.Rd | 20 CoordinateCleaner-2.0-2/CoordinateCleaner/man/buffland.Rd |only CoordinateCleaner-2.0-2/CoordinateCleaner/man/cc_cap.Rd | 104 +- CoordinateCleaner-2.0-2/CoordinateCleaner/man/cc_cen.Rd | 115 +-- CoordinateCleaner-2.0-2/CoordinateCleaner/man/cc_coun.Rd | 92 +- CoordinateCleaner-2.0-2/CoordinateCleaner/man/cc_dupl.Rd | 91 +- CoordinateCleaner-2.0-2/CoordinateCleaner/man/cc_equ.Rd | 81 +- CoordinateCleaner-2.0-2/CoordinateCleaner/man/cc_gbif.Rd | 89 +- CoordinateCleaner-2.0-2/CoordinateCleaner/man/cc_inst.Rd | 118 ++- CoordinateCleaner-2.0-2/CoordinateCleaner/man/cc_iucn.Rd |only CoordinateCleaner-2.0-2/CoordinateCleaner/man/cc_outl.Rd | 136 ++- CoordinateCleaner-2.0-2/CoordinateCleaner/man/cc_sea.Rd | 97 +- CoordinateCleaner-2.0-2/CoordinateCleaner/man/cc_urb.Rd | 100 +- CoordinateCleaner-2.0-2/CoordinateCleaner/man/cc_val.Rd | 77 +- CoordinateCleaner-2.0-2/CoordinateCleaner/man/cc_zero.Rd | 84 +- CoordinateCleaner-2.0-2/CoordinateCleaner/man/cd_ddmm.Rd |only CoordinateCleaner-2.0-2/CoordinateCleaner/man/cd_round.Rd |only CoordinateCleaner-2.0-2/CoordinateCleaner/man/cf_age.Rd |only CoordinateCleaner-2.0-2/CoordinateCleaner/man/cf_equal.Rd |only CoordinateCleaner-2.0-2/CoordinateCleaner/man/cf_outl.Rd |only CoordinateCleaner-2.0-2/CoordinateCleaner/man/cf_range.Rd |only CoordinateCleaner-2.0-2/CoordinateCleaner/man/clean_coordinates.Rd |only CoordinateCleaner-2.0-2/CoordinateCleaner/man/clean_dataset.Rd |only CoordinateCleaner-2.0-2/CoordinateCleaner/man/clean_fossils.Rd |only CoordinateCleaner-2.0-2/CoordinateCleaner/man/countryref.Rd | 39 - CoordinateCleaner-2.0-2/CoordinateCleaner/man/institutions.Rd | 39 - CoordinateCleaner-2.0-2/CoordinateCleaner/man/pbdb_example.Rd |only CoordinateCleaner-2.0-2/CoordinateCleaner/man/plot.spatialvalid.Rd | 83 +- CoordinateCleaner-2.0-2/CoordinateCleaner/man/write_pyrate.Rd |only CoordinateCleaner-2.0-2/CoordinateCleaner/tests/testthat/Test_fossillevel_cleaning.R |only CoordinateCleaner-2.0-2/CoordinateCleaner/tests/testthat/test_coordinatelevel_functions.R | 232 ++++++ CoordinateCleaner-2.0-2/CoordinateCleaner/tests/testthat/test_datasetlevel_functions.R |only CoordinateCleaner-2.0-2/CoordinateCleaner/tests/testthat/test_wrapper_functions.R | 109 ++- CoordinateCleaner-2.0-2/CoordinateCleaner/vignettes |only 102 files changed, 3208 insertions(+), 1687 deletions(-)
More information about CoordinateCleaner at CRAN
Permanent link
Title: Bayesian Model Selection under Constraints
Description: A Bayesian regression package supporting constrained coefficient estimation and
variable selection using Stan. This includes a robust variable selection
algorithm by a horseshoe prior (<doi:10.1093/biomet/asq017>) that finds the optimal model considering main effects,
interactions as well as powers of given variables under potential parameter constraints.
Author: Marcus Groß [aut, cre],
Ricardo Fernandes [aut],
Mira Celine Klein [ctb]
Maintainer: Marcus Groß <marcus.gross@inwt-statistics.de>
Diff between BMSC versions 0.1 dated 2018-08-05 and 0.1.1 dated 2018-10-18
DESCRIPTION | 17 ++++++++--------- MD5 | 10 +++++----- R/estimateModel.R | 2 +- man/plotModelFit.Rd | 3 ++- src/Makevars | 1 + src/Makevars.win | 2 +- 6 files changed, 18 insertions(+), 17 deletions(-)
Title: Power Analysis Tools for Multilevel Randomized Experiments
Description: Includes tools to calculate statistical power, minimum detectable effect size, and minimum required sample size for various multilevel randomized experiments with continuous outcomes. Some of the functions can assist with planning two- and three-level cluster-randomized trials (CRTs) sensitive to moderation effects, and with planning two-level CRTs sensitive to 2-2-1 and 2-1-1 mediation effects. See 'PowerUp!' series at <https://www.causalevaluation.org/>.
Author: Metin Bulus [aut, cre, trl],
Nianbo Dong [aut],
Benjamin Kelcey [aut],
Jessaca Spybrook [aut]
Maintainer: Metin Bulus <bulusmetin@gmail.com>
Diff between PowerUpR versions 1.0.0 dated 2018-05-16 and 1.0.1 dated 2018-10-18
DESCRIPTION | 10 MD5 | 40 +- NAMESPACE | 16 - NEWS.md | 9 R/cra2r2.R | 318 +-------------------- R/cra3r3.R | 8 R/depdef.R | 51 --- R/error.R | 12 R/plot.R | 155 ++++++---- R/utils.R | 65 ---- README.md | 8 inst/CITATION | 4 inst/doc/three_level_cluster_randomized_trial.R | 26 + inst/doc/three_level_cluster_randomized_trial.Rmd | 28 + inst/doc/three_level_cluster_randomized_trial.html | 32 +- man/PowerUpR-deprecated.Rd | 6 man/PowerUpR-package.Rd | 2 man/cra2r2.Rd | 56 --- man/cra3r3.Rd | 20 - man/plot.Rd | 36 +- vignettes/three_level_cluster_randomized_trial.Rmd | 28 + 21 files changed, 316 insertions(+), 614 deletions(-)
Title: Semi-Definite Quadratic Linear Programming Solver
Description: Solves the general Semi-Definite Linear Programming formulation using an R implementation of SDPT3 (K.C. Toh, M.J. Todd, and R.H. Tutuncu (1999) <doi:10.1080/10556789908805762>). This includes problems such as the nearest correlation matrix problem (Higham (2002) <doi:10.1093/imanum/22.3.329>), D-optimal experimental design (Smith (1918) <doi:10.2307/2331929>), Distance Weighted Discrimination (Marron and Todd (2012) <doi:10.1198/016214507000001120>), as well as graph theory problems including the maximum cut problem. Technical details surrounding SDPT3 can be found in R.H Tutuncu, K.C. Toh, and M.J. Todd (2003) <doi:10.1007/s10107-002-0347-5>.
Author: Kim-Chuan Toh (Matlab/C), Micheal Todd (Matlab/C), Reha Tutunco (Matlab/C), Adam Rahman (R/C Headers), Timothy A. Davis (symamd C code), Stefan I. Larimore (symamd C code)
Maintainer: Adam Rahman <a45rahma@uwaterloo.ca>
Diff between sdpt3r versions 0.1 dated 2017-09-04 and 0.2 dated 2018-10-18
sdpt3r-0.1/sdpt3r/R/control.R |only sdpt3r-0.1/sdpt3r/inst/doc/sdpt3r.Rnw |only sdpt3r-0.1/sdpt3r/inst/doc/sdpt3r.pdf |only sdpt3r-0.1/sdpt3r/man/control.Rd |only sdpt3r-0.1/sdpt3r/vignettes/sdpt3r.Rnw |only sdpt3r-0.2/sdpt3r/DESCRIPTION | 10 sdpt3r-0.2/sdpt3r/MD5 | 184 ++++++------- sdpt3r-0.2/sdpt3r/NAMESPACE | 2 sdpt3r-0.2/sdpt3r/R/control_theory.R |only sdpt3r-0.2/sdpt3r/R/distanceGeometry.R | 6 sdpt3r-0.2/sdpt3r/R/doptimal.R | 24 - sdpt3r-0.2/sdpt3r/R/dwd.R | 26 - sdpt3r-0.2/sdpt3r/R/etp.R | 23 - sdpt3r-0.2/sdpt3r/R/gpp.R | 23 - sdpt3r-0.2/sdpt3r/R/lmi.R | 72 ++--- sdpt3r-0.2/sdpt3r/R/logcheby.R | 28 -- sdpt3r-0.2/sdpt3r/R/lovasz.R | 23 - sdpt3r-0.2/sdpt3r/R/maxcut.R | 24 - sdpt3r-0.2/sdpt3r/R/maxkcut.R | 26 - sdpt3r-0.2/sdpt3r/R/minelips.R | 27 - sdpt3r-0.2/sdpt3r/R/nearestcorr.R | 23 - sdpt3r-0.2/sdpt3r/R/smat.R | 2 sdpt3r-0.2/sdpt3r/R/sqlp.R | 421 ++----------------------------- sdpt3r-0.2/sdpt3r/R/sqlp_base.R |only sdpt3r-0.2/sdpt3r/R/svec.R | 10 sdpt3r-0.2/sdpt3r/R/symqmr.R | 2 sdpt3r-0.2/sdpt3r/R/toeplitz.R | 25 - sdpt3r-0.2/sdpt3r/build/vignette.rds |binary sdpt3r-0.2/sdpt3r/inst/doc/doptimal.Rnw | 48 +-- sdpt3r-0.2/sdpt3r/inst/doc/doptimal.pdf |binary sdpt3r-0.2/sdpt3r/inst/doc/dwd.Rnw | 14 - sdpt3r-0.2/sdpt3r/inst/doc/dwd.pdf |binary sdpt3r-0.2/sdpt3r/inst/doc/etp.Rnw | 8 sdpt3r-0.2/sdpt3r/inst/doc/etp.pdf |binary sdpt3r-0.2/sdpt3r/inst/doc/gpp.Rnw | 14 - sdpt3r-0.2/sdpt3r/inst/doc/gpp.pdf |binary sdpt3r-0.2/sdpt3r/inst/doc/lmi.Rnw | 38 -- sdpt3r-0.2/sdpt3r/inst/doc/lmi.pdf |binary sdpt3r-0.2/sdpt3r/inst/doc/logcheby.Rnw | 14 - sdpt3r-0.2/sdpt3r/inst/doc/logcheby.pdf |binary sdpt3r-0.2/sdpt3r/inst/doc/lovasz.Rnw | 13 sdpt3r-0.2/sdpt3r/inst/doc/lovasz.pdf |binary sdpt3r-0.2/sdpt3r/inst/doc/maxcut.Rnw | 27 - sdpt3r-0.2/sdpt3r/inst/doc/maxcut.pdf |binary sdpt3r-0.2/sdpt3r/inst/doc/maxkcut.Rnw | 14 - sdpt3r-0.2/sdpt3r/inst/doc/maxkcut.pdf |binary sdpt3r-0.2/sdpt3r/inst/doc/minelips.Rnw | 16 - sdpt3r-0.2/sdpt3r/inst/doc/minelips.pdf |binary sdpt3r-0.2/sdpt3r/inst/doc/nearcorr.Rnw | 30 -- sdpt3r-0.2/sdpt3r/inst/doc/nearcorr.pdf |binary sdpt3r-0.2/sdpt3r/inst/doc/toeplitz.Rnw | 13 sdpt3r-0.2/sdpt3r/inst/doc/toeplitz.pdf |binary sdpt3r-0.2/sdpt3r/man/Andwd.Rd | 1 sdpt3r-0.2/sdpt3r/man/Apdwd.Rd | 1 sdpt3r-0.2/sdpt3r/man/Betp.Rd | 1 sdpt3r-0.2/sdpt3r/man/Bgpp.Rd | 1 sdpt3r-0.2/sdpt3r/man/Blogcheby.Rd | 1 sdpt3r-0.2/sdpt3r/man/Bmaxcut.Rd | 1 sdpt3r-0.2/sdpt3r/man/Bmaxkcut.Rd | 1 sdpt3r-0.2/sdpt3r/man/DoptDesign.Rd | 1 sdpt3r-0.2/sdpt3r/man/Ftoep.Rd | 1 sdpt3r-0.2/sdpt3r/man/Glovasz.Rd | 1 sdpt3r-0.2/sdpt3r/man/Hnearcorr.Rd | 1 sdpt3r-0.2/sdpt3r/man/Vminelips.Rd | 1 sdpt3r-0.2/sdpt3r/man/control_theory.Rd |only sdpt3r-0.2/sdpt3r/man/doptimal.Rd | 18 - sdpt3r-0.2/sdpt3r/man/dwd.Rd | 20 - sdpt3r-0.2/sdpt3r/man/etp.Rd | 17 - sdpt3r-0.2/sdpt3r/man/flogcheby.Rd | 1 sdpt3r-0.2/sdpt3r/man/gpp.Rd | 17 - sdpt3r-0.2/sdpt3r/man/lmi1.Rd | 20 - sdpt3r-0.2/sdpt3r/man/lmi2.Rd | 17 - sdpt3r-0.2/sdpt3r/man/lmi3.Rd | 17 - sdpt3r-0.2/sdpt3r/man/logcheby.Rd | 20 - sdpt3r-0.2/sdpt3r/man/lovasz.Rd | 17 - sdpt3r-0.2/sdpt3r/man/maxcut.Rd | 17 - sdpt3r-0.2/sdpt3r/man/maxkcut.Rd | 17 - sdpt3r-0.2/sdpt3r/man/minelips.Rd | 21 - sdpt3r-0.2/sdpt3r/man/nearcorr.Rd | 17 - sdpt3r-0.2/sdpt3r/man/smat.Rd | 3 sdpt3r-0.2/sdpt3r/man/sqlp.Rd | 38 +- sdpt3r-0.2/sdpt3r/man/svec.Rd | 3 sdpt3r-0.2/sdpt3r/man/toep.Rd | 20 - sdpt3r-0.2/sdpt3r/vignettes/doptimal.Rnw | 48 +-- sdpt3r-0.2/sdpt3r/vignettes/doptimal.tex | 48 +-- sdpt3r-0.2/sdpt3r/vignettes/dwd.Rnw | 14 - sdpt3r-0.2/sdpt3r/vignettes/etp.Rnw | 8 sdpt3r-0.2/sdpt3r/vignettes/gpp.Rnw | 14 - sdpt3r-0.2/sdpt3r/vignettes/lmi.Rnw | 38 -- sdpt3r-0.2/sdpt3r/vignettes/logcheby.Rnw | 14 - sdpt3r-0.2/sdpt3r/vignettes/lovasz.Rnw | 13 sdpt3r-0.2/sdpt3r/vignettes/maxcut.Rnw | 27 - sdpt3r-0.2/sdpt3r/vignettes/maxkcut.Rnw | 14 - sdpt3r-0.2/sdpt3r/vignettes/minelips.Rnw | 16 - sdpt3r-0.2/sdpt3r/vignettes/nearcorr.Rnw | 30 -- sdpt3r-0.2/sdpt3r/vignettes/sdpt3r.bib | 40 ++ sdpt3r-0.2/sdpt3r/vignettes/toeplitz.Rnw | 13 97 files changed, 510 insertions(+), 1369 deletions(-)
Title: One-Way Tests in Independent Groups Designs
Description: Performs one-way tests in independent groups designs, pairwise comparisons, graphical approaches, assesses variance homogeneity and normality of data in each group via tests and plots (Dag et al., 2018, <https://journal.r-project.org/archive/2018/RJ-2018-022/RJ-2018-022.pdf>).
Author: Osman Dag [aut, cre], Anil Dolgun [aut], N. Meric Konar [aut]
Maintainer: Osman Dag <osman.dag@hacettepe.edu.tr>
Diff between onewaytests versions 1.8 dated 2018-08-13 and 1.9 dated 2018-10-18
DESCRIPTION | 11 +++++------ MD5 | 16 ++++++++-------- man/ag.test.Rd | 2 +- man/aov.test.Rd | 2 +- man/bf.test.Rd | 2 +- man/james.test.Rd | 2 +- man/kw.test.Rd | 2 +- man/onewaytests.Rd | 2 +- man/welch.test.Rd | 2 +- 9 files changed, 20 insertions(+), 21 deletions(-)
Title: The Abnormal Blood Profile Score to Detect Blood Doping
Description: An implementation of the Abnormal Blood Profile Score (ABPS,
part of the Athlete Biological Passport program of the World Anti-Doping
Agency), which combines several blood parameters into a single score in
order to detect blood doping (Sottas et al. (2006)
<doi:10.2202/1557-4679.1011>). The package also contains functions to
calculate other scores used in anti-doping programs, such as the
OFF-score (Gore et al. (2003) <http://www.haematologica.org/content/88/3/333>),
as well as example data.
Author: Frédéric Schütz [aut, cre],
Alix Zollinger [aut]
Maintainer: Frédéric Schütz <schutz@mathgen.ch>
Diff between ABPS versions 0.2 dated 2018-01-30 and 0.3 dated 2018-10-18
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS | 6 ++++++ R/ABPS.R | 45 ++++++++++++++++++++++++++++++++++++++------- R/data.R | 2 +- tests/testthat/test_ABPS.R | 23 ++++++++++++++++++----- 6 files changed, 72 insertions(+), 22 deletions(-)
Title: Simple Key Value Stores
Description: Creates and manages simple key-value stores. These can
use a variety of approaches for storing the data. This package
implements the base methods and support for file system, in-memory
and DBI-based database stores.
Author: Rich FitzJohn [aut, cre]
Maintainer: Rich FitzJohn <rich.fitzjohn@gmail.com>
Diff between storr versions 1.2.0 dated 2018-05-31 and 1.2.1 dated 2018-10-18
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS.md | 4 ++++ R/hash.R | 14 ++------------ build/vignette.rds |binary inst/doc/external.html | 12 ++++++------ inst/doc/storr.html | 14 +++++++------- tests/testthat/test-driver-rds.R | 36 ++++++++++++++++++++++++++++++++++++ 8 files changed, 66 insertions(+), 36 deletions(-)
Title: Statistical Modeling of Animal Movements
Description: Animal movement models including moving-resting process
with embedded Brownian motion according to
Yan et al. (2014) <doi:10.1007/s10144-013-0428-8>,
Pozdnyakov et al. (2017) <doi:10.1007/s11009-017-9547-6>,
Brownian motion with measurement error according to
Pozdnyakov et al. (2014) <doi:10.1890/13-0532.1>,
and moving-resting-handling process with embedded Brownian motion,
Pozdnyakov et al. (2018) <arXiv:1806.00849>.
Author: Jun Yan [aut],
Vladimir Pozdnyakov [aut],
Chaoran Hu [aut, cre]
Maintainer: Chaoran Hu <chaoran.hu@uconn.edu>
Diff between smam versions 0.3-0 dated 2016-10-01 and 0.4.0 dated 2018-10-18
smam-0.3-0/smam/ChangeLog |only smam-0.3-0/smam/man/fitBmme.Rd |only smam-0.3-0/smam/man/fitMovRes.Rd |only smam-0.3-0/smam/man/rMovRes.Rd |only smam-0.3-0/smam/man/rbmme.Rd |only smam-0.4.0/smam/DESCRIPTION | 44 smam-0.4.0/smam/MD5 | 59 smam-0.4.0/smam/NAMESPACE | 21 smam-0.4.0/smam/NEWS.md |only smam-0.4.0/smam/R/RcppExports.R | 174 ++ smam-0.4.0/smam/R/bmme.R | 102 + smam-0.4.0/smam/R/fitMovResHan.R |only smam-0.4.0/smam/R/movres.R | 240 ++- smam-0.4.0/smam/R/rMovResHan.R |only smam-0.4.0/smam/R/seasonalFit.R |only smam-0.4.0/smam/R/seasonalTools.R |only smam-0.4.0/smam/R/smam.R |only smam-0.4.0/smam/R/state_mr.R |only smam-0.4.0/smam/R/state_mrh.R |only smam-0.4.0/smam/R/zzz.R |only smam-0.4.0/smam/build |only smam-0.4.0/smam/cleanup |only smam-0.4.0/smam/configure |only smam-0.4.0/smam/configure.ac |only smam-0.4.0/smam/inst |only smam-0.4.0/smam/man/dtm.Rd | 4 smam-0.4.0/smam/man/fitBMME.Rd |only smam-0.4.0/smam/man/fitMR.Rd |only smam-0.4.0/smam/man/fitMRH.Rd |only smam-0.4.0/smam/man/fitStateMR.Rd |only smam-0.4.0/smam/man/fitStateMRH.Rd |only smam-0.4.0/smam/man/integr.control.Rd | 3 smam-0.4.0/smam/man/rBMME.Rd |only smam-0.4.0/smam/man/rMR.Rd |only smam-0.4.0/smam/man/rMRH.Rd |only smam-0.4.0/smam/man/seasonFilter.Rd |only smam-0.4.0/smam/man/smam.Rd |only smam-0.4.0/smam/man/transfData.Rd |only smam-0.4.0/smam/src/Makevars.in |only smam-0.4.0/smam/src/Makevars.win |only smam-0.4.0/smam/src/RcppExports.cpp | 1913 +++++++++++++++++++++++++++- smam-0.4.0/smam/src/movres-llk.cpp | 232 +++ smam-0.4.0/smam/src/registerDynamicSymbol.c |only smam-0.4.0/smam/src/state_path.cpp |only smam-0.4.0/smam/src/thmam_likelihood.cpp |only smam-0.4.0/smam/src/thmam_likelihood.h |only smam-0.4.0/smam/vignettes |only 47 files changed, 2608 insertions(+), 184 deletions(-)
Title: Relative Survival
Description: Contains functions for analysing relative survival data, including nonparametric estimators of net (marginal relative) survival, relative survival ratio, crude mortality, methods for fitting and checking additive and multiplicative regression models, transformation approach, methods for dealing with population mortality tables.
Author: Maja Pohar Perme [aut, cre]
Maintainer: Maja Pohar Perme <maja.pohar@mf.uni-lj.si>
Diff between relsurv versions 2.2-1 dated 2018-08-28 and 2.2-2 dated 2018-10-18
relsurv-2.2-1/relsurv/INDEX |only relsurv-2.2-2/relsurv/DESCRIPTION | 17 ++++++++--------- relsurv-2.2-2/relsurv/MD5 | 11 +++++------ relsurv-2.2-2/relsurv/NAMESPACE | 1 + relsurv-2.2-2/relsurv/R/Rcode.r | 2 +- relsurv-2.2-2/relsurv/R/rformulate.r | 4 ++-- relsurv-2.2-2/relsurv/inst/news.Rd | 8 ++++++++ 7 files changed, 25 insertions(+), 18 deletions(-)
Title: Design and Monitoring of Survival Trials Accounting for Complex
Situations
Description: Calculates various functions needed for design and monitoring survival trials
accounting for complex situations such as delayed treatment effect, treatment crossover, non-uniform accrual,
and different censoring distributions between groups. The event time distribution is assumed to be
piecewise exponential (PWE) distribution and the entry time is assumed to be piecewise uniform distribution.
As compared with Version 1.2.1, two more types of hybrid crossover are added.
A bug is corrected in the function "pwecx" that calculates the crossover-adjusted survival, distribution,
density, hazard and cumulative hazard functions.
Also, to generate the crossover-adjusted event time random variable, a more efficient
algorithm is used and the output includes crossover indicators.
Author: Xiaodong Luo [aut, cre],
Xuezhou Mao [ctb],
Xun Chen [ctb],
Hui Quan [ctb],
Sanofi [cph]
Maintainer: Xiaodong Luo <Xiaodong.Luo@sanofi.com>
Diff between PWEALL versions 1.2.1 dated 2018-03-26 and 1.3.0 dated 2018-10-18
PWEALL-1.2.1/PWEALL/src/PWEALL_init.c |only PWEALL-1.3.0/PWEALL/DESCRIPTION | 14 +- PWEALL-1.3.0/PWEALL/MD5 | 37 +++--- PWEALL-1.3.0/PWEALL/NAMESPACE | 2 PWEALL-1.3.0/PWEALL/R/pwecx.R | 41 ++++++ PWEALL-1.3.0/PWEALL/R/rpwecx.R | 146 ++++++++++++++---------- PWEALL-1.3.0/PWEALL/build/partial.rdb |binary PWEALL-1.3.0/PWEALL/man/PWEALL2-package.Rd | 18 ++- PWEALL-1.3.0/PWEALL/man/fourhr.Rd | 84 +++++++------- PWEALL-1.3.0/PWEALL/man/innercov.Rd | 170 ++++++++++++++-------------- PWEALL-1.3.0/PWEALL/man/innervar.Rd | 162 +++++++++++++-------------- PWEALL-1.3.0/PWEALL/man/pwecx.Rd | 92 +++++++-------- PWEALL-1.3.0/PWEALL/man/pwecxpwufindt.Rd | 174 ++++++++++++++--------------- PWEALL-1.3.0/PWEALL/man/pwefv2.Rd | 79 ++++++------- PWEALL-1.3.0/PWEALL/man/pwefvplus.Rd | 126 +++++++++++---------- PWEALL-1.3.0/PWEALL/man/rmstcov.Rd | 2 PWEALL-1.3.0/PWEALL/man/rmstsim.Rd | 2 PWEALL-1.3.0/PWEALL/man/rmstutil.Rd | 2 PWEALL-1.3.0/PWEALL/man/rpwecx.Rd | 86 +++++++------- PWEALL-1.3.0/PWEALL/src/PWEALL.f90 | 43 +------ 20 files changed, 669 insertions(+), 611 deletions(-)
Title: Minimal Working Examples for Particle Metropolis-Hastings
Description: Routines for state estimate in a linear
Gaussian state space model and a simple stochastic volatility model using
particle filtering. Parameter inference is also carried out in these models
using the particle Metropolis-Hastings algorithm that includes the particle
filter to provided an unbiased estimator of the likelihood. This package is
a collection of minimal working examples of these algorithms and is only
meant for educational use and as a start for learning to them on your own.
Author: Johan Dahlin
Maintainer: Johan Dahlin <uni@johandahlin.com>
Diff between pmhtutorial versions 1.2 dated 2017-10-07 and 1.3 dated 2018-10-18
DESCRIPTION | 12 +- MD5 | 34 ++--- R/example3-sv.R | 90 ++++++++------- R/example4-sv.R | 89 ++++++++------- R/example5-sv.R | 92 ++++++++-------- man/example1_lgss.Rd | 2 man/example2_lgss.Rd | 4 man/example3_sv.Rd | 50 ++++---- man/example4_sv.Rd | 51 ++++---- man/example5_sv.Rd | 51 ++++---- man/generateData.Rd | 2 man/kalmanFilter.Rd | 2 man/makePlotsParticleMetropolisHastingsSVModel.Rd | 6 - man/particleFilter.Rd | 8 - man/particleFilterSVmodel.Rd | 47 +++++--- man/particleMetropolisHastings.Rd | 6 - man/particleMetropolisHastingsSVmodel.Rd | 47 +++----- man/particleMetropolisHastingsSVmodelReparameterised.Rd | 37 ++---- 18 files changed, 333 insertions(+), 297 deletions(-)
Title: 'NASA' 'POWER' 'API' Client
Description: Client for 'NASA' 'POWER' global meteorology, surface solar
energy and climatology data 'API'. 'POWER' (Prediction Of Worldwide Energy
Resource) data are freely available global meteorology and surface solar
energy climatology data for download with a resolution of 1/2 by 1/2 arc
degree longitude and latitude and are funded through the 'NASA' Earth
Science Directorate Applied Science Program. For more on the data
themselves, a web-based data viewer and web access, please see
<https://power.larc.nasa.gov/>.
Author: Adam H. Sparks [aut, cre] (<https://orcid.org/0000-0002-0061-8359>),
Scott Chamberlain [rev] (<https://orcid.org/0000-0003-1444-9135>),
Hazel Kavili [rev],
Alison Boyer [rev]
Maintainer: Adam H. Sparks <adamhsparks@gmail.com>
Diff between nasapower versions 1.0.1 dated 2018-10-14 and 1.0.2 dated 2018-10-18
DESCRIPTION | 15 +- MD5 | 44 +++--- NEWS.md | 23 +++ R/create_icasa.R | 26 +--- R/create_met.R | 28 +--- R/get_power.R | 93 +++++++------- R/internal_functions.R | 107 ++++++---------- R/nasapower-package.R | 12 - R/parameters_data.R | 9 - README.md | 18 +- inst/doc/nasapower.Rmd | 45 +++--- inst/doc/nasapower.html | 21 +-- man/create_icasa.Rd | 18 +- man/create_met.Rd | 15 +- man/get_power.Rd | 93 +++++++------- man/nasapower.Rd | 12 - man/parameters.Rd | 9 - man/print.POWER.Info.Rd | 6 tests/testthat/test-create_icasa.R | 23 --- tests/testthat/test-create_met.R | 28 +--- tests/testthat/test-get_power.R | 5 tests/testthat/test-internal_functions.R | 200 +++++++++++++++++-------------- vignettes/nasapower.Rmd | 45 +++--- 23 files changed, 442 insertions(+), 453 deletions(-)
Title: Accurate Timing Functions
Description: Provides infrastructure to accurately measure and compare
the execution time of R expressions.
Author: Olaf Mersmann [aut],
Claudia Beleites [ctb],
Rainer Hurling [ctb],
Ari Friedman [ctb],
Joshua M. Ulrich [cre]
Maintainer: Joshua M. Ulrich <josh.m.ulrich@gmail.com>
Diff between microbenchmark versions 1.4-5 dated 2018-10-09 and 1.4-6 dated 2018-10-18
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/microbenchmark.R | 2 +- inst/tests/test_regression.R | 15 +++++++++++---- 4 files changed, 18 insertions(+), 11 deletions(-)
More information about microbenchmark at CRAN
Permanent link
Title: Extreme Value Analysis with Goodness-of-Fit Testing
Description: Goodness-of-fit tests for selection of r in the r-largest order
statistics (GEVr) model. Goodness-of-fit tests for threshold selection in the
Generalized Pareto distribution (GPD). Random number generation and density functions
for the GEVr distribution. Profile likelihood for return level estimation
using the GEVr and Generalized Pareto distributions. P-value adjustments for
sequential, multiple testing error control. Non-stationary fitting of GEVr and
GPD.
Author: Brian Bader [aut, cre],
Jun Yan [ctb]
Maintainer: Brian Bader <bbader.stat@gmail.com>
Diff between eva versions 0.2.4 dated 2016-09-20 and 0.2.5 dated 2018-10-18
DESCRIPTION | 12 ++++++------ MD5 | 8 ++++---- R/gevrFunctions.R | 7 ++++++- build/vignette.rds |binary inst/doc/introduction.html | 43 +++++++++++++++++++++++++++---------------- 5 files changed, 43 insertions(+), 27 deletions(-)
Title: Baumgartner Weiss Schindler Test of Equal Distributions
Description: Performs the 'Baumgartner-Weiss-Schindler' two-sample test of equal
probability distributions, <doi:10.2307/2533862>. Also performs
similar rank-based tests for equal probability distributions due to
Neuhauser <doi:10.1080/10485250108832874> and
Murakami <doi:10.1080/00949655.2010.551516>.
Author: Steven E. Pav [aut, cre] (<https://orcid.org/0000-0002-4197-6195>)
Maintainer: Steven E. Pav <shabbychef@gmail.com>
Diff between BWStest versions 0.2.1 dated 2017-03-21 and 0.2.2 dated 2018-10-18
ChangeLog | 4 ++++ DESCRIPTION | 23 ++++++++++++++--------- MD5 | 24 ++++++++++++------------ R/BWStest.r | 5 +++++ R/RcppExports.R | 8 ++++---- man/BWStest-package.Rd | 8 ++++---- man/NEWS.Rd | 7 +++++++ man/bws_cdf.Rd | 7 +++---- man/bws_stat.Rd | 7 +++---- man/bws_test.Rd | 7 +++---- man/murakami_cdf.Rd | 7 +++---- man/murakami_stat.Rd | 7 +++---- src/RcppExports.cpp | 8 ++++---- 13 files changed, 69 insertions(+), 53 deletions(-)
Title: Nested and Crossed Block Designs for Factorial, Fractional
Factorial and Unstructured Treatment Sets
Description: Constructs D-optimal or near D-optimal nested and crossed
block designs for unstructured or general factorial treatment designs.
Where a structured treatment design is required, a D-optimal or near
D-optimal treatment design is found based on a suitable model
matrix design formula. The required block design is then found for the
required treatment design based on a defined set of block factors.
The block factors are added in sequence and each added block factor
is optimized conditional on all previously added block factors.
The block design can have repeated nesting down to any required
depth of nesting with either simple nested blocks or a
crossed blocks design at each level of nesting. Outputs include a table
showing the allocation of treatments to blocks and tables showing
the achieved D-efficiency factors for each block and treatment design.
Author: R. N. Edmondson.
Maintainer: Rodney Edmondson <rodney.edmondson@gmail.com>
Diff between blocksdesign versions 3.0 dated 2018-07-01 and 3.1 dated 2018-10-18
blocksdesign-3.0/blocksdesign/R/factblocks.r |only blocksdesign-3.0/blocksdesign/build |only blocksdesign-3.0/blocksdesign/man/factblocks-deprecated.Rd |only blocksdesign-3.0/blocksdesign/vignettes |only blocksdesign-3.1/blocksdesign/DESCRIPTION | 22 blocksdesign-3.1/blocksdesign/MD5 | 26 blocksdesign-3.1/blocksdesign/NAMESPACE | 1 blocksdesign-3.1/blocksdesign/R/blocksdesign-package.r | 39 - blocksdesign-3.1/blocksdesign/R/design.r | 360 +++++------ blocksdesign-3.1/blocksdesign/R/efficiencies.R | 130 +-- blocksdesign-3.1/blocksdesign/inst/doc/blocksdesign.R | 82 +- blocksdesign-3.1/blocksdesign/inst/doc/blocksdesign.Rmd | 200 ++---- blocksdesign-3.1/blocksdesign/inst/doc/blocksdesign.html | 285 +++++--- blocksdesign-3.1/blocksdesign/man/blocksdesign-deprecated.Rd | 57 - blocksdesign-3.1/blocksdesign/man/blocksdesign-package.Rd | 36 - blocksdesign-3.1/blocksdesign/man/design.Rd | 207 ++---- 16 files changed, 701 insertions(+), 744 deletions(-)
Title: Partitioning Beta Diversity into Turnover and Nestedness
Components
Description: Functions to compute pair-wise dissimilarities (distance matrices) and multiple-site dissimilarities, separating the turnover and nestedness-resultant components of taxonomic (incidence and abundance based), functional and phylogenetic beta diversity.
Author: Andres Baselga [aut, cre],
David Orme [aut],
Sebastien Villeger [aut],
Julien De Bortoli [aut],
Fabien Leprieur [aut],
Maxime Logez [ctb],
Renato Henriques-Silva [ctb]
Maintainer: Andres Baselga <andres.baselga@usc.es>
Diff between betapart versions 1.5.0 dated 2018-02-22 and 1.5.1 dated 2018-10-18
DESCRIPTION | 33 ++ MD5 | 18 - NAMESPACE | 1 NEWS.md | 11 R/functional.betapart.core.R | 474 +++++++++++++++++++--------------------- man/boot.coefs.decay.Rd | 2 man/decay.model.Rd | 4 man/functional.beta.multi.Rd | 10 man/functional.beta.pair.Rd | 11 man/functional.betapart.core.Rd | 329 ++++++++++++++++++++++++++- 10 files changed, 605 insertions(+), 288 deletions(-)
Title: Hierarchical Non-Negative Matrix Factorization
Description: Hierarchical and single-level non-negative matrix factorization. Several NMF algorithms are available.
Author: Nicolas Sauwen
Maintainer: Nicolas Sauwen <nicolas.sauwen@openanalytics.eu>
Diff between hNMF versions 0.8 dated 2018-10-10 and 0.9 dated 2018-10-18
DESCRIPTION | 6 +++--- MD5 | 4 ++-- tests/testthat/test_validationResults.R | 4 +--- 3 files changed, 6 insertions(+), 8 deletions(-)
Title: Bridge Between 'R' and 'Scala' with Callbacks
Description: 'Scala' <http://www.scala-lang.org/> is embedded in 'R' and callbacks from 'Scala' to 'R' are available. Support is provided to write 'R' packages that access 'Scala'. After installation, please run 'rscala::scalaConfig()'.
Author: David B. Dahl [aut, cre]
Maintainer: David B. Dahl <dahl@stat.byu.edu>
Diff between rscala versions 3.1.0 dated 2018-07-13 and 3.2.2 dated 2018-10-18
rscala-3.1.0/rscala/R/INTERNAL-scalaEvaluate.R |only rscala-3.1.0/rscala/R/scalaAddJAR.R |only rscala-3.1.0/rscala/R/scalaHeapMaximum.R |only rscala-3.1.0/rscala/R/scalaInfo.R |only rscala-3.1.0/rscala/R/scalaInstall.R |only rscala-3.1.0/rscala/R/scalaPackage.R |only rscala-3.1.0/rscala/R/scalaPackageUnload.R |only rscala-3.1.0/rscala/inst/java/scala-2.11/rscala_2.11-3.1.0.jar |only rscala-3.1.0/rscala/inst/java/scala-2.12/rscala_2.12-3.1.0.jar |only rscala-3.1.0/rscala/java/rscala-sources.jar |only rscala-3.1.0/rscala/man/dot-rscalaBridge.Rd |only rscala-3.1.0/rscala/man/dot-rscalaReference.Rd |only rscala-3.1.0/rscala/man/scalaAddJARs.Rd |only rscala-3.1.0/rscala/man/scalaHeapMaximum.Rd |only rscala-3.1.0/rscala/man/scalaInfo.Rd |only rscala-3.1.0/rscala/man/scalaInstall.Rd |only rscala-3.1.0/rscala/tests/testthat/tests-robjects.R |only rscala-3.1.0/rscala/tests/testthat/tests-serialization.R |only rscala-3.2.2/rscala/DESCRIPTION | 12 rscala-3.2.2/rscala/MD5 | 121 ++-- rscala-3.2.2/rscala/NAMESPACE | 35 - rscala-3.2.2/rscala/NEWS | 33 + rscala-3.2.2/rscala/R/INTERNAL-callback.R | 11 rscala-3.2.2/rscala/R/INTERNAL-checkConnection.R |only rscala-3.2.2/rscala/R/INTERNAL-io.R | 5 rscala-3.2.2/rscala/R/INTERNAL-pop.R | 10 rscala-3.2.2/rscala/R/INTERNAL-protocol.R | 6 rscala-3.2.2/rscala/R/INTERNAL-r2scala.R | 25 rscala-3.2.2/rscala/R/INTERNAL-scalaInvoke.R | 8 rscala-3.2.2/rscala/R/close.R | 2 rscala-3.2.2/rscala/R/deprecated.R |only rscala-3.2.2/rscala/R/dollar.R | 8 rscala-3.2.2/rscala/R/dollarNames.R | 4 rscala-3.2.2/rscala/R/is.scalaReference.R |only rscala-3.2.2/rscala/R/ops.R | 135 +--- rscala-3.2.2/rscala/R/print.R | 8 rscala-3.2.2/rscala/R/scala.R | 293 +++++----- rscala-3.2.2/rscala/R/scalaConfig.R |only rscala-3.2.2/rscala/R/scalaDisconnect.R |only rscala-3.2.2/rscala/R/scalaFindBridge.R |only rscala-3.2.2/rscala/R/scalaJARs.R |only rscala-3.2.2/rscala/R/scalaLast.R | 14 rscala-3.2.2/rscala/R/scalaLazy.R |only rscala-3.2.2/rscala/R/scalaMemory.R |only rscala-3.2.2/rscala/R/scalaPull.R |only rscala-3.2.2/rscala/R/scalaPush.R |only rscala-3.2.2/rscala/R/scalaPushRegister.R |only rscala-3.2.2/rscala/R/scalaSBT.R |only rscala-3.2.2/rscala/R/scalaType.R | 129 +++- rscala-3.2.2/rscala/R/scalaVersionJARs.R |only rscala-3.2.2/rscala/build |only rscala-3.2.2/rscala/configure |only rscala-3.2.2/rscala/configure.win |only rscala-3.2.2/rscala/inst/CITATION |only rscala-3.2.2/rscala/inst/COPYRIGHT | 2 rscala-3.2.2/rscala/inst/README | 13 rscala-3.2.2/rscala/inst/doc |only rscala-3.2.2/rscala/inst/java/scala-2.11/rscala_2.11-3.2.2.jar |only rscala-3.2.2/rscala/inst/java/scala-2.12/rscala_2.12-3.2.2.jar |only rscala-3.2.2/rscala/inst/java/scala-2.13.0-M5 |only rscala-3.2.2/rscala/java/rscala_2.12-3.2.2-sources.jar |only rscala-3.2.2/rscala/man/is.scalaReference.Rd |only rscala-3.2.2/rscala/man/plus-.rscalaBridge.Rd | 14 rscala-3.2.2/rscala/man/pow-.rscalaBridge.Rd | 16 rscala-3.2.2/rscala/man/scala.Rd | 70 -- rscala-3.2.2/rscala/man/scalaConfig.Rd |only rscala-3.2.2/rscala/man/scalaDisconnect.Rd |only rscala-3.2.2/rscala/man/scalaFindBridge.Rd |only rscala-3.2.2/rscala/man/scalaJARs.Rd |only rscala-3.2.2/rscala/man/scalaLast.Rd | 13 rscala-3.2.2/rscala/man/scalaLazy.Rd |only rscala-3.2.2/rscala/man/scalaMemory.Rd |only rscala-3.2.2/rscala/man/scalaPackage.Rd | 46 - rscala-3.2.2/rscala/man/scalaPackageUnload.Rd | 17 rscala-3.2.2/rscala/man/scalaPush.Rd |only rscala-3.2.2/rscala/man/scalaPushRegister.Rd |only rscala-3.2.2/rscala/man/scalaSBT.Rd |only rscala-3.2.2/rscala/man/scalaType.Rd | 92 ++- rscala-3.2.2/rscala/man/scalaVersionJARs.Rd |only rscala-3.2.2/rscala/man/times-.rscalaBridge.Rd | 10 rscala-3.2.2/rscala/tests/testthat/setup-instance.R | 4 rscala-3.2.2/rscala/tests/testthat/tests-lexical-scoping.R |only rscala-3.2.2/rscala/tests/testthat/tests-matrices.R | 3 rscala-3.2.2/rscala/tests/testthat/tests-object-serialization.R |only rscala-3.2.2/rscala/tests/testthat/tests-output-serialization.R |only rscala-3.2.2/rscala/tests/testthat/tests-transcompile.R | 84 ++ rscala-3.2.2/rscala/vignettes |only 87 files changed, 713 insertions(+), 530 deletions(-)
Title: Import, Manipulate and Explore the Results of an 'Antares'
Simulation
Description: Import, manipulate and explore results generated by 'Antares', a
powerful open source software developed by RTE (Réseau de Transport d’Électricité) to simulate and study electric power systems
(more information about 'Antares' here : <https://github.com/AntaresSimulatorTeam/Antares_Simulator>). You can see the results of several ANTARES studies here : <http://bpnumerique.rte-france.com/>.
Author: Jalal-Edine ZAWAM [aut, cre],
Francois Guillem [aut],
Benoit Thieurmel [aut],
Titouan Robert [aut],
RTE [cph]
Maintainer: Jalal-Edine ZAWAM <jalal-edine.zawam@rte-france.com>
Diff between antaresRead versions 2.2.0 dated 2018-09-28 and 2.2.1 dated 2018-10-18
DESCRIPTION | 6 ++--- MD5 | 17 +++++++------- NEWS | 7 +++++- R/importInput.R | 2 - R/setSimulationPath.R | 2 - inst/doc/antares.html | 4 +-- inst/doc/antaresH5.html | 10 ++++---- tests/testthat/test-getStartDate.R |only tests/testthat/test-readInputTS.R | 43 +++++++++++++++++++++++++++++++++++++ tests/testthat/test-setup.R | 42 ------------------------------------ 10 files changed, 70 insertions(+), 63 deletions(-)
Title: Scoring Modeling and Optimal Binning
Description: A set of functions to build a scoring model from beginning to end, leading the user
to follow an efficient and organized development process, reducing significantly the time
spent on data exploration, variable selection, feature engineering and binning, among other
recurrent tasks.
The package also incorporates monotonic and customized binning, scaling capabilities that
transforms logistic coefficients into points for a better business understanding and
calculates and visualizes classic performance metrics of a classification model.
Author: Herman Jopia
Maintainer: Herman Jopia <hjopia@gmail.com>
Diff between smbinning versions 0.6 dated 2018-02-22 and 0.7 dated 2018-10-18
DESCRIPTION | 16 +++---- MD5 | 13 +++-- R/smbinning.R | 102 ++++++++++++++++++++++++++++++++++++++++++++- data/binmonodf.RData |only data/chileancredit.RData |binary man/binmonodf.Rd |only man/chileancredit.Rd | 2 man/smbinning.metrics.Rd | 4 - man/smbinning.monotonic.Rd |only 9 files changed, 120 insertions(+), 17 deletions(-)
Title: Bagplots, Boxplots and Rainbow Plots for Functional Data
Description: Visualizing functional data and identifying functional outliers.
Author: Han Lin Shang and Rob J Hyndman
Maintainer: Han Lin Shang <hanlin.shang@anu.edu.au>
Diff between rainbow versions 3.4 dated 2016-01-03 and 3.5 dated 2018-10-18
ChangeLog | 6 + DESCRIPTION | 14 +- MD5 | 54 ++++----- R/fds.R | 8 + R/foutliers.R | 8 + R/fts.R | 9 - R/plot.fds.R | 188 ++++++++++++++++---------------- R/sfts.R | 12 -- build/vignette.rds |binary demo/fts.R | 4 demo/plot.fts.R | 4 inst/doc/rainbow.R | 20 +-- inst/doc/rainbow.Rnw | 34 ----- inst/doc/rainbow.pdf |binary man/Australiafertility.Rd | 92 ++++++++------- man/ElNino.Rd | 3 man/ElNino2011.Rd | 3 man/SVDplot.Rd | 2 man/fboxplot.Rd | 21 ++- man/fdepth.Rd | 26 ++-- man/fds.Rd | 4 man/foutliers.Rd | 26 ++-- man/plot.fdepth.Rd | 4 man/plot.fds.Rd | 8 - man/rainbow-package.Rd | 34 +++++ man/summaryfunction.Rd | 16 +- vignettes/Shang.bib | 266 ++++++++++++++++++++++------------------------ vignettes/rainbow.Rnw | 34 ----- 28 files changed, 452 insertions(+), 448 deletions(-)
Title: Meta-Analysis using Structural Equation Modeling
Description: A collection of functions for conducting meta-analysis using a
structural equation modeling (SEM) approach via the 'OpenMx' and
'lavaan' packages. It also implements various procedures to
perform meta-analytic structural equation modeling on the
correlation and covariance matrices.
Author: Mike W.-L. Cheung <mikewlcheung@nus.edu.sg>
Maintainer: Mike W.-L. Cheung <mikewlcheung@nus.edu.sg>
Diff between metaSEM versions 1.1.0 dated 2018-05-09 and 1.2.0 dated 2018-10-18
metaSEM-1.1.0/metaSEM/R/pattern.n.R |only metaSEM-1.1.0/metaSEM/R/pattern.na.R |only metaSEM-1.2.0/metaSEM/DESCRIPTION | 12 metaSEM-1.2.0/metaSEM/MD5 | 87 metaSEM-1.2.0/metaSEM/NAMESPACE | 5 metaSEM-1.2.0/metaSEM/NEWS | 11 metaSEM-1.2.0/metaSEM/R/asyCov.R | 8 metaSEM-1.2.0/metaSEM/R/checkRAM.R | 1 metaSEM-1.2.0/metaSEM/R/impliedR.R | 13 metaSEM-1.2.0/metaSEM/R/meta2semPlot.R | 5 metaSEM-1.2.0/metaSEM/R/osmasem.R |only metaSEM-1.2.0/metaSEM/R/pattern.R |only metaSEM-1.2.0/metaSEM/R/rerun.R | 4 metaSEM-1.2.0/metaSEM/R/summary.R | 24 metaSEM-1.2.0/metaSEM/R/tssem.R | 6 metaSEM-1.2.0/metaSEM/R/zzz.R | 13 metaSEM-1.2.0/metaSEM/README.md | 2 metaSEM-1.2.0/metaSEM/data/Gnambs18.rda |only metaSEM-1.2.0/metaSEM/data/Nam03.rda |only metaSEM-1.2.0/metaSEM/data/vanderPol17.rda |only metaSEM-1.2.0/metaSEM/inst/doc/Examples.html | 2105 ++++++++++++++++-- metaSEM-1.2.0/metaSEM/inst/doc/metaSEM.pdf |binary metaSEM-1.2.0/metaSEM/man/Aloe14.Rd | 3 metaSEM-1.2.0/metaSEM/man/BCG.Rd | 2 metaSEM-1.2.0/metaSEM/man/Cor2DataFrame.Rd |only metaSEM-1.2.0/metaSEM/man/Gnambs18.Rd |only metaSEM-1.2.0/metaSEM/man/Nam03.Rd |only metaSEM-1.2.0/metaSEM/man/Nohe15.Rd | 68 metaSEM-1.2.0/metaSEM/man/Norton13.Rd | 4 metaSEM-1.2.0/metaSEM/man/Roorda11.Rd | 4 metaSEM-1.2.0/metaSEM/man/VarCorr.Rd | 13 metaSEM-1.2.0/metaSEM/man/anova.Rd | 13 metaSEM-1.2.0/metaSEM/man/bootuniR1.Rd | 10 metaSEM-1.2.0/metaSEM/man/bootuniR2.Rd | 10 metaSEM-1.2.0/metaSEM/man/checkRAM.Rd | 3 metaSEM-1.2.0/metaSEM/man/coef.Rd | 13 metaSEM-1.2.0/metaSEM/man/create.Tau2.Rd |only metaSEM-1.2.0/metaSEM/man/create.V.Rd |only metaSEM-1.2.0/metaSEM/man/create.vechsR.Rd |only metaSEM-1.2.0/metaSEM/man/impliedR.Rd | 27 metaSEM-1.2.0/metaSEM/man/metaSEM-package.Rd | 21 metaSEM-1.2.0/metaSEM/man/osmasem.Rd |only metaSEM-1.2.0/metaSEM/man/osmasemR2.Rd |only metaSEM-1.2.0/metaSEM/man/osmasemSRMR.Rd |only metaSEM-1.2.0/metaSEM/man/pattern.na.Rd | 8 metaSEM-1.2.0/metaSEM/man/plot.Rd | 2 metaSEM-1.2.0/metaSEM/man/smdMES.Rd | 6 metaSEM-1.2.0/metaSEM/man/smdMTS.Rd | 5 metaSEM-1.2.0/metaSEM/man/summary.Rd | 17 metaSEM-1.2.0/metaSEM/man/tssemParaVar.Rd | 10 metaSEM-1.2.0/metaSEM/man/vanderPol17.Rd |only metaSEM-1.2.0/metaSEM/man/vcov.Rd | 14 metaSEM-1.2.0/metaSEM/tests/testthat/test_utilities.R | 87 53 files changed, 2315 insertions(+), 321 deletions(-)