Title: Flexible Genotyping for Polyploids
Description: Implements empirical Bayes approaches to genotype
polyploids from next generation sequencing data while
accounting for allelic bias, overdispersion, and sequencing
error. The main function is flexdog(), which allows the specification
of many different genotype distributions. An experimental
function that takes into account varying levels of relatedness
is implemented in mupdog(). Also provided are functions to
simulate genotypes, rgeno(), and read-counts, rflexdog(), as well as
functions to calculate oracle genotyping error rates, oracle_mis(), and
correlation with the true genotypes, oracle_cor(). These latter two
functions are useful for read depth calculations. Run
browseVignettes(package = "updog") in R for example usage. See
Gerard et al. (2018) <doi:10.1534/genetics.118.301468> and
Gerard and Ferrao (2019) <doi:10.1101/751784> for details on the
implemented methods.
Author: David Gerard [aut, cre] (<https://orcid.org/0000-0001-9450-5023>)
Maintainer: David Gerard <gerard.1787@gmail.com>
Diff between updog versions 1.1.0 dated 2019-07-31 and 1.1.1 dated 2019-09-09
updog-1.1.0/updog/inst/NEWS.md |only updog-1.1.1/updog/DESCRIPTION | 11 updog-1.1.1/updog/MD5 | 96 +- updog-1.1.1/updog/NEWS.md |only updog-1.1.1/updog/R/RcppExports.R | 28 updog-1.1.1/updog/R/ashdog.R | 24 updog-1.1.1/updog/R/data.R | 133 +-- updog-1.1.1/updog/R/oracle.R | 562 +++++++------ updog-1.1.1/updog/R/plot_mupdog.R | 566 +++++++------ updog-1.1.1/updog/R/rflexdog.R | 816 ++++++++++---------- updog-1.1.1/updog/R/updog.R | 285 +++--- updog-1.1.1/updog/R/vem.R | 6 updog-1.1.1/updog/README.md | 32 updog-1.1.1/updog/inst/CITATION | 68 + updog-1.1.1/updog/inst/doc/oracle_calculations.html | 4 updog-1.1.1/updog/inst/doc/parallel_computing.Rmd | 212 ++--- updog-1.1.1/updog/inst/doc/parallel_computing.html | 11 updog-1.1.1/updog/inst/doc/simulate_ngs.html | 4 updog-1.1.1/updog/inst/doc/smells_like_updog.html | 4 updog-1.1.1/updog/man/f1_obj.Rd | 2 updog-1.1.1/updog/man/flexdog.Rd | 15 updog-1.1.1/updog/man/flexdog_full.Rd | 14 updog-1.1.1/updog/man/mupdog.Rd | 6 updog-1.1.1/updog/man/obj_for_weighted_lnorm.Rd | 4 updog-1.1.1/updog/man/oracle_cor.Rd | 4 updog-1.1.1/updog/man/oracle_cor_from_joint.Rd | 5 updog-1.1.1/updog/man/oracle_joint.Rd | 4 updog-1.1.1/updog/man/oracle_mis.Rd | 4 updog-1.1.1/updog/man/oracle_mis_from_joint.Rd | 5 updog-1.1.1/updog/man/oracle_mis_vec.Rd | 4 updog-1.1.1/updog/man/oracle_mis_vec_from_joint.Rd | 5 updog-1.1.1/updog/man/oracle_plot.Rd | 5 updog-1.1.1/updog/man/pbetabinom_double.Rd | 4 updog-1.1.1/updog/man/plot.flexdog.Rd | 9 updog-1.1.1/updog/man/plot.mupdog.Rd | 9 updog-1.1.1/updog/man/plot_geno.Rd | 9 updog-1.1.1/updog/man/post_prob.Rd | 2 updog-1.1.1/updog/man/rflexdog.Rd | 8 updog-1.1.1/updog/man/rgeno.Rd | 8 updog-1.1.1/updog/man/snpdat.Rd | 11 updog-1.1.1/updog/man/uitdewilligen.Rd | 4 updog-1.1.1/updog/man/updog.Rd | 8 updog-1.1.1/updog/man/xi_fun.Rd | 2 updog-1.1.1/updog/src/betabinom.cpp | 2 updog-1.1.1/updog/src/flexdog.cpp | 2 updog-1.1.1/updog/src/objective.cpp | 4 updog-1.1.1/updog/src/oracle.cpp | 18 updog-1.1.1/updog/src/util_funs.cpp | 2 updog-1.1.1/updog/vignettes/genobib.bib | 12 updog-1.1.1/updog/vignettes/parallel_computing.Rmd | 212 ++--- 50 files changed, 1749 insertions(+), 1516 deletions(-)
Title: RNA-Seq Generation/Modification for Simulation
Description: Generates/modifies RNA-seq data for use in simulations. We provide
a suite of functions that will add a known amount of signal to a real
RNA-seq dataset. The advantage of using this approach over simulating under
a theoretical distribution is that common/annoying aspects of the data
are more preserved, giving a more realistic evaluation of your method.
The main functions are select_counts(), thin_diff(), thin_lib(),
thin_gene(), thin_2group(), thin_all(), and effective_cor(). See
Gerard (2019) <doi:10.1101/758524> for details on the
implemented methods.
Author: David Gerard [aut, cre] (<https://orcid.org/0000-0001-9450-5023>)
Maintainer: David Gerard <gerard.1787@gmail.com>
Diff between seqgendiff versions 1.1.0 dated 2019-08-05 and 1.1.1 dated 2019-09-09
DESCRIPTION | 10 MD5 | 46 - NEWS.md | 5 R/genthin.R | 1779 +++++++++++++++++++-------------------- R/permute.R | 676 +++++++------- R/seqgendiff.R | 9 README.md | 17 inst/CITATION | 6 inst/doc/different_thinners.R | 6 inst/doc/different_thinners.Rmd | 490 +++++----- inst/doc/different_thinners.html | 13 inst/doc/simulate_rnaseq.Rmd | 5 inst/doc/simulate_rnaseq.html | 4 man/effective_cor.Rd | 8 man/fix_cor.Rd | 8 man/seqgendiff.Rd | 8 man/thin_2group.Rd | 16 man/thin_all.Rd | 4 man/thin_base.Rd | 8 man/thin_diff.Rd | 10 man/thin_gene.Rd | 8 man/thin_lib.Rd | 8 vignettes/different_thinners.Rmd | 490 +++++----- vignettes/simulate_rnaseq.Rmd | 5 24 files changed, 1883 insertions(+), 1756 deletions(-)
Title: Summarizes Provenance Related to Inputs and Outputs of a Script
or Console Commands
Description: Reads the provenance collected by the 'rdt' or
'rdtLite' packages, or other tools providing compatible PROV JSON output
created by the execution of a script, and provides a human-readable
summary identifying the input and output files, the script used
(if any), errors and warnings produced, and the environment in
which it was executed. It can also optionally package all the
files into a zip file. The exact format of the JSON created by
'rdt' and 'rdtLite' is described in
<https://github.com/End-to-end-provenance/ExtendedProvJson>.
More information about 'rdtLite' and associated tools is available
at <https://github.com/End-to-end-provenance/> and Barbara Lerner,
Emery Boose, and Luis Perez (2018), Using Introspection to Collect
Provenance in R, Informatics, <doi: 10.3390/informatics5010012>.
Author: Barbara Lerner [cre],
Emery Boose [aut]
Maintainer: Barbara Lerner <blerner@mtholyoke.edu>
Diff between provSummarizeR versions 1.1 dated 2019-06-18 and 1.2 dated 2019-09-09
provSummarizeR-1.1/provSummarizeR/inst/testscripts/prov_warnings |only provSummarizeR-1.2/provSummarizeR/DESCRIPTION | 10 provSummarizeR-1.2/provSummarizeR/MD5 | 30 +- provSummarizeR-1.2/provSummarizeR/NEWS.md | 4 provSummarizeR-1.2/provSummarizeR/R/provSummarizeR.R | 71 ++++- provSummarizeR-1.2/provSummarizeR/README.md | 114 ++++----- provSummarizeR-1.2/provSummarizeR/inst/testdata/console.json | 48 ++- provSummarizeR-1.2/provSummarizeR/inst/testdata/files.json | 70 +++-- provSummarizeR-1.2/provSummarizeR/inst/testdata/prov.json | 122 ++++++++-- provSummarizeR-1.2/provSummarizeR/inst/testscripts/prov.R | 2 provSummarizeR-1.2/provSummarizeR/inst/testsummaries/console.expected | 14 - provSummarizeR-1.2/provSummarizeR/inst/testsummaries/files.expected | 23 + provSummarizeR-1.2/provSummarizeR/inst/testsummaries/prov.expected | 25 +- provSummarizeR-1.2/provSummarizeR/inst/testsummaries/warnings.expected | 17 - provSummarizeR-1.2/provSummarizeR/man/summarize.Rd | 1 provSummarizeR-1.2/provSummarizeR/tests/testthat/test_provSummarize.R | 4 16 files changed, 363 insertions(+), 192 deletions(-)
More information about provSummarizeR at CRAN
Permanent link
Title: Widen, Process, then Re-Tidy Data
Description: Encapsulates the pattern of untidying data into a wide matrix,
performing some processing, then turning it back into a tidy form. This
is useful for several operations such as co-occurrence counts,
correlations, or clustering that are mathematically convenient on wide matrices.
Author: David Robinson [aut, cre],
Kanishka Misra [ctb]
Maintainer: David Robinson <admiral.david@gmail.com>
Diff between widyr versions 0.1.1 dated 2018-03-10 and 0.1.2 dated 2019-09-09
DESCRIPTION | 9 +- MD5 | 28 +++---- NEWS.md | 5 + R/globals.R | 2 R/pairwise_pmi.R | 8 +- R/squarely.R | 9 +- R/widely.R | 11 +-- README.md | 151 +++++++++++++++++++++---------------------- build/vignette.rds |binary inst/doc/intro.Rmd | 2 inst/doc/intro.html | 78 +++++++++++++++------- inst/doc/united_nations.html | 49 +++++++++++-- man/pairwise_pmi.Rd | 4 - man/widely_svd.Rd | 3 vignettes/intro.Rmd | 2 15 files changed, 213 insertions(+), 148 deletions(-)
Title: High-Dimensional Undirected Graph Estimation
Description: Provides a general framework for
high-dimensional undirected graph estimation. It integrates
data preprocessing, neighborhood screening, graph estimation,
and model selection techniques into a pipeline. In
preprocessing stage, the nonparanormal(npn) transformation is
applied to help relax the normality assumption. In the graph
estimation stage, the graph structure is estimated by
Meinshausen-Buhlmann graph estimation or the graphical lasso,
and both methods can be further accelerated by the lossy
screening rule preselecting the neighborhood of each variable
by correlation thresholding. We target on high-dimensional data
analysis usually d >> n, and the computation is
memory-optimized using the sparse matrix output. We also
provide a computationally efficient approach, correlation
thresholding graph estimation. Three
regularization/thresholding parameter selection methods are
included in this package: (1)stability approach for
regularization selection (2) rotation information criterion (3)
extended Bayesian information criterion which is only available
for the graphical lasso.
Author: Haoming Jiang, Xinyu Fei, Han Liu, Kathryn Roeder, John Lafferty, Larry
Wasserman, Xingguo Li, and Tuo Zhao
Maintainer: Haoming Jiang <jianghm.ustc@gmail.com>
Diff between huge versions 1.3.2 dated 2019-04-08 and 1.3.3 dated 2019-09-09
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- R/huge.mb.R | 3 +-- R/huge.plot.R | 19 ++++++++++--------- R/huge.tiger.R | 3 +-- inst/doc/vignette.Rnw | 4 ++-- inst/doc/vignette.pdf |binary src/SPMBgraphlasso.cpp | 2 +- src/SPMBgraphsqrt.cpp | 2 +- vignettes/vignette.Rnw | 4 ++-- 10 files changed, 31 insertions(+), 32 deletions(-)
Title: Detect Heatwaves and Cold-Spells
Description: The different methods of defining and detecting extreme events, known as heatwaves or cold-spells in both air and water temperature data are encompassed within this package. These detection algorithms may be used on non-temperature data as well however, this is not catered for explicitly here as no use of this technique in the literature currently exists.
Author: Robert W. Schlegel [aut, cre, ctb]
(<https://orcid.org/0000-0002-0705-1287>),
Albertus J. Smit [aut, ctb] (<https://orcid.org/0000-0002-3799-6126>)
Maintainer: Robert W. Schlegel <robwschlegel@gmail.com>
Diff between heatwaveR versions 0.4.0 dated 2019-07-11 and 0.4.1 dated 2019-09-09
DESCRIPTION | 11 +- MD5 | 42 ++++---- NEWS.md | 14 ++ R/category.R | 69 +++++++++---- build/vignette.rds |binary inst/doc/OISST_preparation.R | 92 ++++++++---------- inst/doc/OISST_preparation.Rmd | 142 +++++++++++++--------------- inst/doc/OISST_preparation.html | 149 +++++++++++++++--------------- inst/doc/complex_clims.R | 2 inst/doc/complex_clims.Rmd | 2 inst/doc/complex_clims.html | 20 ++-- inst/doc/detection_and_visualisation.html | 36 ++++--- inst/doc/event_categories.html | 14 +- inst/doc/exceedance.html | 14 +- inst/doc/gridded_event_detection.R | 53 +++------- inst/doc/gridded_event_detection.Rmd | 86 +++++++---------- inst/doc/gridded_event_detection.html | 125 ++++++++++++------------- man/category.Rd | 17 ++- tests/testthat/test-category.R | 11 ++ vignettes/OISST_preparation.Rmd | 142 +++++++++++++--------------- vignettes/complex_clims.Rmd | 2 vignettes/gridded_event_detection.Rmd | 86 +++++++---------- 22 files changed, 569 insertions(+), 560 deletions(-)
Title: Language Server Protocol
Description: An implementation of the Language Server Protocol for R. The Language Server protocol is used by an editor client to integrate features like auto completion. See <https://microsoft.github.io/language-server-protocol> for details.
Author: Randy Lai
Maintainer: Randy Lai <randy.cs.lai@gmail.com>
Diff between languageserver versions 0.2.9 dated 2019-03-28 and 0.3.0 dated 2019-09-09
languageserver-0.2.9/languageserver/man/stylize.Rd |only languageserver-0.3.0/languageserver/DESCRIPTION | 8 languageserver-0.3.0/languageserver/MD5 | 55 ++++-- languageserver-0.3.0/languageserver/NEWS.md | 8 languageserver-0.3.0/languageserver/R/capabilities.R | 9 - languageserver-0.3.0/languageserver/R/definition.R |only languageserver-0.3.0/languageserver/R/document.R | 16 + languageserver-0.3.0/languageserver/R/formatting.R | 42 ++++- languageserver-0.3.0/languageserver/R/handlers-langfeatures.R | 14 - languageserver-0.3.0/languageserver/R/handlers-workspace.R | 5 languageserver-0.3.0/languageserver/R/interfaces.R | 82 ++++++++++ languageserver-0.3.0/languageserver/R/languageclient.R | 4 languageserver-0.3.0/languageserver/R/languageserver.R | 7 languageserver-0.3.0/languageserver/R/utils.R | 4 languageserver-0.3.0/languageserver/R/workspace.R | 43 ++++- languageserver-0.3.0/languageserver/README.md | 6 languageserver-0.3.0/languageserver/man/DefinitionCache.Rd |only languageserver-0.3.0/languageserver/man/Logger.Rd | 12 - languageserver-0.3.0/languageserver/man/ServerCapabilities.Rd | 3 languageserver-0.3.0/languageserver/man/definition_reply.Rd |only languageserver-0.3.0/languageserver/man/document_symbol_reply.Rd |only languageserver-0.3.0/languageserver/man/document_uri.Rd |only languageserver-0.3.0/languageserver/man/location.Rd | 2 languageserver-0.3.0/languageserver/man/position.Rd | 3 languageserver-0.3.0/languageserver/man/range.Rd | 3 languageserver-0.3.0/languageserver/man/style_file.Rd |only languageserver-0.3.0/languageserver/man/style_text.Rd |only languageserver-0.3.0/languageserver/man/symbol_information.Rd |only languageserver-0.3.0/languageserver/man/text_document_definition.Rd | 3 languageserver-0.3.0/languageserver/man/text_document_document_symbol.Rd | 3 languageserver-0.3.0/languageserver/man/workspace_symbol.Rd | 3 languageserver-0.3.0/languageserver/man/workspace_symbol_reply.Rd |only languageserver-0.3.0/languageserver/tests/testthat/helper-utils.R |only languageserver-0.3.0/languageserver/tests/testthat/test-definition.R |only languageserver-0.3.0/languageserver/tests/testthat/test-symbol.R |only 35 files changed, 252 insertions(+), 83 deletions(-)
More information about languageserver at CRAN
Permanent link
Title: Fingertips Data for Public Health
Description: Fingertips (<http://fingertips.phe.org.uk/>) contains data for many indicators of public health in England. The underlying data is now more easily accessible by making use of the API.
Author: Sebastian Fox [aut, cre],
Julian Flowers [aut, ctb],
Simon Thelwall [ctb] (<https://orcid.org/0000-0002-0434-2724>),
Duncan Gormansway [ctb],
Carl Ganz [ctb],
David Whiting [ctb],
Crown Copyright 2018 [cph]
Maintainer: Sebastian Fox <sebastian.fox@phe.gov.uk>
Diff between fingertipsR versions 0.2.7 dated 2019-07-18 and 0.2.8 dated 2019-09-09
fingertipsR-0.2.7/fingertipsR/tests/testthat.R |only fingertipsR-0.2.8/fingertipsR/DESCRIPTION | 8 fingertipsR-0.2.8/fingertipsR/MD5 | 54 +++--- fingertipsR-0.2.8/fingertipsR/NAMESPACE | 1 fingertipsR-0.2.8/fingertipsR/NEWS.md | 8 fingertipsR-0.2.8/fingertipsR/R/area_types.R | 14 + fingertipsR-0.2.8/fingertipsR/R/deprivation_decile.R | 9 - fingertipsR-0.2.8/fingertipsR/R/fingertips_data.R | 3 fingertipsR-0.2.8/fingertipsR/R/indicator_metadata.R | 4 fingertipsR-0.2.8/fingertipsR/R/indicators.R | 9 - fingertipsR-0.2.8/fingertipsR/R/profiles.R | 3 fingertipsR-0.2.8/fingertipsR/R/utils.R | 25 ++ fingertipsR-0.2.8/fingertipsR/build/vignette.rds |binary fingertipsR-0.2.8/fingertipsR/inst/doc/lifeExpectancy.R | 2 fingertipsR-0.2.8/fingertipsR/inst/doc/lifeExpectancy.Rmd | 2 fingertipsR-0.2.8/fingertipsR/inst/doc/lifeExpectancy.html | 90 +++++----- fingertipsR-0.2.8/fingertipsR/inst/doc/selectIndicatorsRedRed.html | 8 fingertipsR-0.2.8/fingertipsR/man/deprivation_decile.Rd | 5 fingertipsR-0.2.8/fingertipsR/man/fingertips_endpoint.Rd |only fingertipsR-0.2.8/fingertipsR/man/fingertips_ensure_api_available.Rd |only fingertipsR-0.2.8/fingertipsR/man/indicator_areatypes.Rd | 2 fingertipsR-0.2.8/fingertipsR/tests/a-m.R |only fingertipsR-0.2.8/fingertipsR/tests/n-z.R |only fingertipsR-0.2.8/fingertipsR/tests/testthat/test-area_types.R | 21 ++ fingertipsR-0.2.8/fingertipsR/tests/testthat/test-deprivation.R | 14 + fingertipsR-0.2.8/fingertipsR/tests/testthat/test-enhancements.R | 5 fingertipsR-0.2.8/fingertipsR/tests/testthat/test-extract.R | 40 ++++ fingertipsR-0.2.8/fingertipsR/tests/testthat/test-indicators.R | 12 + fingertipsR-0.2.8/fingertipsR/tests/testthat/test-metadata.R | 10 + fingertipsR-0.2.8/fingertipsR/tests/testthat/test-utils.R |only fingertipsR-0.2.8/fingertipsR/vignettes/lifeExpectancy.Rmd | 2 31 files changed, 256 insertions(+), 95 deletions(-)
Title: Produce Charts that you See on the Fingertips Website
Description: Use Fingertips charts to recreate the visualisations
that are displayed on the Fingertips website (<http://fingertips.phe.org.uk/>).
Author: Sebastian Fox [aut, cre]
Maintainer: Sebastian Fox <sebastian.fox@phe.gov.uk>
Diff between fingertipscharts versions 0.0.8 dated 2019-07-18 and 0.0.9 dated 2019-09-09
DESCRIPTION | 8 MD5 | 32 - NEWS.md | 12 R/quick_charts.R | 259 +++++++------ R/utils.R |only inst/doc/quick_charts.R | 4 inst/doc/quick_charts.Rmd | 4 inst/doc/quick_charts.html | 10 man/area_profiles.Rd | 38 + man/box_plots.Rd | 2 man/ensure_ons_api_available.Rd |only man/map.Rd | 2 tests/figs/area-profiles-example/area-profiles-example.svg | 2 tests/figs/deps.txt | 2 tests/testthat/test-area-profiles.R | 26 + tests/testthat/test-examples.R | 6 tests/testthat/test-map.R | 15 vignettes/quick_charts.Rmd | 4 18 files changed, 270 insertions(+), 156 deletions(-)
More information about fingertipscharts at CRAN
Permanent link
Title: Multi-Category Classification Accuracy
Description: It contains six common multi-category classification accuracy evaluation measures.
All of these measures could be found in Li and Ming (2019) <doi:10.1002/sim.8103>. Specifically,
Hypervolume Under Manifold (HUM), described in
Li and Fine (2008) <doi:10.1093/biostatistics/kxm050>.
Correct Classification Percentage (CCP), Integrated Discrimination Improvement (IDI), Net Reclassification Improvement (NRI), R-Squared Value (RSQ), described in
Li, Jiang and Fine (2013) <doi:10.1093/biostatistics/kxs047>.
Polytomous Discrimination Index (PDI), described in
Van Calster et al. (2012) <doi:10.1007/s10654-012-9733-3>.
Li et al. (2018) <doi:10.1177/0962280217692830>.
We described all these above measures and our mcca package in
Li, Gao and D'Agostino (2019) <doi:10.1002/sim.8103>.
Author: Ming Gao, Jialiang Li
Maintainer: Ming Gao <gaoming@umich.edu>
Diff between mcca versions 0.5.0 dated 2019-02-05 and 0.6.0 dated 2019-09-09
DESCRIPTION | 11 - MD5 | 48 ++++--- NAMESPACE | 7 + R/ccp.R | 232 +++++++++----------------------------- R/estp.R | 39 +++--- R/ests.R | 43 +++---- R/hum.R | 186 +++--------------------------- R/idi.R | 303 +------------------------------------------------- R/nri.R | 12 - R/pdi.R | 269 +++++++++++--------------------------------- R/pm.R | 124 +++++--------------- R/rsq.R | 226 +++++++------------------------------ R/utils.R |only man/ccp.Rd | 77 ++++++++---- man/estp.Rd | 20 +-- man/ests.Rd | 22 +-- man/hum.Rd | 36 +++-- man/idi.Rd | 23 ++- man/mcca-package.Rd | 42 ++---- man/nri.Rd | 30 ++-- man/pdi.Rd | 42 ++++-- man/plot.mcca.hum.Rd |only man/pm.Rd | 8 - man/print.mcca.ccp.Rd |only man/print.mcca.hum.Rd |only man/print.mcca.pdi.Rd |only man/print.mcca.rsq.Rd |only man/rsq.Rd | 58 ++++++--- 28 files changed, 534 insertions(+), 1324 deletions(-)
Title: Nonlinear Nonparametric Statistics
Description: Nonlinear nonparametric statistics using partial moments. Partial moments are the elements of variance and asymptotically approximate the area of f(x). These robust statistics provide the basis for nonlinear analysis while retaining linear equivalences. NNS offers: Numerical integration, Numerical differentiation, Clustering, Correlation, Dependence, Causal analysis, ANOVA, Regression, Classification, Seasonality, Autoregressive modeling, Normalization and Stochastic dominance. All routines based on: Viole, F. and Nawrocki, D. (2013), Nonlinear Nonparametric Statistics: Using Partial Moments (ISBN: 1490523995).
Author: Fred Viole
Maintainer: Fred Viole <ovvo.financial.systems@gmail.com>
Diff between NNS versions 0.4.4 dated 2019-08-08 and 0.4.5 dated 2019-09-09
NNS-0.4.4/NNS/R/Co_PM_cor.R |only NNS-0.4.4/NNS/man/NNS.cor.hd.Rd |only NNS-0.4.5/NNS/DESCRIPTION | 8 NNS-0.4.5/NNS/MD5 | 90 - NNS-0.4.5/NNS/NAMESPACE | 3 NNS-0.4.5/NNS/R/ARMA.R | 41 NNS-0.4.5/NNS/R/ARMA_optim.R | 86 + NNS-0.4.5/NNS/R/Boost.R | 552 +++++----- NNS-0.4.5/NNS/R/Causal_matrix.R | 4 NNS-0.4.5/NNS/R/Causation.R | 57 - NNS-0.4.5/NNS/R/Co_PM_dep.R |only NNS-0.4.5/NNS/R/Correlation.R | 5 NNS-0.4.5/NNS/R/Dependence.R | 111 +- NNS-0.4.5/NNS/R/Dependence_base.R | 35 NNS-0.4.5/NNS/R/Internal_Functions.R | 102 + NNS-0.4.5/NNS/R/Multivariate_Regression.R | 53 NNS-0.4.5/NNS/R/NNS_Distance.R | 27 NNS-0.4.5/NNS/R/Partial_Moments.R | 32 NNS-0.4.5/NNS/R/Regression.R | 319 +++-- NNS-0.4.5/NNS/R/Seasonality_Test.R | 73 - NNS-0.4.5/NNS/R/Stack.R | 303 ++--- NNS-0.4.5/NNS/R/Uni_Causation.R | 71 - NNS-0.4.5/NNS/R/dy_d_wrt.R | 170 +-- NNS-0.4.5/NNS/R/gvload.R | 2 NNS-0.4.5/NNS/inst/doc/NNSvignette_Classification.Rmd | 4 NNS-0.4.5/NNS/inst/doc/NNSvignette_Classification.html | 35 NNS-0.4.5/NNS/inst/doc/NNSvignette_Clustering_and_Regression.R | 2 NNS-0.4.5/NNS/inst/doc/NNSvignette_Clustering_and_Regression.Rmd | 2 NNS-0.4.5/NNS/inst/doc/NNSvignette_Clustering_and_Regression.html | 145 +- NNS-0.4.5/NNS/inst/doc/NNSvignette_Correlation_and_Dependence.R | 5 NNS-0.4.5/NNS/inst/doc/NNSvignette_Correlation_and_Dependence.Rmd | 12 NNS-0.4.5/NNS/inst/doc/NNSvignette_Correlation_and_Dependence.html | 23 NNS-0.4.5/NNS/inst/doc/NNSvignette_Forecasting.R | 11 NNS-0.4.5/NNS/inst/doc/NNSvignette_Forecasting.Rmd | 18 NNS-0.4.5/NNS/inst/doc/NNSvignette_Forecasting.html | 74 - NNS-0.4.5/NNS/man/NNS.ARMA.Rd | 2 NNS-0.4.5/NNS/man/NNS.ARMA.optim.Rd | 17 NNS-0.4.5/NNS/man/NNS.boost.Rd | 14 NNS-0.4.5/NNS/man/NNS.caus.Rd | 20 NNS-0.4.5/NNS/man/NNS.cor.Rd | 5 NNS-0.4.5/NNS/man/NNS.dep.Rd | 5 NNS-0.4.5/NNS/man/NNS.dep.hd.Rd |only NNS-0.4.5/NNS/man/NNS.reg.Rd | 8 NNS-0.4.5/NNS/man/dy.d_.Rd | 27 NNS-0.4.5/NNS/vignettes/NNSvignette_Classification.Rmd | 4 NNS-0.4.5/NNS/vignettes/NNSvignette_Clustering_and_Regression.Rmd | 2 NNS-0.4.5/NNS/vignettes/NNSvignette_Correlation_and_Dependence.Rmd | 12 NNS-0.4.5/NNS/vignettes/NNSvignette_Forecasting.Rmd | 18 48 files changed, 1446 insertions(+), 1163 deletions(-)
Title: Moments of Folded and Doubly Truncated Multivariate
Distributions
Description: It computes the raw moments for the truncated and folded multivariate normal, Skew-normal (SN), Extended skew normal (ESN) and Student's t-distribution. It also offers specific functions to compute the mean and variance-covariance matrix as well as the cumulative distribution function (cdf) for the folded normal, SN, ESN, and folded t-distribution. Density and random deviates are offered for the ESN (SN as particular case) distribution. Most algorithms are extensions based on Kan, R., & Robotti, C. (2017) <doi:10.1080/10618600.2017.1322092>.
Author: Christian E. Galarza, Victor H. Lachos
Maintainer: Christian E. Galarza <cgalarza88@gmail.com>
Diff between MomTrunc versions 3.19 dated 2019-07-19 and 4.51 dated 2019-09-09
DESCRIPTION | 6 +-- MD5 | 56 ++++++++++++++++------------ NAMESPACE | 4 +- R/AUX_correctors.R | 100 ++++++++++++++++++++++++++++++++++++++++++--------- R/AUX_esn.R | 17 +++++--- R/AUX_qfuns.R | 4 +- R/ESN_mean.R |only R/TESN1_mean.R | 8 +++- R/TESN1_mv.R | 8 +++- R/TESN_mean.R |only R/TESN_mom.R | 2 - R/TESN_mv.R | 14 ++----- R/TN_mean.R |only R/TN_mv_Kan.R | 45 +++++++++++++++++----- R/TN_mv_Vaida.R | 94 +++++++++++++++++++++++++++++++++++++++++------ R/USER_dmvESN.R | 18 +++------ R/USER_dmvSN.R |only R/USER_meanvarFMD.R | 2 + R/USER_meanvarTMD.R | 2 + R/USER_momentsFMD.R | 2 + R/USER_momentsTMD.R | 2 + R/USER_onlymeanTMD.R |only R/USER_pmvESN.R | 8 ++-- R/USER_rmvESN.R | 19 ++++++++- R/USER_rmvSN.R |only man/drmvESN.Rd | 6 +-- man/drmvSN.Rd |only man/meanvarFMD.Rd | 2 - man/meanvarTMD.Rd | 2 - man/momentsFMD.Rd | 2 - man/momentsTMD.Rd | 2 - man/onlymeanTMD.Rd |only man/pmvESN.Rd | 7 ++- 33 files changed, 314 insertions(+), 118 deletions(-)
Title: Animal Activity Statistics
Description: Provides functions to express clock time data relative to
anchor points (typically solar); fit kernel density functions to animal
activity time data; plot activity distributions; quantify overall
levels of activity; statistically compare activity metrics through
bootstrapping; evaluate variation in linear variables with time (or
other circular variables).
Author: Marcus Rowcliffe
Maintainer: Marcus Rowcliffe <marcus.rowcliffe@ioz.ac.uk>
Diff between activity versions 1.2 dated 2019-01-16 and 1.3 dated 2019-09-09
activity-1.2/activity/man/ovl5.Rd |only activity-1.3/activity/DESCRIPTION | 19 +- activity-1.3/activity/MD5 | 19 +- activity-1.3/activity/NAMESPACE | 7 activity-1.3/activity/R/activity_code.r | 218 ++++++++++++++++++++++++++++-- activity-1.3/activity/data/BCItime.rda |binary activity-1.3/activity/man/cmean.Rd |only activity-1.3/activity/man/compareCkern.Rd | 2 activity-1.3/activity/man/density2.Rd | 2 activity-1.3/activity/man/gettime.Rd |only activity-1.3/activity/man/ovl4.Rd |only activity-1.3/activity/man/solartime.Rd |only activity-1.3/activity/man/transtime.Rd |only activity-1.3/activity/man/wrap.Rd |only 14 files changed, 239 insertions(+), 28 deletions(-)
Title: Raw Accelerometer Data Analysis
Description: A tool to process and analyse data collected with wearable raw acceleration sensors as described in van Hees and colleagues (2014) <doi: 10.1152/japplphysiol.00421.2014> and (2015) <doi: 10.1371/journal.pone.0142533>. The package has been developed and tested for binary data from 'GENEActiv' <https://www.activinsights.com/> and GENEA devices (not for sale), .csv-export data from 'Actigraph' <http://actigraphcorp.com> devices, and .cwa and .wav-format data from 'Axivity' <https://axivity.com/product/ax3>. These devices are currently widely used in research on human daily physical activity. Further, the package can handle accelerometer data file from any other sensor brand providing that the data is stored in csv format and has either no header or a two column header.
Author: Vincent T van Hees [aut, cre],
Zhou Fang [ctb],
Jing Hua Zhao [ctb],
Joe Heywood [ctb],
Evgeny Mirkes [ctb],
Severine Sabia [ctb],
Joan Capdevila Pujol [ctb],
Jairo H Migueles [ctb]
Maintainer: Vincent T van Hees <vincentvanhees@gmail.com>
Diff between GGIR versions 1.10-3 dated 2019-09-08 and 1.10-4 dated 2019-09-09
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ inst/NEWS.Rd | 2 +- inst/doc/GGIR.Rmd | 2 +- inst/doc/GGIR.html | 2 +- man/GGIR-package.Rd | 4 ++-- vignettes/GGIR.Rmd | 2 +- 7 files changed, 16 insertions(+), 16 deletions(-)
Title: Tools for Choice Model Estimation and Application
Description: The Choice Modelling Centre (CMC) at the University of Leeds
has developed flexible code for the estimation and application
of choice models in R. Users are able to write their own
model functions or use a mix of already available ones. Random heterogeneity,
both continuous and discrete and at the level of individuals and
choices, can be incorporated for all models. There is support for both standalone
models and hybrid model structures. Both classical
and Bayesian estimation is available, and multiple discrete
continuous models are covered in addition to discrete choice.
Multi-threading processing is supported for estimation and a large
number of pre and post-estimation routines, including for computing posterior
(individual-level) distributions are available.
For examples, a manual, and a support forum, visit
www.ApolloChoiceModelling.com. For more information on choice
models see Train, K. (2009) <isbn:978-0-521-74738-7> and Hess,
S. & Daly, A.J. (2014) <isbn:978-1-781-00314-5> for an overview
of the field.
Author: Stephane Hess [aut],
David Palma [aut, cre]
Maintainer: David Palma <D.Palma@leeds.ac.uk>
Diff between apollo versions 0.0.7 dated 2019-05-08 and 0.0.8 dated 2019-09-09
apollo-0.0.7/apollo/R/apollo_lcUnconditionals.r |only apollo-0.0.7/apollo/tests/testthat.R |only apollo-0.0.8/apollo/DESCRIPTION | 6 apollo-0.0.8/apollo/MD5 | 119 + apollo-0.0.8/apollo/NAMESPACE | 2 apollo-0.0.8/apollo/R/apollo_attach.R | 3 apollo-0.0.8/apollo/R/apollo_bootstrap.R |only apollo-0.0.8/apollo/R/apollo_checkArguments.R |only apollo-0.0.8/apollo/R/apollo_choiceAnalysis.R | 101 + apollo-0.0.8/apollo/R/apollo_cnl.R | 371 ++--- apollo-0.0.8/apollo/R/apollo_combineResults.R | 1 apollo-0.0.8/apollo/R/apollo_conditionals.R | 5 apollo-0.0.8/apollo/R/apollo_deltaMethod.R | 11 apollo-0.0.8/apollo/R/apollo_dft.R | 15 apollo-0.0.8/apollo/R/apollo_el.R | 32 apollo-0.0.8/apollo/R/apollo_estimate.R | 135 +- apollo-0.0.8/apollo/R/apollo_firstRow.R | 2 apollo-0.0.8/apollo/R/apollo_fitsTest.R | 39 apollo-0.0.8/apollo/R/apollo_insertRows.R |only apollo-0.0.8/apollo/R/apollo_keepRows.R |only apollo-0.0.8/apollo/R/apollo_lcConditionals.R | 2 apollo-0.0.8/apollo/R/apollo_lcUnconditionals.R |only apollo-0.0.8/apollo/R/apollo_llCalc.R | 4 apollo-0.0.8/apollo/R/apollo_makeCluster.R | 12 apollo-0.0.8/apollo/R/apollo_makeDraws.R | 11 apollo-0.0.8/apollo/R/apollo_mdcev.R | 44 apollo-0.0.8/apollo/R/apollo_mdcevInside.R | 20 apollo-0.0.8/apollo/R/apollo_mdcevOutside.R | 150 -- apollo-0.0.8/apollo/R/apollo_mdcnev.R | 162 +- apollo-0.0.8/apollo/R/apollo_mnl.R | 375 ++---- apollo-0.0.8/apollo/R/apollo_modelOutput.R | 46 apollo-0.0.8/apollo/R/apollo_nl.R | 467 ++----- apollo-0.0.8/apollo/R/apollo_normalDensity.R | 62 apollo-0.0.8/apollo/R/apollo_ol.R | 161 +- apollo-0.0.8/apollo/R/apollo_outOfSample.R | 161 +- apollo-0.0.8/apollo/R/apollo_prediction.R | 24 apollo-0.0.8/apollo/R/apollo_saveOutput.R | 10 apollo-0.0.8/apollo/R/apollo_searchStart.R | 2 apollo-0.0.8/apollo/R/apollo_setRows.R |only apollo-0.0.8/apollo/R/apollo_sharesTest.R | 42 apollo-0.0.8/apollo/R/apollo_speedTest.R | 2 apollo-0.0.8/apollo/R/apollo_splitDataDraws.R | 92 - apollo-0.0.8/apollo/R/apollo_unconditionals.R | 4 apollo-0.0.8/apollo/R/apollo_validateData.R | 2 apollo-0.0.8/apollo/R/apollo_validateInputs.R | 75 - apollo-0.0.8/apollo/build/vignette.rds |binary apollo-0.0.8/apollo/inst/CITATION | 10 apollo-0.0.8/apollo/inst/doc/apollofirstexample.html | 1181 +++++++++++-------- apollo-0.0.8/apollo/man/apollo_bootstrap.Rd |only apollo-0.0.8/apollo/man/apollo_choiceAnalysis.Rd | 6 apollo-0.0.8/apollo/man/apollo_cnl.Rd | 18 apollo-0.0.8/apollo/man/apollo_deltaMethod.Rd | 1 apollo-0.0.8/apollo/man/apollo_estimate.Rd | 49 apollo-0.0.8/apollo/man/apollo_insertRows.Rd |only apollo-0.0.8/apollo/man/apollo_keepRows.Rd |only apollo-0.0.8/apollo/man/apollo_lcUnconditionals.Rd | 2 apollo-0.0.8/apollo/man/apollo_mdcev.Rd | 7 apollo-0.0.8/apollo/man/apollo_mdcevOutside.Rd | 6 apollo-0.0.8/apollo/man/apollo_mdcnev.Rd | 1 apollo-0.0.8/apollo/man/apollo_modelOutput.Rd | 2 apollo-0.0.8/apollo/man/apollo_ol.Rd | 2 apollo-0.0.8/apollo/man/apollo_outOfSample.Rd | 31 apollo-0.0.8/apollo/man/apollo_saveOutput.Rd | 2 apollo-0.0.8/apollo/man/apollo_setRows.Rd |only apollo-0.0.8/apollo/man/apollo_unconditionals.Rd | 2 apollo-0.0.8/apollo/man/apollo_validateInputs.Rd | 36 apollo-0.0.8/apollo/tests/homeUse_v6_long.csv |only 67 files changed, 2117 insertions(+), 2011 deletions(-)
Title: (Randomized) Quasi-Random Number Generators
Description: Functionality for generating (randomized) quasi-random numbers in
high dimensions.
Author: Marius Hofert [aut, cre],
Christiane Lemieux [aut]
Maintainer: Marius Hofert <marius.hofert@uwaterloo.ca>
Diff between qrng versions 0.0-6 dated 2019-08-07 and 0.0-7 dated 2019-09-09
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- R/qrng.R | 2 +- R/test_functions.R | 4 ++-- TODO | 2 +- demo/sobol_examples.R | 7 ++++++- man/qrng.Rd | 29 +++++++++++++++++++---------- src/ghalton.c | 22 +++++++++++----------- src/korobov.c | 26 +++++++++++++------------- src/sobol.c | 9 ++++----- 10 files changed, 69 insertions(+), 56 deletions(-)
Title: Jack, Zonal, and Schur Polynomials
Description: Symbolic calculation and evaluation of the Jack polynomials, zonal polynomials, and Schur polynomials. Mainly based on Demmel & Koev's paper (2006) <doi:10.1090/S0025-5718-05-01780-1>. Zonal polynomials and Schur polynomials are particular cases of Jack polynomials. Zonal polynomials appear in random matrix theory. Schur polynomials appear in the field of combinatorics.
Author: Stéphane Laurent
Maintainer: Stéphane Laurent <laurent_step@outlook.fr>
Diff between jack versions 1.0.0 dated 2019-08-25 and 1.1.0 dated 2019-09-09
DESCRIPTION | 10 ++++--- MD5 | 41 ++++++++++++++-------------- NEWS.md |only R/EvalNaive.R | 20 +++++++++++--- R/Jack.R | 16 ++++++++--- R/Polynomials.R | 42 ++++++++++++++++++++++++++--- R/Schur.R | 4 +- R/Zonal.R | 4 +- R/ZonalQ.R | 6 ++-- R/internal.R | 9 +++--- man/Jack.Rd | 4 +- man/JackPol.Rd | 3 +- man/Schur.Rd | 4 +- man/SchurPol.Rd | 3 +- man/Zonal.Rd | 4 +- man/ZonalPol.Rd | 3 +- man/ZonalQ.Rd | 6 ++-- man/ZonalQPol.Rd | 5 ++- tests/testthat/test-jack.R | 61 +++++++++++++++++++++++++++++++++++++++++++ tests/testthat/test-schur.R | 28 +++++++++++++++++++ tests/testthat/test-zonal.R | 27 +++++++++++++++++++ tests/testthat/test-zonalQ.R | 20 ++++++++++++++ 22 files changed, 258 insertions(+), 62 deletions(-)
Title: Plot an Epidemic Curve
Description: Creates simple or stacked epidemic curves for hourly, daily, weekly or monthly outcome data.
Author: Jean Pierre Decorps [aut, cre],
Morgane Vallee [ctb]
Maintainer: Jean Pierre Decorps <jp.decorps@epiconcept.fr>
Diff between EpiCurve versions 2.1-1 dated 2018-04-24 and 2.2-1 dated 2019-09-09
EpiCurve-2.1-1/EpiCurve/inst/doc/daily_aggregated_cases.csv |only EpiCurve-2.1-1/EpiCurve/inst/doc/daily_aggregated_cases_factors.csv |only EpiCurve-2.1-1/EpiCurve/inst/doc/daily_unaggregated_cases.csv |only EpiCurve-2.1-1/EpiCurve/inst/doc/hourly_unaggregated_cases.csv |only EpiCurve-2.1-1/EpiCurve/inst/doc/hourly_unaggregated_cases_factors.csv |only EpiCurve-2.1-1/EpiCurve/inst/doc/monthly_aggregated_cases.csv |only EpiCurve-2.1-1/EpiCurve/inst/doc/monthly_aggregated_cases_factors.csv |only EpiCurve-2.1-1/EpiCurve/inst/doc/weekly_aggregated_cases.csv |only EpiCurve-2.1-1/EpiCurve/inst/doc/weekly_aggregated_cases_factors.csv |only EpiCurve-2.2-1/EpiCurve/DESCRIPTION | 8 EpiCurve-2.2-1/EpiCurve/MD5 | 21 - EpiCurve-2.2-1/EpiCurve/R/EpiCurve..R | 198 +++++----- EpiCurve-2.2-1/EpiCurve/README.md | 4 EpiCurve-2.2-1/EpiCurve/build/vignette.rds |binary EpiCurve-2.2-1/EpiCurve/inst/doc/EpiCurve.pdf |binary EpiCurve-2.2-1/EpiCurve/man/EpiCurve.Rd | 3 16 files changed, 115 insertions(+), 119 deletions(-)
More information about corporaexplorer at CRAN
Permanent link
Title: R Commander Plug-in for University Level Applied Statistics
Description: An R Commander "plug-in" extending functionality of linear models
and providing an interface to Partial Least Squares Regression and Linear and
Quadratic Discriminant analysis. Several statistical summaries are extended,
predictions are offered for additional types of analyses, and extra plots, tests
and mixed models are available.
Author: Kristian Hovde Liland [aut, cre],
Solve Sæbø [aut]
Maintainer: Kristian Hovde Liland <kristian.liland@nmbu.no>
Diff between RcmdrPlugin.NMBU versions 1.8.10 dated 2019-08-23 and 1.8.11 dated 2019-09-09
DESCRIPTION | 10 +++++----- MD5 | 4 ++-- inst/etc/model-capabilities.txt | 2 -- 3 files changed, 7 insertions(+), 9 deletions(-)
More information about RcmdrPlugin.NMBU at CRAN
Permanent link
Title: Extensible, Parallelizable Implementation of the Random Forest
Algorithm
Description: Scalable implementation of classification and regression forests, as described by Breiman (2001), <DOI:10.1023/A:1010933404324>.
Author: Mark Seligman
Maintainer: Mark Seligman <mseligman@suiji.org>
Diff between Rborist versions 0.2-1 dated 2019-09-05 and 0.2-2 dated 2019-09-09
DESCRIPTION | 8 +- MD5 | 58 +++++++------- R/PreFormat.default.R | 3 R/Rborist.default.R | 2 build/vignette.rds |binary man/PreFormat.default.Rd | 21 +---- src/bagRf.cc | 2 src/bagRf.h | 2 src/bottom.cc | 9 +- src/bottom.h | 2 src/forestRf.cc | 2 src/forestRf.h | 2 src/frontier.cc | 3 src/frontier.h | 48 ++++++++---- src/leafRf.cc | 12 +-- src/leafRf.h | 12 +-- src/level.cc | 2 src/predictbridge.h | 6 - src/rleframe.h | 8 ++ src/sample.h | 1 src/splitfrontier.cc | 4 - src/splitfrontier.h | 8 +- src/summaryframe.cc | 15 ++- src/summaryframe.h | 14 --- src/train.cc | 6 - src/train.h | 25 +++--- src/trainRf.cc | 68 +++++++---------- src/trainRf.h | 30 ++++--- src/trainbridge.cc | 180 +++++++++++++++++++++++---------------------- src/trainbridge.h | 185 +++++++++++++++++++++++------------------------ 30 files changed, 378 insertions(+), 360 deletions(-)
Title: Authenticate and Create Google APIs
Description: Create R functions that interact with OAuth2 Google APIs
<https://developers.google.com/apis-explorer/> easily,
with auto-refresh and Shiny compatibility.
Author: Mark Edmondson [aut, cre] (<https://orcid.org/0000-0002-8434-3881>),
Jennifer Bryan [ctb],
Johann deBoer [ctb],
Neal Richardson [ctb],
David Kulp [ctb],
Joe Cheng [ctb]
Maintainer: Mark Edmondson <m@sunholo.com>
Diff between googleAuthR versions 1.1.0 dated 2019-09-07 and 1.1.1 dated 2019-09-09
DESCRIPTION | 6 +++--- LICENSE | 2 +- MD5 | 20 ++++++++++---------- NEWS.md | 7 ++++++- R/auto_auth.R | 19 ++++++++++++++----- R/set_client.R | 28 ++++++++++++++-------------- inst/doc/advanced-building.html | 6 +++--- inst/doc/building.html | 4 ++-- inst/doc/google-authentication-types.html | 4 ++-- inst/doc/setup.html | 4 ++-- inst/doc/troubleshooting.html | 4 ++-- 11 files changed, 59 insertions(+), 45 deletions(-)
Title: Extending Lasso Model Fitting to Big Data
Description: Extend lasso and elastic-net model fitting for ultrahigh-dimensional,
multi-gigabyte data sets that cannot be loaded into memory. It's much more
memory- and computation-efficient as compared to existing lasso-fitting packages
like 'glmnet' and 'ncvreg', thus allowing for very powerful big data analysis
even with an ordinary laptop.
Author: Yaohui Zeng [aut,cre], Patrick Breheny [ctb]
Maintainer: Yaohui Zeng <yaohui.zeng@gmail.com>
Diff between biglasso versions 1.3-6 dated 2017-05-04 and 1.3-7 dated 2019-09-09
DESCRIPTION | 10 ++++---- MD5 | 52 ++++++++++++++++++++++----------------------- NEWS | 6 +++++ R/biglasso-package.R | 2 - R/biglasso.R | 6 ++--- R/cv.biglasso.R | 8 +++--- R/data.R | 2 - R/loss.R | 2 - R/plot.biglasso.R | 2 - R/plot.cv.biglasso.R | 2 - R/predict.R | 4 +-- R/predict.cv.R | 8 +++--- R/setupX.R | 2 - R/summary.cv.biglasso.R | 2 - man/biglasso-package.Rd | 2 - man/biglasso.Rd | 6 ++--- man/colon.Rd | 2 - man/cv.biglasso.Rd | 8 +++--- man/loss.biglasso.Rd | 2 - man/plot.biglasso.Rd | 2 - man/plot.cv.biglasso.Rd | 2 - man/predict.biglasso.Rd | 4 +-- man/predict.cv.biglasso.Rd | 8 +++--- man/setupX.Rd | 2 - man/summary.cv.biglasso.Rd | 2 - src/Makevars | 6 ++++- src/Makevars.win | 7 ++++-- 27 files changed, 87 insertions(+), 74 deletions(-)
Title: Shadow Text Grob and Layer
Description: Implement shadowtextGrob() for 'grid' and geom_shadowtext() layer for 'ggplot2'.
These functions create/draw text grob with background shadow.
Author: Guangchuang Yu [aut, cre]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between shadowtext versions 0.0.5 dated 2019-05-29 and 0.0.6 dated 2019-09-09
DESCRIPTION | 6 MD5 | 26 +-- NAMESPACE | 46 +++-- R/element_shadowtext.R |only R/geom-shadowtext.R | 235 +++++++++++++-------------- R/shadowtext-grob.R | 166 +++++++++---------- build/vignette.rds |binary inst/doc/shadowtext.R | 94 ++++++----- inst/doc/shadowtext.Rmd | 167 ++++++++++--------- inst/doc/shadowtext.html | 391 +++++++++++++++++++++++++--------------------- man/element_shadowtext.Rd |only man/geom_shadowtext.Rd | 100 +++++------ man/reexports.Rd | 32 +-- man/shadowtextGrob.Rd | 118 ++++++------- vignettes/shadowtext.Rmd | 167 ++++++++++--------- 15 files changed, 825 insertions(+), 723 deletions(-)
Title: Fast Estimators for Design-Based Inference
Description: Fast procedures for small set of commonly-used, design-appropriate estimators with robust standard errors and confidence intervals. Includes estimators for linear regression, instrumental variables regression, difference-in-means, Horvitz-Thompson estimation, and regression improving precision of experimental estimates by interacting treatment with centered pre-treatment covariates introduced by Lin (2013) <doi:10.1214/12-AOAS583>.
Author: Graeme Blair [aut, cre],
Jasper Cooper [aut],
Alexander Coppock [aut],
Macartan Humphreys [aut],
Luke Sonnet [aut],
Neal Fultz [ctb],
Lily Medina [ctb],
Russell Lenth [ctb]
Maintainer: Graeme Blair <graeme.blair@ucla.edu>
Diff between estimatr versions 0.18.0 dated 2019-05-26 and 0.20.0 dated 2019-09-09
DESCRIPTION | 23 ++-- MD5 | 32 +++--- NAMESPACE | 2 NEWS.md | 8 + R/RcppExports.R | 4 R/S3_emmeans.R |only R/estimatr_iv_robust.R | 2 R/estimatr_lm_robust.R | 12 +- R/helper_clean_model_data.R | 42 ++++---- R/helper_starprep.R | 4 R/zzz.R | 3 man/lm_robust.Rd | 12 +- man/starprep.Rd | 27 +++++ src/RcppExports.cpp | 20 +--- src/lm_robust_helper.cpp | 151 +++++++++++++------------------- tests/testthat/test-iv-robust.R | 8 + tests/testthat/test-lm-robust_emmeans.R |only tests/testthat/test-starprep.R | 47 ++++----- 18 files changed, 218 insertions(+), 179 deletions(-)