Title: Evolutionary Trait Divergence Between Sister Species and Other
Paired Lineages
Description: Compares the fit of alternative models of continuous trait differentiation between sister species and other paired lineages. Differences in trait means between two lineages arise as they diverge from a common ancestor, and alternative processes of evolutionary divergence are expected to leave unique signatures in the distribution of trait differentiation in datasets comprised of many lineage pairs. Models include approximations of divergent selection, drift, and stabilizing selection. A variety of model extensions facilitate the testing of process-to-pattern hypotheses. Users supply trait data and divergence times for each lineage pair. The fit of alternative models is compared in a likelihood framework.
Author: Sean A. S. Anderson and Jason T. Weir
Maintainer: Sean A. S. Anderson <seanas.anderson@mail.utoronto.ca>
Diff between diverge versions 1.0.3 dated 2020-03-29 and 1.0.4 dated 2020-05-15
diverge-1.0.3/diverge/R/simdiv_outsource.R |only diverge-1.0.4/diverge/DESCRIPTION | 10 +-- diverge-1.0.4/diverge/MD5 | 35 ++++++------ diverge-1.0.4/diverge/NAMESPACE | 1 diverge-1.0.4/diverge/R/bootstrap_ci.R | 6 +- diverge-1.0.4/diverge/R/find_mle.R | 13 ++-- diverge-1.0.4/diverge/R/likelihood_func.R | 71 +++++++++++++++----------- diverge-1.0.4/diverge/R/model_error_rate.R | 6 +- diverge-1.0.4/diverge/R/model_select.R | 52 +++++++++---------- diverge-1.0.4/diverge/R/re_estimator.R | 2 diverge-1.0.4/diverge/R/simulate_div.R | 45 +++++++++------- diverge-1.0.4/diverge/man/bootstrap_ci.Rd | 10 ++- diverge-1.0.4/diverge/man/div_utilities.Rd | 2 diverge-1.0.4/diverge/man/diverge-package.Rd | 6 +- diverge-1.0.4/diverge/man/find_mle.Rd | 10 ++- diverge-1.0.4/diverge/man/model_error_rate.Rd | 11 +++- diverge-1.0.4/diverge/man/model_select.Rd | 15 ++++- diverge-1.0.4/diverge/man/re_estimator.Rd | 11 +++- diverge-1.0.4/diverge/man/simulate_div.Rd | 14 +++-- 19 files changed, 192 insertions(+), 128 deletions(-)
Title: Utility Functions for Large-scale Data
Description: Utility functions for large-scale data. For now, package 'bigutilsr'
mainly includes functions for outlier detection and PCA projection.
Author: Florian Privé [aut, cre]
Maintainer: Florian Privé <florian.prive.21@gmail.com>
Diff between bigutilsr versions 0.3.0 dated 2020-01-28 and 0.3.2 dated 2020-05-15
DESCRIPTION | 8 +++--- MD5 | 14 ++++++------ R/OGK.R | 13 +++++++---- R/RcppExports.R | 12 ++++++++-- R/rollmean.R | 3 ++ man/rollmean.Rd | 3 +- src/RcppExports.cpp | 38 +++++++++++++++++++++++++++++--- src/ogk.cpp | 60 +++++++++++++++++++++++++++++++++++++++++++++------- 8 files changed, 121 insertions(+), 30 deletions(-)
Title: Additional Tools for Developing Spatially Explicit Discrete
Event Simulation (SpaDES) Models
Description: Provides GIS and map utilities, plus additional modeling tools for
developing cellular automata, dynamic raster models, and agent based models
in 'SpaDES'.
Included are various methods for spatial spreading, spatial agents, GIS
operations, random map generation, and others.
See '?SpaDES.tools' for an categorized overview of these additional tools.
Author: Alex M Chubaty [aut, cre] (<https://orcid.org/0000-0001-7146-8135>),
Eliot J B McIntire [aut] (<https://orcid.org/0000-0002-6914-8316>),
Yong Luo [ctb],
Steve Cumming [ctb],
Jean Marchal [ctb],
Her Majesty the Queen in Right of Canada, as represented by the
Minister of Natural Resources Canada [cph]
Maintainer: Alex M Chubaty <alex.chubaty@gmail.com>
Diff between SpaDES.tools versions 0.3.4 dated 2019-12-17 and 0.3.5 dated 2020-05-15
DESCRIPTION | 28 ++++----- MD5 | 40 ++++++------- NAMESPACE | 5 - NEWS.md | 18 +++++- R/neighbourhood.R | 2 R/rings.R | 2 R/splitRaster.R | 2 R/spread.R | 62 ++++++++++++++------- R/spread2.R | 8 -- R/spread3.R | 19 +----- inst/WORDLIST | 4 + inst/examples/example_rings.R | 19 +++--- inst/examples/example_spread.R | 41 +++++++------- man/cir.Rd | 10 ++- man/pkgEnv.Rd | 4 + man/rings.Rd | 32 ++++++----- man/splitRaster.Rd | 2 man/spokes.Rd | 10 ++- man/spread.Rd | 118 ++++++++++++++++++++++------------------- tests/testthat/test-spread.R | 75 ++++++++++++++------------ tests/testthat/test-spread2.R | 6 -- 21 files changed, 282 insertions(+), 225 deletions(-)
Title: Scale Mixture of Skew-Normal Linear Mixed Models
Description: It fits scale mixture of skew-normal linear mixed models using an expectation–maximization (EM) type algorithm, including some possibilities for modeling the within-subject dependence. Details can be found in Schumacher, Lachos and Matos (2020) <arXiv:2002.01040>.
Author: Fernanda L. Schumacher [aut, cre],
Larissa A. Matos [aut],
Victor H. Lachos [aut]
Maintainer: Fernanda L. Schumacher <fernandalschumacher@gmail.com>
Diff between skewlmm versions 0.1.0 dated 2020-03-02 and 0.2.0 dated 2020-05-15
DESCRIPTION | 10 - MD5 | 53 +++-- NAMESPACE | 19 + R/auxfunctions-sim.R | 205 ++++++++++++--------- R/auxfunctions.R | 484 +++++++++++++++++++++++++++++++------------------- R/mainfunctions-sim.R | 61 +++--- R/mainfunctions.R | 88 +++++---- R/residuals.R |only README.md | 100 ++++------ man/acfresid.Rd |only man/errorVar.Rd | 13 - man/figures |only man/fitted.SMN.Rd | 3 man/fitted.SMSN.Rd | 3 man/healy.plot.Rd |only man/lr.test.Rd | 2 man/mahalDist.Rd |only man/plot.Rd |only man/plot.acfresid.Rd |only man/plot.mahalDist.Rd |only man/predict.SMN.Rd | 5 man/predict.SMSN.Rd | 5 man/print.SMN.Rd | 3 man/print.SMSN.Rd | 3 man/ranef.Rd |only man/residuals.Rd |only man/rsmsn.lmm.Rd | 5 man/smn.lmm.Rd | 30 +-- man/smsn.lmm.Rd | 19 + man/summary.SMN.Rd | 5 man/summary.SMSN.Rd | 4 31 files changed, 665 insertions(+), 455 deletions(-)
Title: The MBESS R Package
Description: Implements methods that useful in designing research studies and analyzing data, with
particular emphasis on methods that are developed for or used within the behavioral,
educational, and social sciences (broadly defined). That being said, many of the methods
implemented within MBESS are applicable to a wide variety of disciplines. MBESS has a
suite of functions for a variety of related topics, such as effect sizes, confidence intervals
for effect sizes (including standardized effect sizes and noncentral effect sizes), sample size
planning (from the accuracy in parameter estimation [AIPE], power analytic, equivalence, and
minimum-risk point estimation perspectives), mediation analysis, various properties of
distributions, and a variety of utility functions. MBESS (pronounced 'em-bes') was originally
an acronym for 'Methods for the Behavioral, Educational, and Social Sciences,' but at this
point MBESS contains methods applicable and used in a wide variety of fields and is an
orphan acronym, in the sense that what was an acronym is now literally its name. MBESS has
greatly benefited from others, see <http://nd.edu/~kkelley/site/MBESS.html> for a detailed
list of those that have contributed and other details.
Author: Ken Kelley [aut, cre]
Maintainer: Ken Kelley <kkelley@nd.edu>
Diff between MBESS versions 4.6.0 dated 2019-06-12 and 4.7.0 dated 2020-05-15
MBESS-4.6.0/MBESS/data/HS.data.rda |only MBESS-4.6.0/MBESS/man/HS.data.Rd |only MBESS-4.7.0/MBESS/DESCRIPTION | 10 +++++----- MBESS-4.7.0/MBESS/MD5 | 10 +++++----- MBESS-4.7.0/MBESS/R/ci.reliability.R | 4 ++-- MBESS-4.7.0/MBESS/data/HS.rda |only MBESS-4.7.0/MBESS/man/HS.Rd |only MBESS-4.7.0/MBESS/man/ci.reliability.Rd | 18 +++++++++--------- 8 files changed, 21 insertions(+), 21 deletions(-)
Title: Tools for Data Manipulation
Description: An implementation of common higher order functions with syntactic
sugar for anonymous function. Provides also a link to 'dplyr' and
'data.table' for common transformations on data frames to work around non
standard evaluation by default.
Author: Sebastian Warnholz [aut, cre]
Maintainer: Sebastian Warnholz <wahani@gmail.com>
Diff between dat versions 0.4.0 dated 2018-01-20 and 0.5.0 dated 2020-05-15
DESCRIPTION | 26 - MD5 | 64 ++- NAMESPACE | 2 NEWS | 5 R/DataFrame.R | 81 +++- R/NAMESPACE.R | 1 R/dataTableBackend.R |only R/extract.R | 50 +-- R/helper.R | 20 + R/map.R | 56 +-- R/mutar.R | 36 +- R/replace.R | 14 R/useDplyr.R |only build/vignette.rds |binary inst/doc/Introduction.R | 57 +-- inst/doc/Introduction.Rmd | 45 +- inst/doc/Introduction.html | 538 ++++++++++++++++++++++----------- inst/doc/performance.R | 7 inst/doc/performance.Rmd | 1 inst/doc/performance.html | 426 +++++++++++++++++--------- man/DataFrame.Rd | 12 man/extract.Rd | 1 man/map.Rd | 5 man/mutar.Rd | 42 +- man/replace.Rd | 1 tests/testthat/helper-with-dplyr.R |only tests/testthat/test-DataFrame.R | 251 +++++++-------- tests/testthat/test-extract.R | 2 tests/testthat/test-lintr.R | 2 tests/testthat/test-makeFormulas.R | 121 +++---- tests/testthat/test-map.R | 47 +- tests/testthat/test-mutar-data-table.R |only tests/testthat/test-mutar.R | 155 +++++---- vignettes/Introduction.Rmd | 45 +- vignettes/performance.Rmd | 1 35 files changed, 1264 insertions(+), 850 deletions(-)
Title: Extracts the Backbone from Weighted Graphs
Description: Provides methods for extracting from a weighted graph
a binary or signed backbone that retains only the significant edges.
The user may input a weighted graph, or a bipartite graph
from which a weighted graph is first constructed via projection.
Backbone extraction methods include the stochastic degree sequence model (Neal, Z. P. (2014). <doi:10.1016/j.socnet.2014.06.001>),
hypergeometric model (Neal, Z. (2013). <doi:10.1007/s13278-013-0107-y>),
the fixed degree sequence model (Zweig, K. A., and Kaufmann, M. (2011). <doi:10.1007/s13278-011-0021-0>),
as well as a universal threshold method.
Author: Rachel Domagalski [aut, cre],
Zachary Neal [aut],
Bruce Sagan [aut]
Maintainer: Rachel Domagalski <domagal9@msu.edu>
Diff between backbone versions 1.1.0 dated 2019-12-02 and 1.2.0 dated 2020-05-15
backbone-1.1.0/backbone/inst/doc/backbone_introduction.R |only backbone-1.1.0/backbone/inst/doc/backbone_introduction.Rmd |only backbone-1.1.0/backbone/inst/doc/backbone_introduction.html |only backbone-1.1.0/backbone/vignettes/backbone_introduction.Rmd |only backbone-1.2.0/backbone/DESCRIPTION | 12 backbone-1.2.0/backbone/MD5 | 55 + backbone-1.2.0/backbone/NAMESPACE | 2 backbone-1.2.0/backbone/NEWS.md | 15 backbone-1.2.0/backbone/R/backbone.R | 38 - backbone-1.2.0/backbone/R/backbone.extract.R | 103 ++- backbone-1.2.0/backbone/R/fdsm.R | 111 +-- backbone-1.2.0/backbone/R/hyperg.R | 36 - backbone-1.2.0/backbone/R/model.helpers.R |only backbone-1.2.0/backbone/R/sdsm.R | 349 ++++-------- backbone-1.2.0/backbone/R/universal.R | 35 - backbone-1.2.0/backbone/build/vignette.rds |binary backbone-1.2.0/backbone/inst/CITATION |only backbone-1.2.0/backbone/inst/doc/backbone.R |only backbone-1.2.0/backbone/inst/doc/backbone.Rmd |only backbone-1.2.0/backbone/inst/doc/backbone.html |only backbone-1.2.0/backbone/man/backbone.Rd | 75 +- backbone-1.2.0/backbone/man/backbone.extract.Rd | 70 +- backbone-1.2.0/backbone/man/class.convert.Rd |only backbone-1.2.0/backbone/man/curveball.Rd |only backbone-1.2.0/backbone/man/davis.Rd | 42 - backbone-1.2.0/backbone/man/fdsm.Rd | 91 +-- backbone-1.2.0/backbone/man/hyperg.Rd | 67 +- backbone-1.2.0/backbone/man/polytope.Rd |only backbone-1.2.0/backbone/man/rna.Rd |only backbone-1.2.0/backbone/man/sdsm.Rd | 113 +-- backbone-1.2.0/backbone/man/universal.Rd | 64 +- backbone-1.2.0/backbone/tests |only backbone-1.2.0/backbone/vignettes/backbone.Rmd |only backbone-1.2.0/backbone/vignettes/backbone_bib.bib | 12 backbone-1.2.0/backbone/vignettes/pandoc1c18612a2cfe.html |only backbone-1.2.0/backbone/vignettes/pandoc2fb8dd87a1d.html |only 36 files changed, 670 insertions(+), 620 deletions(-)
Title: Bayesian Generalized Linear Models with Time-Varying
Coefficients
Description: Bayesian generalized linear models with time-varying coefficients.
Gaussian, Poisson, and binomial observations are supported.
The Markov chain Monte Carlo computations are done using
Hamiltonian Monte Carlo provided by Stan, using a state space representation
of the model in order to marginalise over the coefficients for efficient sampling.
For non-Gaussian models, the package uses the importance sampling type estimators based on
approximate marginal MCMC as in Vihola, Helske, Franks (2017, <arXiv:1609.02541>).
Author: Jouni Helske [aut, cre] (<https://orcid.org/0000-0001-7130-793X>)
Maintainer: Jouni Helske <jouni.helske@iki.fi>
Diff between walker versions 0.3.1-1 dated 2020-01-23 and 0.4.0 dated 2020-05-15
walker-0.3.1-1/walker/R/zzz.R |only walker-0.3.1-1/walker/exec |only walker-0.3.1-1/walker/inst/chunks |only walker-0.3.1-1/walker/src/Modules.cpp |only walker-0.3.1-1/walker/src/include |only walker-0.3.1-1/walker/tools |only walker-0.4.0/walker/DESCRIPTION | 23 - walker-0.4.0/walker/MD5 | 99 ++--- walker-0.4.0/walker/NAMESPACE | 10 walker-0.4.0/walker/R/fitted.R | 14 walker-0.4.0/walker/R/plot_coefs.R | 25 - walker-0.4.0/walker/R/plot_predict.R | 34 - walker-0.4.0/walker/R/pp_check.R | 3 walker-0.4.0/walker/R/predict.R | 14 walker-0.4.0/walker/R/print_fit.R | 120 ++++++ walker-0.4.0/walker/R/rw.R | 44 +- walker-0.4.0/walker/R/stanmodels.R | 66 +-- walker-0.4.0/walker/R/walker.R | 330 ++++++++--------- walker-0.4.0/walker/R/walker_rw1.R | 137 ------- walker-0.4.0/walker/README.md | 18 walker-0.4.0/walker/build/vignette.rds |binary walker-0.4.0/walker/configure |only walker-0.4.0/walker/inst/CITATION | 2 walker-0.4.0/walker/inst/doc/walker.R | 62 +-- walker-0.4.0/walker/inst/doc/walker.Rmd | 58 +- walker-0.4.0/walker/inst/doc/walker.html | 107 ++--- walker-0.4.0/walker/inst/include |only walker-0.4.0/walker/inst/stan |only walker-0.4.0/walker/man/as.data.frame.walker_fit.Rd |only walker-0.4.0/walker/man/coef.walker_fit.Rd | 3 walker-0.4.0/walker/man/plot_coefs.Rd | 10 walker-0.4.0/walker/man/plot_predict.Rd | 14 walker-0.4.0/walker/man/pp_check.walker_fit.Rd | 3 walker-0.4.0/walker/man/predict.walker_fit.Rd | 8 walker-0.4.0/walker/man/print.walker_fit.Rd | 3 walker-0.4.0/walker/man/rw1.Rd | 6 walker-0.4.0/walker/man/rw2.Rd | 10 walker-0.4.0/walker/man/summary.walker_fit.Rd |only walker-0.4.0/walker/man/walker.Rd | 33 + walker-0.4.0/walker/man/walker_glm.Rd | 38 + walker-0.4.0/walker/man/walker_rw1.Rd | 29 - walker-0.4.0/walker/src/Makevars | 23 - walker-0.4.0/walker/src/Makevars.win | 18 walker-0.4.0/walker/src/RcppExports.cpp | 2 walker-0.4.0/walker/src/stanExports_rw1_model.cc |only walker-0.4.0/walker/src/stanExports_rw1_model.h |only walker-0.4.0/walker/src/stanExports_rw1_model_naive.cc |only walker-0.4.0/walker/src/stanExports_rw1_model_naive.h |only walker-0.4.0/walker/src/stanExports_walker_glm.cc |only walker-0.4.0/walker/src/stanExports_walker_glm.h |only walker-0.4.0/walker/src/stanExports_walker_lm.cc |only walker-0.4.0/walker/src/stanExports_walker_lm.h |only walker-0.4.0/walker/tests/testthat/tests.R | 9 walker-0.4.0/walker/vignettes/walker.Rmd | 58 +- walker-0.4.0/walker/vignettes/walker.bib | 4 55 files changed, 743 insertions(+), 694 deletions(-)
Title: Calculate Accurate Precision-Recall and ROC (Receiver Operator
Characteristics) Curves
Description: Accurate calculations and visualization of precision-recall and ROC (Receiver Operator Characteristics)
curves.
Author: Takaya Saito [aut, cre],
Marc Rehmsmeier [aut]
Maintainer: Takaya Saito <takaya.saito@outlook.com>
Diff between precrec versions 0.11 dated 2020-01-09 and 0.11.1 dated 2020-05-15
DESCRIPTION | 11 + MD5 | 30 ++--- NEWS.md | 12 +- R/g_auc_ci.R | 4 build/vignette.rds |binary inst/doc/introduction.Rmd | 8 - inst/doc/introduction.html | 172 +++++++++++++++---------------- man/B1000.Rd | 6 - man/B500.Rd | 6 - man/IB1000.Rd | 6 - man/IB500.Rd | 6 - man/M2N50F5.Rd | 6 - man/P10N10.Rd | 6 - man/auc_ci.Rd | 2 tests/testthat/test_mm4_1_format_nfold.R | 28 +++-- vignettes/introduction.Rmd | 8 - 16 files changed, 168 insertions(+), 143 deletions(-)
Title: Polynomial Spline Routines
Description: Routines for the polynomial spline fitting routines
hazard regression, hazard estimation with flexible tails, logspline,
lspec, polyclass, and polymars, by C. Kooperberg and co-authors.
Author: Charles Kooperberg [aut, cre],
Cleve Moler [ctb] (LINPACK routines in src),
Jack Dongarra [ctb] (LINPACK routines in src)
Maintainer: Charles Kooperberg <clk@fredhutch.org>
Diff between polspline versions 1.1.18 dated 2020-05-08 and 1.1.19 dated 2020-05-15
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/polspline.R | 3 +++ 3 files changed, 9 insertions(+), 6 deletions(-)
Title: Core Utilities for Developing and Running Spatially Explicit
Discrete Event Models
Description: Provides the core framework for a discrete event system (DES) to
implement a complete data-to-decisions, reproducible workflow.
The core DES components facilitate modularity, and easily enable the user
to include additional functionality by running user-built modules.
Includes conditional scheduling, restart after interruption, packaging of
reusable modules, tools for developing arbitrary automated workflows,
automated interweaving of modules of different temporal resolution,
and tools for visualizing and understanding the DES project.
Author: Alex M Chubaty [aut, cre] (<https://orcid.org/0000-0001-7146-8135>),
Eliot J B McIntire [aut] (<https://orcid.org/0000-0002-6914-8316>),
Yong Luo [ctb],
Steve Cumming [ctb],
Ceres Barros [ctb] (<https://orcid.org/0000-0003-4036-977X>),
Her Majesty the Queen in Right of Canada, as represented by the
Minister of Natural Resources Canada [cph]
Maintainer: Alex M Chubaty <alex.chubaty@gmail.com>
Diff between SpaDES.core versions 1.0.0 dated 2020-02-21 and 1.0.1 dated 2020-05-15
DESCRIPTION | 20 MD5 | 131 ++-- NAMESPACE | 13 NEWS.md | 28 R/cache.R | 8 R/checkpoint.R | 15 R/code-checking.R | 4 R/copy.R | 17 R/downloadData.R | 4 R/helpers.R | 91 +- R/load.R | 34 - R/memory.R | 90 ++ R/misc-methods.R | 4 R/modActiveBinding.R | 12 R/module-dependencies-methods.R | 10 R/module-repository.R | 7 R/module-template.R | 176 +---- R/moduleMetadata.R | 65 ++ R/plotting-diagrams.R | 4 R/restart.R | 38 - R/save.R | 26 R/simList-accessors.R | 35 - R/simulation-parseModule.R | 4 R/simulation-simInit.R | 17 R/simulation-spades.R | 65 +- R/suppliedElsewhere.R | 5 README.md | 1 build/vignette.rds |binary inst/WORDLIST | 1 inst/doc/i-introduction.html | 122 ++-- inst/doc/ii-modules.html | 700 +++++++++++------------ inst/doc/iii-cache.html | 396 ++++++------- inst/doc/iv-advanced.html | 50 - inst/examples/example_moduleParamsInputsOuputs.R |only inst/templates/data-gitignore.template |only inst/templates/module.Rmd.template | 27 inst/templates/render-module-rmd.yaml.template |only inst/templates/test-template.R.template |only inst/templates/unitTests.R.template |only man/Copy.Rd | 2 man/Plot.Rd | 4 man/checkpoint.Rd | 4 man/clearCache.Rd | 14 man/emptyEventList.Rd | 8 man/fileTable.Rd | 10 man/loadSimList.Rd |only man/modifySearchPath.Rd | 5 man/moduleDefaults.Rd | 4 man/moduleParamsInputsOuputs.Rd |only man/newModule.Rd | 13 man/newModuleTests.Rd | 10 man/pkgEnv.Rd | 4 man/quickCheck.Rd | 4 man/restartR.Rd | 8 man/restartSpades.Rd | 2 man/robustDigest.Rd | 10 man/saveSimList.Rd | 7 man/setPaths.Rd | 4 man/simList-accessors-times.Rd | 16 man/timeConversion.Rd | 4 tests/testthat/helper-initTests.R | 15 tests/testthat/test-aaa.R | 1 tests/testthat/test-checkpoint.R | 31 - tests/testthat/test-downloadData.R | 2 tests/testthat/test-load.R | 18 tests/testthat/test-memory.R | 20 tests/testthat/test-misc.R | 69 ++ tests/testthat/test-mod.R | 23 tests/testthat/test-module-template.R | 15 tests/testthat/test-save.R | 48 + 70 files changed, 1482 insertions(+), 1113 deletions(-)
Title: Automated Construction of R Data Packages from REDCap Projects
Description: Export all data, including metadata, from a REDCap (Research
Electronic Data Capture) Project via the REDCap API
<https://projectredcap.org/wp-content/resources/REDCapTechnicalOverview.pdf>.
The exported (meta)data will be processed and formatted into a stand alone R
data package which can be installed and shared between researchers. Several
default reports are generated as vignettes in the resulting package.
Author: Peter DeWitt [aut, cre]
Maintainer: Peter DeWitt <peter.dewitt@cuanschutz.edu>
Diff between REDCapExporter versions 0.2.0 dated 2020-02-26 and 0.2.1 dated 2020-05-15
DESCRIPTION | 10 +-- MD5 | 16 ++--- NEWS.md | 7 ++ R/col-type.R | 4 - R/export_redcap_project.R | 16 +++++ build/vignette.rds |binary inst/doc/export.html | 123 +++++++++++++++++++++++++++------------------- man/example_data.Rd | 12 ++++ man/export_content.Rd | 2 9 files changed, 121 insertions(+), 69 deletions(-)
More information about REDCapExporter at CRAN
Permanent link
Title: Managing and Visualizing Brain Surface Data
Description: Provides high-level access to 'FreeSurfer' <http://freesurfer.net/> neuroimaging data on the level of subjects and groups. Load morphometry data, surfaces and brain parcellations based on atlases. Mask data using labels, load data for specific atlas regions only, and visualize data and results directly in 'R'.
Author: Tim Schäfer [aut, cre] (<https://orcid.org/0000-0002-3683-8070>)
Maintainer: Tim Schäfer <ts+code@rcmd.org>
Diff between fsbrain versions 0.1.0 dated 2020-04-15 and 0.2.0 dated 2020-05-15
fsbrain-0.1.0/fsbrain/man/flip3D.Rd |only fsbrain-0.1.0/fsbrain/man/rotate3D.Rd |only fsbrain-0.2.0/fsbrain/DESCRIPTION | 14 fsbrain-0.2.0/fsbrain/MD5 | 202 +- fsbrain-0.2.0/fsbrain/NAMESPACE | 20 fsbrain-0.2.0/fsbrain/R/atlas.R | 21 fsbrain-0.2.0/fsbrain/R/cbar.R |only fsbrain-0.2.0/fsbrain/R/coloredmesh.R | 141 + fsbrain-0.2.0/fsbrain/R/export.R |only fsbrain-0.2.0/fsbrain/R/fsdir_abstraction_subject.R | 81 + fsbrain-0.2.0/fsbrain/R/helpers.R | 54 fsbrain-0.2.0/fsbrain/R/metadata_io.R | 27 fsbrain-0.2.0/fsbrain/R/optdata.R | 12 fsbrain-0.2.0/fsbrain/R/seg_stats.R |only fsbrain-0.2.0/fsbrain/R/tmp_volrotate.R |only fsbrain-0.2.0/fsbrain/R/vis.R | 81 - fsbrain-0.2.0/fsbrain/R/vis_meshes.R | 151 -- fsbrain-0.2.0/fsbrain/R/vis_surface_background.R | 110 + fsbrain-0.2.0/fsbrain/R/vis_volume.R | 212 -- fsbrain-0.2.0/fsbrain/R/vis_volume_3d.R | 49 fsbrain-0.2.0/fsbrain/R/volume.R | 1 fsbrain-0.2.0/fsbrain/build/vignette.rds |binary fsbrain-0.2.0/fsbrain/inst/doc/fsbrain.R | 2 fsbrain-0.2.0/fsbrain/inst/doc/fsbrain.Rmd | 4 fsbrain-0.2.0/fsbrain/inst/doc/fsbrain.html | 738 ++++++---- fsbrain-0.2.0/fsbrain/inst/doc/fsbrain_faq.R |only fsbrain-0.2.0/fsbrain/inst/doc/fsbrain_faq.Rmd |only fsbrain-0.2.0/fsbrain/inst/doc/fsbrain_faq.html |only fsbrain-0.2.0/fsbrain/inst/doc/fsbrain_vol.R | 4 fsbrain-0.2.0/fsbrain/inst/doc/fsbrain_vol.Rmd | 8 fsbrain-0.2.0/fsbrain/inst/doc/fsbrain_vol.html | 316 +++- fsbrain-0.2.0/fsbrain/man/annot.outline.Rd | 11 fsbrain-0.2.0/fsbrain/man/apply.label.to.morphdata.Rd | 1 fsbrain-0.2.0/fsbrain/man/apply.labeldata.to.morphdata.Rd | 1 fsbrain-0.2.0/fsbrain/man/collayer.bg.atlas.Rd | 6 fsbrain-0.2.0/fsbrain/man/collayer.from.mask.data.Rd | 4 fsbrain-0.2.0/fsbrain/man/collayer.from.morphlike.data.Rd | 4 fsbrain-0.2.0/fsbrain/man/coloredmesh.from.annot.Rd | 11 fsbrain-0.2.0/fsbrain/man/coloredmesh.from.color.Rd | 2 fsbrain-0.2.0/fsbrain/man/coloredmesh.from.label.Rd | 11 fsbrain-0.2.0/fsbrain/man/coloredmesh.from.mask.Rd | 11 fsbrain-0.2.0/fsbrain/man/coloredmesh.from.morph.native.Rd | 10 fsbrain-0.2.0/fsbrain/man/coloredmesh.from.morph.standard.Rd | 11 fsbrain-0.2.0/fsbrain/man/coloredmesh.from.morphdata.Rd | 12 fsbrain-0.2.0/fsbrain/man/coloredmesh.plot.colorbar.separate.Rd | 2 fsbrain-0.2.0/fsbrain/man/coloredmeshes.combined.cmap.Rd |only fsbrain-0.2.0/fsbrain/man/coloredmeshes.combined.cmap.sorted.Rd |only fsbrain-0.2.0/fsbrain/man/coloredmeshes.combined.colors.Rd |only fsbrain-0.2.0/fsbrain/man/coloredmeshes.combined.data.range.Rd |only fsbrain-0.2.0/fsbrain/man/coloredmeshes.from.color.Rd | 12 fsbrain-0.2.0/fsbrain/man/draw.colorbar.Rd | 5 fsbrain-0.2.0/fsbrain/man/export.coloredmesh.ply.Rd |only fsbrain-0.2.0/fsbrain/man/flip2D.Rd | 3 fsbrain-0.2.0/fsbrain/man/get.atlas.region.names.Rd | 3 fsbrain-0.2.0/fsbrain/man/group.agg.atlas.native.Rd | 3 fsbrain-0.2.0/fsbrain/man/group.agg.atlas.standard.Rd | 3 fsbrain-0.2.0/fsbrain/man/group.annot.Rd | 3 fsbrain-0.2.0/fsbrain/man/group.label.from.annot.Rd | 3 fsbrain-0.2.0/fsbrain/man/hemi.lobe.labels.Rd |only fsbrain-0.2.0/fsbrain/man/label.colFn.Rd |only fsbrain-0.2.0/fsbrain/man/label.colFn.inv.Rd |only fsbrain-0.2.0/fsbrain/man/label.from.annotdata.Rd | 3 fsbrain-0.2.0/fsbrain/man/label.to.annot.Rd | 3 fsbrain-0.2.0/fsbrain/man/plot.fsbrain.colorbar.Rd |only fsbrain-0.2.0/fsbrain/man/qc.from.segstats.table.Rd |only fsbrain-0.2.0/fsbrain/man/read.md.demographics.Rd | 4 fsbrain-0.2.0/fsbrain/man/read.md.subjects.Rd | 6 fsbrain-0.2.0/fsbrain/man/regions.to.ignore.Rd | 3 fsbrain-0.2.0/fsbrain/man/report.on.demographics.Rd | 6 fsbrain-0.2.0/fsbrain/man/rotate2D.Rd | 3 fsbrain-0.2.0/fsbrain/man/rotate90.Rd | 2 fsbrain-0.2.0/fsbrain/man/spread.values.over.annot.Rd | 3 fsbrain-0.2.0/fsbrain/man/spread.values.over.hemi.Rd | 3 fsbrain-0.2.0/fsbrain/man/spread.values.over.subject.Rd | 3 fsbrain-0.2.0/fsbrain/man/subject.annot.Rd | 3 fsbrain-0.2.0/fsbrain/man/subject.atlas.agg.Rd | 3 fsbrain-0.2.0/fsbrain/man/subject.label.Rd | 2 fsbrain-0.2.0/fsbrain/man/subject.label.from.annot.Rd | 3 fsbrain-0.2.0/fsbrain/man/subject.lobes.Rd |only fsbrain-0.2.0/fsbrain/man/subject.mask.Rd | 3 fsbrain-0.2.0/fsbrain/man/subject.volume.Rd | 2 fsbrain-0.2.0/fsbrain/man/vis.color.on.subject.Rd | 2 fsbrain-0.2.0/fsbrain/man/vis.coloredmeshes.Rd | 14 fsbrain-0.2.0/fsbrain/man/vis.colortable.legend.Rd |only fsbrain-0.2.0/fsbrain/man/vis.data.on.fsaverage.Rd | 6 fsbrain-0.2.0/fsbrain/man/vis.data.on.subject.Rd | 6 fsbrain-0.2.0/fsbrain/man/vis.labeldata.on.subject.Rd | 12 fsbrain-0.2.0/fsbrain/man/vis.mask.on.subject.Rd | 11 fsbrain-0.2.0/fsbrain/man/vis.region.values.on.subject.Rd | 6 fsbrain-0.2.0/fsbrain/man/vis.subject.annot.Rd | 6 fsbrain-0.2.0/fsbrain/man/vis.subject.label.Rd | 12 fsbrain-0.2.0/fsbrain/man/vis.subject.morph.native.Rd | 6 fsbrain-0.2.0/fsbrain/man/vis.subject.morph.standard.Rd | 6 fsbrain-0.2.0/fsbrain/man/vis.symmetric.data.on.subject.Rd | 6 fsbrain-0.2.0/fsbrain/man/volvis.contour.Rd | 8 fsbrain-0.2.0/fsbrain/tests/testthat/helper-functions.R | 10 fsbrain-0.2.0/fsbrain/tests/testthat/test-atlas.R | 9 fsbrain-0.2.0/fsbrain/tests/testthat/test-fsdir-abstraction-group.R | 15 fsbrain-0.2.0/fsbrain/tests/testthat/test-fsdir-abstraction-subject.R | 48 fsbrain-0.2.0/fsbrain/tests/testthat/test-helpers.R | 1 fsbrain-0.2.0/fsbrain/tests/testthat/test-mesh-helpers.R | 3 fsbrain-0.2.0/fsbrain/tests/testthat/test-morph-agg.R | 11 fsbrain-0.2.0/fsbrain/tests/testthat/test-morph-atlas-agg.R | 115 - fsbrain-0.2.0/fsbrain/tests/testthat/test-morph-concat.R | 4 fsbrain-0.2.0/fsbrain/tests/testthat/test-vis-multiview.R | 18 fsbrain-0.2.0/fsbrain/tests/testthat/test-vis-surface-background.R | 5 fsbrain-0.2.0/fsbrain/tests/testthat/test-vis-volume-3d.R | 12 fsbrain-0.2.0/fsbrain/tests/testthat/test-vis-volume.R | 21 fsbrain-0.2.0/fsbrain/tests/testthat/test-vis.R | 8 fsbrain-0.2.0/fsbrain/tests/testthat/test-volume.R | 6 fsbrain-0.2.0/fsbrain/vignettes/fsbrain.Rmd | 4 fsbrain-0.2.0/fsbrain/vignettes/fsbrain_faq.Rmd |only fsbrain-0.2.0/fsbrain/vignettes/fsbrain_vol.Rmd | 8 113 files changed, 1736 insertions(+), 1098 deletions(-)
Title: Convert Files to and from Binary Objects (BLOBs)
Description: Converts files to and from flobs.
A flob is a file that was
read into binary in integer-mode as little endian,
saved as the single element of a named list (where the name is the name
of the original file) and then serialized before being coerced into a blob.
Flobs are useful for writing and reading files to and from databases.
Author: Joe Thorley [aut, cre] (<https://orcid.org/0000-0002-7683-4592>),
Poisson Consulting [cph, fnd]
Maintainer: Joe Thorley <joe@poissonconsulting.ca>
Diff between flobr versions 0.2.0 dated 2019-07-25 and 0.2.1 dated 2020-05-15
flobr-0.2.0/flobr/R/check.R |only flobr-0.2.0/flobr/R/err.R |only flobr-0.2.0/flobr/man/check_flob.Rd |only flobr-0.2.0/flobr/tests/testthat/test-check.R |only flobr-0.2.0/flobr/tests/testthat/test-err.R |only flobr-0.2.1/flobr/DESCRIPTION | 15 +-- flobr-0.2.1/flobr/LICENSE | 2 flobr-0.2.1/flobr/MD5 | 65 ++++++++------- flobr-0.2.1/flobr/NAMESPACE | 5 - flobr-0.2.1/flobr/NEWS.md | 5 + flobr-0.2.1/flobr/R/chk.R |only flobr-0.2.1/flobr/R/data.R | 2 flobr-0.2.1/flobr/R/deprecated.R |only flobr-0.2.1/flobr/R/flob.R | 34 ++++---- flobr-0.2.1/flobr/R/flobr-package.R | 6 + flobr-0.2.1/flobr/R/name.R | 10 +- flobr-0.2.1/flobr/R/namespace.R | 2 flobr-0.2.1/flobr/R/path.R | 13 ++- flobr-0.2.1/flobr/R/utils.R | 20 ++-- flobr-0.2.1/flobr/R/vld.R |only flobr-0.2.1/flobr/README.md | 25 ++--- flobr-0.2.1/flobr/build |only flobr-0.2.1/flobr/man/chk_flob.Rd |only flobr-0.2.1/flobr/man/flob.Rd | 10 +- flobr-0.2.1/flobr/man/flob_ext.Rd | 4 flobr-0.2.1/flobr/man/flob_name.Rd | 4 flobr-0.2.1/flobr/man/flob_obj.Rd | 6 - flobr-0.2.1/flobr/man/flobr-package.Rd | 4 flobr-0.2.1/flobr/man/is_flob.Rd | 4 flobr-0.2.1/flobr/man/pkgtemplate_deprecated.Rd |only flobr-0.2.1/flobr/man/unflob.Rd | 13 +-- flobr-0.2.1/flobr/man/vld_flob.Rd |only flobr-0.2.1/flobr/tests/testthat/test-aaa-deprecated.R |only flobr-0.2.1/flobr/tests/testthat/test-chk.R |only flobr-0.2.1/flobr/tests/testthat/test-data.R | 2 flobr-0.2.1/flobr/tests/testthat/test-ext.R | 20 ++-- flobr-0.2.1/flobr/tests/testthat/test-flobr.R | 71 +++++++++++------ flobr-0.2.1/flobr/tests/testthat/test-name.R | 7 + flobr-0.2.1/flobr/tests/testthat/test-path.R | 16 ++- flobr-0.2.1/flobr/tests/testthat/test-tools.R | 15 ++- flobr-0.2.1/flobr/tests/testthat/test-vld.R |only 41 files changed, 230 insertions(+), 150 deletions(-)
Title: Functions for Tabular Reporting
Description: Create pretty tables for 'HTML', 'Microsoft Word' and 'Microsoft PowerPoint' documents.
Functions are provided to let users create tables, modify and format their content.
It extends package 'officer' that does not contain any feature for customized tabular reporting
and can be used within R markdown documents.
Author: David Gohel [aut, cre],
Quentin Fazilleau [ctb],
Maxim Nazarov [ctb] (rmarkdown for docx output),
Titouan Robert [ctb],
Michael Barrowman [ctb] (inline footnotes),
Atsushi Yasumoto [ctb] (support for bookdown cross reference)
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between flextable versions 0.5.9 dated 2020-03-06 and 0.5.10 dated 2020-05-15
flextable-0.5.10/flextable/DESCRIPTION | 25 flextable-0.5.10/flextable/MD5 | 329 +++++++----- flextable-0.5.10/flextable/NAMESPACE | 22 flextable-0.5.10/flextable/NEWS | 26 flextable-0.5.10/flextable/R/05_content.R | 91 ++- flextable-0.5.10/flextable/R/as_flextable.R | 308 ++++++++++- flextable-0.5.10/flextable/R/body_add_flextable.R | 21 flextable-0.5.10/flextable/R/borders.R | 51 + flextable-0.5.10/flextable/R/deprecated.R | 4 flextable-0.5.10/flextable/R/display.R | 130 +++- flextable-0.5.10/flextable/R/docx_str.R | 24 flextable-0.5.10/flextable/R/empty.R | 5 flextable-0.5.10/flextable/R/flextable.R | 40 + flextable-0.5.10/flextable/R/flextable_sizes.R | 148 ++++- flextable-0.5.10/flextable/R/formatters.R | 39 - flextable-0.5.10/flextable/R/html_str.R | 44 + flextable-0.5.10/flextable/R/merge_flextable.R | 22 flextable-0.5.10/flextable/R/printers.R | 90 ++- flextable-0.5.10/flextable/R/set_headers.R | 82 ++ flextable-0.5.10/flextable/R/styles.R | 194 +++++-- flextable-0.5.10/flextable/R/tabpart_format.R | 6 flextable-0.5.10/flextable/R/themes.R | 32 - flextable-0.5.10/flextable/R/utils.R | 38 + flextable-0.5.10/flextable/R/xtable_to_flextable.R | 46 + flextable-0.5.10/flextable/README.md | 9 flextable-0.5.10/flextable/build/vignette.rds |binary flextable-0.5.10/flextable/inst/doc/display.R | 32 + flextable-0.5.10/flextable/inst/doc/display.Rmd | 88 +++ flextable-0.5.10/flextable/inst/doc/display.html | 149 ++++- flextable-0.5.10/flextable/inst/doc/format.html | 61 +- flextable-0.5.10/flextable/inst/doc/layout.R | 63 -- flextable-0.5.10/flextable/inst/doc/layout.Rmd | 119 ---- flextable-0.5.10/flextable/inst/doc/layout.html | 233 +++----- flextable-0.5.10/flextable/inst/doc/overview.Rmd | 12 flextable-0.5.10/flextable/inst/doc/overview.html | 49 + flextable-0.5.10/flextable/inst/doc/selectors.html | 45 + flextable-0.5.10/flextable/inst/examples/rmd/captions |only flextable-0.5.10/flextable/inst/examples/rmd/demo.Rmd | 3 flextable-0.5.10/flextable/inst/examples/rmd/loop_docx.Rmd | 6 flextable-0.5.10/flextable/inst/web_1.0.0/tabwid.css | 37 + flextable-0.5.10/flextable/man/add_header.Rd | 10 flextable-0.5.10/flextable/man/add_header_lines.Rd | 30 - flextable-0.5.10/flextable/man/add_header_row.Rd | 10 flextable-0.5.10/flextable/man/align.Rd | 30 - flextable-0.5.10/flextable/man/as_b.Rd | 11 flextable-0.5.10/flextable/man/as_bracket.Rd | 8 flextable-0.5.10/flextable/man/as_chunk.Rd | 15 flextable-0.5.10/flextable/man/as_flextable.Rd | 38 - flextable-0.5.10/flextable/man/as_flextable.glm.Rd |only flextable-0.5.10/flextable/man/as_flextable.grouped_data.Rd |only flextable-0.5.10/flextable/man/as_flextable.htest.Rd |only flextable-0.5.10/flextable/man/as_flextable.lm.Rd |only flextable-0.5.10/flextable/man/as_flextable.xtable.Rd |only flextable-0.5.10/flextable/man/as_grouped_data.Rd | 2 flextable-0.5.10/flextable/man/as_i.Rd | 15 flextable-0.5.10/flextable/man/as_image.Rd | 9 flextable-0.5.10/flextable/man/as_paragraph.Rd | 13 flextable-0.5.10/flextable/man/as_sub.Rd | 9 flextable-0.5.10/flextable/man/as_sup.Rd | 9 flextable-0.5.10/flextable/man/autofit.Rd | 35 + flextable-0.5.10/flextable/man/bg.Rd | 36 + flextable-0.5.10/flextable/man/body_add_flextable.Rd | 12 flextable-0.5.10/flextable/man/bold.Rd | 8 flextable-0.5.10/flextable/man/border.Rd | 5 flextable-0.5.10/flextable/man/border_inner.Rd | 6 flextable-0.5.10/flextable/man/border_inner_h.Rd | 6 flextable-0.5.10/flextable/man/border_inner_v.Rd | 6 flextable-0.5.10/flextable/man/border_outer.Rd | 6 flextable-0.5.10/flextable/man/border_remove.Rd | 18 flextable-0.5.10/flextable/man/colformat_char.Rd | 12 flextable-0.5.10/flextable/man/colformat_int.Rd | 16 flextable-0.5.10/flextable/man/colformat_lgl.Rd | 8 flextable-0.5.10/flextable/man/colformat_num.Rd | 14 flextable-0.5.10/flextable/man/color.Rd | 36 + flextable-0.5.10/flextable/man/compose.Rd | 8 flextable-0.5.10/flextable/man/continuous_summary.Rd |only flextable-0.5.10/flextable/man/delete_part.Rd | 6 flextable-0.5.10/flextable/man/dim.flextable.Rd | 5 flextable-0.5.10/flextable/man/dim_pretty.Rd | 12 flextable-0.5.10/flextable/man/docx_value.Rd | 7 flextable-0.5.10/flextable/man/empty_blanks.Rd | 14 flextable-0.5.10/flextable/man/figures |only flextable-0.5.10/flextable/man/fit_to_width.Rd | 19 flextable-0.5.10/flextable/man/flextable.Rd | 12 flextable-0.5.10/flextable/man/flextable_dim.Rd | 9 flextable-0.5.10/flextable/man/font.Rd | 18 flextable-0.5.10/flextable/man/fontsize.Rd | 11 flextable-0.5.10/flextable/man/footnote.Rd | 49 + flextable-0.5.10/flextable/man/height.Rd | 13 flextable-0.5.10/flextable/man/hline.Rd |only flextable-0.5.10/flextable/man/hline_bottom.Rd | 6 flextable-0.5.10/flextable/man/hline_top.Rd | 6 flextable-0.5.10/flextable/man/hrule.Rd | 20 flextable-0.5.10/flextable/man/htmltools_value.Rd | 9 flextable-0.5.10/flextable/man/hyperlink_text.Rd | 6 flextable-0.5.10/flextable/man/italic.Rd | 8 flextable-0.5.10/flextable/man/knit_print.flextable.Rd | 22 flextable-0.5.10/flextable/man/lollipop.Rd | 13 flextable-0.5.10/flextable/man/merge_h_range.Rd | 8 flextable-0.5.10/flextable/man/merge_none.Rd | 6 flextable-0.5.10/flextable/man/merge_v.Rd | 17 flextable-0.5.10/flextable/man/minibar.Rd | 13 flextable-0.5.10/flextable/man/padding.Rd | 17 flextable-0.5.10/flextable/man/ph_with_flextable.Rd | 2 flextable-0.5.10/flextable/man/plot.flextable.Rd | 8 flextable-0.5.10/flextable/man/rotate.Rd | 8 flextable-0.5.10/flextable/man/set_caption.Rd | 29 - flextable-0.5.10/flextable/man/set_formatter.Rd | 6 flextable-0.5.10/flextable/man/set_header_footer_df.Rd | 33 - flextable-0.5.10/flextable/man/set_header_labels.Rd | 24 flextable-0.5.10/flextable/man/set_table_properties.Rd |only flextable-0.5.10/flextable/man/style.Rd | 10 flextable-0.5.10/flextable/man/theme_alafoli.Rd | 4 flextable-0.5.10/flextable/man/theme_booktabs.Rd | 4 flextable-0.5.10/flextable/man/theme_box.Rd | 4 flextable-0.5.10/flextable/man/theme_tron.Rd | 4 flextable-0.5.10/flextable/man/theme_tron_legacy.Rd | 4 flextable-0.5.10/flextable/man/theme_vader.Rd | 4 flextable-0.5.10/flextable/man/theme_vanilla.Rd | 4 flextable-0.5.10/flextable/man/theme_zebra.Rd | 4 flextable-0.5.10/flextable/man/valign.Rd | 20 flextable-0.5.10/flextable/man/vline.Rd | 6 flextable-0.5.10/flextable/man/vline_left.Rd | 6 flextable-0.5.10/flextable/man/vline_right.Rd | 6 flextable-0.5.10/flextable/man/void.Rd | 5 flextable-0.5.10/flextable/man/width.Rd | 15 flextable-0.5.10/flextable/tests/testthat/test-utils.R |only flextable-0.5.10/flextable/vignettes/display.Rmd | 88 +++ flextable-0.5.10/flextable/vignettes/layout.Rmd | 119 ---- flextable-0.5.10/flextable/vignettes/overview.Rmd | 12 flextable-0.5.9/flextable/man/borders.Rd |only flextable-0.5.9/flextable/man/xtable_to_flextable.Rd |only 132 files changed, 2814 insertions(+), 1105 deletions(-)
Title: Elastic-Net for Sparse Estimation and Sparse PCA
Description: Provides functions for fitting the entire
solution path of the Elastic-Net and also provides functions
for doing sparse PCA.
Author: Hui Zou <zouxx019@umn.edu> and Trevor Hastie
<hastie@stanford.edu>
Maintainer: Hui Zou <zouxx019@umn.edu>
Diff between elasticnet versions 1.1.1 dated 2018-08-31 and 1.3 dated 2020-05-15
DESCRIPTION | 20 +++++++++----------- MD5 | 14 +++++++------- R/enet_funcs.R | 39 +++++++++++++++++++++++++++++---------- man/arrayspc.Rd | 8 ++++---- man/elasticnet-internal.Rd | 2 ++ man/print.arrayspc.Rd | 5 +++-- man/print.spca.Rd | 5 +++-- man/spca.Rd | 6 +++--- 8 files changed, 60 insertions(+), 39 deletions(-)
Title: Mining Association Rules and Frequent Itemsets
Description: Provides the infrastructure for representing,
manipulating and analyzing transaction data and patterns (frequent
itemsets and association rules). Also provides
C implementations of the association mining algorithms Apriori and Eclat.
Hahsler, Gruen and Hornik (2005) <doi:10.18637/jss.v014.i15>.
Author: Michael Hahsler [aut, cre, cph],
Christian Buchta [aut, cph],
Bettina Gruen [aut, cph],
Kurt Hornik [aut, cph],
Ian Johnson [ctb, cph],
Christian Borgelt [ctb, cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between arules versions 1.6-5 dated 2020-04-04 and 1.6-6 dated 2020-05-15
DESCRIPTION | 8 ++--- MD5 | 46 +++++++++++++++--------------- NEWS.md | 19 +++++++++++- R/AllClasses.R | 2 - R/DATAFRAME.R | 11 +++---- R/addComplement.R | 27 +++++++++++++---- R/discretize.R | 5 ++- R/interestMeasures.R | 49 ++++++++++++++++++++++++++++++-- R/itemCoding.R | 14 +++------ R/itemMatrix.R | 2 - README.md | 6 +-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/arules.R | 1 inst/doc/arules.pdf |binary man/ASparameter-class.Rd | 15 +++++---- man/addComplement.Rd | 18 ++++++++++- man/apriori.Rd | 14 +++++---- man/discretize.Rd | 20 ++++++++++--- man/interestMeasure.Rd | 50 +++++++++++++++++++++------------ src/rapriori.c | 2 - tests/testthat/test-apriori.R | 2 - tests/testthat/test-interestMeasures.R | 47 +++++++++++++++++++++---------- tests/testthat/test-transactions.R | 4 ++ 24 files changed, 252 insertions(+), 110 deletions(-)
Title: Pediatric Complex Chronic Conditions
Description: An implementation of the pediatric complex chronic conditions (CCC)
classification system using R and C++.
Author: Peter DeWitt [aut],
Tell Bennett [aut],
James Feinstein [aut],
Seth Russell [aut, cre]
Maintainer: Seth Russell <seth.russell@ucdenver.edu>
Diff between pccc versions 1.0.3 dated 2019-08-21 and 1.0.4 dated 2020-05-15
DESCRIPTION | 8 MD5 | 34 +- NEWS.md | 6 R/ccc.R | 4 R/sysdata.rda |binary build/vignette.rds |binary inst/doc/pccc-example.R | 12 inst/doc/pccc-example.html | 121 ++++--- inst/doc/pccc-icd-codes.R | 58 +-- inst/doc/pccc-icd-codes.html | 640 ++++++++++++++++++++-------------------- inst/doc/pccc-overview.R | 12 inst/doc/pccc-overview.html | 101 +++--- man/comparability.Rd | 6 man/pccc_icd10_dataset.Rd | 6 man/pccc_icd9_dataset.Rd | 6 tests/testthat/test_ccc.R | 26 - tests/testthat/test_ccc_icd10.R | 21 - tests/testthat/test_ccc_icd9.R | 31 + 18 files changed, 562 insertions(+), 530 deletions(-)
Title: Detect Text Reuse and Document Similarity
Description: Tools for measuring similarity among documents and detecting
passages which have been reused. Implements shingled n-gram, skip n-gram,
and other tokenizers; similarity/dissimilarity functions; pairwise
comparisons; minhash and locality sensitive hashing algorithms; and a
version of the Smith-Waterman local alignment algorithm suitable for
natural language.
Author: Lincoln Mullen [aut, cre] (<https://orcid.org/0000-0001-5103-6917>)
Maintainer: Lincoln Mullen <lincoln@lincolnmullen.com>
Diff between textreuse versions 0.1.4 dated 2016-11-28 and 0.1.5 dated 2020-05-15
DESCRIPTION | 22 - MD5 | 96 +++--- NAMESPACE | 2 NEWS.md | 4 R/RcppExports.R | 8 R/TextReuseTextDocument.R | 2 R/lsh.R | 26 - R/lsh_candidates.R | 13 R/lsh_probability.R | 2 R/lsh_query.R | 12 R/textreuse-package.r | 6 R/utils.R | 5 README.md | 212 +++++++++----- build/vignette.rds |binary inst/doc/textreuse-alignment.R | 4 inst/doc/textreuse-alignment.html | 370 +++++++++++++++++++++---- inst/doc/textreuse-introduction.R | 22 - inst/doc/textreuse-introduction.Rmd | 2 inst/doc/textreuse-introduction.html | 485 ++++++++++++++++++++++++--------- inst/doc/textreuse-minhash.R | 18 - inst/doc/textreuse-minhash.html | 434 +++++++++++++++++++++++------ inst/doc/textreuse-pairwise.R | 12 inst/doc/textreuse-pairwise.html | 372 +++++++++++++++++++++---- man/TextReuseCorpus.Rd | 19 - man/TextReuseTextDocument-accessors.Rd | 7 man/TextReuseTextDocument.Rd | 21 - man/align_local.Rd | 12 man/as.matrix.textreuse_candidates.Rd | 1 man/filenames.Rd | 1 man/hash_string.Rd | 1 man/lsh.Rd | 1 man/lsh_candidates.Rd | 1 man/lsh_compare.Rd | 1 man/lsh_probability.Rd | 3 man/lsh_query.Rd | 3 man/lsh_subset.Rd | 1 man/minhash_generator.Rd | 1 man/pairwise_candidates.Rd | 1 man/pairwise_compare.Rd | 4 man/reexports.Rd | 10 man/rehash.Rd | 1 man/similarity-functions.Rd | 7 man/textreuse-package.Rd | 26 + man/tokenize.Rd | 12 man/tokenizers.Rd | 7 man/wordcount.Rd | 1 src/RcppExports.cpp | 21 + tests/testthat/test-lsh.R | 3 vignettes/textreuse-introduction.Rmd | 2 49 files changed, 1693 insertions(+), 604 deletions(-)
Title: Targeted Inference
Description: Various methods for targeted and semiparametric inference including
augmented inverse probability weighted estimators for missing data and
causal inference (Bang and Robins (2005) <doi:10.1111/j.1541-0420.2005.00377.x>)
and estimators for risk differences and relative risks (Richardson et al. (2017)
<doi:10.1080/01621459.2016.1192546>).
Author: Klaus K. Holst [aut, cre]
Maintainer: Klaus K. Holst <klaus@holst.it>
Diff between targeted versions 0.1 dated 2020-05-08 and 0.1.1 dated 2020-05-15
targeted-0.1.1/targeted/DESCRIPTION | 10 ++--- targeted-0.1.1/targeted/MD5 | 16 ++++---- targeted-0.1.1/targeted/NEWS.md |only targeted-0.1.1/targeted/README.md |only targeted-0.1.1/targeted/inst/doc/riskregression.html | 10 ++--- targeted-0.1.1/targeted/inst/include/target/pava.hpp | 4 +- targeted-0.1.1/targeted/inst/include/target/target.hpp | 31 ----------------- targeted-0.1.1/targeted/man/figures |only targeted-0.1.1/targeted/src/pava.cpp | 27 +++++--------- targeted-0.1.1/targeted/src/target.cpp | 6 +-- targeted-0.1/targeted/NEWS |only 11 files changed, 34 insertions(+), 70 deletions(-)
Title: Moment-Free Estimation of Sharpe Ratios
Description: An efficient moment-free estimator of the Sharpe ratio, or signal-to-noise ratio, for heavy-tailed data (see <arXiv:1505.01333>).
Author: Damien Challet
Maintainer: Damien Challet <damien.challet@gmail.com>
Diff between sharpeRratio versions 1.4 dated 2020-05-13 and 1.4.1 dated 2020-05-15
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS | 3 ++- src/num_records.cpp | 4 ++-- 4 files changed, 10 insertions(+), 9 deletions(-)
Title: Ordinal Relations
Description: Functions to handle ordinal relations reflected within the feature space. Those function allow to search for ordinal relations in multi-class datasets. One can check whether proposed relations are reflected in a specific feature representation. Furthermore, it provides functions to filter, organize and further analyze those ordinal relations.
Author: L Lausser, LM Schaefer, HA Kestler
Maintainer: HA Kestler <hans.kestler@uni-ulm.de>
Diff between ORION versions 1.0 dated 2020-05-11 and 1.0.1 dated 2020-05-15
DESCRIPTION | 8 +-- MD5 | 11 ++--- NAMESPACE | 2 NEWS.md |only R/train.tunePareto.occ.R | 3 - inst/doc/ORION.html | 4 - src/cascade.c | 98 ++++++++++++++++++++++++----------------------- 7 files changed, 65 insertions(+), 61 deletions(-)
Title: Production Rules Based Classification of Migration
Description: Provides mechanisms for classifying border crossings using a rules-based methodology. The goal of performing this type of classification is to identify any potential long-term migrants. A long-term migration is defined as a border crossing involving a change in residence status. A border crossing counts as a long-term migration to/from a country if it entails a change from non-residence to residence / residence to non-residence. The rules-based classification that used to determine a long-term migration is defined by a threshold duration and a test duration, alternatively named window size. Under a 12/16 rule, for instance, the threshold duration is 12 months and the test duration (window size) is 16 months. With a 9/12 rule, the threshold duration is 9 months and the test duration (window size) is 12 months. For more information about the methodology applied, please visit Stats NZ (2020) <https://www.stats.govt.nz/methods/defining-migrants-using-travel-histories-and-the-1216-month-rule>.
Author: Leshi Chen [aut, cre],
Pubudu Senanayake [aut],
Del Robinson [aut],
Statistics New Zealand [cph]
Maintainer: Leshi Chen <leshi.chen@stats.govt.nz>
Diff between migrbc versions 2.0.8 dated 2020-05-12 and 2.0.9 dated 2020-05-15
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NEWS.md | 4 ++++ R/utility_functions.R | 4 ++-- inst/doc/migrbc.html | 12 ++++++------ man/setup_random_test_data.Rd | 4 ++-- src/rcpp_algorithm.cpp | 4 ++-- src/rcpp_utility.cpp | 13 +++++-------- tests/testthat/Rplots.pdf |binary 9 files changed, 32 insertions(+), 31 deletions(-)
Title: Statistical Analysis of Functional and Spatial Data, Based on
Regression with PDE Regularization
Description: An implementation of regression models with partial differential regularizations, making use of the Finite Element Method. The models efficiently handle data distributed over irregularly shaped domains and can comply with various conditions at the boundaries of the domain. A priori information about the spatial structure of the phenomenon under study can be incorporated in the model via the differential regularization. See Sangalli, L.M., Ramsay, J.O., Ramsay, T.O. (2013), Spatial spline regression models for an overview.
Author: Eardi Lila [aut],
Laura M. Sangalli [aut],
Eleonora Arnone [aut, cre],
Jim Ramsay [aut],
Luca Formaggia [aut],
Alessandra Colli [ctb],
Luca Colombo [ctb],
Carlo de Falco [ctb]
Maintainer: Eleonora Arnone <eleonora.arnone@polimi.it>
Diff between fdaPDE versions 1.0-8 dated 2020-04-29 and 1.0-9 dated 2020-05-15
DESCRIPTION | 13 ++++++------- MD5 | 6 +++--- NEWS.md | 2 +- src/mixedFERegression_imp.h | 2 +- 4 files changed, 11 insertions(+), 12 deletions(-)
Title: An Interface to Google's 'BigQuery' 'API'
Description: Easily talk to Google's 'BigQuery' database from R.
Author: Hadley Wickham [aut, cre] (<https://orcid.org/0000-0003-4757-117X>),
Jennifer Bryan [aut] (<https://orcid.org/0000-0002-6983-2759>),
Kungliga Tekniska Högskolan [ctb] (strptime implementation),
The NetBSD Foundation, Inc. [ctb] (gmtime implementation),
RStudio [cph, fnd]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between bigrquery versions 1.3.0 dated 2020-05-08 and 1.3.1 dated 2020-05-15
DESCRIPTION | 12 ++++++------ MD5 | 8 ++++---- NEWS.md | 4 ++++ R/dplyr.R | 3 --- tests/testthat/test-dplyr.R | 16 +++------------- 5 files changed, 17 insertions(+), 26 deletions(-)
Title: Interface to 'LMDB'
Description: Key-value store, implemented as a wrapper around 'LMDB';
the "lightning memory-mapped database" <https://symas.com/lmdb/>.
'LMDB' is a transactional key value store that uses a memory map
for efficient access. This package wraps the entire 'LMDB'
interface (except duplicated keys), and provides objects for
transactions and cursors.
Author: Rich FitzJohn [aut, cre],
Howard Chu [aut, cph],
Symas Corporation [cph],
Martin Hedenfalk [aut, cph],
The OpenLDAP Foundation [cph]
Maintainer: Rich FitzJohn <rich.fitzjohn@gmail.com>
Diff between thor versions 1.1.1 dated 2020-01-16 and 1.1.2 dated 2020-05-15
DESCRIPTION | 8 ++-- MD5 | 18 ++++----- R/mdb_env.R | 12 ++++-- build/vignette.rds |binary inst/doc/thor.R | 100 ++++++++++++++++++++++++++--------------------------- inst/doc/thor.html | 4 +- man/mdb_env.Rd | 35 +++++++++++++----- man/storr_thor.Rd | 8 +++- src/lmdb/mdb.c | 2 - src/lmdb/mdb.patch | 13 ++++++ 10 files changed, 118 insertions(+), 82 deletions(-)
Title: Bayesian Analysis of Seemingly Unrelated Regression Models
Description: Implementation of the direct Monte Carlo approach of
Zellner and Ando (2010) <doi:10.1016/j.jeconom.2010.04.005>
to sample from posterior of
Seemingly Unrelated Regression (SUR) models. In
addition, a Gibbs sampler is implemented that allows
the user to analyze SUR models using the power prior.
Author: Ethan Alt
Maintainer: Ethan Alt <ethanalt@live.unc.edu>
Diff between surbayes versions 0.1.0 dated 2020-05-06 and 0.1.1 dated 2020-05-15
DESCRIPTION | 6 +++--- MD5 | 6 +++--- README.md | 31 ++++++++++++++++++++++++------- src/sur_powerprior_cpp.cpp | 4 ++-- 4 files changed, 32 insertions(+), 15 deletions(-)
Title: A Set of Tools that Enhance Reproducibility Beyond Package
Management
Description: Collection of high-level, robust, machine- and OS-independent tools
for making deeply reproducible and reusable content in R.
The three workhorse functions are Cache, prepInputs, and Require;
these allow for nested caching, robust to environments, and objects with
environments (like functions), and data retrieval and processing, and
package handling in continuous workflow environments. In all cases,
efforts are made to make the first and subsequent calls of functions have
the same result, but vastly faster at subsequent times by way of checksums
and digesting. Several features are still under active development, including
cloud storage of cached objects, allowing for sharing between users.
Author: Eliot J B McIntire [aut, cre] (<https://orcid.org/0000-0002-6914-8316>),
Alex M Chubaty [aut] (<https://orcid.org/0000-0001-7146-8135>),
Tati Micheletti [ctb] (<https://orcid.org/0000-0003-4838-8342>),
Ceres Barros [ctb] (<https://orcid.org/0000-0003-4036-977X>),
Ian Eddy [ctb] (<https://orcid.org/0000-0001-7397-2116>),
Her Majesty the Queen in Right of Canada, as represented by the
Minister of Natural Resources Canada [cph]
Maintainer: Eliot J B McIntire <eliot.mcintire@canada.ca>
Diff between reproducible versions 1.0.0 dated 2020-02-20 and 1.1.0 dated 2020-05-15
reproducible-1.0.0/reproducible/man/package_dependenciesMem.Rd |only reproducible-1.0.0/reproducible/man/tempdir2.Rd |only reproducible-1.0.0/reproducible/tests/testthat/test-cacheOld.R |only reproducible-1.1.0/reproducible/DESCRIPTION | 26 reproducible-1.1.0/reproducible/MD5 | 240 reproducible-1.1.0/reproducible/NAMESPACE | 617 - reproducible-1.1.0/reproducible/NEWS.md | 689 - reproducible-1.1.0/reproducible/R/DBI.R | 1093 +- reproducible-1.1.0/reproducible/R/cache-helpers.R | 2298 ++--- reproducible-1.1.0/reproducible/R/cache-internals.R | 684 - reproducible-1.1.0/reproducible/R/cache-tools.R | 1573 +-- reproducible-1.1.0/reproducible/R/cache.R | 3404 ++++---- reproducible-1.1.0/reproducible/R/checksums.R | 665 - reproducible-1.1.0/reproducible/R/cloud.R | 563 - reproducible-1.1.0/reproducible/R/cloudOld.R | 220 reproducible-1.1.0/reproducible/R/consistentPaths.R | 332 reproducible-1.1.0/reproducible/R/convertPaths.R | 336 reproducible-1.1.0/reproducible/R/copy.R | 337 reproducible-1.1.0/reproducible/R/download.R | 1066 +- reproducible-1.1.0/reproducible/R/gis.R | 645 - reproducible-1.1.0/reproducible/R/git.R | 294 reproducible-1.1.0/reproducible/R/helpers.R | 436 - reproducible-1.1.0/reproducible/R/objectSize.R | 364 reproducible-1.1.0/reproducible/R/options.R | 310 reproducible-1.1.0/reproducible/R/packages.R | 2879 +++--- reproducible-1.1.0/reproducible/R/pipe.R | 398 reproducible-1.1.0/reproducible/R/postProcess.R | 3373 ++++---- reproducible-1.1.0/reproducible/R/preProcess.R | 2245 ++--- reproducible-1.1.0/reproducible/R/prepInputs.R | 2157 ++--- reproducible-1.1.0/reproducible/R/reproducible-deprecated.R |only reproducible-1.1.0/reproducible/R/reproducible-package.R | 102 reproducible-1.1.0/reproducible/R/robustDigest.R | 760 - reproducible-1.1.0/reproducible/R/search.R | 118 reproducible-1.1.0/reproducible/R/zzz.R | 112 reproducible-1.1.0/reproducible/README.md | 104 reproducible-1.1.0/reproducible/build/reproducible.pdf |only reproducible-1.1.0/reproducible/build/vignette.rds |binary reproducible-1.1.0/reproducible/inst/WORDLIST | 256 reproducible-1.1.0/reproducible/inst/doc/Cache-using-postgresql.R | 58 reproducible-1.1.0/reproducible/inst/doc/Cache-using-postgresql.Rmd | 200 reproducible-1.1.0/reproducible/inst/doc/Cache-using-postgresql.html | 786 - reproducible-1.1.0/reproducible/inst/doc/Intro-to-Cache.R | 426 - reproducible-1.1.0/reproducible/inst/doc/Intro-to-Cache.Rmd | 640 - reproducible-1.1.0/reproducible/inst/doc/Intro-to-Cache.html | 3005 ++++--- reproducible-1.1.0/reproducible/inst/examples/example_Cache.R | 114 reproducible-1.1.0/reproducible/inst/examples/example_assessDataType.R | 212 reproducible-1.1.0/reproducible/inst/examples/example_assessDataTypeGDAL.R | 122 reproducible-1.1.0/reproducible/inst/examples/example_checkPath.R | 44 reproducible-1.1.0/reproducible/inst/examples/example_postProcess.R | 66 reproducible-1.1.0/reproducible/man/CacheHelpers.Rd | 10 reproducible-1.1.0/reproducible/man/Copy.Rd | 21 reproducible-1.1.0/reproducible/man/Deprcated.Rd | 5 reproducible-1.1.0/reproducible/man/Filenames.Rd | 17 reproducible-1.1.0/reproducible/man/Require.Rd | 10 reproducible-1.1.0/reproducible/man/archiveExtractBinary.Rd | 2 reproducible-1.1.0/reproducible/man/available.packagesMem.Rd | 2 reproducible-1.1.0/reproducible/man/basename2.Rd | 2 reproducible-1.1.0/reproducible/man/cache.Rd | 95 reproducible-1.1.0/reproducible/man/cacheTools.Rd | 27 reproducible-1.1.0/reproducible/man/checkAndMakeCloudFolderID.Rd | 4 reproducible-1.1.0/reproducible/man/checkGitConfig.Rd | 2 reproducible-1.1.0/reproducible/man/clearStubArtifacts.Rd | 5 reproducible-1.1.0/reproducible/man/cloudUploadFromCache.Rd | 3 reproducible-1.1.0/reproducible/man/copyFile.Rd | 2 reproducible-1.1.0/reproducible/man/dlGeneric.Rd | 12 reproducible-1.1.0/reproducible/man/dlGoogle.Rd | 27 reproducible-1.1.0/reproducible/man/dot-formalsNotInCurrentDots.Rd | 6 reproducible-1.1.0/reproducible/man/dot-requireNamespace.Rd |only reproducible-1.1.0/reproducible/man/downloadFile.Rd | 4 reproducible-1.1.0/reproducible/man/extractFromArchive.Rd | 4 reproducible-1.1.0/reproducible/man/figures |only reproducible-1.1.0/reproducible/man/fixErrors.Rd | 9 reproducible-1.1.0/reproducible/man/getGDALVersion.Rd | 2 reproducible-1.1.0/reproducible/man/installPackages.Rd | 3 reproducible-1.1.0/reproducible/man/installVersions.Rd | 2 reproducible-1.1.0/reproducible/man/isInteractive.Rd | 2 reproducible-1.1.0/reproducible/man/isWindows.Rd | 2 reproducible-1.1.0/reproducible/man/mergeCache.Rd | 6 reproducible-1.1.0/reproducible/man/movedCache.Rd |only reproducible-1.1.0/reproducible/man/pkgDep.Rd | 54 reproducible-1.1.0/reproducible/man/pkgEnv.Rd | 6 reproducible-1.1.0/reproducible/man/postProcess.Rd | 2 reproducible-1.1.0/reproducible/man/preProcess.Rd | 7 reproducible-1.1.0/reproducible/man/prepInputs.Rd | 18 reproducible-1.1.0/reproducible/man/prepareFileBackedRaster.Rd | 7 reproducible-1.1.0/reproducible/man/prepareOutput.Rd | 8 reproducible-1.1.0/reproducible/man/reproducible-package.Rd | 64 reproducible-1.1.0/reproducible/man/reproducibleOptions.Rd | 30 reproducible-1.1.0/reproducible/man/robustDigest.Rd | 49 reproducible-1.1.0/reproducible/man/studyAreaName.Rd |only reproducible-1.1.0/reproducible/man/tempFilesAndFolders.Rd |only reproducible-1.1.0/reproducible/man/unrarPath.Rd | 6 reproducible-1.1.0/reproducible/man/viewCache.Rd | 9 reproducible-1.1.0/reproducible/man/writeFuture.Rd | 2 reproducible-1.1.0/reproducible/tests/test-all.R | 4 reproducible-1.1.0/reproducible/tests/testthat/helper-allEqual.R | 846 +- reproducible-1.1.0/reproducible/tests/testthat/test-cache.R | 2051 ++-- reproducible-1.1.0/reproducible/tests/testthat/test-cacheArguments.R | 150 reproducible-1.1.0/reproducible/tests/testthat/test-cacheHelpers.R | 442 - reproducible-1.1.0/reproducible/tests/testthat/test-checkPath.R | 149 reproducible-1.1.0/reproducible/tests/testthat/test-checksums.R | 94 reproducible-1.1.0/reproducible/tests/testthat/test-cloud.R | 456 - reproducible-1.1.0/reproducible/tests/testthat/test-cluster.R | 105 reproducible-1.1.0/reproducible/tests/testthat/test-copy.R | 178 reproducible-1.1.0/reproducible/tests/testthat/test-devMode.R | 156 reproducible-1.1.0/reproducible/tests/testthat/test-download.R | 16 reproducible-1.1.0/reproducible/tests/testthat/test-examples.R | 76 reproducible-1.1.0/reproducible/tests/testthat/test-filesMissingExtension.R | 119 reproducible-1.1.0/reproducible/tests/testthat/test-gis.R | 288 reproducible-1.1.0/reproducible/tests/testthat/test-git.R | 160 reproducible-1.1.0/reproducible/tests/testthat/test-misc.R | 570 - reproducible-1.1.0/reproducible/tests/testthat/test-multipleCacheRepo.R | 140 reproducible-1.1.0/reproducible/tests/testthat/test-packages.R | 685 + reproducible-1.1.0/reproducible/tests/testthat/test-postProcess.R | 273 reproducible-1.1.0/reproducible/tests/testthat/test-preProcessDoesntWork.R | 94 reproducible-1.1.0/reproducible/tests/testthat/test-preProcessWorks.R | 502 - reproducible-1.1.0/reproducible/tests/testthat/test-prepInputs.R | 4193 +++++----- reproducible-1.1.0/reproducible/tests/testthat/test-prepInputsInNestedArchives.R | 374 reproducible-1.1.0/reproducible/tests/testthat/test-reproducibleVerbose.R | 48 reproducible-1.1.0/reproducible/tests/testthat/test-robustDigest.R | 48 reproducible-1.1.0/reproducible/vignettes/Cache-using-postgresql.Rmd | 200 reproducible-1.1.0/reproducible/vignettes/Intro-to-Cache.Rmd | 640 - 122 files changed, 25038 insertions(+), 22936 deletions(-)
Title: A Unified Pipeline for Pupillometry Data
Description: Provides a unified pipeline to clean, prepare, plot,
and run basic analyses on pupillometry experiments.
Author: Samuel Forbes [aut, cre],
David Robinson [ctb]
Maintainer: Samuel Forbes <samuel.h.forbes@gmail.com>
Diff between PupillometryR versions 0.0.1 dated 2020-02-02 and 0.0.2 dated 2020-05-15
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/clean_and_downsample.R | 4 ++-- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Landscape Metrics for Categorical Map Patterns
Description: Calculates landscape metrics for categorical landscape patterns in
a tidy workflow. 'landscapemetrics' reimplements the most common metrics from
'FRAGSTATS' (<https://www.umass.edu/landeco/research/fragstats/fragstats.html>)
and new ones from the current literature on landscape metrics.
This package supports 'raster' spatial objects and takes
RasterLayer, RasterStacks, RasterBricks or lists of RasterLayer from the
'raster' package as input arguments. It further provides utility functions
to visualize patches, select metrics and building blocks to develop new
metrics.
Author: Maximillian H.K. Hesselbarth [aut, cre]
(<https://orcid.org/0000-0003-1125-9918>),
Marco Sciaini [aut] (<https://orcid.org/0000-0002-3042-5435>),
Jakub Nowosad [aut] (<https://orcid.org/0000-0002-1057-3721>),
Sebastian Hanss [aut] (<https://orcid.org/0000-0002-3990-4897>),
Laura J. Graham [ctb] (Input on package structure),
Jeffrey Hollister [ctb] (Input on package structure),
Kimberly A. With [ctb] (Input on package structure),
Florian Privé [ctb] (Original author of underlying C++ code for
get_nearestneighbour() function),
Project Nayuki [ctb] (Original author of underlying C++ code for
get_circumscribingcircle and lsm_p_circle),
Matt Strimas-Mackey [ctb] (Bugfix in sample_metrics())
Maintainer: Maximillian H.K. Hesselbarth <mhk.hesselbarth@gmail.com>
Diff between landscapemetrics versions 1.4.3 dated 2020-03-14 and 1.4.4 dated 2020-05-15
DESCRIPTION | 12 MD5 | 690 +-- NEWS.md | 5 R/calculate_correlation.R | 364 +- R/calculate_lsm.R | 928 ++--- R/check_landscape.R | 336 - R/construct_buffer.R | 374 +- R/data.R | 250 - R/data_info.R | 82 R/extract_lsm.R | 866 ++-- R/get_adjacencies.R | 386 +- R/get_boundaries.R | 524 +- R/get_nearestneighbour.R | 452 +- R/get_unique_values.R | 500 +- R/landscapemetrics-package.R | 110 R/list_lsm.R | 410 +- R/lsm_c_ai.R | 358 +- R/lsm_c_area_cv.R | 310 - R/lsm_c_area_mn.R | 312 - R/lsm_c_area_sd.R | 310 - R/lsm_c_ca.R | 308 - R/lsm_c_cai_cv.R | 348 - R/lsm_c_cai_mn.R | 342 - R/lsm_c_cai_sd.R | 346 - R/lsm_c_clumpy.R | 400 +- R/lsm_c_cohesion.R | 372 +- R/lsm_c_contig_cv.R | 328 - R/lsm_c_contig_mn.R | 326 - R/lsm_c_contig_sd.R | 328 - R/lsm_c_core_cv.R | 342 - R/lsm_c_core_mn.R | 336 - R/lsm_c_core_sd.R | 340 - R/lsm_c_cpland.R | 368 +- R/lsm_c_dcad.R | 364 +- R/lsm_c_dcore_cv.R | 346 - R/lsm_c_dcore_mn.R | 338 - R/lsm_c_dcore_sd.R | 348 - R/lsm_c_division.R | 326 - R/lsm_c_ed.R | 372 +- R/lsm_c_enn_cv.R | 334 - R/lsm_c_enn_mn.R | 336 - R/lsm_c_enn_sd.R | 336 - R/lsm_c_frac_cv.R | 318 - R/lsm_c_frac_mn.R | 310 - R/lsm_c_frac_sd.R | 316 - R/lsm_c_gyrate_cv.R | 320 - R/lsm_c_gyrate_mn.R | 320 - R/lsm_c_gyrate_sd.R | 318 - R/lsm_c_iji.R | 362 +- R/lsm_c_lpi.R | 314 - R/lsm_c_lsi.R | 376 +- R/lsm_c_mesh.R | 330 - R/lsm_c_ndca.R | 344 - R/lsm_c_nlsi.R | 400 +- R/lsm_c_np.R | 324 - R/lsm_c_pafrac.R | 412 +- R/lsm_c_para_cv.R | 310 - R/lsm_c_para_mn.R | 310 - R/lsm_c_para_sd.R | 312 - R/lsm_c_pd.R | 330 - R/lsm_c_pladj.R | 312 - R/lsm_c_pland.R | 302 - R/lsm_c_shape_cv.R | 320 - R/lsm_c_shape_mn.R | 318 - R/lsm_c_shape_sd.R | 320 - R/lsm_c_split.R | 326 - R/lsm_c_tca.R | 338 - R/lsm_c_te.R | 508 +- R/lsm_l_ai.R | 316 - R/lsm_l_area_cv.R | 308 - R/lsm_l_area_mn.R | 314 - R/lsm_l_area_sd.R | 312 - R/lsm_l_cai_cv.R | 376 +- R/lsm_l_cai_mn.R | 372 +- R/lsm_l_cai_sd.R | 376 +- R/lsm_l_cohesion.R | 344 - R/lsm_l_condent.R | 368 +- R/lsm_l_contag.R | 360 +- R/lsm_l_contig_cv.R | 328 - R/lsm_l_contig_mn.R | 326 - R/lsm_l_contig_sd.R | 328 - R/lsm_l_core_cv.R | 370 +- R/lsm_l_core_mn.R | 366 +- R/lsm_l_core_sd.R | 368 +- R/lsm_l_dcad.R | 388 +- R/lsm_l_dcore_cv.R | 376 +- R/lsm_l_dcore_mn.R | 370 +- R/lsm_l_dcore_sd.R | 374 +- R/lsm_l_division.R | 320 - R/lsm_l_ed.R | 362 +- R/lsm_l_enn_cv.R | 332 - R/lsm_l_enn_mn.R | 332 - R/lsm_l_enn_sd.R | 332 - R/lsm_l_ent.R | 322 - R/lsm_l_frac_cv.R | 316 - R/lsm_l_frac_mn.R | 314 - R/lsm_l_frac_sd.R | 314 - R/lsm_l_gyrate_cv.R | 322 - R/lsm_l_gyrate_mn.R | 318 - R/lsm_l_gyrate_sd.R | 320 - R/lsm_l_iji.R | 366 +- R/lsm_l_joinent.R | 350 - R/lsm_l_lpi.R | 308 - R/lsm_l_lsi.R | 368 +- R/lsm_l_mesh.R | 318 - R/lsm_l_msidi.R | 320 - R/lsm_l_msiei.R | 310 - R/lsm_l_mutinf.R | 366 +- R/lsm_l_ndca.R | 368 +- R/lsm_l_np.R | 290 - R/lsm_l_pafrac.R | 396 +- R/lsm_l_para_cv.R | 310 - R/lsm_l_para_mn.R | 310 - R/lsm_l_para_sd.R | 310 - R/lsm_l_pd.R | 336 - R/lsm_l_pladj.R | 302 - R/lsm_l_pr.R | 266 - R/lsm_l_prd.R | 306 - R/lsm_l_rpr.R | 328 - R/lsm_l_shape_cv.R | 318 - R/lsm_l_shape_mn.R | 316 - R/lsm_l_shape_sd.R | 316 - R/lsm_l_shdi.R | 294 - R/lsm_l_shei.R | 294 - R/lsm_l_sidi.R | 302 - R/lsm_l_siei.R | 306 - R/lsm_l_split.R | 314 - R/lsm_l_ta.R | 294 - R/lsm_l_tca.R | 364 +- R/lsm_l_te.R | 404 +- R/lsm_p_area.R | 366 +- R/lsm_p_cai.R | 418 +- R/lsm_p_contig.R | 444 +- R/lsm_p_core.R | 474 +- R/lsm_p_enn.R | 482 +- R/lsm_p_frac.R | 356 +- R/lsm_p_gyrate.R | 422 +- R/lsm_p_ncore.R | 578 +-- R/lsm_p_para.R | 340 - R/lsm_p_perim.R | 446 +- R/lsm_p_shape.R | 382 +- R/matrix_to_raster.R | 164 R/onUnload.R | 16 R/options_landscapemetrics.R | 64 R/pad_raster.R | 548 +-- R/proj_info.R | 104 R/raster_to_points.R | 270 - R/sample_lsm.R | 79 R/scale_sample.R | 794 ++-- R/scale_window.R | 746 ++-- R/show_cores.R | 578 +-- R/show_correlation.R | 588 +-- R/show_lsm.R | 624 +-- R/show_patches.R | 446 +- R/spatialize_lsm.R | 18 R/unpad_raster.R | 470 +- R/window_lsm.R | 18 build/vignette.rds |binary inst/CITATION | 30 inst/doc/getstarted.Rmd | 364 +- inst/doc/getstarted.html | 4 man/augusta_nlcd.Rd | 4 man/data_info.Rd | 2 man/fragstats_class_augusta_nlcd.Rd | 6 man/fragstats_class_landscape.Rd | 6 man/fragstats_class_podlasie.Rd | 6 man/fragstats_landscape_augusta_nlcd.Rd | 4 man/fragstats_landscape_landscape.Rd | 4 man/fragstats_landscape_podlasie.Rd | 4 man/fragstats_patch_augusta_nlcd.Rd | 6 man/fragstats_patch_landscape.Rd | 6 man/fragstats_patch_podlasie.Rd | 6 man/landscape.Rd | 6 man/landscapemetrics.Rd | 2 man/lsm_abbreviations_names.Rd | 4 man/podlasie_ccilc.Rd | 6 man/proj_info.Rd | 2 man/rcpp_xy_from_matrix.Rd | 2 man/sample_lsm.Rd | 8 man/show_cores.Rd | 10 man/show_lsm.Rd | 10 man/show_patches.Rd | 10 tests/testthat.R | 10 tests/testthat/helper-brick.R | 8 tests/testthat/helper-landscapes.R | 42 tests/testthat/helper-points.R | 36 tests/testthat/test-calculate-lsm.R | 262 - tests/testthat/test-calculate_correlation.R | 140 tests/testthat/test-check-landscape.R | 160 tests/testthat/test-construct-buffer.R | 80 tests/testthat/test-different-classes.R | 28 tests/testthat/test-extract-lsm.R | 272 - tests/testthat/test-get-adjacencies.R | 166 tests/testthat/test-get-boundaries.R | 102 tests/testthat/test-get-nearestneighbour.R | 66 tests/testthat/test-get-unique-values.R | 182 - tests/testthat/test-list-lsm.R | 182 - tests/testthat/test-lsm-c-ai.R | 68 tests/testthat/test-lsm-c-area-cv.R | 48 tests/testthat/test-lsm-c-area-mn.R | 50 tests/testthat/test-lsm-c-area-sd.R | 48 tests/testthat/test-lsm-c-ca.R | 52 tests/testthat/test-lsm-c-cai-cv.R | 50 tests/testthat/test-lsm-c-cai-mn.R | 50 tests/testthat/test-lsm-c-cai-sd.R | 46 tests/testthat/test-lsm-c-circle-cv.R | 52 tests/testthat/test-lsm-c-circle-mn.R | 48 tests/testthat/test-lsm-c-circle-sd.R | 48 tests/testthat/test-lsm-c-clumpy.R | 48 tests/testthat/test-lsm-c-cohesion.R | 50 tests/testthat/test-lsm-c-contig-cv.R | 50 tests/testthat/test-lsm-c-contig-mn.R | 50 tests/testthat/test-lsm-c-contig-sd.R | 50 tests/testthat/test-lsm-c-core-cv.R | 46 tests/testthat/test-lsm-c-core-mn.R | 46 tests/testthat/test-lsm-c-core-sd.R | 46 tests/testthat/test-lsm-c-cpland.R | 48 tests/testthat/test-lsm-c-dcad.R | 48 tests/testthat/test-lsm-c-dcore_cv.R | 46 tests/testthat/test-lsm-c-dcore_mn.R | 46 tests/testthat/test-lsm-c-dcore_sd.R | 46 tests/testthat/test-lsm-c-division.R | 48 tests/testthat/test-lsm-c-ed.R | 48 tests/testthat/test-lsm-c-enn-cv.R | 46 tests/testthat/test-lsm-c-enn-mn.R | 46 tests/testthat/test-lsm-c-enn-sd.R | 46 tests/testthat/test-lsm-c-frac-cv.R | 46 tests/testthat/test-lsm-c-frac-mn.R | 46 tests/testthat/test-lsm-c-frac-sd.R | 46 tests/testthat/test-lsm-c-gyrate-cv.R | 46 tests/testthat/test-lsm-c-gyrate-mn.R | 46 tests/testthat/test-lsm-c-gyrate-sd.R | 46 tests/testthat/test-lsm-c-iji.R | 68 tests/testthat/test-lsm-c-lpi.R | 48 tests/testthat/test-lsm-c-lsi.R | 48 tests/testthat/test-lsm-c-mesh.R | 48 tests/testthat/test-lsm-c-ndca.R | 48 tests/testthat/test-lsm-c-nlsi.R | 48 tests/testthat/test-lsm-c-np.R | 48 tests/testthat/test-lsm-c-pafrac.R | 76 tests/testthat/test-lsm-c-para-cv.R | 46 tests/testthat/test-lsm-c-para-mn.R | 46 tests/testthat/test-lsm-c-para-sd.R | 46 tests/testthat/test-lsm-c-pd.R | 48 tests/testthat/test-lsm-c-pladj.R | 48 tests/testthat/test-lsm-c-pland.R | 48 tests/testthat/test-lsm-c-shape-cv.R | 46 tests/testthat/test-lsm-c-shape-mn.R | 46 tests/testthat/test-lsm-c-shape-sd.R | 46 tests/testthat/test-lsm-c-split.R | 48 tests/testthat/test-lsm-c-tca.R | 48 tests/testthat/test-lsm-c-te.R | 104 tests/testthat/test-lsm-l-ai.R | 48 tests/testthat/test-lsm-l-area-cv.R | 46 tests/testthat/test-lsm-l-area-mn.R | 50 tests/testthat/test-lsm-l-area-sd.R | 50 tests/testthat/test-lsm-l-cai-cv.R | 50 tests/testthat/test-lsm-l-cai-mn.R | 50 tests/testthat/test-lsm-l-cai-sd.R | 50 tests/testthat/test-lsm-l-circle-cv.R | 50 tests/testthat/test-lsm-l-circle-mn.R | 50 tests/testthat/test-lsm-l-circle-sd.R | 50 tests/testthat/test-lsm-l-cohesion.R | 48 tests/testthat/test-lsm-l-condent.R | 48 tests/testthat/test-lsm-l-contag.R | 66 tests/testthat/test-lsm-l-contig-cv.R | 46 tests/testthat/test-lsm-l-contig-mn.R | 46 tests/testthat/test-lsm-l-contig-sd.R | 46 tests/testthat/test-lsm-l-core-cv.R | 50 tests/testthat/test-lsm-l-core-mn.R | 50 tests/testthat/test-lsm-l-core-sd.R | 50 tests/testthat/test-lsm-l-dcad.R | 48 tests/testthat/test-lsm-l-dcore-cv.R | 50 tests/testthat/test-lsm-l-dcore-mn.R | 50 tests/testthat/test-lsm-l-dcore-sd.R | 50 tests/testthat/test-lsm-l-division.R | 48 tests/testthat/test-lsm-l-ed.R | 48 tests/testthat/test-lsm-l-enn-cv.R | 50 tests/testthat/test-lsm-l-enn-mn.R | 50 tests/testthat/test-lsm-l-enn-sd.R | 50 tests/testthat/test-lsm-l-ent.R | 48 tests/testthat/test-lsm-l-frac-cv.R | 46 tests/testthat/test-lsm-l-frac-mn.R | 46 tests/testthat/test-lsm-l-frac-sd.R | 46 tests/testthat/test-lsm-l-gyrate-cv.R | 46 tests/testthat/test-lsm-l-gyrate-mn.R | 46 tests/testthat/test-lsm-l-gyrate-sd.R | 48 tests/testthat/test-lsm-l-iji.R | 68 tests/testthat/test-lsm-l-joinent.R | 48 tests/testthat/test-lsm-l-lpi.R | 48 tests/testthat/test-lsm-l-lsi.R | 48 tests/testthat/test-lsm-l-mesh.R | 48 tests/testthat/test-lsm-l-msidi.R | 48 tests/testthat/test-lsm-l-msiei.R | 48 tests/testthat/test-lsm-l-mutinf.R | 48 tests/testthat/test-lsm-l-ndca.R | 48 tests/testthat/test-lsm-l-np.R | 48 tests/testthat/test-lsm-l-pafrac.R | 66 tests/testthat/test-lsm-l-para-cv.R | 46 tests/testthat/test-lsm-l-para-mn.R | 46 tests/testthat/test-lsm-l-para-sd.R | 46 tests/testthat/test-lsm-l-pd.R | 48 tests/testthat/test-lsm-l-pladj.R | 48 tests/testthat/test-lsm-l-pr.R | 48 tests/testthat/test-lsm-l-prd.R | 48 tests/testthat/test-lsm-l-rpr.R | 48 tests/testthat/test-lsm-l-shape-cv.R | 46 tests/testthat/test-lsm-l-shape-mn.R | 46 tests/testthat/test-lsm-l-shape-sd.R | 46 tests/testthat/test-lsm-l-shdi.R | 48 tests/testthat/test-lsm-l-shei.R | 48 tests/testthat/test-lsm-l-sidi.R | 48 tests/testthat/test-lsm-l-siei.R | 48 tests/testthat/test-lsm-l-split.R | 48 tests/testthat/test-lsm-l-ta.R | 48 tests/testthat/test-lsm-l-tca.R | 48 tests/testthat/test-lsm-l-te.R | 114 tests/testthat/test-lsm-p-area.R | 50 tests/testthat/test-lsm-p-cai.R | 46 tests/testthat/test-lsm-p-contig.R | 50 tests/testthat/test-lsm-p-core.R | 68 tests/testthat/test-lsm-p-enn.R | 50 tests/testthat/test-lsm-p-frac.R | 50 tests/testthat/test-lsm-p-gyrate.R | 50 tests/testthat/test-lsm-p-nca.R | 50 tests/testthat/test-lsm-p-para.R | 50 tests/testthat/test-lsm-p-perim.R | 54 tests/testthat/test-lsm-p-shape.R | 48 tests/testthat/test-matrix-to-raster.R | 96 tests/testthat/test-options-landscapemetrics.R | 26 tests/testthat/test-pad-raster.R | 100 tests/testthat/test-raster-to-points.R | 94 tests/testthat/test-rcpp-get-coocurrence-matrix.R | 204 - tests/testthat/test-rcpp-get-entropy.R | 46 tests/testthat/test-rcpp_ccl.R | 24 tests/testthat/test-sample-lsm.R | 448 +- tests/testthat/test-scale-sample.R | 200 - tests/testthat/test-scale-window.R | 172 tests/testthat/test-show-cores.R | 106 tests/testthat/test-show-correlation.R | 118 tests/testthat/test-show-lsm.R | 96 tests/testthat/test-show-patches.R | 74 tests/testthat/test-unique-values.R | 26 tests/testthat/test-unpad-raster.R | 108 tests/testthat/test_fragstats.R | 3884 +++++++++++----------- vignettes/getstarted.Rmd | 364 +- 346 files changed, 34962 insertions(+), 34888 deletions(-)
More information about landscapemetrics at CRAN
Permanent link
Title: Tools for Working with ...
Description: The ellipsis is a powerful tool for extending functions. Unfortunately
this power comes at a cost: misspelled arguments will be silently ignored.
The ellipsis package provides a collection of functions to catch problems
and alert the user.
Author: Hadley Wickham [aut, cre],
RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between ellipsis versions 0.3.0 dated 2019-09-20 and 0.3.1 dated 2020-05-15
DESCRIPTION | 8 ++++---- MD5 | 13 +++++++------ NEWS.md | 16 ++++++++++++++-- R/check.R | 10 +++++----- R/dots.R | 12 +++++++++++- man/dots_empty.Rd | 4 ++-- man/dots_used.Rd |only src/dots.c | 1 - 8 files changed, 43 insertions(+), 21 deletions(-)
More information about ChannelAttributionApp at CRAN
Permanent link
Title: Analyze Cricket Performances Based on Data from Cricsheet
Description: Analyzing performances of cricketers and cricket teams
based on 'yaml' match data from Cricsheet <http://cricsheet.org>.
Author: Tinniam V Ganesh
Maintainer: Tinniam V Ganesh <tvganesh.85@gmail.com>
Diff between yorkr versions 0.0.8 dated 2020-05-03 and 0.0.9 dated 2020-05-15
DESCRIPTION | 6 +- MD5 | 66 +++++++++++++++++++++++-------- NAMESPACE | 16 +++++++ R/rankBBLBatsmen.R |only R/rankBBLBowlers.R |only R/rankIPLBatsmen.R | 10 ++-- R/rankIPLBowlers.R | 11 +++-- R/rankNTBBatsmen.R |only R/rankNTBBowlers.R |only R/rankODIBatsmen.R | 8 ++- R/rankODIBowlers.R | 9 ++-- R/rankPSLBatsmen.R |only R/rankPSLBowlers.R |only R/rankT20Batsmen.R | 8 ++- R/rankT20Bowlers.R | 10 ++-- R/rankWBBBatsmen.R |only R/rankWBBBowlers.R |only R/saveAllMatchesAllOppositionBBLT20.R |only R/saveAllMatchesAllOppositionIPLT20.R | 2 R/saveAllMatchesAllOppositionNTBT20.R |only R/saveAllMatchesAllOppositionPSLT20.R |only R/saveAllMatchesAllOppositionWBBT20.R |only R/saveAllMatchesBetween2BBLTeams.R |only R/saveAllMatchesBetween2IPLTeams.R | 1 R/saveAllMatchesBetween2NTBTeams.R |only R/saveAllMatchesBetween2PSLTeams.R |only R/saveAllMatchesBetween2WBBTeams.R |only man/rankBBLBatsmen.Rd |only man/rankBBLBowlers.Rd |only man/rankIPLBatsmen.Rd | 4 + man/rankIPLBowlers.Rd | 4 + man/rankNTBBatsmen.Rd |only man/rankNTBBowlers.Rd |only man/rankODIBatsmen.Rd | 4 + man/rankODIBowlers.Rd | 4 + man/rankPSLBatsmen.Rd |only man/rankPSLBowlers.Rd |only man/rankT20Batsmen.Rd | 4 + man/rankT20Bowlers.Rd | 4 + man/rankWBBBatsmen.Rd |only man/rankWBBBowlers.Rd |only man/saveAllMatchesAllOppositionBBLT20.Rd |only man/saveAllMatchesAllOppositionIPLT20.Rd | 2 man/saveAllMatchesAllOppositionNTBT20.Rd |only man/saveAllMatchesAllOppositionPSLT20.Rd |only man/saveAllMatchesAllOppositionWBBT20.Rd |only man/saveAllMatchesBetween2BBLTeams.Rd |only man/saveAllMatchesBetween2NTBTeams.Rd |only man/saveAllMatchesBetween2PSLTeams.Rd |only man/saveAllMatchesBetween2WBBTeams.Rd |only 50 files changed, 123 insertions(+), 50 deletions(-)
Title: Hybrid Bayesian Networks Using R and JAGS
Description: Facilities for easy implementation of hybrid Bayesian networks
using R. Bayesian networks are directed acyclic graphs representing joint
probability distributions, where each node represents a random variable and
each edge represents conditionality. The full joint distribution is therefore
factorized as a product of conditional densities, where each node is assumed
to be independent of its non-descendents given information on its parent nodes.
Since exact, closed-form algorithms are computationally burdensome for inference
within hybrid networks that contain a combination of continuous and discrete
nodes, particle-based approximation techniques like Markov Chain Monte Carlo
are popular. We provide a user-friendly interface to constructing these networks
and running inference using the 'rjags' package. Econometric analyses (maximum
expected utility under competing policies, value of information) involving
decision and utility nodes are also supported.
Author: Jarrod E. Dalton <daltonj@ccf.org> and Benjamin Nutter
<benjamin.nutter@gmail.com>
Maintainer: Benjamin Nutter <benjamin.nutter@gmail.com>
Diff between HydeNet versions 0.10.9 dated 2019-01-11 and 0.10.10 dated 2020-05-15
DESCRIPTION | 14 MD5 | 82 +- NEWS | 6 R/bindPosterior.R | 4 R/inputCPT.R | 23 R/print.HydeNetwork.R | 2 R/summary.HydeNetwork.R | 1 R/sysdata.rda |binary R/writeNetworkModel.R | 2 build/vignette.rds |binary data/BJDealer.RData |binary data/BlackJack.RData |binary data/BlackJackTrain.RData |binary data/PE.RData |binary data/Resolution.cpt.RData |binary data/SE.cpt.RData |binary data/inputCPTExample.RData |binary data/jagsDists.RData |binary data/jagsFunctions.RData |binary inst/doc/DecisionNetworks.R | 28 inst/doc/DecisionNetworks.html | 934 +++++++++++++++++++------------- inst/doc/GettingStartedWithHydeNet.R | 36 - inst/doc/GettingStartedWithHydeNet.html | 525 ++++++++++++----- inst/doc/HydeNetPlots.R | 28 inst/doc/HydeNetPlots.Rmd | 8 inst/doc/HydeNetPlots.html | 411 ++++++++++---- inst/doc/WorkingWithHydeNetObjects.R | 62 +- inst/doc/WorkingWithHydeNetObjects.html | 628 +++++++++++++-------- man/BJDealer.Rd | 6 man/BlackJack.Rd | 6 man/BlackJackTrain.Rd | 6 man/HydeSim.Rd | 11 man/PE.Rd | 6 man/Resolution.cpt.Rd | 4 man/SE.cpt.Rd | 4 man/compileJagsModel.Rd | 2 man/inputCPTExample.Rd | 4 man/jagsDists.Rd | 6 man/jagsFunctions.Rd | 6 man/plot.HydeNetwork.Rd | 19 man/setNode.Rd | 22 vignettes/HydeNetPlots.Rmd | 8 42 files changed, 1872 insertions(+), 1032 deletions(-)
Title: Tools to Work with Google's 'DNS'-over-'HTTPS' ('DoH') API
Description: To address the problem of insecurity of 'UDP'-based 'DNS' requests,
Google Public 'DNS' offers 'DNS' resolution over an encrypted 'HTTPS'
connection. 'DNS'-over-'HTTPS' greatly enhances privacy and security
between a client and a recursive resolver, and complements 'DNSSEC'
to provide end-to-end authenticated DNS lookups. Functions that enable
querying individual requests that bulk requests that return detailed
responses and bulk requests are both provided. Support for reverse
lookups is also provided. See
<https://developers.google.com/speed/public-dns/docs/dns-over-https>
for more information.
Author: Bob Rudis [aut, cre] (<https://orcid.org/0000-0001-5670-2640>)
Maintainer: Bob Rudis <bob@rud.is>
Diff between gdns versions 0.3.1 dated 2018-09-17 and 0.5.0 dated 2020-05-15
gdns-0.3.1/gdns/tests/testthat |only gdns-0.3.1/gdns/tests/testthat.R |only gdns-0.5.0/gdns/DESCRIPTION | 26 - gdns-0.5.0/gdns/LICENSE |only gdns-0.5.0/gdns/MD5 | 58 ++-- gdns-0.5.0/gdns/NAMESPACE | 5 gdns-0.5.0/gdns/NEWS.md | 14 gdns-0.5.0/gdns/R/as-data-frame.R |only gdns-0.5.0/gdns/R/datasets.R |only gdns-0.5.0/gdns/R/gdns-package.r | 1 gdns-0.5.0/gdns/R/spf.r | 13 gdns-0.5.0/gdns/R/utils-pipe.R |only gdns-0.5.0/gdns/R/utils.R | 4 gdns-0.5.0/gdns/R/zbulk-query.R | 32 +- gdns-0.5.0/gdns/R/zgdns.r | 86 +++++- gdns-0.5.0/gdns/README.md | 298 ++++++++++----------- gdns-0.5.0/gdns/data/dns_classes.rda |only gdns-0.5.0/gdns/data/dns_glob_names.rda |only gdns-0.5.0/gdns/data/dns_opcodes.rda |only gdns-0.5.0/gdns/data/dns_rcodes.rda |only gdns-0.5.0/gdns/data/edns0_option_codes.rda |only gdns-0.5.0/gdns/data/resource_record_tbl.rda |binary gdns-0.5.0/gdns/data/rrtypes.rda |only gdns-0.5.0/gdns/inst |only gdns-0.5.0/gdns/man/as.data.frame.gdns_response.Rd |only gdns-0.5.0/gdns/man/bulk_query.Rd | 20 + gdns-0.5.0/gdns/man/dns_classes.Rd |only gdns-0.5.0/gdns/man/dns_glob_names.Rd |only gdns-0.5.0/gdns/man/dns_opcodes.Rd |only gdns-0.5.0/gdns/man/dns_rcodes.Rd |only gdns-0.5.0/gdns/man/edns0_option_codes.Rd |only gdns-0.5.0/gdns/man/gdns.Rd | 1 gdns-0.5.0/gdns/man/has_spf.Rd | 6 gdns-0.5.0/gdns/man/is_soft_fail.Rd | 8 gdns-0.5.0/gdns/man/pipe.Rd |only gdns-0.5.0/gdns/man/query.Rd | 55 +++ gdns-0.5.0/gdns/man/resource_record_tbl.Rd | 6 gdns-0.5.0/gdns/man/rrtypes.Rd |only gdns-0.5.0/gdns/man/spf_ipv4s.Rd | 4 gdns-0.5.0/gdns/man/split_spf.Rd | 6 gdns-0.5.0/gdns/tests/tinytest.R |only 41 files changed, 411 insertions(+), 232 deletions(-)
Title: 'Serpstat' API Wrapper
Description: The primary goal of 'Serpstat' API <https://serpstat.com/api/>
is to reduce manual SEO (search engine optimization) and PPC (pay-per-click)
tasks. You can automate your keywords research or competitors analysis
with this API wrapper.
Author: Alex Danilin [aut, cre]
Maintainer: Alex Danilin <alexnikdanilin@gmail.com>
Diff between serpstatr versions 0.0.1 dated 2020-01-13 and 0.0.2 dated 2020-05-15
serpstatr-0.0.1/serpstatr/tests/testthat/test_search_analytics.R |only serpstatr-0.0.2/serpstatr/DESCRIPTION | 8 +- serpstatr-0.0.2/serpstatr/MD5 | 31 +++---- serpstatr-0.0.2/serpstatr/NAMESPACE | 2 serpstatr-0.0.2/serpstatr/NEWS.md | 6 + serpstatr-0.0.2/serpstatr/R/search_analytics.R | 14 +++ serpstatr-0.0.2/serpstatr/R/utility_functions.R | 40 +++++----- serpstatr-0.0.2/serpstatr/man/sst_call_api_method.Rd | 14 ++- serpstatr-0.0.2/serpstatr/man/sst_return_check.Rd | 13 --- serpstatr-0.0.2/serpstatr/man/sst_sa_database_info.Rd | 2 serpstatr-0.0.2/serpstatr/man/sst_sa_domain_keywords.Rd | 2 serpstatr-0.0.2/serpstatr/man/sst_sa_domains_info.Rd | 2 serpstatr-0.0.2/serpstatr/man/sst_sa_keyword_top.Rd | 2 serpstatr-0.0.2/serpstatr/man/sst_sa_keywords.Rd | 2 serpstatr-0.0.2/serpstatr/man/sst_sa_keywords_info.Rd | 2 serpstatr-0.0.2/serpstatr/man/sst_sa_stats.Rd | 2 serpstatr-0.0.2/serpstatr/tests/testthat/test_utils.R | 24 ------ 17 files changed, 83 insertions(+), 83 deletions(-)
Title: Import Professional Baseball Data from 'Retrosheet'
Description: A collection of tools to import and structure the (currently) single-season
event, game-log, roster, and schedule data available from <http://www.retrosheet.org>.
In particular, the event (a.k.a. play-by-play) files can be especially difficult to parse.
This package does the parsing on those files, returning the requested data in the most
practical R structure to use for sabermetric or other analyses.
Author: Colin Douglas [aut, cre, cph],
Richard Scriven [aut, cph]
Maintainer: Colin Douglas <colindouglas@gmail.com>
Diff between retrosheet versions 1.1.1 dated 2020-03-22 and 1.1.2 dated 2020-05-15
DESCRIPTION | 17 ++---- MD5 | 28 +++++----- NAMESPACE | 11 +-- NEWS.md | 8 ++ R/getFileNames.R | 4 - R/getParkIDs.R | 18 +++++- R/getPartialGamelog.R | 22 +++---- R/getRetrosheet.R | 14 +---- R/getTeamIDs.R | 10 +-- R/get_retrosheet.R | 74 ++++++++++++++------------ README.md | 89 ++++++++++++++++++++------------ man/getPartialGamelog.Rd | 4 + man/get_retrosheet.Rd | 16 ++--- tests/testthat/test-getPartialGamelog.R | 4 - tests/testthat/test-get_retrosheet.R | 26 +++++++++ 15 files changed, 203 insertions(+), 142 deletions(-)
Title: Partially Additive (Generalized) Linear Model Trees
Description: This is an implementation of model-based trees with global model
parameters (PALM trees). The PALM tree algorithm is an extension to the MOB
algorithm (implemented in the 'partykit' package), where some parameters are
fixed across all groups. Details about the method can be found in Seibold,
Hothorn, Zeileis (2016) <arXiv:1612.07498>. The package offers coef(),
logLik(), plot(), and predict() functions for PALM trees.
Author: Heidi Seibold [aut, cre] (<https://orcid.org/0000-0002-8960-9642>),
Torsten Hothorn [aut] (<https://orcid.org/0000-0001-8301-0471>),
Achim Zeileis [aut] (<https://orcid.org/0000-0003-0918-3766>)
Maintainer: Heidi Seibold <heidi@seibold.co>
Diff between palmtree versions 0.9-0 dated 2018-01-16 and 0.9-1 dated 2020-05-15
DESCRIPTION | 14 - MD5 | 8 R/palmtree.R | 378 +++++++++++++++++++++--------------------- tests/test-palmtree.R | 4 tests/test-palmtree.Rout.save | 14 + 5 files changed, 213 insertions(+), 205 deletions(-)
Title: Methods for Nonparametric Changepoint Detection
Description: Implements the multiple changepoint algorithm PELT with a nonparametric cost function based on the empirical distribution of the data. This package extends the changepoint package (see Killick, R and Eckley, I (2014) <doi:10.18637/jss.v058.i03> ).
Author: Kaylea Haynes [aut],
Rebecca Killick [aut],
Paul Fearnhead [ths, ctb],
Idris Eckley [ths],
Daniel Grose [ctb, cre]
Maintainer: Daniel Grose <changepoints@lancaster.ac.uk>
Diff between changepoint.np versions 1.0.1 dated 2019-05-20 and 1.0.2 dated 2020-05-15
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ R/HeartRate.R | 2 ++ build/partial.rdb |binary man/HeartRate.Rd | 2 +- man/cpt.np.Rd | 13 ++++++++++--- src/costfunctions.c | 12 ++++++------ 7 files changed, 30 insertions(+), 21 deletions(-)
More information about changepoint.np at CRAN
Permanent link
Title: Functions to Support the ICES Transparent Assessment Framework
Description: Functions to support the ICES Transparent Assessment Framework
<https://taf.ices.dk> to organize data, methods, and results used in ICES
assessments. ICES is an organization facilitating international collaboration
in marine science.
Author: Arni Magnusson [aut, cre],
Colin Millar [aut],
Alexandros Kokkalis [ctb],
Iago Mosqueira [ctb],
Ibrahim Umar [ctb]
Maintainer: Arni Magnusson <arni.magnusson@ices.dk>
Diff between icesTAF versions 3.4-0 dated 2020-04-07 and 3.5-0 dated 2020-05-15
icesTAF-3.4-0/icesTAF/data/catage.long.rda |only icesTAF-3.4-0/icesTAF/data/catage.taf.rda |only icesTAF-3.4-0/icesTAF/data/catage.xtab.rda |only icesTAF-3.4-0/icesTAF/data/summary.taf.rda |only icesTAF-3.4-0/icesTAF/data/taf.colors.rda |only icesTAF-3.5-0/icesTAF/DESCRIPTION | 10 - icesTAF-3.5-0/icesTAF/MD5 | 90 +++++++------- icesTAF-3.5-0/icesTAF/NAMESPACE | 2 icesTAF-3.5-0/icesTAF/NEWS | 43 +++++- icesTAF-3.5-0/icesTAF/R/clean.R | 5 icesTAF-3.5-0/icesTAF/R/clean.data.R |only icesTAF-3.5-0/icesTAF/R/clean.library.R | 18 +- icesTAF-3.5-0/icesTAF/R/clean.software.R | 52 ++++---- icesTAF-3.5-0/icesTAF/R/cp.R | 5 icesTAF-3.5-0/icesTAF/R/detach.packages.R |only icesTAF-3.5-0/icesTAF/R/download.R | 4 icesTAF-3.5-0/icesTAF/R/download.github.R | 14 -- icesTAF-3.5-0/icesTAF/R/draft.data.R | 4 icesTAF-3.5-0/icesTAF/R/icesTAF-package.R | 2 icesTAF-3.5-0/icesTAF/R/process.bibfile.R | 8 - icesTAF-3.5-0/icesTAF/R/process.entry.R | 17 ++ icesTAF-3.5-0/icesTAF/R/sourceTAF.R | 13 +- icesTAF-3.5-0/icesTAF/R/taf.bootstrap.R | 23 ++- icesTAF-3.5-0/icesTAF/R/taf.install.R | 14 -- icesTAF-3.5-0/icesTAF/R/taf.libPaths.R | 29 +++- icesTAF-3.5-0/icesTAF/R/taf.library.R | 7 - icesTAF-3.5-0/icesTAF/R/taf.png.R | 18 +- icesTAF-3.5-0/icesTAF/R/taf.session.R | 59 +++++---- icesTAF-3.5-0/icesTAF/R/zoom.R | 11 + icesTAF-3.5-0/icesTAF/data/catage.long.R |only icesTAF-3.5-0/icesTAF/data/catage.taf.R |only icesTAF-3.5-0/icesTAF/data/catage.xtab.R |only icesTAF-3.5-0/icesTAF/data/summary.taf.R |only icesTAF-3.5-0/icesTAF/data/taf.colors.R |only icesTAF-3.5-0/icesTAF/man/clean.Rd | 2 icesTAF-3.5-0/icesTAF/man/clean.data.Rd |only icesTAF-3.5-0/icesTAF/man/clean.library.Rd | 11 + icesTAF-3.5-0/icesTAF/man/clean.software.Rd | 11 + icesTAF-3.5-0/icesTAF/man/cp.Rd | 4 icesTAF-3.5-0/icesTAF/man/detach.packages.Rd |only icesTAF-3.5-0/icesTAF/man/download.Rd | 4 icesTAF-3.5-0/icesTAF/man/download.github.Rd | 4 icesTAF-3.5-0/icesTAF/man/draft.data.Rd | 4 icesTAF-3.5-0/icesTAF/man/icesTAF-package.Rd | 2 icesTAF-3.5-0/icesTAF/man/sourceTAF.Rd | 11 + icesTAF-3.5-0/icesTAF/man/taf.bootstrap.Rd | 22 ++- icesTAF-3.5-0/icesTAF/man/taf.install.Rd | 2 icesTAF-3.5-0/icesTAF/man/taf.libPaths.Rd | 17 ++ icesTAF-3.5-0/icesTAF/man/taf.library.Rd | 7 - icesTAF-3.5-0/icesTAF/man/taf.png.Rd | 16 +- icesTAF-3.5-0/icesTAF/man/taf.session.Rd | 21 +-- icesTAF-3.5-0/icesTAF/man/zoom.Rd | 11 + icesTAF-3.5-0/icesTAF/tests/Examples/icesTAF-Ex.Rout.save | 89 +++++++++++++ 53 files changed, 474 insertions(+), 212 deletions(-)
Title: Systematic Conservation Prioritization in R
Description: Conservation prioritization using integer
programming techniques. To solve large-scale problems, users
should install the 'gurobi' optimizer
(available from <http://www.gurobi.com/>).
Author: Jeffrey O Hanson [aut] (<https://orcid.org/0000-0002-4716-6134>),
Richard Schuster [aut, cre] (<https://orcid.org/0000-0003-3191-7869>),
Nina Morrell [aut],
Matthew Strimas-Mackey [aut] (<https://orcid.org/0000-0001-8929-7776>),
Matthew E Watts [aut],
Peter Arcese [aut] (<https://orcid.org/0000-0002-8097-482X>),
Joseph Bennett [aut] (<https://orcid.org/0000-0002-3901-9513>),
Hugh P Possingham [aut] (<https://orcid.org/0000-0001-7755-996X>)
Maintainer: Richard Schuster <richard.schuster@glel.carleton.ca>
Diff between prioritizr versions 4.1.5 dated 2020-02-05 and 5.0.1 dated 2020-05-15
prioritizr-4.1.5/prioritizr/R/add_pool_portfolio.R |only prioritizr-4.1.5/prioritizr/R/connected_matrix.R |only prioritizr-4.1.5/prioritizr/R/parallel.R |only prioritizr-4.1.5/prioritizr/man/add_pool_portfolio.Rd |only prioritizr-4.1.5/prioritizr/man/connected_matrix.Rd |only prioritizr-4.1.5/prioritizr/man/is.parallel.Rd |only prioritizr-4.1.5/prioritizr/man/parallel.Rd |only prioritizr-4.1.5/prioritizr/tests/testthat/test_add_pool_portfolio.R |only prioritizr-4.1.5/prioritizr/tests/testthat/test_connected_matrix.R |only prioritizr-4.1.5/prioritizr/tests/testthat/test_parallel.R |only prioritizr-5.0.1/prioritizr/DESCRIPTION | 93 +- prioritizr-5.0.1/prioritizr/MD5 | 346 ++++----- prioritizr-5.0.1/prioritizr/NAMESPACE | 30 prioritizr-5.0.1/prioritizr/R/ConservationProblem-proto.R | 16 prioritizr-5.0.1/prioritizr/R/RcppExports.R | 8 prioritizr-5.0.1/prioritizr/R/add_boundary_penalties.R | 12 prioritizr-5.0.1/prioritizr/R/add_connectivity_penalties.R | 2 prioritizr-5.0.1/prioritizr/R/add_contiguity_constraints.R | 19 prioritizr-5.0.1/prioritizr/R/add_cuts_portfolio.R | 12 prioritizr-5.0.1/prioritizr/R/add_extra_portfolio.R |only prioritizr-5.0.1/prioritizr/R/add_feature_contiguity_constraints.R | 23 prioritizr-5.0.1/prioritizr/R/add_gap_portfolio.R |only prioritizr-5.0.1/prioritizr/R/add_gurobi_solver.R | 7 prioritizr-5.0.1/prioritizr/R/add_locked_in_constraints.R | 38 - prioritizr-5.0.1/prioritizr/R/add_locked_out_constraints.R | 21 prioritizr-5.0.1/prioritizr/R/add_lpsymphony_solver.R | 20 prioritizr-5.0.1/prioritizr/R/add_manual_bounded_constraints.R | 2 prioritizr-5.0.1/prioritizr/R/add_manual_locked_constraints.R | 2 prioritizr-5.0.1/prioritizr/R/add_manual_targets.R | 3 prioritizr-5.0.1/prioritizr/R/add_neighbor_contraints.R | 27 prioritizr-5.0.1/prioritizr/R/add_rsymphony_solver.R | 29 prioritizr-5.0.1/prioritizr/R/add_shuffle_portfolio.R | 7 prioritizr-5.0.1/prioritizr/R/add_top_portfolio.R |only prioritizr-5.0.1/prioritizr/R/adjacency_matrix.R |only prioritizr-5.0.1/prioritizr/R/boundary_matrix.R | 45 - prioritizr-5.0.1/prioritizr/R/category_vector.R | 25 prioritizr-5.0.1/prioritizr/R/connectivity_matrix.R | 107 +- prioritizr-5.0.1/prioritizr/R/data.R | 33 prioritizr-5.0.1/prioritizr/R/deprecated.R | 45 + prioritizr-5.0.1/prioritizr/R/distribute_load.R |only prioritizr-5.0.1/prioritizr/R/fast_extract.R | 241 +++--- prioritizr-5.0.1/prioritizr/R/feature_representation.R | 274 +++---- prioritizr-5.0.1/prioritizr/R/ferrier_score.R |only prioritizr-5.0.1/prioritizr/R/internal.R | 120 +-- prioritizr-5.0.1/prioritizr/R/intersecting_units.R | 158 ++-- prioritizr-5.0.1/prioritizr/R/irreplaceability.R | 102 ++ prioritizr-5.0.1/prioritizr/R/marxan_problem.R | 6 prioritizr-5.0.1/prioritizr/R/package.R | 1 prioritizr-5.0.1/prioritizr/R/portfolios.R | 66 + prioritizr-5.0.1/prioritizr/R/presolve_check.R | 2 prioritizr-5.0.1/prioritizr/R/problem.R | 371 +++++++--- prioritizr-5.0.1/prioritizr/R/proximity_matrix.R |only prioritizr-5.0.1/prioritizr/R/rarity_weighted_richness.R | 87 +- prioritizr-5.0.1/prioritizr/R/replacement_cost.R | 93 ++ prioritizr-5.0.1/prioritizr/R/rij_matrix.R | 81 +- prioritizr-5.0.1/prioritizr/R/sf.R |only prioritizr-5.0.1/prioritizr/R/solve.R | 88 +- prioritizr-5.0.1/prioritizr/README.md | 246 +++--- prioritizr-5.0.1/prioritizr/build/vignette.rds |binary prioritizr-5.0.1/prioritizr/data/sim_features.rda |binary prioritizr-5.0.1/prioritizr/data/sim_features_zones.rda |binary prioritizr-5.0.1/prioritizr/data/sim_locked_in_raster.rda |binary prioritizr-5.0.1/prioritizr/data/sim_locked_out_raster.rda |binary prioritizr-5.0.1/prioritizr/data/sim_phylogeny.rda |binary prioritizr-5.0.1/prioritizr/data/sim_pu_lines.rda |binary prioritizr-5.0.1/prioritizr/data/sim_pu_points.rda |binary prioritizr-5.0.1/prioritizr/data/sim_pu_polygons.rda |binary prioritizr-5.0.1/prioritizr/data/sim_pu_raster.rda |binary prioritizr-5.0.1/prioritizr/data/sim_pu_sf.rda |only prioritizr-5.0.1/prioritizr/data/sim_pu_zones_polygons.rda |binary prioritizr-5.0.1/prioritizr/data/sim_pu_zones_sf.rda |only prioritizr-5.0.1/prioritizr/data/sim_pu_zones_stack.rda |binary prioritizr-5.0.1/prioritizr/inst/doc/gurobi_installation.html | 37 prioritizr-5.0.1/prioritizr/inst/doc/prioritizr.Rmd | 111 ++ prioritizr-5.0.1/prioritizr/inst/doc/prioritizr.html | 296 ++++--- prioritizr-5.0.1/prioritizr/inst/doc/publication_record.Rmd | 20 prioritizr-5.0.1/prioritizr/inst/doc/publication_record.html | 47 + prioritizr-5.0.1/prioritizr/inst/doc/saltspring.html | 32 prioritizr-5.0.1/prioritizr/inst/doc/tasmania.Rmd | 7 prioritizr-5.0.1/prioritizr/inst/doc/tasmania.html | 189 ++--- prioritizr-5.0.1/prioritizr/inst/doc/zones.html | 55 - prioritizr-5.0.1/prioritizr/inst/testdata |only prioritizr-5.0.1/prioritizr/man/add_absolute_targets.Rd | 2 prioritizr-5.0.1/prioritizr/man/add_boundary_penalties.Rd | 19 prioritizr-5.0.1/prioritizr/man/add_connectivity_penalties.Rd | 2 prioritizr-5.0.1/prioritizr/man/add_contiguity_constraints.Rd | 4 prioritizr-5.0.1/prioritizr/man/add_cuts_portfolio.Rd | 9 prioritizr-5.0.1/prioritizr/man/add_extra_portfolio.Rd |only prioritizr-5.0.1/prioritizr/man/add_feature_contiguity_constraints.Rd | 8 prioritizr-5.0.1/prioritizr/man/add_gap_portfolio.Rd |only prioritizr-5.0.1/prioritizr/man/add_gurobi_solver.Rd | 13 prioritizr-5.0.1/prioritizr/man/add_locked_in_constraints.Rd | 20 prioritizr-5.0.1/prioritizr/man/add_locked_out_constraints.Rd | 20 prioritizr-5.0.1/prioritizr/man/add_loglinear_targets.Rd | 14 prioritizr-5.0.1/prioritizr/man/add_lsymphony_solver.Rd | 9 prioritizr-5.0.1/prioritizr/man/add_manual_targets.Rd | 2 prioritizr-5.0.1/prioritizr/man/add_neighbor_constraints.Rd | 6 prioritizr-5.0.1/prioritizr/man/add_relative_targets.Rd | 2 prioritizr-5.0.1/prioritizr/man/add_rsymphony_solver.Rd | 9 prioritizr-5.0.1/prioritizr/man/add_shuffle_portfolio.Rd | 12 prioritizr-5.0.1/prioritizr/man/add_top_portfolio.Rd |only prioritizr-5.0.1/prioritizr/man/adjacency_matrix.Rd |only prioritizr-5.0.1/prioritizr/man/array_parameters.Rd | 16 prioritizr-5.0.1/prioritizr/man/boundary_matrix.Rd | 30 prioritizr-5.0.1/prioritizr/man/category_vector.Rd | 15 prioritizr-5.0.1/prioritizr/man/compile.Rd | 3 prioritizr-5.0.1/prioritizr/man/connectivity_matrix.Rd | 65 + prioritizr-5.0.1/prioritizr/man/distribute_load.Rd | 10 prioritizr-5.0.1/prioritizr/man/fast_extract.Rd | 86 +- prioritizr-5.0.1/prioritizr/man/feature_abundances.Rd | 8 prioritizr-5.0.1/prioritizr/man/feature_representation.Rd | 65 - prioritizr-5.0.1/prioritizr/man/ferrier_score.Rd |only prioritizr-5.0.1/prioritizr/man/figures/README-unnamed-chunk-10-1.png |only prioritizr-5.0.1/prioritizr/man/figures/README-unnamed-chunk-11-1.png |only prioritizr-5.0.1/prioritizr/man/figures/README-unnamed-chunk-8-1.png |binary prioritizr-5.0.1/prioritizr/man/figures/README-unnamed-chunk-9-1.png |binary prioritizr-5.0.1/prioritizr/man/intersecting_units.Rd | 38 - prioritizr-5.0.1/prioritizr/man/irreplaceability.Rd | 103 ++ prioritizr-5.0.1/prioritizr/man/loglinear_interpolation.Rd | 9 prioritizr-5.0.1/prioritizr/man/marxan_problem.Rd | 14 prioritizr-5.0.1/prioritizr/man/matrix_parameters.Rd | 9 prioritizr-5.0.1/prioritizr/man/portfolios.Rd | 64 + prioritizr-5.0.1/prioritizr/man/presolve_check.Rd | 2 prioritizr-5.0.1/prioritizr/man/prioritizr-deprecated.Rd | 40 + prioritizr-5.0.1/prioritizr/man/prioritizr.Rd | 1 prioritizr-5.0.1/prioritizr/man/problem.Rd | 218 +++-- prioritizr-5.0.1/prioritizr/man/proximity_matrix.Rd |only prioritizr-5.0.1/prioritizr/man/rarity_weighted_richness.Rd | 37 prioritizr-5.0.1/prioritizr/man/replacement_cost.Rd | 37 prioritizr-5.0.1/prioritizr/man/rij_matrix.Rd | 68 - prioritizr-5.0.1/prioritizr/man/run_calculations.Rd | 2 prioritizr-5.0.1/prioritizr/man/scalar_parameters.Rd | 15 prioritizr-5.0.1/prioritizr/man/sim_data.Rd | 85 ++ prioritizr-5.0.1/prioritizr/man/simulate_cost.Rd | 12 prioritizr-5.0.1/prioritizr/man/simulate_species.Rd | 9 prioritizr-5.0.1/prioritizr/man/solve.Rd | 84 +- prioritizr-5.0.1/prioritizr/src/RcppExports.cpp | 28 prioritizr-5.0.1/prioritizr/src/init.c | 4 prioritizr-5.0.1/prioritizr/src/rcpp_boundary_data.cpp | 13 prioritizr-5.0.1/prioritizr/src/rcpp_ferrier_score.cpp |only prioritizr-5.0.1/prioritizr/src/rcpp_ferrier_score.h |only prioritizr-5.0.1/prioritizr/src/rcpp_list_to_matrix_indices.cpp | 10 prioritizr-5.0.1/prioritizr/src/rcpp_summarize_exactextractr.cpp |only prioritizr-5.0.1/prioritizr/tests/testthat/test_add_boundary_penalties.R | 42 - prioritizr-5.0.1/prioritizr/tests/testthat/test_add_connectivity_penalties.R | 38 - prioritizr-5.0.1/prioritizr/tests/testthat/test_add_contiguity_constraints.R | 38 - prioritizr-5.0.1/prioritizr/tests/testthat/test_add_cuts_portfolio.R | 14 prioritizr-5.0.1/prioritizr/tests/testthat/test_add_extra_portfolio.R |only prioritizr-5.0.1/prioritizr/tests/testthat/test_add_feature_contiguity_constraints.R | 37 prioritizr-5.0.1/prioritizr/tests/testthat/test_add_feature_weights.R | 12 prioritizr-5.0.1/prioritizr/tests/testthat/test_add_gap_portfolio.R |only prioritizr-5.0.1/prioritizr/tests/testthat/test_add_locked_in_constraints.R | 90 ++ prioritizr-5.0.1/prioritizr/tests/testthat/test_add_locked_out_constraints.R | 84 ++ prioritizr-5.0.1/prioritizr/tests/testthat/test_add_mandatory_allocation_constraints.R | 20 prioritizr-5.0.1/prioritizr/tests/testthat/test_add_manual_bounded_constraints.R | 4 prioritizr-5.0.1/prioritizr/tests/testthat/test_add_manual_locked_constraints.R | 42 + prioritizr-5.0.1/prioritizr/tests/testthat/test_add_max_cover_objective.R | 20 prioritizr-5.0.1/prioritizr/tests/testthat/test_add_max_features_objective.R | 20 prioritizr-5.0.1/prioritizr/tests/testthat/test_add_max_phylo_div_objective.R | 20 prioritizr-5.0.1/prioritizr/tests/testthat/test_add_max_phylo_end_objective.R | 20 prioritizr-5.0.1/prioritizr/tests/testthat/test_add_max_utility_objective.R | 20 prioritizr-5.0.1/prioritizr/tests/testthat/test_add_min_set_objective.R | 26 prioritizr-5.0.1/prioritizr/tests/testthat/test_add_min_shortfalls_objective.R | 20 prioritizr-5.0.1/prioritizr/tests/testthat/test_add_neighbor_constraints.R | 69 + prioritizr-5.0.1/prioritizr/tests/testthat/test_add_shuffle_portfolio.R | 17 prioritizr-5.0.1/prioritizr/tests/testthat/test_add_top_portfolio.R |only prioritizr-5.0.1/prioritizr/tests/testthat/test_adjacency_matrix.R |only prioritizr-5.0.1/prioritizr/tests/testthat/test_boundary_matrix.R | 173 +++- prioritizr-5.0.1/prioritizr/tests/testthat/test_category_vector.R | 26 prioritizr-5.0.1/prioritizr/tests/testthat/test_connectivity_matrix.R | 62 + prioritizr-5.0.1/prioritizr/tests/testthat/test_decisions.R | 12 prioritizr-5.0.1/prioritizr/tests/testthat/test_disribute_load.R |only prioritizr-5.0.1/prioritizr/tests/testthat/test_fast_extract.R |only prioritizr-5.0.1/prioritizr/tests/testthat/test_feature_representation.R | 117 ++- prioritizr-5.0.1/prioritizr/tests/testthat/test_ferrier_score.R |only prioritizr-5.0.1/prioritizr/tests/testthat/test_internal.R | 58 + prioritizr-5.0.1/prioritizr/tests/testthat/test_intersecting_units.R | 85 ++ prioritizr-5.0.1/prioritizr/tests/testthat/test_marxan_problem.R | 32 prioritizr-5.0.1/prioritizr/tests/testthat/test_presolve_check.R | 2 prioritizr-5.0.1/prioritizr/tests/testthat/test_problem.R | 253 ++++++ prioritizr-5.0.1/prioritizr/tests/testthat/test_problem_negative.R | 11 prioritizr-5.0.1/prioritizr/tests/testthat/test_proximity_matrix.R |only prioritizr-5.0.1/prioritizr/tests/testthat/test_rarity_weighted_richness.R | 29 prioritizr-5.0.1/prioritizr/tests/testthat/test_replacement_cost.R | 68 + prioritizr-5.0.1/prioritizr/tests/testthat/test_rij_matrix.R | 166 +++- prioritizr-5.0.1/prioritizr/tests/testthat/test_simulate.R | 3 prioritizr-5.0.1/prioritizr/tests/testthat/test_solve.R | 133 +++ prioritizr-5.0.1/prioritizr/tests/testthat/test_solvers.R | 92 ++ prioritizr-5.0.1/prioritizr/tests/testthat/test_sp_to_polyset.R | 4 prioritizr-5.0.1/prioritizr/vignettes/prioritizr.Rmd | 111 ++ prioritizr-5.0.1/prioritizr/vignettes/publication_record.Rmd | 20 prioritizr-5.0.1/prioritizr/vignettes/references.bib | 10 prioritizr-5.0.1/prioritizr/vignettes/tasmania.Rmd | 7 193 files changed, 4899 insertions(+), 2281 deletions(-)
Title: Accessing and Processing a 'Mega2' Genetic Database
Description: Uses as input genetic data that have been reformatted and
stored in a 'SQLite' database; this database is initially created
by the standalone 'mega2' C++ program (available freely from
<https://watson.hgen.pitt.edu/register/>). Loads and manipulates
data frames containing genotype, phenotype, and family
information from the input 'SQLite' database, and decompresses
needed subsets of the genotype data, on the fly, in a memory
efficient manner. We have also created several more functions
that illustrate how to use the data frames as well as perform
useful tasks: these permit one to run the 'pedgene' package to
carry out gene-based association tests on family data using
selected marker subsets, to run the 'SKAT' package to carry out
gene-based association tests using selected marker subsets, to
run the 'famSKATRC' package to carry out gene-based association
tests on families (optionally) and with rare or common variants
using selected marker subsets, to output the 'Mega2R' data as a
VCF file and related files (for phenotype and family data), and
to convert the data frames into CoreArray Genomic Data Structure
(GDS) format.
Author: Robert V. Baron [aut],
Daniel E. Weeks [aut, cre],
University of Pittsburgh [cph]
Maintainer: Daniel E. Weeks <weeks@pitt.edu>
Diff between Mega2R versions 1.0.5 dated 2019-02-28 and 1.0.6 dated 2020-05-15
Mega2R-1.0.5/Mega2R/README.md |only Mega2R-1.0.6/Mega2R/DESCRIPTION | 11 Mega2R-1.0.6/Mega2R/MD5 | 33 Mega2R-1.0.6/Mega2R/NEWS.md | 4 Mega2R-1.0.6/Mega2R/R/mega2pedgene.R | 2 Mega2R-1.0.6/Mega2R/build/vignette.rds |binary Mega2R-1.0.6/Mega2R/inst/doc/mega2rtutorial.R | 130 +- Mega2R-1.0.6/Mega2R/inst/doc/mega2rtutorial.html | 1130 +++++++++++++---------- Mega2R-1.0.6/Mega2R/man/DOfamSKATRC.Rd | 18 Mega2R-1.0.6/Mega2R/man/Mega2ENVGenABEL.Rd | 9 Mega2R-1.0.6/Mega2R/man/Mega2R-TBLS.Rd | 4 Mega2R-1.0.6/Mega2R/man/Mega2R-TBLSFilter.Rd | 4 Mega2R-1.0.6/Mega2R/man/Mega2R.Rd | 1 Mega2R-1.0.6/Mega2R/man/Mega2RVersion.Rd | 4 Mega2R-1.0.6/Mega2R/man/Mega2SKAT.Rd | 3 Mega2R-1.0.6/Mega2R/man/Mega2VCF.Rd | 9 Mega2R-1.0.6/Mega2R/man/Mega2gdsfmt.Rd | 9 Mega2R-1.0.6/Mega2R/src/getgenotypes.cpp | 2 18 files changed, 814 insertions(+), 559 deletions(-)
Title: Star Layer for 'ggplot2'
Description: To create the regular polygon layer for easily discernible shapes,
we developed the package, it can be easily used if you know the 'ggplot2'.
Author: Shuangbin Xu [aut, cre] (<https://orcid.org/0000-0003-3513-5362>)
Maintainer: Shuangbin Xu <xshuangbin@163.com>
Diff between ggstar versions 0.0.5 dated 2020-05-14 and 0.0.6 dated 2020-05-15
DESCRIPTION | 6 +++--- MD5 | 21 +++++++++++---------- NAMESPACE | 1 + R/draw-key.R | 2 +- R/geom-star.R | 11 ++++++++--- R/primitive.R | 27 +++++++++------------------ R/utilities.R | 2 +- inst/doc/ggstar.R | 2 +- inst/doc/ggstar.Rmd | 2 +- inst/doc/ggstar.html | 10 +++++----- man/ggstar-ggproto.Rd |only vignettes/ggstar.Rmd | 2 +- 12 files changed, 42 insertions(+), 44 deletions(-)
Title: Predict Gender from Names Using Historical Data
Description: Infers state-recorded gender categories from first names and dates of birth using historical
datasets. By using these datasets instead of lists of male and female names,
this package is able to more accurately infer the gender of a name, and it
is able to report the probability that a name was male or female. GUIDELINES:
This method must be used cautiously and responsibly. Please be sure to see the
guidelines and warnings about usage in the 'README' or the package documentation.
See Blevins and Mullen (2015) <http://www.digitalhumanities.org/dhq/vol/9/3/000223/000223.html>.
Author: Lincoln Mullen [aut, cre] (<https://orcid.org/0000-0001-5103-6917>),
Cameron Blevins [ctb],
Ben Schmidt [ctb]
Maintainer: Lincoln Mullen <lincoln@lincolnmullen.com>
Diff between gender versions 0.5.3 dated 2019-11-09 and 0.5.4 dated 2020-05-15
gender-0.5.3/gender/NEWS |only gender-0.5.4/gender/DESCRIPTION | 20 +- gender-0.5.4/gender/MD5 | 46 +++--- gender-0.5.4/gender/NEWS.md |only gender-0.5.4/gender/R/gender-demo.R | 2 gender-0.5.4/gender/R/gender-genderize.R | 2 gender-0.5.4/gender/R/gender-ipums-usa.R | 2 gender-0.5.4/gender/R/gender-napp.R | 2 gender-0.5.4/gender/R/gender-package.r | 2 gender-0.5.4/gender/R/gender-ssa.R | 6 gender-0.5.4/gender/R/gender_df.R | 16 +- gender-0.5.4/gender/R/install-genderdata-package.R | 4 gender-0.5.4/gender/README.md | 2 gender-0.5.4/gender/build/vignette.rds |binary gender-0.5.4/gender/inst/CITATION | 2 gender-0.5.4/gender/inst/doc/predicting-gender.R | 24 +-- gender-0.5.4/gender/inst/doc/predicting-gender.Rmd | 2 gender-0.5.4/gender/inst/doc/predicting-gender.html | 140 ++++++++++---------- gender-0.5.4/gender/man/gender-package.Rd | 2 gender-0.5.4/gender/man/gender.Rd | 10 + gender-0.5.4/gender/man/gender_df.Rd | 10 + gender-0.5.4/gender/tests/testthat/sample-data.r | 2 gender-0.5.4/gender/tests/testthat/test-gender_df.R | 2 gender-0.5.4/gender/tests/testthat/test-genderize.R | 2 gender-0.5.4/gender/vignettes/predicting-gender.Rmd | 2 25 files changed, 162 insertions(+), 140 deletions(-)
Title: GUI Tools to Process, Analyze and Plot Fisheries Data
Description: The tools you need to process, analyze, combine, integrate and
plot your fishery data: the georeferenced dataset from the Vessel Monitoring
System (VMS), from the Automatic Information System (AIS) or other tracking
devices, as well as the catches or landings dataset from the Logbook or Vessel
Register. Package 'vmsbase' is equipped by Viewer Tools to visually inspect data
at different steps of the analyses and to produce effective outputs for reports
and scientific publications. Viewers are conceived to show the VMS pings, to
visualize single or multiple tracks for fishing vessels, or to represent the VMS
data on Google Viewer, so that the user can produce easy to interpret and more
realistic visualization of both fishing effort and effort behaviour. Package
'vmsbase' represents the implementation of several R routines which have been
developed by the "Tor Vergata" University of Rome Team involved in the Italian
National Program for the Data Collection Framework for Fisheries Data between
2009-2012.
Author: Lorenzo D'Andrea, Tommaso Russo, Antonio Parisi, Stefano Cataudella
Maintainer: Lorenzo D'Andrea <dandrea.lorenz@gmail.com>
Diff between vmsbase versions 2.2.0 dated 2018-12-03 and 2.2.1 dated 2020-05-15
DESCRIPTION | 12 MD5 | 196 NAMESPACE | 164 R/editFun.R | 58 R/fun_view.R | 744 - R/fun_vms_db_clean.R | 1162 - R/gui_dcf_ind.R | 196 R/gui_join_lb_vms.R | 482 R/gui_lb_db_create.R | 320 R/gui_lb_db_edit.R | 270 R/gui_lb_db_stat.R | 298 R/gui_lb_editraw.R | 720 - R/gui_lb_met_cla.R | 674 - R/gui_lb_met_dis.R | 650 R/gui_lb_met_edi.R | 424 R/gui_main.R | 990 - R/gui_mark_fis_poi.R | 1004 - R/gui_mixsou.R | 258 R/gui_out_grid.R | 930 - R/gui_vms_db_are.R | 362 R/gui_vms_db_clean.R | 740 - R/gui_vms_db_create.R | 178 R/gui_vms_db_cut.R | 820 - R/gui_vms_db_dep.R | 842 - R/gui_vms_db_intr.R | 668 R/gui_vms_db_select.R | 1702 +- R/gui_vms_db_stat.R | 1266 - R/gui_vms_editraw.R | 616 R/gui_vms_met_pred.R | 1448 +- R/gui_vms_save_bat.R | 298 R/gui_vms_view_intrp.R | 732 - R/gui_vms_view_ping.R | 482 R/gui_vms_view_track.R | 702 - R/gui_vms_viz_adv.R | 1070 - R/internal.R | 68 R/knots2kmh.R | 42 R/latsex2dec.R | 56 R/lonsex2dec.R | 56 R/rad2deg.R | 44 R/reference_classes.R | 956 - R/saveRawLogBook.R | 480 R/saveRawVms.R | 698 - R/vmsbase.R | 60 R/zzz.R | 62 README.md | 34 inst/GPL/LICENSE | 678 - inst/extdata/EU_CODES_MET.csv | 40 inst/extdata/EU_MET_DATA.csv | 36 inst/extdata/FAO_CODES_SPECIES.csv |24842 ++++++++++++++++++------------------- inst/extdata/Sta_met | 38 inst/extdata/tacsat_format.rawvms | 50 man/Assign_Area.Rd | 62 man/CountMap.Rd | 62 man/Join2shp.Rd | 66 man/bathymetry.Rd | 40 man/gui_dcf_ind.Rd | 52 man/gui_join_lb_vms.Rd | 54 man/gui_lb_db_create.Rd | 42 man/gui_lb_db_edit.Rd | 46 man/gui_lb_db_stat.Rd | 44 man/gui_lb_editraw.Rd | 42 man/gui_lb_met_cla.Rd | 56 man/gui_lb_met_dis.Rd | 48 man/gui_lb_met_edi.Rd | 40 man/gui_main.Rd | 36 man/gui_mark_fis_poi.Rd | 48 man/gui_out_grid.Rd | 58 man/gui_vms_db_are.Rd | 44 man/gui_vms_db_clean.Rd | 62 man/gui_vms_db_create.Rd | 46 man/gui_vms_db_cut.Rd | 50 man/gui_vms_db_dep.Rd | 46 man/gui_vms_db_intr.Rd | 58 man/gui_vms_db_sel.Rd | 50 man/gui_vms_db_stat.Rd | 44 man/gui_vms_editraw.Rd | 42 man/gui_vms_met_pred.Rd | 54 man/gui_vms_save_bat.Rd | 50 man/gui_vms_view_intrp.Rd | 54 man/gui_vms_view_ping.Rd | 54 man/gui_vms_view_track.Rd | 54 man/gui_vms_viz_adv.Rd | 50 man/gui_vmsdb_mixsou.Rd | 46 man/harbCoo.Rd | 40 man/kno2kmh.Rd | 42 man/latsex2dec.Rd | 54 man/log_Cla.Rd | 40 man/log_DB.Rd | 42 man/log_File.Rd | 40 man/lonsex2dec.Rd | 54 man/plotNet.Rd | 64 man/polymap.Rd | 50 man/que_vms_DB.Rd | 42 man/rad2deg.Rd | 42 man/saveRawLogBook.Rd | 46 man/saveRawVms.Rd | 46 man/vms_DB.Rd | 42 man/vms_File.Rd | 36 man/vmsbase.Rd | 62 99 files changed, 26030 insertions(+), 26030 deletions(-)
Title: 'dplyr' Extension for Common Panel Data Maneuvers
Description: Using the 'dplyr' package as a base, adds a family of functions designed to make manipulating panel data easier. Allows the addition of indexing variables to a tibble to create a pibble, and the manipulation of data based on those indexing variables.
Author: Nick Huntington-Klein [aut, cre]
(<https://orcid.org/0000-0002-7352-3991>),
Philip Khor [aut] (<https://orcid.org/0000-0002-8333-1256>)
Maintainer: Nick Huntington-Klein <nhuntington-klein@fullerton.edu>
Diff between pmdplyr versions 0.3.1 dated 2020-03-09 and 0.3.1.1 dated 2020-05-15
DESCRIPTION | 8 ++++---- MD5 | 2 +- 2 files changed, 5 insertions(+), 5 deletions(-)
Title: Sensitivity Analysis of Neural Networks
Description: Analysis functions to quantify inputs importance in neural network models.
Functions are available for calculating and plotting the inputs importance and obtaining
the activation function of each neuron layer and its derivatives. The importance of a given
input is defined as the distribution of the derivatives of the output with respect to that
input in each training data point.
Author: José Portela González [aut],
Antonio Muñoz San Roque [aut],
Jaime Pizarroso Gonzalo [aut, ctb, cre]
Maintainer: Jaime Pizarroso Gonzalo <jpizarroso@comillas.edu>
Diff between NeuralSens versions 0.2.0 dated 2020-03-13 and 0.2.1 dated 2020-05-15
DESCRIPTION | 26 - MD5 | 62 +- NAMESPACE | 24 R/ActFunc.R | 124 ++++- R/ComputeHessMeasures.R |only R/ComputeSensMeasures.R | 4 R/HessMLP.R |only R/HessianMLP.R |only R/SensAnalysisMLP.R | 111 ++-- R/SensFeaturePlot.R | 2 R/SensMLP.R | 4 R/SensMatPlot.R |only R/SensTimePlot.R | 3 R/SensitivityPlots.R | 9 R/diag3Darray.R |only man/CombineSens.Rd | 58 +- man/ComputeHessMeasures.Rd |only man/DAILY_DEMAND_TR.Rd | 40 - man/DAILY_DEMAND_TV.Rd | 38 - man/Der2ActFunc.Rd |only man/HessMLP.Rd |only man/HessToSensMLP.Rd |only man/HessianMLP.Rd |only man/NeuralSens.Rd | 18 man/PlotSensMLP.Rd | 150 +++--- man/SensAnalysisMLP.Rd | 1056 +++++++++++++++++++++---------------------- man/SensMLP.Rd | 68 +- man/SensMatPlot.Rd |only man/SensitivityPlots.Rd | 156 +++--- man/diag3Darray-set.Rd |only man/diag3Darray.Rd |only man/is.HessMLP.Rd |only man/is.SensMLP.Rd | 34 - man/plot.HessMLP.Rd |only man/plot.SensMLP.Rd | 138 ++--- man/print.HessMLP.Rd |only man/print.SensMLP.Rd | 114 ++-- man/print.summary.HessMLP.Rd |only man/simdata.Rd | 68 +- man/summary.HessMLP.Rd |only man/syntheticdata.Rd | 90 +-- 41 files changed, 1279 insertions(+), 1118 deletions(-)
Title: Functions for Likelihood Asymptotics
Description: Functions for computing the r and r* statistics for inference on an arbitrary scalar function of model parameters, plus some code for the (modified) profile likelihood.
Author: Ruggero Bellio and Donald Pierce
Maintainer: Ruggero Bellio <ruggero.bellio@uniud.it>
Diff between likelihoodAsy versions 0.50 dated 2018-02-18 and 0.51 dated 2020-05-15
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ R/likelihoodAsy.R | 4 +++- build/vignette.rds |binary inst/doc/likelihoodAsy.Rnw | 2 +- inst/doc/likelihoodAsy.pdf |binary vignettes/likelihoodAsy.Rnw | 2 +- 7 files changed, 14 insertions(+), 12 deletions(-)
Title: Confounding Robust Independent Component Analysis for Noisy and
Grouped Data
Description: Contains an implementation of a confounding robust independent component analysis (ICA) for noisy and grouped data. The main function coroICA() performs a blind source separation, by maximizing an independence across sources and allows to adjust for varying confounding based on user-specified groups. Additionally, the package contains the function uwedge() which can be used to approximately jointly diagonalize a list of matrices. For more details see the project website <https://sweichwald.de/coroICA/>.
Author: Niklas Pfister and Sebastian Weichwald
Maintainer: Niklas Pfister <np@math.ku.dk>
Diff between coroICA versions 1.0.1 dated 2018-12-30 and 1.0.2 dated 2020-05-15
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/coroICA.R | 2 +- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Bootstrap Methods for Various Network Estimation Routines
Description: Bootstrap methods to assess accuracy and stability of estimated network structures
and centrality indices <doi:10.3758/s13428-017-0862-1>. Allows for flexible
specification of any undirected network estimation procedure in R, and offers
default sets for various estimation routines.
Author: Sacha Epskamp [aut, cre],
Eiko I. Fried [ctb]
Maintainer: Sacha Epskamp <mail@sachaepskamp.com>
Diff between bootnet versions 1.4.1 dated 2020-05-14 and 1.4.2 dated 2020-05-15
DESCRIPTION | 6 +++--- MD5 | 4 ++-- man/estimateNetwork.Rd | 2 +- 3 files changed, 6 insertions(+), 6 deletions(-)
Title: Filter Covariance and Correlation Matrices with
Bootstrapped-Averaged Hierarchical Ansatz
Description: A method to filter correlation and covariance matrices by averaging
bootstrapped filtered hierarchical clustering. Now with boosting. See Ch. Bongiorno and D. Challet,
Covariance matrix filtering with bootstrapped hierarchies (2020) <arXiv:2003.05807>.
Author: Christian Bongiorno and Damien Challet
Maintainer: Damien Challet <damien.challet@gmail.com>
Diff between bahc versions 0.1.0 dated 2020-03-19 and 0.2.0 dated 2020-05-15
DESCRIPTION | 12 ++++++------ MD5 | 6 +++--- R/main.R | 36 +++++++++++++++++++++++++++++++----- man/filterCovariance.Rd | 6 ++++-- 4 files changed, 44 insertions(+), 16 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-05-28 0.8
2013-10-20 0.7
2013-09-11 0.6
Title: Downloading YouTube Subtitle Transcription in a Tidy Tibble Data
Frame
Description: Although there exist some R packages tailored for YouTube API (e.g., 'tuber'), downloading YouTube video subtitle (i.e., caption) in a tidy form has never been a low-hanging fruit. Using 'youtube-transcript-api Python package' under the hood, this R package provides users with a convenient way of parsing and converting a desired YouTube caption into a handy 'tibble' data_frame object. Furthermore, users can easily save a desired YouTube caption data as a tidy Excel file without advanced programming background knowledge.
Author: JooYoung Seo [aut, cre] (<https://orcid.org/0000-0002-4064-6012>),
Soyoung Choi [aut] (<https://orcid.org/0000-0002-0998-3352>)
Maintainer: JooYoung Seo <jooyoung@psu.edu>
Diff between youtubecaption versions 0.1.3 dated 2020-01-10 and 1.0.0 dated 2020-05-15
DESCRIPTION | 8 +- MD5 | 22 +++--- NAMESPACE | 2 NEWS.md | 6 + R/get_caption.R | 111 +++++++++++++++++----------------- README.md | 2 build/vignette.rds |binary inst/NEWS | 6 + inst/doc/youtubecaption_vignette.html | 6 - man/get_caption.Rd | 107 +++++++++++++++++--------------- man/pipe.Rd | 22 +++--- man/youtubecaption-package.Rd | 54 ++++++++-------- 12 files changed, 185 insertions(+), 161 deletions(-)
More information about youtubecaption at CRAN
Permanent link
Title: Diving Calculations and Decompression Models
Description: Code for describing and manipulating scuba diving profiles
(depth-time curves) and decompression models,
for calculating the predictions of decompression models,
for calculating maximum no-decompression time and decompression tables,
and for performing mixed gas calculations.
Author: Adrian Baddeley [aut, cre],
Vittorio Broglio [ctb, dtc],
Pedro Antonio Neves [ctb, dtc],
Andrew Bassom [ctb],
Peter Buzzacott [ctb]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between scuba versions 1.9-1 dated 2017-04-03 and 1.10-0 dated 2020-05-15
scuba-1.10-0/scuba/DESCRIPTION | 9 - scuba-1.10-0/scuba/MD5 | 26 +-- scuba-1.10-0/scuba/NEWS | 22 +++ scuba-1.10-0/scuba/build/vignette.rds |binary scuba-1.10-0/scuba/data/Bookspan.R |only scuba-1.10-0/scuba/data/BuehlmannL16A.tab |only scuba-1.10-0/scuba/data/Workman65.tab |only scuba-1.10-0/scuba/data/baron.rda |binary scuba-1.10-0/scuba/data/deepmine.rda |binary scuba-1.10-0/scuba/data/pedro.rda |binary scuba-1.10-0/scuba/inst/doc/intro.R | 186 +++++++++++++++++----------- scuba-1.10-0/scuba/inst/doc/intro.Rnw | 140 ++++++++++++++++++--- scuba-1.10-0/scuba/inst/doc/intro.pdf |binary scuba-1.10-0/scuba/vignettes/intro.Rnw | 140 ++++++++++++++++++--- scuba-1.9-1/scuba/data/Bookspan.rda |only scuba-1.9-1/scuba/data/BuehlmannL16A.tab.gz |only scuba-1.9-1/scuba/data/Workman65.tab.gz |only 17 files changed, 400 insertions(+), 123 deletions(-)
Title: Resource Resolver
Description: A resource represents some data or a computation unit. It is
described by a URL and credentials. This package proposes a Resource model
with "resolver" and "client" classes to facilitate the access and the usage of the
resources.
Author: Yannick Marcon [aut, cre] (<https://orcid.org/0000-0003-0138-2023>),
OBiBa group [cph]
Maintainer: Yannick Marcon <yannick.marcon@obiba.org>
Diff between resourcer versions 1.0.0 dated 2020-04-02 and 1.0.1 dated 2020-05-15
DESCRIPTION | 8 +-- MD5 | 89 ++++++++++++++++++----------------- R/ResourceResolver.R | 4 - R/ShellResourceClient.R | 24 ++++++++- R/SparkResourceConnector.R | 2 R/SshResourceClient.R | 67 ++++++++++++++++++++++++++ R/as.data.frame.R | 2 R/datashield.R | 17 +++++- README.md | 90 ++++++++++++++++++++++++++++++++++++ inst/DATASHIELD | 3 - inst/resources |only man/CommandResourceClient.Rd | 6 ++ man/DBIResourceConnector.Rd | 9 +++ man/FileResourceClient.Rd | 8 ++- man/FileResourceGetter.Rd | 10 +++- man/GridFsFileResourceGetter.Rd | 8 ++- man/HttpFileResourceGetter.Rd | 8 ++- man/LocalFileResourceGetter.Rd | 8 ++- man/MariaDBResourceConnector.Rd | 8 ++- man/NoSQLResourceClient.Rd | 11 ++++ man/NoSQLResourceResolver.Rd | 7 ++ man/OpalFileResourceGetter.Rd | 8 ++- man/PostgresResourceConnector.Rd | 8 ++- man/PrestoResourceConnector.Rd | 8 ++- man/RDataFileResourceClient.Rd | 8 ++- man/RDataFileResourceResolver.Rd | 7 ++ man/ResourceClient.Rd | 13 ++++- man/ResourceResolver.Rd | 8 ++- man/SQLResourceClient.Rd | 11 ++++ man/SQLResourceResolver.Rd | 7 ++ man/ScpFileResourceGetter.Rd | 8 ++- man/ShellResourceClient.Rd | 35 +++++++++++--- man/ShellResourceResolver.Rd | 7 ++ man/SparkResourceConnector.Rd | 9 +++ man/SshResourceClient.Rd | 78 ++++++++++++++++++++++++++++++- man/SshResourceResolver.Rd | 7 ++ man/TidyFileResourceClient.Rd | 7 ++ man/TidyFileResourceResolver.Rd | 7 ++ man/as.data.frame.resource.Rd | 2 man/as.resource.data.frame.Rd | 9 ++- man/as.resource.object.Rd | 5 +- man/as.resource.tbl.Rd | 3 + man/registerResourceResolver.Rd | 2 man/unregisterResourceResolver.Rd | 2 tests/testthat/test-ShellResource.R | 12 ++++ tests/testthat/test-SshResource.R | 10 +++- 46 files changed, 561 insertions(+), 109 deletions(-)
Title: Tables so Beautifully Fine-Tuned You Will Believe It's Magic
Description: The introduction of the 'broom' package has made converting model
objects into data frames as simple as a single function. While the 'broom'
package focuses on providing tidy data frames that can be used in advanced
analysis, it deliberately stops short of providing functionality for reporting
models in publication-ready tables. 'pixiedust' provides this functionality with
a programming interface intended to be similar to 'ggplot2's system of layers
with fine tuned control over each cell of the table. Options for output include
printing to the console and to the common markdown formats (markdown, HTML, and
LaTeX). With a little 'pixiedust' (and happy thoughts) tables can really fly.
Author: Benjamin Nutter [aut, cre],
David Kretch [ctb]
Maintainer: Benjamin Nutter <benjamin.nutter@gmail.com>
Diff between pixiedust versions 0.8.6 dated 2019-01-11 and 0.9.0 dated 2020-05-15
DESCRIPTION | 14 MD5 | 150 +- NAMESPACE | 8 NEWS | 6 R/as.data.frame.dust.R | 25 R/chain.R | 19 R/dust.R | 91 - R/gaze.R | 4 R/glance_foot.R | 10 R/index_to_sprinkle.R | 21 R/pixie_count.R | 2 R/print_dust_console.R | 73 - R/print_dust_html.R | 26 R/print_dust_latex.R | 247 ++-- R/print_dust_latex_hhline.R | 115 +- R/print_dust_markdown.R | 34 R/rbind_internal.R |only R/redust.R | 1 R/reshape_data_internal.R |only R/sprinkle.R | 16 R/sprinkle_bg.R | 2 R/sprinkle_bg_pattern.R | 378 +++---- R/sprinkle_pad.R | 2 R/sysdata.rda |binary R/tidy_levels_labels.R | 21 R/zzz.R | 2 build/vignette.rds |binary inst/doc/advancedMagic.R | 64 - inst/doc/advancedMagic.html | 1583 +++++++++++++++++-------------- inst/doc/pixiedust.R | 50 inst/doc/pixiedust.html | 487 ++++++--- inst/doc/sprinkles.R | 8 inst/doc/sprinkles.html | 177 +++ man/chain.Rd | 7 man/compoundAssignment.Rd | 10 man/dust.Rd | 30 man/fixed_header_css.Rd | 13 man/gaze.Rd | 8 man/glance_foot.Rd | 3 man/index_to_sprinkle.Rd | 12 man/medley_all_borders.Rd | 10 man/pixiedust.Rd | 1 man/pixieply.Rd | 3 man/pval_string.Rd | 6 man/rbind_internal.Rd |only man/reshape_data_internal.Rd |only man/sanitize_latex.Rd | 11 man/sprinkle.Rd | 64 - man/sprinkle_align.Rd | 45 man/sprinkle_bg.Rd | 54 - man/sprinkle_bg_pattern.Rd | 36 man/sprinkle_bookdown.Rd | 6 man/sprinkle_border.Rd | 49 man/sprinkle_border_collapse.Rd | 21 man/sprinkle_caption_number.Rd | 14 man/sprinkle_discrete.Rd | 41 man/sprinkle_fixed_header.Rd | 42 man/sprinkle_float.Rd | 6 man/sprinkle_fn.Rd | 35 man/sprinkle_font.Rd | 56 - man/sprinkle_gradient.Rd | 55 - man/sprinkle_height.Rd | 45 man/sprinkle_hhline.Rd | 6 man/sprinkle_html_preserve.Rd | 21 man/sprinkle_justify.Rd | 6 man/sprinkle_longtable.Rd | 9 man/sprinkle_merge.Rd | 44 man/sprinkle_na_string.Rd | 42 man/sprinkle_pad.Rd | 43 man/sprinkle_replace.Rd | 37 man/sprinkle_rotate_degree.Rd | 42 man/sprinkle_round.Rd | 37 man/sprinkle_sanitize.Rd | 45 man/sprinkle_tabcolsep.Rd | 6 man/sprinkle_width.Rd | 45 man/tidy_levels_labels.Rd | 8 tests/testthat/test-as.data.frame.R | 1 tests/testthat/test-print_dust_methods.R | 2 78 files changed, 2887 insertions(+), 1826 deletions(-)
Title: Project MOSAIC Data Sets
Description: Data sets from Project MOSAIC (<http://mosaic-web.org>) used
to teach mathematics, statistics, computation and modeling. Funded by the
NSF, Project MOSAIC is a community of educators working to tie together
aspects of quantitative work that students in science, technology,
engineering and mathematics will need in their professional lives, but
which are usually taught in isolation, if at all.
Author: Randall Pruim <rpruim@calvin.edu>, Daniel Kaplan
<kaplan@macalester.edu>, Nicholas Horton <nhorton@amherst.edu>
Maintainer: Randall Pruim <rpruim@calvin.edu>
Diff between mosaicData versions 0.17.0 dated 2018-06-23 and 0.18.0 dated 2020-05-15
mosaicData-0.17.0/mosaicData/data/datalist |only mosaicData-0.18.0/mosaicData/DESCRIPTION | 12 +-- mosaicData-0.18.0/mosaicData/MD5 | 76 ++++++++++----------- mosaicData-0.18.0/mosaicData/NEWS.md | 6 + mosaicData-0.18.0/mosaicData/R/GoosePermitsDoc.R | 3 mosaicData-0.18.0/mosaicData/R/SaratogaHousesDoc.R | 6 - mosaicData-0.18.0/mosaicData/R/datasetsDoc.R | 29 ++++---- mosaicData-0.18.0/mosaicData/README.md | 57 ++++++++++++++- mosaicData-0.18.0/mosaicData/data/Weather.rda |binary mosaicData-0.18.0/mosaicData/man/Alcohol.Rd | 6 + mosaicData-0.18.0/mosaicData/man/Birthdays.Rd | 6 + mosaicData-0.18.0/mosaicData/man/Births.Rd | 6 + mosaicData-0.18.0/mosaicData/man/Births2015.Rd | 6 + mosaicData-0.18.0/mosaicData/man/Births78.Rd | 6 + mosaicData-0.18.0/mosaicData/man/CPS85.Rd | 6 + mosaicData-0.18.0/mosaicData/man/CoolingWater.Rd | 6 + mosaicData-0.18.0/mosaicData/man/Countries.Rd | 6 + mosaicData-0.18.0/mosaicData/man/Dimes.Rd | 6 + mosaicData-0.18.0/mosaicData/man/Galton.Rd | 9 +- mosaicData-0.18.0/mosaicData/man/Gestation.Rd | 6 + mosaicData-0.18.0/mosaicData/man/GoosePermits.Rd | 8 +- mosaicData-0.18.0/mosaicData/man/HELPfull.Rd | 17 ++-- mosaicData-0.18.0/mosaicData/man/HELPmiss.Rd | 6 + mosaicData-0.18.0/mosaicData/man/HELPrct.Rd | 6 + mosaicData-0.18.0/mosaicData/man/HeatX.Rd | 6 + mosaicData-0.18.0/mosaicData/man/KidsFeet.Rd | 14 ++- mosaicData-0.18.0/mosaicData/man/Marriage.Rd | 6 + mosaicData-0.18.0/mosaicData/man/Mites.Rd | 6 + mosaicData-0.18.0/mosaicData/man/RailTrail.Rd | 8 +- mosaicData-0.18.0/mosaicData/man/Riders.Rd | 8 +- mosaicData-0.18.0/mosaicData/man/SAT.Rd | 6 + mosaicData-0.18.0/mosaicData/man/SaratogaHouses.Rd | 12 +-- mosaicData-0.18.0/mosaicData/man/SnowGR.Rd | 12 ++- mosaicData-0.18.0/mosaicData/man/SwimRecords.Rd | 6 + mosaicData-0.18.0/mosaicData/man/TenMileRace.Rd | 6 + mosaicData-0.18.0/mosaicData/man/Utilities.Rd | 6 + mosaicData-0.18.0/mosaicData/man/Utilities2.Rd | 6 + mosaicData-0.18.0/mosaicData/man/Weather.Rd | 6 + mosaicData-0.18.0/mosaicData/man/Whickham.Rd | 6 + mosaicData-0.18.0/mosaicData/man/figures |only 40 files changed, 268 insertions(+), 141 deletions(-)
Title: Generalized Linear Mixed Model Association Tests
Description: Perform association tests using generalized linear mixed models (GLMMs) in genome-wide association studies (GWAS) and sequencing association studies. First, GMMAT fits a GLMM with covariate adjustment and random effects to account for population structure and familial or cryptic relatedness. For GWAS, GMMAT performs score tests for each genetic variant as proposed in Chen et al. (2016) <DOI:10.1016/j.ajhg.2016.02.012>. For candidate gene studies, GMMAT can also perform Wald tests to get the effect size estimate for each genetic variant. For rare variant analysis from sequencing association studies, GMMAT performs the variant Set Mixed Model Association Tests (SMMAT) as proposed in Chen et al. (2019) <DOI:10.1016/j.ajhg.2018.12.012>, including the burden test, the sequence kernel association test (SKAT), SKAT-O and an efficient hybrid test of the burden test and SKAT, based on user-defined variant sets.
Author: Han Chen, Matthew P. Conomos
Maintainer: Han Chen <Han.Chen.2@uth.tmc.edu>
Diff between GMMAT versions 1.1.2 dated 2019-10-12 and 1.2.0 dated 2020-05-15
DESCRIPTION | 8 MD5 | 44 ++--- R/SMMAT.R | 36 ++-- R/glmm.score.R | 95 ++++++++--- R/glmm.wald.R | 20 +- R/glmmkin.R | 332 ++++++++++++++++++++++++++++++++++----- build/vignette.rds |binary data/example.rda |binary inst/COPYRIGHTS | 2 inst/doc/GMMAT.R | 1 inst/doc/GMMAT.Rnw | 27 ++- inst/doc/GMMAT.pdf |binary man/GMMAT-package.Rd | 4 man/SMMAT.Rd | 8 man/SMMAT.meta.Rd | 1 man/glmm.score.Rd | 8 man/glmm.score.meta.Rd | 1 man/glmm.wald.Rd | 5 man/glmmkin.Rd | 25 +- tests/testthat/test_SMMAT.R | 44 +++++ tests/testthat/test_glmm.score.R | 99 +++++++++++ tests/testthat/test_glmmkin.R | 152 +++++++++++------ vignettes/GMMAT.Rnw | 27 ++- 23 files changed, 747 insertions(+), 192 deletions(-)
Title: Join Tables Together on Inexact Matching
Description: Join tables together based not on whether columns
match exactly, but whether they are similar by some comparison.
Implementations include string distance and regular expression
matching.
Author: David Robinson [aut, cre],
Jennifer Bryan [ctb],
Joran Elias [ctb]
Maintainer: David Robinson <admiral.david@gmail.com>
Diff between fuzzyjoin versions 0.1.5 dated 2019-09-07 and 0.1.6 dated 2020-05-15
DESCRIPTION | 8 - MD5 | 32 ++-- NEWS.md | 4 R/fuzzy_join.R | 17 +- R/utils.R | 5 README.md | 2 build/vignette.rds |binary inst/doc/stringdist_join.R | 20 +- inst/doc/stringdist_join.html | 227 +++++++++++++++++----------------- man/difference_join.Rd | 28 ++-- man/distance_join.Rd | 83 +++++++++--- man/fuzzy_join.Rd | 14 +- man/geo_join.Rd | 93 ++++++++++--- man/misspellings.Rd | 6 man/stringdist_join.Rd | 16 +- tests/testthat/test_genome_join.R | 2 tests/testthat/test_stringdist_join.R | 19 ++ 17 files changed, 363 insertions(+), 213 deletions(-)
Title: Reconstruct Animal Paths from Solar Geolocation Loggers Data
Description: Spatio-temporal locations of an animal are computed
from annotated data with a hidden Markov model via particle
filter algorithm. The package is relatively robust to varying
degrees of shading.
The hidden Markov model is described in Movement Ecology (Rakhimberdiev et al., 2015) <doi:10.1186/s40462-015-0062-5>,
general package description is in the Methods in Ecology and Evolution (Rakhimberdiev et al., 2017) <doi:10.1111/2041-210X.12765>
and package accuracy assessed in the Journal of Avian Biology (Rakhimberdiev et al. 2016) <doi:10.1111/jav.00891>.
Author: Eldar Rakhimberdiev [aut, cre],
Anatoly Saveliev [aut],
Julia Karagicheva [aut],
Simeon Lisovski [ctb]
Maintainer: Eldar Rakhimberdiev <e.rakhimberdiev@rug.nl>
Diff between FLightR versions 0.4.9 dated 2019-06-14 and 0.5.0 dated 2020-05-15
DESCRIPTION | 10 MD5 | 36 R/Ports2TAGS.R | 6 R/data_preparation.R | 2 R/new_plotting_functions.R | 44 build/vignette.rds |binary inst/doc/FLightR_with_black-tailed_godwit_vignette_from_MEE_2017.R | 40 inst/doc/FLightR_with_black-tailed_godwit_vignette_from_MEE_2017.Rmd | 2 inst/doc/FLightR_with_black-tailed_godwit_vignette_from_MEE_2017.html | 717 ++++------ man/find.stationary.location.Rd | 12 man/get.tags.data.Rd | 14 man/make.calibration.Rd | 15 man/make.grid.Rd | 13 man/make.prerun.object.Rd | 17 man/map.FLightR.ggmap.Rd | 19 man/plot_slopes_by_location.Rd | 10 man/plot_util_distr.Rd | 22 man/run.particle.filter.Rd | 25 vignettes/FLightR_with_black-tailed_godwit_vignette_from_MEE_2017.Rmd | 2 19 files changed, 528 insertions(+), 478 deletions(-)
Title: Functional Data Analysis and Empirical Dynamics
Description: A versatile package that provides implementation of various
methods of Functional Data Analysis (FDA) and Empirical Dynamics. The core of this
package is Functional Principal Component Analysis (FPCA), a key technique for
functional data analysis, for sparsely or densely sampled random trajectories
and time courses, via the Principal Analysis by Conditional Estimation
(PACE) algorithm. This core algorithm yields covariance and mean functions,
eigenfunctions and principal component (scores), for both functional data and
derivatives, for both dense (functional) and sparse (longitudinal) sampling designs.
For sparse designs, it provides fitted continuous trajectories with confidence bands,
even for subjects with very few longitudinal observations. PACE is a viable and
flexible alternative to random effects modeling of longitudinal data. There is also a
Matlab version (PACE) that contains some methods not available on fdapace and vice
versa. Please cite our package if you use it (You may run the command
citation("fdapace") to get the citation format and bibtex entry).
References: Wang, J.L., Chiou, J., Müller, H.G. (2016) <doi:10.1146/annurev-statistics-041715-033624>;
Chen, K., Zhang, X., Petersen, A., Müller, H.G. (2017) <doi:10.1007/s12561-015-9137-5>.
Author: Cody Carroll [aut, cre] (<https://orcid.org/0000-0003-3525-8653>),
Alvaro Gajardo [aut],
Yaqing Chen [aut],
Xiongtao Dai [aut],
Jianing Fan [aut],
Pantelis Z. Hadjipantelis [aut],
Kyunghee Han [aut],
Hao Ji [aut],
Shu-Chin Lin [ctb],
Paromita Dubey [ctb],
Hans-Georg Mueller [cph, ths, aut],
Jane-Ling Wang [cph, ths, aut]
Maintainer: Cody Carroll <cjcarroll@ucdavis.edu>
Diff between fdapace versions 0.5.2 dated 2020-02-15 and 0.5.3 dated 2020-05-15
DESCRIPTION | 24 - MD5 | 84 +++--- NEWS | 6 R/CheckOptions.R | 4 R/FLM.R | 43 ++- R/FPCA.R | 66 ++-- R/GetRho.R | 72 +++-- R/SetOptions.R | 532 ++++++++++++++++++++-------------------- R/print.FPCA.R | 2 build/vignette.rds |binary inst/doc/fdapaceVig.html | 585 +++++++++++++++++++++----------------------- man/ConvertSupport.Rd | 10 man/CreateBasis.Rd | 7 man/CreateCovPlot.Rd | 9 man/CreateDesignPlot.Rd | 10 man/CreateModeOfVarPlot.Rd | 9 man/CreatePathPlot.Rd | 14 - man/FAM.Rd | 14 - man/FCCor.Rd | 10 man/FCReg.Rd | 16 - man/FClust.Rd | 3 man/FLM.Rd | 31 ++ man/FOptDes.Rd | 13 man/FPCA.Rd | 2 man/FPCquantile.Rd | 10 man/FSVD.Rd | 11 man/GetCrCovYX.Rd | 17 + man/GetCrCovYZ.Rd | 12 man/Lwls1D.Rd | 12 man/Lwls2D.Rd | 16 - man/Lwls2DDeriv.Rd | 19 + man/MakeGPFunctionalData.Rd | 11 man/MakeSparseGP.Rd | 14 - man/MultiFAM.Rd | 13 man/SelectK.Rd | 3 man/Stringing.Rd | 9 man/TVAM.Rd | 14 - man/Wiener.Rd | 3 man/fdapace.Rd | 5 man/fitted.FPCA.Rd | 9 man/kCFC.Rd | 15 - man/medfly25.Rd | 6 man/predict.FPCA.Rd | 3 43 files changed, 1007 insertions(+), 761 deletions(-)
Title: Authoring Books and Technical Documents with R Markdown
Description: Output formats and utilities for authoring books and technical documents with R Markdown.
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
JJ Allaire [ctb],
Albert Kim [ctb],
Alessandro Samuel-Rosa [ctb],
Andrzej Oles [ctb],
Atsushi Yasumoto [ctb] (<https://orcid.org/0000-0002-8335-495X>),
Aust Frederik [ctb] (<https://orcid.org/0000-0003-4900-788X>),
Bastiaan Quast [ctb],
Ben Marwick [ctb],
Chester Ismay [ctb],
Christophe Dervieux [ctb],
Clifton Franklund [ctb],
Daniel Emaasit [ctb],
David Shuman [ctb],
Dean Attali [ctb],
Drew Tyre [ctb],
Ellis Valentiner [ctb],
Frans van Dunne [ctb],
Hadley Wickham [ctb],
Jeff Allen [ctb],
Jennifer Bryan [ctb],
Jonathan McPhers [ctb],
JooYoung Seo [ctb] (<https://orcid.org/0000-0002-4064-6012>),
Joyce Robbins [ctb],
Junwen Huang [ctb],
Kevin Cheung [ctb],
Kevin Ushey [ctb],
Kim Seonghyun [ctb],
Kirill Muller [ctb],
Luciano Selzer [ctb],
Matthew Lincoln [ctb],
Maximilian Held [ctb],
Michael Sachs [ctb],
Michal Bojanowski [ctb],
Nathan Werth [ctb],
Noam Ross [ctb],
Peter Hickey [ctb],
Romain Lesur [ctb] (<https://orcid.org/0000-0002-0721-5595>),
Sahir Bhatnagar [ctb],
Steve Simpson [ctb],
Thierry Onkelinx [ctb] (<https://orcid.org/0000-0001-8804-4216>),
Vincent Fulco [ctb],
Yixuan Qiu [ctb],
Zhuoer Dong [ctb],
RStudio, PBC [cph],
Bartek Szopka [ctb] (The jQuery Highlight plugin),
Zeno Rocha [cph] (clipboard.js library),
jQuery Foundation [cph] (jQuery library),
jQuery contributors [ctb, cph] (jQuery library; authors listed in
inst/resources/AUTHORS),
MathQuill contributors [ctb] (The MathQuill library; authors listed in
inst/resources/AUTHORS),
FriendCode Inc [cph, ctb] (The gitbook style, with modifications)
Maintainer: Yihui Xie <xie@yihui.name>
Diff between bookdown versions 0.18 dated 2020-03-05 and 0.19 dated 2020-05-15
DESCRIPTION | 8 +++---- MD5 | 20 ++++++++--------- NAMESPACE | 1 R/html.R | 2 - R/latex.R | 19 ++++++++++------ R/render.R | 4 ++- R/utils.R | 17 +++++++++----- man/html_document2.Rd | 3 ++ tests/rmd/parse-footnotes.Rmd | 3 ++ tests/test-rmd.R | 5 ++++ tests/testit/test-utils.R | 48 ++++++++++++++++++++++++++++++++++++++++++ 11 files changed, 101 insertions(+), 29 deletions(-)
Title: Big Quadratic Inverse Covariance Estimation
Description: Use Newton's method, coordinate descent, and METIS clustering
to solve the L1 regularized Gaussian MLE inverse covariance
matrix estimation problem.
Author: Khalid B. Kunji [aut, cre],
Cho-Jui Hsieh [ctb],
Matyas A. Sustik [ctb],
Inderjit S. Dhillon [ctb],
Pradeep Ravikumar [ctb],
Tuo Zhao [ctb],
Xingguo Li [ctb],
Han Liu [ctb],
Kathryn Roeder [ctb],
John Lafferty [ctb],
Larry Wasserman [ctb],
George Karypis [ctb],
Melissa O'Neill [ctb],
Richard Henderson [ctb]
Maintainer: Khalid B. Kunji <kkunji@hbku.edu.qa>
Diff between BigQuic versions 1.1-8 dated 2018-04-28 and 1.1-9 dated 2020-05-15
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- build/partial.rdb |binary src/Makevars | 19 +------------------ 4 files changed, 9 insertions(+), 26 deletions(-)
Title: Interface to 'Azure Resource Manager'
Description: A lightweight but powerful R interface to the 'Azure Resource Manager' REST API. The package exposes a comprehensive class framework and related tools for creating, updating and deleting 'Azure' resource groups, resources and templates. While 'AzureRMR' can be used to manage any 'Azure' service, it can also be extended by other packages to provide extra functionality for specific services. Part of the 'AzureR' family of packages.
Author: Hong Ooi [aut, cre],
Microsoft [cph]
Maintainer: Hong Ooi <hongooi@microsoft.com>
Diff between AzureRMR versions 2.3.2 dated 2020-04-23 and 2.3.3 dated 2020-05-15
DESCRIPTION | 6 +-- MD5 | 16 ++++----- NEWS.md | 4 ++ R/az_resgroup.R | 16 ++++----- R/az_resource.R | 67 ++++++++++++++++++++++----------------- R/az_template.R | 30 ++++++++--------- R/utils.R | 12 +++--- build/vignette.rds |binary tests/testthat/test04_resource.R | 27 +++++++++++++++ 9 files changed, 109 insertions(+), 69 deletions(-)
Title: XML Output Functions for Easy Creation of Moodle Questions
Description: Provides a set of basic functions for creating Moodle XML
output files suited for importing questions in Moodle (a learning
management system, see <https://moodle.org/> for more information).
Author: Emmanuel Curis [aut, cre, cph]
(<https://orcid.org/0000-0001-8382-1493>),
Virginie Lasserre [ctb]
Maintainer: Emmanuel Curis <emmanuel.curis@parisdescartes.fr>
Diff between SARP.moodle versions 0.7.1 dated 2020-04-27 and 0.8.1 dated 2020-05-15
DESCRIPTION | 23 ++-- MD5 | 48 +++++----- NAMESPACE | 3 R/affichages.R | 177 ++++++++++++++++++++----------------- R/conversion_csv.R | 225 +++++++++++++++++++++++++++++++++++------------- R/csv_qcm_optique.R |only R/formules.R | 7 + R/glisser.R |only R/initialisation.R | 4 R/libre.R | 33 ++++++- R/numerique.R | 208 +++++++++++++++++++++++++++++++++++++++++--- R/qcm.R | 16 ++- R/question.R | 191 ++++++++++++++++++++++++++++++++-------- R/sortie_R.R | 174 +++++++++++++++++++++++++++++++++---- man/affichages.Rd | 18 ++- man/csv_optique.Rd |only man/cvs.moodle.Rd | 36 ++++++- man/glisser_deposer.Rd |only man/glisser_texte.Rd |only man/inserer_smiles.Rd | 5 - man/legender.Rd |only man/libre.moodle.Rd | 17 ++- man/numerique.moodle.Rd | 116 ++++++++++++++++++++---- man/qcm.moodle.Rd | 9 + man/qroc.moodle.Rd | 10 +- man/question_moodle.Rd | 21 +++- man/sortie_R.Rd | 34 ++++++- man/vf.moodle.Rd | 9 + 28 files changed, 1076 insertions(+), 308 deletions(-)
Title: Modelling Pathways and Movement Potential Within a Landscape
Description: Provides functionality to calculate cost surfaces based on slope (e.g. Herzog, 2010; Llobera and Sluckin, 2007 <doi:10.1016/j.jtbi.2007.07.020>; París Roche, 2002; Tobler, 1993), traversing slope (Bell and Lock, 2000), and landscape features (Llobera, 2000) to be used when modelling pathways and movement potential within a landscape (e.g. Llobera, 2015; Verhagen, 2013; White and Barber, 2012 <doi:10.1016/j.jas.2012.04.017>).
Author: Joseph Lewis [aut, cre]
Maintainer: Joseph Lewis <josephlewis1992@gmail.com>
Diff between leastcostpath versions 1.2.3 dated 2020-04-29 and 1.3.6 dated 2020-05-15
DESCRIPTION | 8 +- MD5 | 70 +++++++++++++------------ NAMESPACE | 2 NEWS.md | 15 +++++ R/cost_matrix.R |only R/create_CCP_lcps.R | 16 ++--- R/create_FETE_lcps.R | 18 ++---- R/create_banded_lcps.R | 16 ++--- R/create_barrier_cs.R |only R/create_cost_corridor.R | 18 ++---- R/create_feature_cs.R | 18 ++---- R/create_lcp.R | 60 ++++++++++++++------- R/create_lcp_density.R | 10 +-- R/create_lcp_network.R | 16 ++--- R/create_slope_cs.R | 66 +++++++++++++---------- R/create_traversal_cs.R | 22 ++++--- R/validate_lcp.R | 14 +---- README.md | 45 ++++++++++++---- inst/doc/leastcostpath-1.R | 21 ++++--- inst/doc/leastcostpath-1.Rmd | 43 ++++++++------- inst/doc/leastcostpath-1.html | 100 ++++++++++++++++++++++++----------- inst/doc/leastcostpath-2.Rmd | 13 ++-- inst/doc/leastcostpath-2.html | 117 ++++++++++++++++++++++++------------------ man/cost_matrix.Rd |only man/create_CCP_lcps.Rd | 15 ++--- man/create_FETE_lcps.Rd | 17 ++---- man/create_banded_lcps.Rd | 15 ++--- man/create_barrier_cs.Rd |only man/create_cost_corridor.Rd | 15 +---- man/create_feature_cs.Rd | 15 ++--- man/create_lcp.Rd | 29 ++++++---- man/create_lcp_density.Rd | 9 +-- man/create_lcp_network.Rd | 15 ++--- man/create_slope_cs.Rd | 22 +++---- man/create_traversal_cs.Rd | 11 +-- man/validate_lcp.Rd | 13 +--- vignettes/leastcostpath-1.Rmd | 43 ++++++++------- vignettes/leastcostpath-2.Rmd | 13 ++-- 38 files changed, 521 insertions(+), 419 deletions(-)