Title: Kinetic Evaluation of Chemical Degradation Data
Description: Calculation routines based on the FOCUS Kinetics Report (2006,
2014). Includes a function for conveniently defining differential equation
models, model solution based on eigenvalues if possible or using numerical
solvers and a choice of the optimisation methods made available by the 'FME'
package. If a C compiler (on windows: 'Rtools') is installed, differential
equation models are solved using compiled C functions. Please note that no
warranty is implied for correctness of results or fitness for a particular
purpose.
Author: Johannes Ranke [aut, cre, cph]
(<https://orcid.org/0000-0003-4371-6538>),
Katrin Lindenberger [ctb],
René Lehmann [ctb],
Eurofins Regulatory AG [cph]
Maintainer: Johannes Ranke <jranke@uni-bremen.de>
Diff between mkin versions 0.9.49.6 dated 2019-10-31 and 0.9.49.7 dated 2019-11-02
DESCRIPTION | 8 ++-- MD5 | 30 +++++++++-------- NAMESPACE | 5 ++ NEWS.md | 8 ++++ R/AIC.mmkin.R | 32 ++++++++++++++---- R/mkinfit.R | 2 + R/nobs.mkinfit.R |only README.md | 2 - inst/doc/FOCUS_D.html | 12 +++---- inst/doc/FOCUS_L.html | 54 ++++++++++++++++---------------- inst/doc/mkin.html | 4 +- inst/doc/twa.html | 4 +- man/AIC.mmkin.Rd | 5 ++ man/nobs.mkinfit.Rd |only tests/testthat/FOCUS_2006_D.csf | 2 - tests/testthat/test_error_models.R | 8 ++++ tests/testthat/test_plots_summary_twa.R | 3 + 17 files changed, 112 insertions(+), 67 deletions(-)
Title: A Shiny App for UCSC Xena Database
Description: Provides a web app for downloading, analyzing and
visualizing datasets from UCSC Xena (<http://xena.ucsc.edu/>), which is a collection of
UCSC-hosted public databases such as TCGA, ICGC, TARGET, GTEx, CCLE,
and others.
Author: Shixiang Wang [aut, cre] (<https://orcid.org/0000-0001-9855-7357>),
Yi Xiong [aut] (<https://orcid.org/0000-0002-4370-9824>),
Longfei Zhao [aut] (<https://orcid.org/0000-0002-6277-0137>),
Kai Gu [aut] (<https://orcid.org/0000-0002-0177-0774>),
Yin Li [aut],
Fei Zhao [aut]
Maintainer: Shixiang Wang <w_shixiang@163.com>
Diff between UCSCXenaShiny versions 0.3.0 dated 2019-08-23 and 0.4.0 dated 2019-11-02
DESCRIPTION | 16 LICENSE | 4 MD5 | 115 NAMESPACE | 32 NEWS.md | 61 R/GeomSplitViolin.R | 110 R/data.R | 112 R/get_pancan_value.R | 202 R/ope_pancan_value.R | 120 R/run.R | 56 R/utils-pipe.R | 32 R/vis_pancan_value.R | 376 R/xenashiny.R | 8 README.md | 130 inst/modules_apps/app.R | 38 inst/modules_apps/simple_module_from_rstudio.R | 64 inst/modules_apps/xx_modules.R | 98 inst/shinyapp/App.R | 191 inst/shinyapp/modules/home-pancan-search.R | 104 inst/shinyapp/modules/modules-pancan-search.R | 94 inst/shinyapp/modules/modules-survival-analysis.R |only inst/shinyapp/server/home.R | 106 inst/shinyapp/server/modules.R | 3 inst/shinyapp/server/repository.R | 442 inst/shinyapp/ui/developers.R | 254 inst/shinyapp/ui/footer.R | 28 inst/shinyapp/ui/help.R | 28 inst/shinyapp/ui/home.R | 270 inst/shinyapp/ui/modules.R | 32 inst/shinyapp/ui/pipelines.R | 14 inst/shinyapp/ui/repository.R | 272 inst/shinyapp/www/bootstrap4.css | 704 inst/shinyapp/www/css/bootstrap-grid.css | 4098 ++--- inst/shinyapp/www/css/bootstrap-grid.min.css | 12 inst/shinyapp/www/css/bootstrap-reboot.css | 658 inst/shinyapp/www/css/bootstrap-reboot.min.css | 14 inst/shinyapp/www/css/bootstrap.css |17948 +++++++++++----------- inst/shinyapp/www/css/bootstrap.min.css | 12 inst/shinyapp/www/js/bootstrap.bundle.js |12656 +++++++-------- inst/shinyapp/www/js/bootstrap.bundle.min.js | 12 inst/shinyapp/www/js/bootstrap.js | 7788 ++++----- inst/shinyapp/www/js/bootstrap.min.js | 12 man/UCSCXenaShiny.Rd | 20 man/XenaInfo.Rd | 32 man/app_run.Rd | 32 man/available_hosts.Rd | 34 man/dat_datasets.Rd | 32 man/dat_samples.Rd | 32 man/get_pancan_value.Rd | 100 man/ope_toil_gene.Rd | 48 man/pipe.Rd | 24 man/tcga_gtex.Rd | 26 man/toil_info.Rd | 32 man/toil_surv.Rd | 32 man/vis_toil_TvsN.Rd | 70 man/vis_toil_gene.Rd | 94 tests/testthat.R | 8 tests/testthat/test-run_app.R | 2 tests/testthat/test-vis_pancan_value.R | 10 59 files changed, 23984 insertions(+), 23970 deletions(-)
Title: An R Interface to the Onigmo Regular Expression Library
Description: Provides an alternative to R's built-in functionality for handling
regular expressions, based on the Onigmo library. Offers first-class
compiled regex objects, partial matching and function-based substitutions,
amongst other features.
Author: Jon Clayden, based on Onigmo by K. Kosako and K. Takata
Maintainer: Jon Clayden <code@clayden.org>
Diff between ore versions 1.6.2 dated 2018-08-30 and 1.6.3 dated 2019-11-02
DESCRIPTION | 9 +- LICENCE | 2 MD5 | 12 +-- NEWS | 12 +++ R/file.R | 1 src/compile.c | 23 ++++-- src/onig/config.h.win | 174 +++++++++++++++++++++++++------------------------- 7 files changed, 127 insertions(+), 106 deletions(-)
Title: 'htmlwidget' for Interactive Views of R Lists
Description: R lists, especially nested lists, can be very difficult to
visualize or represent. Sometimes 'str()' is not enough, so this suite of
htmlwidgets is designed to help see, understand, and maybe even modify your R
lists. The function 'reactjson()' requires a package
'reactR' that can be installed from CRAN or <https://github.com/timelyportfolio/reactR>.
Author: Jos de Jong [aut, cph] (jsoneditor.js library in
htmlwidgets/jsoneditor, http://github.com/josdejong/jsoneditor/),
Mac Gainer [aut, cph] (react-json-view library in
htmlwidgets/react-json, https://github.com/mac-s-g/react-json-view),
Kent Russell [aut, cre] (R interface)
Maintainer: Kent Russell <kent.russell@timelyportfolio.com>
Diff between listviewer versions 2.1.0 dated 2018-10-07 and 3.0.0 dated 2019-11-02
DESCRIPTION | 10 MD5 | 22 NEWS.md | 6 R/jsonedit_gadget.R | 8 R/reactjson.R | 19 README.md | 2 inst/htmlwidgets/jsoneditor/dist/img/jsoneditor-icons.svg | 1472 +++++++------- inst/htmlwidgets/jsoneditor/dist/jsoneditor.min.css | 10 inst/htmlwidgets/jsoneditor/dist/jsoneditor.min.js | 84 inst/htmlwidgets/reactjson.js | 16 man/jsonedit.Rd | 5 man/reactjson.Rd | 16 12 files changed, 846 insertions(+), 824 deletions(-)
Title: A Common API to Modeling and Analysis Functions
Description: A common interface is provided to allow users to specify a model without having to remember the different argument names across different functions or computational engines (e.g. 'R', 'Spark', 'Stan', etc).
Author: Max Kuhn [aut, cre],
Davis Vaughan [aut],
RStudio [cph]
Maintainer: Max Kuhn <max@rstudio.com>
Diff between parsnip versions 0.0.3.1 dated 2019-08-06 and 0.0.4 dated 2019-11-02
parsnip-0.0.3.1/parsnip/R/fit_control.R |only parsnip-0.0.3.1/parsnip/man/fit_control.Rd |only parsnip-0.0.3.1/parsnip/man/min_grid.Rd |only parsnip-0.0.4/parsnip/DESCRIPTION | 15 parsnip-0.0.4/parsnip/MD5 | 167 ++++------ parsnip-0.0.4/parsnip/NAMESPACE | 16 parsnip-0.0.4/parsnip/NEWS.md | 23 + parsnip-0.0.4/parsnip/R/aaa.R | 89 ----- parsnip-0.0.4/parsnip/R/aaa_models.R | 17 - parsnip-0.0.4/parsnip/R/aaa_multi_predict.R | 7 parsnip-0.0.4/parsnip/R/boost_tree.R | 64 +-- parsnip-0.0.4/parsnip/R/control_parsnip.R |only parsnip-0.0.4/parsnip/R/decision_tree.R | 9 parsnip-0.0.4/parsnip/R/fit.R | 12 parsnip-0.0.4/parsnip/R/fit_helpers.R | 34 +- parsnip-0.0.4/parsnip/R/linear_reg.R | 43 -- parsnip-0.0.4/parsnip/R/logistic_reg.R | 24 - parsnip-0.0.4/parsnip/R/mars.R | 51 --- parsnip-0.0.4/parsnip/R/mars_data.R | 2 parsnip-0.0.4/parsnip/R/misc.R | 45 ++ parsnip-0.0.4/parsnip/R/mlp.R | 12 parsnip-0.0.4/parsnip/R/multinom_reg.R | 19 - parsnip-0.0.4/parsnip/R/nearest_neighbor.R | 45 -- parsnip-0.0.4/parsnip/R/nearest_neighbor_data.R | 4 parsnip-0.0.4/parsnip/R/nullmodel.R | 2 parsnip-0.0.4/parsnip/R/rand_forest.R | 9 parsnip-0.0.4/parsnip/R/surv_reg.R | 11 parsnip-0.0.4/parsnip/R/svm_poly.R | 9 parsnip-0.0.4/parsnip/R/svm_poly_data.R | 2 parsnip-0.0.4/parsnip/R/svm_rbf.R | 9 parsnip-0.0.4/parsnip/R/svm_rbf_data.R | 2 parsnip-0.0.4/parsnip/build/parsnip.pdf |binary parsnip-0.0.4/parsnip/build/vignette.rds |binary parsnip-0.0.4/parsnip/man/boost_tree.Rd | 20 + parsnip-0.0.4/parsnip/man/control_parsnip.Rd |only parsnip-0.0.4/parsnip/man/decision_tree.Rd | 12 parsnip-0.0.4/parsnip/man/fit.Rd | 10 parsnip-0.0.4/parsnip/man/linear_reg.Rd | 11 parsnip-0.0.4/parsnip/man/logistic_reg.Rd | 11 parsnip-0.0.4/parsnip/man/mars.Rd | 11 parsnip-0.0.4/parsnip/man/mlp.Rd | 13 parsnip-0.0.4/parsnip/man/multi_predict.Rd | 6 parsnip-0.0.4/parsnip/man/multinom_reg.Rd | 11 parsnip-0.0.4/parsnip/man/nearest_neighbor.Rd | 2 parsnip-0.0.4/parsnip/man/null_model.Rd | 2 parsnip-0.0.4/parsnip/man/rand_forest.Rd | 11 parsnip-0.0.4/parsnip/man/surv_reg.Rd | 10 parsnip-0.0.4/parsnip/man/svm_poly.Rd | 12 parsnip-0.0.4/parsnip/man/svm_rbf.Rd | 11 parsnip-0.0.4/parsnip/tests/testthat/test_boost_tree.R | 13 parsnip-0.0.4/parsnip/tests/testthat/test_boost_tree_C50.R | 6 parsnip-0.0.4/parsnip/tests/testthat/test_boost_tree_spark.R | 6 parsnip-0.0.4/parsnip/tests/testthat/test_boost_tree_xgboost.R | 38 -- parsnip-0.0.4/parsnip/tests/testthat/test_decision_tree.R | 13 parsnip-0.0.4/parsnip/tests/testthat/test_descriptors.R | 18 + parsnip-0.0.4/parsnip/tests/testthat/test_failed_models.R | 2 parsnip-0.0.4/parsnip/tests/testthat/test_fit_interfaces.R | 17 + parsnip-0.0.4/parsnip/tests/testthat/test_linear_reg.R | 19 - parsnip-0.0.4/parsnip/tests/testthat/test_linear_reg_glmnet.R | 39 -- parsnip-0.0.4/parsnip/tests/testthat/test_linear_reg_keras.R | 3 parsnip-0.0.4/parsnip/tests/testthat/test_linear_reg_spark.R | 6 parsnip-0.0.4/parsnip/tests/testthat/test_linear_reg_stan.R | 6 parsnip-0.0.4/parsnip/tests/testthat/test_logistic_reg.R | 18 - parsnip-0.0.4/parsnip/tests/testthat/test_logistic_reg_glmnet.R | 47 -- parsnip-0.0.4/parsnip/tests/testthat/test_logistic_reg_keras.R | 3 parsnip-0.0.4/parsnip/tests/testthat/test_logistic_reg_spark.R | 16 parsnip-0.0.4/parsnip/tests/testthat/test_logistic_reg_stan.R | 6 parsnip-0.0.4/parsnip/tests/testthat/test_mars.R | 51 --- parsnip-0.0.4/parsnip/tests/testthat/test_mlp.R | 21 + parsnip-0.0.4/parsnip/tests/testthat/test_mlp_keras.R | 6 parsnip-0.0.4/parsnip/tests/testthat/test_mlp_nnet.R | 6 parsnip-0.0.4/parsnip/tests/testthat/test_multinom_reg.R | 13 parsnip-0.0.4/parsnip/tests/testthat/test_multinom_reg_glmnet.R | 52 --- parsnip-0.0.4/parsnip/tests/testthat/test_multinom_reg_keras.R | 3 parsnip-0.0.4/parsnip/tests/testthat/test_multinom_reg_spark.R | 6 parsnip-0.0.4/parsnip/tests/testthat/test_nearest_neighbor.R | 25 + parsnip-0.0.4/parsnip/tests/testthat/test_nearest_neighbor_kknn.R | 38 -- parsnip-0.0.4/parsnip/tests/testthat/test_rand_forest.R | 13 parsnip-0.0.4/parsnip/tests/testthat/test_rand_forest_randomForest.R | 6 parsnip-0.0.4/parsnip/tests/testthat/test_rand_forest_ranger.R | 6 parsnip-0.0.4/parsnip/tests/testthat/test_rand_forest_spark.R | 6 parsnip-0.0.4/parsnip/tests/testthat/test_surv_reg.R | 9 parsnip-0.0.4/parsnip/tests/testthat/test_surv_reg_flexsurv.R | 6 parsnip-0.0.4/parsnip/tests/testthat/test_surv_reg_survreg.R | 6 parsnip-0.0.4/parsnip/tests/testthat/test_svm_poly.R | 15 parsnip-0.0.4/parsnip/tests/testthat/test_svm_rbf.R | 15 parsnip-0.0.4/parsnip/vignettes/articles/Scratch.Rmd | 12 87 files changed, 748 insertions(+), 738 deletions(-)
Title: Data Set for the 'benchmarkme' Package
Description: Crowd sourced benchmarks from running the
'benchmarkme' package.
Author: Colin Gillespie [aut, cre] (<https://orcid.org/0000-0003-1787-0275>)
Maintainer: Colin Gillespie <csgillespie@gmail.com>
Diff between benchmarkmeData versions 1.0.2 dated 2019-08-19 and 1.0.3 dated 2019-11-02
DESCRIPTION | 11 ++++++----- MD5 | 8 ++++---- NEWS.md | 31 +++++++++++++++++-------------- data/past_results.RData |binary data/past_results_v2.RData |binary 5 files changed, 27 insertions(+), 23 deletions(-)
More information about benchmarkmeData at CRAN
Permanent link
Title: Dirichlet Process Bayesian Clustering, Profile Regression
Description: Bayesian clustering using a Dirichlet process mixture model. This model is an alternative to regression models, non-parametrically linking a response vector to covariate data through cluster membership. The package allows Bernoulli, Binomial, Poisson, Normal, survival and categorical response, as well as Normal and discrete covariates. It also allows for fixed effects in the response model, where a spatial CAR (conditional autoregressive) term can be also included. Additionally, predictions may be made for the response, and missing values for the covariates are handled. Several samplers and label switching moves are implemented along with diagnostic tools to assess convergence. A number of R functions for post-processing of the output are also provided. In addition to fitting mixtures, it may additionally be of interest to determine which covariates actively drive the mixture components. This is implemented in the package as variable selection. The main reference for the package is Liverani, Hastie, Azizi, Papathomas and Richardson (2015) <doi:10.18637/jss.v064.i07>.
Author: David I. Hastie, Silvia Liverani <liveranis@gmail.com> and Sylvia Richardson with contributions from Aurore J. Lavigne, Lucy Leigh, Lamiae Azizi, Xi Liu, Ruizhu Huang, Austin Gratton, Wei Jing
Maintainer: Silvia Liverani <liveranis@gmail.com>
Diff between PReMiuM versions 3.2.2 dated 2019-06-20 and 3.2.3 dated 2019-11-02
ChangeLog | 8 +++++++- DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NAMESPACE | 2 +- R/generateData.R | 29 +++++++++++++++++++++++++++++ man/clusSummaryBernoulliDiscrete.Rd | 6 +++++- man/plotRiskProfile.Rd | 2 ++ 7 files changed, 53 insertions(+), 12 deletions(-)
Title: Connecting R and 'Raven' Sound Analysis Software
Description: A tool to exchange data between R and 'Raven' sound analysis software (Cornell Lab of Ornithology). Functions work on data formats compatible with the R package 'warbleR'.
Author: Marcelo Araya-Salas [aut, cre]
(<https://orcid.org/0000-0003-3594-619X>)
Maintainer: Marcelo Araya-Salas <marceloa27@gmail.com>
Diff between Rraven versions 1.0.7 dated 2019-09-03 and 1.0.8 dated 2019-11-02
DESCRIPTION | 11 ++- MD5 | 42 +++++++-------- NEWS.md | 8 ++ R/extract_ts.R | 2 R/fix_path.R | 8 +- R/imp_raven.R | 10 +-- R/imp_syrinx.R | 4 - R/raven_batch_detec.R | 2 R/run_raven.R | 2 R/to_sound_selection.R | 4 - README.md | 5 + inst/doc/Rraven.R | 2 inst/doc/Rraven.Rmd | 7 +- inst/doc/Rraven.html | 128 ++++++++++++++++++++++++---------------------- man/extract_ts.Rd | 2 man/fix_path.Rd | 8 +- man/imp_raven.Rd | 10 +-- man/imp_syrinx.Rd | 4 - man/raven_batch_detec.Rd | 2 man/run_raven.Rd | 2 man/to_sound_selection.Rd | 4 - vignettes/Rraven.Rmd | 7 +- 22 files changed, 144 insertions(+), 130 deletions(-)
Title: 'binb' is not 'Beamer'
Description: A collection of 'LaTeX' styles using 'Beamer' customization for
pdf-based presentation slides in 'RMarkdown'. At present it contains
'RMarkdown' adaptations of the LaTeX themes 'Metropolis' (formerly 'mtheme')
theme by Matthias Vogelgesang and others (now included in 'TeXLive'), the
'IQSS' by Ista Zahn (which is included here), and the 'Monash' theme by
Rob J Hyndman. Additional (free) fonts may be needed: 'Metropolis' prefers
'Fira', and 'IQSS' requires 'Libertinus'.
Author: Dirk Eddelbuettel, Ista Zahn and Rob Hyndman
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between binb versions 0.0.4 dated 2019-06-23 and 0.0.5 dated 2019-11-02
ChangeLog | 33 ++++++++++ DESCRIPTION | 8 +- MD5 | 27 ++++---- README.md | 18 ++++- build/vignette.rds |binary inst/NEWS.Rd | 18 ++++- inst/doc/metropolisDemo.pdf |binary inst/monashDemo/monashDemo.Rmd | 2 inst/monashDemo/monashDemo.pdf |binary inst/monashDemo/monashOptions.Rmd |only inst/monashDemo/monashOptions.pdf |only inst/monashDemo/title16x9.png |only inst/rmarkdown/templates/monash/resources/template.tex | 11 +++ inst/rmarkdown/templates/monash/skeleton/beamerfontthememonash.sty | 3 inst/rmarkdown/templates/monash/skeleton/beamerthememonash.sty | 12 --- inst/rmarkdown/templates/presento/skeleton/presento.sty | 2 16 files changed, 95 insertions(+), 39 deletions(-)
Title: A Minimal Tool Set for Gathering USDA Quick Stat Data for
Analysis and Visualization
Description: Provides a consistent API to pull United States
Department of Agriculture census and survey data from the National
Agricultural Statistics Service (NASS) QuickStats service
<https://quickstats.nass.usda.gov>.
Author: Brad Lindblad [aut, cre],
Michael Thomas [ctb],
Alex Mindeman [ctb]
Maintainer: Brad Lindblad <bradley.lindblad@gmail.com>
Diff between tidyUSDA versions 0.2.2 dated 2019-10-28 and 0.2.3 dated 2019-11-02
DESCRIPTION | 8 ++--- MD5 | 14 ++++---- NEWS.md | 7 ++++ R/getQuickstat.R | 68 ++++++++++++++++++------------------------- R/plotting.R | 18 ++++++----- inst/doc/using_tidyusda.Rmd | 2 - inst/doc/using_tidyusda.html | 2 - vignettes/using_tidyusda.Rmd | 2 - 8 files changed, 61 insertions(+), 60 deletions(-)
Title: PARAFAC Analysis of EEMs from DOM
Description: This is a user-friendly way to run a parallel factor (PARAFAC) analysis (Harshman, 1971) <doi:10.1121/1.1977523> on excitation emission matrix (EEM) data from dissolved organic matter (DOM) samples (Murphy et al., 2013) <doi:10.1039/c3ay41160e>. The analysis includes profound methods for model validation. Some additional functions allow the calculation of absorbance slope parameters and create beautiful plots.
Author: Matthias Pucher [aut, cre],
Daniel Graeber [aut, ctb],
Stefan Preiner [ctb],
Renata Pinto [ctb]
Maintainer: Matthias Pucher <matthias.pucher@wcl.ac.at>
Diff between staRdom versions 1.0.18 dated 2019-08-30 and 1.0.25 dated 2019-11-02
DESCRIPTION | 8 MD5 | 50 - NAMESPACE | 2 R/absorption_functions.R | 20 R/correction_functions.R | 16 R/data_functions.R | 73 ++ R/globals.R | 3 R/parafac_functions.R | 42 + R/parafac_plot_functions.R | 63 + R/plot_functions.R | 7 README | 25 inst/EEM_simple_analysis.Rmd | 6 inst/doc/Basic_analysis_of_DOM_samples.R | 4 inst/doc/Basic_analysis_of_DOM_samples.Rmd | 28 inst/doc/Basic_analysis_of_DOM_samples.html | 833 +++++++++++++++---------- inst/doc/PARAFAC_analysis_of_EEM.R | 63 - inst/doc/PARAFAC_analysis_of_EEM.Rmd | 103 +-- inst/doc/PARAFAC_analysis_of_EEM.html | 925 +++++++++++++++++----------- man/abs_parms.Rd | 10 man/eem_apply.Rd |only man/eem_ife_correction.Rd | 8 man/eem_parafac.Rd | 2 man/eempf_convergence.Rd |only man/splithalf_plot.Rd | 1 vignettes/Basic_analysis_of_DOM_samples.Rmd | 28 vignettes/PARAFAC_analysis_of_EEM.Rmd | 103 +-- vignettes/analysis_scheme.svg | 40 - 27 files changed, 1524 insertions(+), 939 deletions(-)
Title: SPArse Matrix
Description: Set of functions for sparse matrix algebra.
Differences with other sparse matrix packages are:
(1) we only support (essentially) one sparse matrix format,
(2) based on transparent and simple structure(s),
(3) tailored for MCMC calculations within G(M)RF.
(4) and it is fast and scalable (with the extension package spam64).
Documentation about 'spam' is provided by vignettes included in this package, see also Furrer and Sain (2010) <doi:10.18637/jss.v036.i10>; see 'citation("spam")' for details.
Author: Reinhard Furrer [aut, cre],
Florian Gerber [aut],
Roman Flury [aut],
Daniel Gerber [ctb],
Kaspar Moesinger [ctb],
Youcef Saad [ctb] (SPARSEKIT
http://www-users.cs.umn.edu/~saad/software/SPARSKIT/),
Esmond G. Ng [ctb] (Fortran Cholesky routines),
Barry W. Peyton [ctb] (Fortran Cholesky routines),
Joseph W.H. Liu [ctb] (Fortran Cholesky routines),
Alan D. George [ctb] (Fortran Cholesky routines),
Lehoucq B. Rich [ctb] (ARPACK),
Maschhoff Kristi [ctb] (ARPACK),
Sorensen C. Danny [ctb] (ARPACK),
Yang Chao [ctb] (ARPACK)
Maintainer: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Diff between spam versions 2.3-0.2 dated 2019-10-28 and 2.4-0 dated 2019-11-02
spam-2.3-0.2/spam/src/debug.h |only spam-2.3-0.2/spam/src/errpr.f |only spam-2.4-0/spam/DESCRIPTION | 20 spam-2.4-0/spam/MD5 | 56 spam-2.4-0/spam/NEWS.md | 7 spam-2.4-0/spam/R/eigen.R | 27 spam-2.4-0/spam/R/random.R | 26 spam-2.4-0/spam/inst/CITATION | 6 spam-2.4-0/spam/inst/doc/spam.pdf |binary spam-2.4-0/spam/man/germanydata.Rd | 6 spam-2.4-0/spam/man/large_matrix.Rd | 7 spam-2.4-0/spam/man/random.Rd | 2 spam-2.4-0/spam/src/bckslvmodified.f | 13 spam-2.4-0/spam/src/dgetv0.f | 92 spam-2.4-0/spam/src/dn_ARPACK.f | 1495 +++++++------- spam-2.4-0/spam/src/dn_eigen.f | 28 spam-2.4-0/spam/src/ds_ARPACK.f | 1240 ++++++----- spam-2.4-0/spam/src/ds_eigen.f | 31 spam-2.4-0/spam/src/init.c | 17 spam-2.4-0/spam/src/stat.h | 22 spam-2.4-0/spam/tests/demo_article-jss-example1.Rout.save | 8 spam-2.4-0/spam/tests/demo_article-jss-example2.Rout.save | 10 spam-2.4-0/spam/tests/demo_article-jss.Rout.save | 8 spam-2.4-0/spam/tests/demo_cholesky.Rout.save | 8 spam-2.4-0/spam/tests/demo_jss15-BYM.Rout.save | 8 spam-2.4-0/spam/tests/demo_jss15-Leroux.Rout.save | 8 spam-2.4-0/spam/tests/demo_spam.Rout.save | 8 spam-2.4-0/spam/tests/demo_timing.Rout.save | 8 spam-2.4-0/spam/tests/jss_areal_counts.Rout.save | 8 spam-2.4-0/spam/tests/testthat/test-random.R | 2 30 files changed, 1666 insertions(+), 1505 deletions(-)
Title: Interface to Species Occurrence Data Sources
Description: A programmatic interface to many species occurrence data sources,
including Global Biodiversity Information Facility ('GBIF'), 'USGSs'
Biodiversity Information Serving Our Nation ('BISON'), 'iNaturalist',
Berkeley 'Ecoinformatics' Engine, 'eBird', Integrated Digitized
'Biocollections' ('iDigBio'), 'VertNet', Ocean 'Biogeographic' Information
System ('OBIS'), and Atlas of Living Australia ('ALA'). Includes
functionality for retrieving species occurrence data, and combining
those data.
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>),
Karthik Ram [ctb],
Ted Hart [ctb],
rOpenSci [fnd] (https://ropensci.org/)
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between spocc versions 1.0.0 dated 2019-10-22 and 1.0.2 dated 2019-11-02
DESCRIPTION | 6 MD5 | 20 - NEWS.md | 8 README.md | 34 + tests/fixtures/identifier_based_searches.yml | 348 ++++------------- tests/fixtures/taxize_integration_1id.yml | 195 --------- tests/fixtures/taxize_integration_get_gbifid.yml | 195 --------- tests/fixtures/taxize_integration_get_tsn.yml | 13 tests/fixtures/taxize_integration_morethan1id.yml | 434 +--------------------- tests/testthat/test-idbasedsearch.R | 2 tests/testthat/test-taxize-integration.R | 8 11 files changed, 187 insertions(+), 1076 deletions(-)
Title: General Purpose R Interface to 'Solr'
Description: Provides a set of functions for querying and parsing data
from 'Solr' (<https://lucene.apache.org/solr>) 'endpoints' (local and
remote), including search, 'faceting', 'highlighting', 'stats', and
'more like this'. In addition, some functionality is included for
creating, deleting, and updating documents in a 'Solr' 'database'.
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>),
rOpenSci [fnd] (https://ropensci.org/)
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between solrium versions 1.1.0 dated 2019-10-21 and 1.1.4 dated 2019-11-02
DESCRIPTION | 6 +++--- LICENSE | 2 +- MD5 | 12 ++++++------ NEWS.md | 8 ++++++++ R/delete.R | 6 ++++-- R/zzz.r | 2 +- man/delete.Rd | 6 ++++-- 7 files changed, 27 insertions(+), 15 deletions(-)
Title: Fast Generators and Iterators for Permutations, Combinations and
Partitions
Description: Fast generators and iterators for permutations, combinations
and partitions. The iterators allow users to generate arrangements in
a memory efficient manner and the generated arrangements are in
lexicographical (dictionary) order. Permutations and combinations can
be drawn with/without replacement and support multisets. It has been
demonstrated that 'arrangements' outperforms most of the existing
packages of similar kind. Some benchmarks could be found at
<https://randy3k.github.io/arrangements/articles/benchmark.html>.
Author: Randy Lai [aut, cre]
Maintainer: Randy Lai <randy.cs.lai@gmail.com>
Diff between arrangements versions 1.1.6 dated 2019-09-28 and 1.1.7 dated 2019-11-02
arrangements-1.1.6/arrangements/src/combinations |only arrangements-1.1.6/arrangements/src/combinatorics |only arrangements-1.1.6/arrangements/src/combinatorics.c |only arrangements-1.1.6/arrangements/src/combinatorics.h |only arrangements-1.1.6/arrangements/src/gmp_utils.c |only arrangements-1.1.6/arrangements/src/gmp_utils.h |only arrangements-1.1.6/arrangements/src/partitions |only arrangements-1.1.6/arrangements/src/permutations |only arrangements-1.1.7/arrangements/DESCRIPTION | 41 ++--- arrangements-1.1.7/arrangements/MD5 | 76 ++++------ arrangements-1.1.7/arrangements/NAMESPACE | 2 arrangements-1.1.7/arrangements/R/arrangements.R | 2 arrangements-1.1.7/arrangements/R/combinations.R | 8 - arrangements-1.1.7/arrangements/R/partitions.R | 6 arrangements-1.1.7/arrangements/R/permutations.R | 8 - arrangements-1.1.7/arrangements/src/arrangements.c | 8 - arrangements-1.1.7/arrangements/src/combinations-multiset.h |only arrangements-1.1.7/arrangements/src/combinations-ordinary.h |only arrangements-1.1.7/arrangements/src/combinations-replacement.h |only arrangements-1.1.7/arrangements/src/combinations.c | 16 +- arrangements-1.1.7/arrangements/src/combinations.h | 2 arrangements-1.1.7/arrangements/src/next |only arrangements-1.1.7/arrangements/src/next.c |only arrangements-1.1.7/arrangements/src/next.h |only arrangements-1.1.7/arrangements/src/partitions-k.h |only arrangements-1.1.7/arrangements/src/partitions-ordinary.h |only arrangements-1.1.7/arrangements/src/partitions.c | 17 +- arrangements-1.1.7/arrangements/src/partitions.h | 2 arrangements-1.1.7/arrangements/src/partitions_utils.h |only arrangements-1.1.7/arrangements/src/permutations-k.h |only arrangements-1.1.7/arrangements/src/permutations-multiset.h |only arrangements-1.1.7/arrangements/src/permutations-ordinary.h |only arrangements-1.1.7/arrangements/src/permutations-replacement.h |only arrangements-1.1.7/arrangements/src/permutations.c | 19 +- arrangements-1.1.7/arrangements/src/permutations.h | 2 arrangements-1.1.7/arrangements/src/utils.c | 74 +++++++++ arrangements-1.1.7/arrangements/src/utils.h | 5 37 files changed, 184 insertions(+), 104 deletions(-)
Title: High Performance Container Data Types
Description: Provides high performance container data types such as Queue,
Stack, Deque, Dict and OrderedDict. Benchmarks
<https://randy3k.github.io/collections/articles/benchmark.html> have
shown that these containers are asymptotically more efficient than
those offered by other packages.
Author: Randy Lai [aut, cre],
Andrea Mazzoleni [cph] (tommy hash table library)
Maintainer: Randy Lai <randy.cs.lai@gmail.com>
Diff between collections versions 0.2.2 dated 2019-10-26 and 0.2.3 dated 2019-11-02
collections-0.2.2/collections/tests/testthat/test_deque.R |only collections-0.2.2/collections/tests/testthat/test_dict.R |only collections-0.2.2/collections/tests/testthat/test_ordered_dict.R |only collections-0.2.2/collections/tests/testthat/test_priority_queue.R |only collections-0.2.2/collections/tests/testthat/test_queue.R |only collections-0.2.2/collections/tests/testthat/test_stack.R |only collections-0.2.3/collections/DESCRIPTION | 8 +-- collections-0.2.3/collections/MD5 | 26 +++++----- collections-0.2.3/collections/R/ordered_dict.R | 4 - collections-0.2.3/collections/README.md | 9 +-- collections-0.2.3/collections/man/OrderedDict.Rd | 2 collections-0.2.3/collections/man/OrderedDictL.Rd | 2 collections-0.2.3/collections/src/dict.c | 22 +++++--- collections-0.2.3/collections/src/priority_queue.c | 2 collections-0.2.3/collections/tests/testthat/test-deque.R |only collections-0.2.3/collections/tests/testthat/test-dict.R |only collections-0.2.3/collections/tests/testthat/test-ordered_dict.R |only collections-0.2.3/collections/tests/testthat/test-priority_queue.R |only collections-0.2.3/collections/tests/testthat/test-queue.R |only collections-0.2.3/collections/tests/testthat/test-stack.R |only 20 files changed, 40 insertions(+), 35 deletions(-)
Title: Automated Model Benchmarking for the Canadian Land Surface
Scheme
Description: Functions that quantify how well the Canadian Land Surface Scheme Including Biogeochemical Cycles (CLASSIC) reproduces land surface processes when compared against reference data. To summarize model performance across different statistical metrics, this package employs a skill score system that was originally developed by Collier et. al., (2018) <doi:10.1029/2018MS001354> .
Author: Christian Seiler [cre, aut]
Maintainer: Christian Seiler <christian.seiler@canada.ca>
Diff between amber versions 0.1.5 dated 2019-10-01 and 0.1.6 dated 2019-11-02
DESCRIPTION | 16 - MD5 | 110 +++++--- NAMESPACE | 4 R/correlationMatrix.R |only R/intFun.R | 53 ++- R/plotGrid.R | 42 +-- R/plotNc.R | 156 +++++------ R/plotNcIrreg.R | 174 ++++++------ R/plotZonalMeanStats.R |only R/scores.compare.R | 82 +++--- R/scores.fluxnet.csv.R | 223 ++++++++-------- R/scores.fluxnet.nc.R | 123 ++++----- R/scores.fluxnet.site.R | 514 +++++++++++++++++++------------------- R/scores.functional.response.R | 85 +++--- R/scores.grid.notime.R | 148 +++++----- R/scores.grid.time.R | 216 ++++++++------- R/scores.runoff.R | 64 ++-- R/scores.tables.R | 74 ++--- R/seasonalCycle.R | 103 +++---- R/seasonalCycleIrreg.R | 121 ++++---- R/zonalMean.R | 56 ++-- R/zonalMeanIrreg.R | 95 +++---- R/zonalMeanStats.R |only inst/extdata/zonalMeanStats |only man/correlationMatrix.Rd |only man/intFun.coast.Rd | 9 man/intFun.isRaster.Rd |only man/intFun.min.max.int.Rd | 1 man/intFun.min.max.int.bias.Rd | 1 man/intFun.min.max.int.mod.ref.Rd | 1 man/intFun.min.max.int.raw.Rd | 1 man/plotZonalMeanStats.Rd |only man/scores.fluxnet.csv.Rd | 2 man/scores.fluxnet.nc.Rd | 2 man/scores.fluxnet.site.Rd | 2 man/scores.grid.notime.Rd | 2 man/scores.grid.time.Rd | 4 man/scores.runoff.Rd | 10 man/zonalMeanStats.Rd |only tests/testthat.R | 5 40 files changed, 1313 insertions(+), 1186 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-11-19 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-10-14 0.7.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-06-03 1.0.0