Title: Mixed Model ANOVA and Statistics for Education
Description: The main functions perform mixed models analysis by least squares
or REML by adding the function r() to formulas of lm and glm. A collection of
text-book statistics for higher education is also included, e.g. modifications
of the functions lm, glm and associated summaries from the package stats.
Author: Kristian Hovde Liland [aut, cre],
Solve Sæbø [ctb],
R-Core [ctb]
Maintainer: Kristian Hovde Liland <kristian.liland@nmbu.no>
Diff between mixlm versions 1.1.4 dated 2016-08-26 and 1.1.5 dated 2016-10-08
DESCRIPTION | 14 +++++++++----- MD5 | 4 ++-- R/statistics.R | 26 +++++++++++++++++--------- 3 files changed, 28 insertions(+), 16 deletions(-)
Title: Generate, Visualise, and Compare Fast and Frugal Decision Trees
Description: Contains several functions that allow you
to create, visualise, and test Fast and Frugal Trees (FFTrees). FFTrees are very simple decision trees for
classifying cases (i.e.; breast cancer patients) into one of two classes (e.g.;
no cancer vs. true cancer) based on a small number of cues (e.g.; test results). FFTrees can be preferable to more complex algorithms (such as
logistic regression) because they are easy to communicate and implement, and are
robust against noisy data.
Author: Nathaniel Phillips [aut, cre]
Maintainer: Nathaniel Phillips <Nathaniel.D.Phillips.is@gmail.com>
Diff between FFTrees versions 1.1.6 dated 2016-09-10 and 1.1.8 dated 2016-10-08
FFTrees-1.1.6/FFTrees/inst/doc/FFTrees_overview.R |only FFTrees-1.1.6/FFTrees/inst/doc/FFTrees_overview.Rmd |only FFTrees-1.1.6/FFTrees/inst/doc/FFTrees_overview.html |only FFTrees-1.1.6/FFTrees/vignettes/FFTrees_overview.Rmd |only FFTrees-1.1.8/FFTrees/DESCRIPTION | 8 FFTrees-1.1.8/FFTrees/MD5 | 75 +++--- FFTrees-1.1.8/FFTrees/NAMESPACE | 1 FFTrees-1.1.8/FFTrees/R/FFTrees.R | 215 ++++++------------ FFTrees-1.1.8/FFTrees/R/FFTreesguide_function.R | 2 FFTrees-1.1.8/FFTrees/R/auc_function.R | 13 - FFTrees-1.1.8/FFTrees/R/cartpred_function.R | 46 ++- FFTrees-1.1.8/FFTrees/R/classtable_function.R | 56 ++-- FFTrees-1.1.8/FFTrees/R/cuerank_function.R | 36 --- FFTrees-1.1.8/FFTrees/R/growFFTrees_function.R | 143 +++++++---- FFTrees-1.1.8/FFTrees/R/helper.R |only FFTrees-1.1.8/FFTrees/R/lrpred_function.R | 23 + FFTrees-1.1.8/FFTrees/R/plotFFTrees_function.R | 10 FFTrees-1.1.8/FFTrees/R/predictFFTrees_function.R | 23 + FFTrees-1.1.8/FFTrees/R/summaryFFTrees_function.R | 2 FFTrees-1.1.8/FFTrees/README.md | 10 FFTrees-1.1.8/FFTrees/build/vignette.rds |binary FFTrees-1.1.8/FFTrees/inst/doc/FFTrees_algorithm.html | 7 FFTrees-1.1.8/FFTrees/inst/doc/FFTrees_examples.R | 21 - FFTrees-1.1.8/FFTrees/inst/doc/FFTrees_examples.Rmd | 21 - FFTrees-1.1.8/FFTrees/inst/doc/FFTrees_examples.html | 31 +- FFTrees-1.1.8/FFTrees/inst/doc/FFTrees_function.Rmd | 4 FFTrees-1.1.8/FFTrees/inst/doc/FFTrees_function.html | 17 - FFTrees-1.1.8/FFTrees/inst/doc/FFTrees_plot.html | 13 - FFTrees-1.1.8/FFTrees/inst/doc/guide.R |only FFTrees-1.1.8/FFTrees/inst/doc/guide.Rmd |only FFTrees-1.1.8/FFTrees/inst/doc/guide.html |only FFTrees-1.1.8/FFTrees/man/FFTrees.Rd | 10 FFTrees-1.1.8/FFTrees/man/auc.Rd | 8 FFTrees-1.1.8/FFTrees/man/cart.pred.Rd | 10 FFTrees-1.1.8/FFTrees/man/classtable.Rd | 14 + FFTrees-1.1.8/FFTrees/man/cuerank.Rd | 19 + FFTrees-1.1.8/FFTrees/man/grow.FFTrees.Rd | 36 ++- FFTrees-1.1.8/FFTrees/man/plot.FFTrees.Rd | 10 FFTrees-1.1.8/FFTrees/man/predict.FFTrees.Rd | 26 ++ FFTrees-1.1.8/FFTrees/man/summary.FFTrees.Rd | 2 FFTrees-1.1.8/FFTrees/vignettes/FFTrees_examples.Rmd | 21 - FFTrees-1.1.8/FFTrees/vignettes/FFTrees_function.Rmd | 4 FFTrees-1.1.8/FFTrees/vignettes/guide.Rmd |only 43 files changed, 525 insertions(+), 412 deletions(-)
Title: Gaussian Mixture Models, K-Means, Mini-Batch-Kmeans and
K-Medoids Clustering
Description: Gaussian mixture models, k-means, mini-batch-kmeans and k-medoids
clustering with the option to plot, validate, predict (new data) and estimate the
optimal number of clusters. The package takes advantage of 'RcppArmadillo' to
speed up the computationally intensive parts of the functions.
Author: Lampros Mouselimis <mouselimislampros@gmail.com>
Maintainer: Lampros Mouselimis <mouselimislampros@gmail.com>
Diff between ClusterR versions 1.0.1 dated 2016-09-09 and 1.0.3 dated 2016-10-08
DESCRIPTION | 10 MD5 | 32 NEWS.md | 17 R/RcppExports.R | 2 R/clustering_functions.R | 7 README.md | 7 inst/doc/the_clusterR_package.Rmd | 2 inst/doc/the_clusterR_package.html | 14 src/Makevars | 1 src/RcppExports.cpp | 376 +-- src/kmeans_miniBatchKmeans_GMM_Medoids.cpp | 1136 ++++++++-- src/utils_rcpp.cpp | 40 src/utils_rcpp.h | 6 tests/testthat/test-dissimilarity_matrices.R | 268 +- tests/testthat/test-gmm.R | 189 + tests/testthat/test-plot2d_silhouette_plot_ext_validation_center_scale_dist_mat.R | 6 vignettes/the_clusterR_package.Rmd | 2 17 files changed, 1656 insertions(+), 459 deletions(-)
Title: Fast R Functions
Description: A collection of fast (utility) functions for data analysis. Column- and row- wise means, medians, variances, minimums, maximums, many t, F and G-square tests, many regressions (normal, logistic, poisson), Mahalanobis distance are some of the many fast functions.
Author: Manos Papadakis, Michail Tsagris, Ioannis Tsamardinos, Matteo Fasiolo, Giorgos Borboudakis and John Burkardt
Maintainer: Manos Papadakis <papadakm95@gmail.com>
Diff between Rfast versions 1.3 dated 2016-08-09 and 1.4 dated 2016-10-08
Rfast-1.3/Rfast/R/fast_cpp.R |only Rfast-1.3/Rfast/man/Rbeta.Rd |only Rfast-1.3/Rfast/man/Rbinom.Rd |only Rfast-1.3/Rfast/man/Rnorm.Rd |only Rfast-1.3/Rfast/man/Rpois.Rd |only Rfast-1.3/Rfast/man/Runif.Rd |only Rfast-1.3/Rfast/man/generate_key_1.Rd |only Rfast-1.3/Rfast/man/generate_key_2.Rd |only Rfast-1.3/Rfast/src/fast.cpp |only Rfast-1.4/Rfast/DESCRIPTION | 12 - Rfast-1.4/Rfast/MD5 | 218 +++++++++++++----- Rfast-1.4/Rfast/NAMESPACE | 7 Rfast-1.4/Rfast/R/Digamma.R |only Rfast-1.4/Rfast/R/Lgamma.R |only Rfast-1.4/Rfast/R/Match.R |only Rfast-1.4/Rfast/R/Order.R |only Rfast-1.4/Rfast/R/Trigamma.R |only Rfast-1.4/Rfast/R/all_equals.R |only Rfast-1.4/Rfast/R/allbetas.R | 6 Rfast-1.4/Rfast/R/beta.mle.R |only Rfast-1.4/Rfast/R/binary_search.R |only Rfast-1.4/Rfast/R/colMads.R | 6 Rfast-1.4/Rfast/R/colMaxs.R |only Rfast-1.4/Rfast/R/colMedians.R |only Rfast-1.4/Rfast/R/colMins.R |only Rfast-1.4/Rfast/R/colVars.R | 8 Rfast-1.4/Rfast/R/colmeans.R |only Rfast-1.4/Rfast/R/colrange.R | 17 - Rfast-1.4/Rfast/R/colsums.R |only Rfast-1.4/Rfast/R/comb_n.R |only Rfast-1.4/Rfast/R/cora.R | 4 Rfast-1.4/Rfast/R/correls.R | 6 Rfast-1.4/Rfast/R/count_value.R |only Rfast-1.4/Rfast/R/cova.R | 2 Rfast-1.4/Rfast/R/design_matrix.R |only Rfast-1.4/Rfast/R/diri.nr2.R | 26 -- Rfast-1.4/Rfast/R/dista.R | 8 Rfast-1.4/Rfast/R/floyd.R |only Rfast-1.4/Rfast/R/ftests.R | 10 Rfast-1.4/Rfast/R/hash.find.R |only Rfast-1.4/Rfast/R/hash.list.R |only Rfast-1.4/Rfast/R/is_element.R |only Rfast-1.4/Rfast/R/logistic_only.R |only Rfast-1.4/Rfast/R/lower_triangle.R |only Rfast-1.4/Rfast/R/med.R |only Rfast-1.4/Rfast/R/mvbetas.R | 4 Rfast-1.4/Rfast/R/nth.R |only Rfast-1.4/Rfast/R/permutation.R |only Rfast-1.4/Rfast/R/permutation_next.R |only Rfast-1.4/Rfast/R/permutation_prev.R |only Rfast-1.4/Rfast/R/poisson_only.R |only Rfast-1.4/Rfast/R/proptests.R |only Rfast-1.4/Rfast/R/racg.R |only Rfast-1.4/Rfast/R/regression.R |only Rfast-1.4/Rfast/R/rmvlaplace.R |only Rfast-1.4/Rfast/R/rmvnorm.R |only Rfast-1.4/Rfast/R/rmvt.R |only Rfast-1.4/Rfast/R/rowMaxs.R |only Rfast-1.4/Rfast/R/rowMedians.R |only Rfast-1.4/Rfast/R/rowMins.R |only Rfast-1.4/Rfast/R/rowVars.R |only Rfast-1.4/Rfast/R/rowmeans.R |only Rfast-1.4/Rfast/R/rowrange.R |only Rfast-1.4/Rfast/R/rowsums.R |only Rfast-1.4/Rfast/R/sort_cor_vectors.R |only Rfast-1.4/Rfast/R/sort_index.R |only Rfast-1.4/Rfast/R/sort_mat.R |only Rfast-1.4/Rfast/R/sort_unique.R |only Rfast-1.4/Rfast/R/standardise.R | 13 - Rfast-1.4/Rfast/R/transpose.R |only Rfast-1.4/Rfast/R/ttests.R | 8 Rfast-1.4/Rfast/R/univglms.R | 9 Rfast-1.4/Rfast/R/upper_triangle.R |only Rfast-1.4/Rfast/R/which_isFactor.R |only Rfast-1.4/Rfast/R/zip.mle.R |only Rfast-1.4/Rfast/man/Lgamma.Rd |only Rfast-1.4/Rfast/man/Match.Rd | 4 Rfast-1.4/Rfast/man/Order.Rd |only Rfast-1.4/Rfast/man/Rfast-package.Rd | 6 Rfast-1.4/Rfast/man/all_equals.Rd |only Rfast-1.4/Rfast/man/allbetas.Rd | 4 Rfast-1.4/Rfast/man/beta.mle.Rd |only Rfast-1.4/Rfast/man/binary_search.Rd |only Rfast-1.4/Rfast/man/colMads.Rd | 8 Rfast-1.4/Rfast/man/colMedians.Rd | 11 Rfast-1.4/Rfast/man/colMins.Rd | 8 Rfast-1.4/Rfast/man/colVars.Rd | 9 Rfast-1.4/Rfast/man/colmeans.Rd | 12 - Rfast-1.4/Rfast/man/colrange.Rd | 12 - Rfast-1.4/Rfast/man/colsums.Rd | 10 Rfast-1.4/Rfast/man/comb_n.Rd |only Rfast-1.4/Rfast/man/count_value.Rd |only Rfast-1.4/Rfast/man/cova.Rd | 8 Rfast-1.4/Rfast/man/design_matrix.Rd | 2 Rfast-1.4/Rfast/man/diri.nr2.Rd | 15 - Rfast-1.4/Rfast/man/floyd.Rd |only Rfast-1.4/Rfast/man/ftests.Rd | 2 Rfast-1.4/Rfast/man/g2Test.Rd | 2 Rfast-1.4/Rfast/man/g2Test_univariate.Rd | 2 Rfast-1.4/Rfast/man/hash.find.Rd | 2 Rfast-1.4/Rfast/man/hash.list.Rd | 6 Rfast-1.4/Rfast/man/is_element.Rd |only Rfast-1.4/Rfast/man/logistic_only.Rd | 2 Rfast-1.4/Rfast/man/lower_tri.Rd |only Rfast-1.4/Rfast/man/mahala.Rd | 7 Rfast-1.4/Rfast/man/mvbetas.Rd | 1 Rfast-1.4/Rfast/man/permutation.Rd |only Rfast-1.4/Rfast/man/poisson_only.Rd | 2 Rfast-1.4/Rfast/man/proptests.Rd |only Rfast-1.4/Rfast/man/racg.Rd |only Rfast-1.4/Rfast/man/rmvlaplace.Rd |only Rfast-1.4/Rfast/man/rmvnorm.Rd |only Rfast-1.4/Rfast/man/rowMins.Rd | 11 Rfast-1.4/Rfast/man/sort_cor_vectors.Rd |only Rfast-1.4/Rfast/man/sort_mat.Rd | 13 - Rfast-1.4/Rfast/man/sort_unique.Rd |only Rfast-1.4/Rfast/man/standardise.Rd | 3 Rfast-1.4/Rfast/man/transpose.Rd |only Rfast-1.4/Rfast/man/ttests.Rd | 2 Rfast-1.4/Rfast/man/univglms.Rd | 2 Rfast-1.4/Rfast/man/which_isFactor.Rd | 3 Rfast-1.4/Rfast/man/zip.mle.Rd |only Rfast-1.4/Rfast/src/Hash_list.cpp |only Rfast-1.4/Rfast/src/Match.cpp |only Rfast-1.4/Rfast/src/Order.cpp |only Rfast-1.4/Rfast/src/all__functions.cpp | 361 ------------------------------- Rfast-1.4/Rfast/src/binarysearch.cpp |only Rfast-1.4/Rfast/src/colmaxs.cpp |only Rfast-1.4/Rfast/src/colmeans.cpp |only Rfast-1.4/Rfast/src/colmeds.cpp |only Rfast-1.4/Rfast/src/colmins.cpp |only Rfast-1.4/Rfast/src/colrange.cpp |only Rfast-1.4/Rfast/src/colsums.cpp |only Rfast-1.4/Rfast/src/count_value.cpp |only Rfast-1.4/Rfast/src/design_matrix.cpp |only Rfast-1.4/Rfast/src/dg_mat.cpp |only Rfast-1.4/Rfast/src/dg_vec.cpp |only Rfast-1.4/Rfast/src/diri_nr_type2.cpp |only Rfast-1.4/Rfast/src/floyd_john.cpp |only Rfast-1.4/Rfast/src/g2t.cpp | 3 Rfast-1.4/Rfast/src/hash_find.cpp |only Rfast-1.4/Rfast/src/is_element.cpp |only Rfast-1.4/Rfast/src/k_comb_n.cpp |only Rfast-1.4/Rfast/src/l_mat.cpp |only Rfast-1.4/Rfast/src/l_vec.cpp |only Rfast-1.4/Rfast/src/logistic_only.cpp |only Rfast-1.4/Rfast/src/lower_triangle.cpp |only Rfast-1.4/Rfast/src/med.cpp |only Rfast-1.4/Rfast/src/mn.cpp | 58 +++- Rfast-1.4/Rfast/src/mn.h | 15 - Rfast-1.4/Rfast/src/nth.cpp |only Rfast-1.4/Rfast/src/permutation.cpp |only Rfast-1.4/Rfast/src/permutation_next.cpp |only Rfast-1.4/Rfast/src/permutation_prev.cpp |only Rfast-1.4/Rfast/src/poisson_only.cpp |only Rfast-1.4/Rfast/src/regression.cpp |only Rfast-1.4/Rfast/src/rowMaxs.cpp |only Rfast-1.4/Rfast/src/rowMins.cpp |only Rfast-1.4/Rfast/src/rowmeans.cpp |only Rfast-1.4/Rfast/src/rowrange.cpp |only Rfast-1.4/Rfast/src/rowsums.cpp |only Rfast-1.4/Rfast/src/sort_cor_vecs.cpp |only Rfast-1.4/Rfast/src/sort_double.cpp |only Rfast-1.4/Rfast/src/sort_index.cpp |only Rfast-1.4/Rfast/src/sort_int.cpp |only Rfast-1.4/Rfast/src/sort_mat.cpp |only Rfast-1.4/Rfast/src/tr_mat.cpp |only Rfast-1.4/Rfast/src/tr_vec.cpp |only Rfast-1.4/Rfast/src/transpose.cpp |only Rfast-1.4/Rfast/src/upper_triangle.cpp |only Rfast-1.4/Rfast/src/which_isFactor.cpp |only 171 files changed, 370 insertions(+), 600 deletions(-)
Title: Interface to Species Occurrence Data Sources
Description: A programmatic interface to many species occurrence data sources,
including 'GBIF', 'USGS' 'BISON', 'iNaturalist', Berkeley 'Ecoinformatics'
Engine, 'eBird', 'AntWeb', and 'iDigBio'. Includes functionality for
retrieving species occurrence data, and combining that data.
Author: Scott Chamberlain [aut, cre],
Karthik Ram [ctb],
Ted Hart [ctb]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between spocc versions 0.5.0 dated 2016-04-23 and 0.5.4 dated 2016-10-08
spocc-0.5.0/spocc/man/spocc_colClasses.Rd |only spocc-0.5.4/spocc/DESCRIPTION | 29 - spocc-0.5.4/spocc/MD5 | 77 ++-- spocc-0.5.4/spocc/NAMESPACE | 6 spocc-0.5.4/spocc/NEWS.md | 26 + spocc-0.5.4/spocc/R/as.antweb.R | 8 spocc-0.5.4/spocc/R/as.bison.R | 12 spocc-0.5.4/spocc/R/as.ecoengine.R | 4 spocc-0.5.4/spocc/R/as.gbif.R | 16 spocc-0.5.4/spocc/R/as.idigbio.R | 12 spocc-0.5.4/spocc/R/as.inat.R | 6 spocc-0.5.4/spocc/R/as.vertnet.R | 4 spocc-0.5.4/spocc/R/ecoengine_helpers.R | 4 spocc-0.5.4/spocc/R/inat.R | 19 - spocc-0.5.4/spocc/R/methods.r | 8 spocc-0.5.4/spocc/R/occ.r | 2 spocc-0.5.4/spocc/R/occ2df.R | 14 spocc-0.5.4/spocc/R/occ_options.r | 6 spocc-0.5.4/spocc/R/plugin_helpers.R | 14 spocc-0.5.4/spocc/R/plugins.r | 49 +- spocc-0.5.4/spocc/R/spocc-package.R | 4 spocc-0.5.4/spocc/R/wkt_vis.r | 2 spocc-0.5.4/spocc/R/zzz.r | 23 - spocc-0.5.4/spocc/README.md | 76 +--- spocc-0.5.4/spocc/build/vignette.rds |binary spocc-0.5.4/spocc/inst/doc/spocc_vignette.Rmd | 241 ++++++------- spocc-0.5.4/spocc/inst/doc/spocc_vignette.html | 241 ++++++------- spocc-0.5.4/spocc/man/as.antweb.Rd | 4 spocc-0.5.4/spocc/man/as.bison.Rd | 8 spocc-0.5.4/spocc/man/as.gbif.Rd | 8 spocc-0.5.4/spocc/man/as.idigbio.Rd | 4 spocc-0.5.4/spocc/man/as.inat.Rd | 2 spocc-0.5.4/spocc/man/occ_options.Rd | 2 spocc-0.5.4/spocc/man/spocc_objects.Rd | 4 spocc-0.5.4/spocc/tests/testthat/test-has_coords.R | 6 spocc-0.5.4/spocc/tests/testthat/test-occ.R | 31 + spocc-0.5.4/spocc/tests/testthat/test-occ2df.R | 23 - spocc-0.5.4/spocc/tests/testthat/test-options.R | 12 spocc-0.5.4/spocc/tests/testthat/test-taxize-integration.R | 5 spocc-0.5.4/spocc/vignettes/spocc_vignette.Rmd | 241 ++++++------- 40 files changed, 641 insertions(+), 612 deletions(-)
Title: Simulation of Diffusion Processes
Description: Provides the functions for simulating and modeling of stochastic differential equations (SDE's). Statistical analysis and simulation of the solution of SDE's enabled many searchers in different domains to use these equations to modeling practical problems, in financial and actuarial modeling and other areas of application. For example, modeling and simulate of dispersion in shallow water using the attractive center (Boukhetala K, 1996).
Author: Arsalane Chouaib Guidoum [cre, aut],
Kamal Boukhetala [aut]
Maintainer: Arsalane Chouaib Guidoum <acguidoum@usthb.dz>
Diff between Sim.DiffProc versions 3.3 dated 2016-09-22 and 3.4 dated 2016-10-08
Sim.DiffProc-3.3/Sim.DiffProc/inst/doc/FitSDE.Rnw |only Sim.DiffProc-3.3/Sim.DiffProc/inst/doc/FitSDE.pdf |only Sim.DiffProc-3.3/Sim.DiffProc/inst/doc/Introduction.R |only Sim.DiffProc-3.3/Sim.DiffProc/inst/doc/Introduction.Rnw |only Sim.DiffProc-3.3/Sim.DiffProc/inst/doc/Introduction.pdf |only Sim.DiffProc-3.3/Sim.DiffProc/inst/doc/SDEs.R |only Sim.DiffProc-3.3/Sim.DiffProc/inst/doc/SDEs.Rnw |only Sim.DiffProc-3.3/Sim.DiffProc/inst/doc/SDEs.pdf |only Sim.DiffProc-3.3/Sim.DiffProc/man/rsde2d.Rd |only Sim.DiffProc-3.3/Sim.DiffProc/man/rsde3d.Rd |only Sim.DiffProc-3.3/Sim.DiffProc/vignettes/Core_FitSDE.tex |only Sim.DiffProc-3.3/Sim.DiffProc/vignettes/FitSDE-022.pdf |only Sim.DiffProc-3.3/Sim.DiffProc/vignettes/FitSDE-026.pdf |only Sim.DiffProc-3.3/Sim.DiffProc/vignettes/FitSDE.Rnw |only Sim.DiffProc-3.3/Sim.DiffProc/vignettes/Introduction.Rnw |only Sim.DiffProc-3.3/Sim.DiffProc/vignettes/SDEs.Rnw |only Sim.DiffProc-3.4/Sim.DiffProc/DESCRIPTION | 10 Sim.DiffProc-3.4/Sim.DiffProc/MD5 | 78 +- Sim.DiffProc-3.4/Sim.DiffProc/NAMESPACE | 72 - Sim.DiffProc-3.4/Sim.DiffProc/NEWS | 5 Sim.DiffProc-3.4/Sim.DiffProc/R/ftpsde.R | 505 +++----------- Sim.DiffProc-3.4/Sim.DiffProc/R/rsde.R | 437 +----------- Sim.DiffProc-3.4/Sim.DiffProc/R/snssde.R | 406 ++++------- Sim.DiffProc-3.4/Sim.DiffProc/R/utils.R | 448 ++++++------ Sim.DiffProc-3.4/Sim.DiffProc/R/zzz.r | 10 Sim.DiffProc-3.4/Sim.DiffProc/build/vignette.rds |binary Sim.DiffProc-3.4/Sim.DiffProc/demo/Sim.DiffProc.R | 131 +-- Sim.DiffProc-3.4/Sim.DiffProc/inst/doc/Sim.DiffProc.R |only Sim.DiffProc-3.4/Sim.DiffProc/inst/doc/Sim.DiffProc.Rmd |only Sim.DiffProc-3.4/Sim.DiffProc/inst/doc/Sim.DiffProc.html |only Sim.DiffProc-3.4/Sim.DiffProc/inst/doc/Thumbs.db |binary Sim.DiffProc-3.4/Sim.DiffProc/inst/doc/fitsde.R |only Sim.DiffProc-3.4/Sim.DiffProc/inst/doc/fitsde.Rmd |only Sim.DiffProc-3.4/Sim.DiffProc/inst/doc/fitsde.html |only Sim.DiffProc-3.4/Sim.DiffProc/inst/doc/fptsde.R |only Sim.DiffProc-3.4/Sim.DiffProc/inst/doc/fptsde.Rmd |only Sim.DiffProc-3.4/Sim.DiffProc/inst/doc/fptsde.html |only Sim.DiffProc-3.4/Sim.DiffProc/inst/doc/sde.R |only Sim.DiffProc-3.4/Sim.DiffProc/inst/doc/sde.Rmd |only Sim.DiffProc-3.4/Sim.DiffProc/inst/doc/sde.html |only Sim.DiffProc-3.4/Sim.DiffProc/man/Sim.DiffProc-package.Rd | 128 +-- Sim.DiffProc-3.4/Sim.DiffProc/man/bconfint.Rd | 5 Sim.DiffProc-3.4/Sim.DiffProc/man/fptsde1d.Rd | 74 -- Sim.DiffProc-3.4/Sim.DiffProc/man/fptsde2d.Rd | 60 - Sim.DiffProc-3.4/Sim.DiffProc/man/fptsde3d.Rd | 64 - Sim.DiffProc-3.4/Sim.DiffProc/man/rsde1d.Rd | 131 +-- Sim.DiffProc-3.4/Sim.DiffProc/man/snssde1d.Rd | 7 Sim.DiffProc-3.4/Sim.DiffProc/man/snssde2d.Rd | 9 Sim.DiffProc-3.4/Sim.DiffProc/man/snssde3d.Rd | 8 Sim.DiffProc-3.4/Sim.DiffProc/tests/fptsde.R | 55 - Sim.DiffProc-3.4/Sim.DiffProc/tests/rsde.R | 81 +- Sim.DiffProc-3.4/Sim.DiffProc/vignettes/Sim.DiffProc.Rmd |only Sim.DiffProc-3.4/Sim.DiffProc/vignettes/Thumbs.db |binary Sim.DiffProc-3.4/Sim.DiffProc/vignettes/fitsde.Rmd |only Sim.DiffProc-3.4/Sim.DiffProc/vignettes/fptsde.Rmd |only Sim.DiffProc-3.4/Sim.DiffProc/vignettes/sde.Rmd |only 56 files changed, 953 insertions(+), 1771 deletions(-)
Title: Tools for Conducting Respirometry Experiments
Description: Provides tools to enable the researcher to more precisely conduct
respirometry experiments. Strong emphasis is on aquatic respirometry. Tools
focus on helping the researcher setup and conduct experiments. Analysis of the
resulting data is not a focus since analyses are often specific to a particular
setup, and thus are better created by the researcher individually. This
package provides tools for intermittent, flow-through, and closed respirometry
techniques.
Author: Matthew A. Birk
Maintainer: Matthew A. Birk <matthewabirk@gmail.com>
Diff between respirometry versions 0.1.0 dated 2016-08-23 and 0.2.0 dated 2016-10-08
DESCRIPTION | 12 +++---- MD5 | 79 ++++++++++++++++++++++++++++---------------------- NAMESPACE | 4 ++ NEWS | 45 ++++++++++++++++++++-------- R/Q10.R | 31 ++++++++++++++++--- R/closed.R |only R/co2_add.R | 7 ++-- R/co2_flush.R | 5 +-- R/co2_rate.R | 4 +- R/conv_NH4.R | 2 - R/conv_o2.R | 10 +++++- R/correct_bubble.R | 2 - R/flush_carb.R | 2 - R/flush_o2.R | 46 +++++++++++++++++++++++------ R/flush_water.R | 14 +++++++- R/goal_flush_pH.R | 2 - R/guess_TA.R | 51 ++++++++++++++++++++++++-------- R/import_presens.R |only R/import_witrox.R |only R/max_MO2.R | 5 ++- R/mean_pH.R | 4 ++ R/predict_NH4.R | 3 - R/predict_pH.R | 21 ++++++++++++- R/scale_MO2.R |only inst |only man/Q10.Rd | 35 ++++++++++++++++++---- man/closed.Rd |only man/co2_add.Rd | 9 +++-- man/co2_flush.Rd | 7 +++- man/co2_rate.Rd | 4 +- man/conv_NH4.Rd | 2 - man/conv_o2.Rd | 4 +- man/correct_bubble.Rd | 2 - man/flush_carb.Rd | 2 - man/flush_o2.Rd | 16 +++++----- man/flush_water.Rd | 14 +++++++- man/goal_flush_pH.Rd | 2 - man/guess_TA.Rd | 11 +++++- man/import_presens.Rd |only man/import_witrox.Rd |only man/max_MO2.Rd | 5 ++- man/predict_NH4.Rd | 2 - man/predict_pH.Rd | 2 - man/scale_MO2.Rd |only 44 files changed, 334 insertions(+), 132 deletions(-)
Title: Descriptive Statistics, Transition Plots, and More
Description: Tools for making the descriptive "Table 1" used in medical
articles, a transition plot for showing changes between categories, a method for
variable selection based on the SVD, Bézier lines with arrows complementing the
ones in the 'grid' package, and more.
Author: Max Gordon <max@gforge.se>
Maintainer: Max Gordon <max@gforge.se>
Diff between Gmisc versions 1.4 dated 2016-10-04 and 1.4.1 dated 2016-10-08
Gmisc-1.4.1/Gmisc/DESCRIPTION | 8 +- Gmisc-1.4.1/Gmisc/MD5 | 89 +++++++++++------------ Gmisc-1.4.1/Gmisc/NAMESPACE | 2 Gmisc-1.4.1/Gmisc/NEWS | 4 + Gmisc-1.4.1/Gmisc/R/bezierArrowGradient.R | 2 Gmisc-1.4.1/Gmisc/R/bezierArrowSmpl.R | 4 - Gmisc-1.4.1/Gmisc/R/bezier_private_functions.R | 4 - Gmisc-1.4.1/Gmisc/R/convertShowMissing.R |only Gmisc-1.4.1/Gmisc/R/deprecated.R | 2 Gmisc-1.4.1/Gmisc/R/descGetMissing.R |only Gmisc-1.4.1/Gmisc/R/descriptionStats.R | 22 ++--- Gmisc-1.4.1/Gmisc/R/docx_document.R | 6 - Gmisc-1.4.1/Gmisc/R/fastDoCall.R | 2 Gmisc-1.4.1/Gmisc/R/figCaptionNo.R | 4 - Gmisc-1.4.1/Gmisc/R/getDescriptionStatsBy.R | 14 +-- Gmisc-1.4.1/Gmisc/R/getPval.R | 2 Gmisc-1.4.1/Gmisc/R/getSvdMostInfluential.R | 4 - Gmisc-1.4.1/Gmisc/R/private_functions.R | 70 ------------------ Gmisc-1.4.1/Gmisc/R/transitionClass.R | 14 +-- Gmisc-1.4.1/Gmisc/R/transitionClass_helpers.R | 2 Gmisc-1.4.1/Gmisc/R/transitionPlot.R | 16 ++-- Gmisc-1.4.1/Gmisc/R/transitionPlot_helpers.R | 8 +- Gmisc-1.4.1/Gmisc/inst/doc/Descriptives.html | 48 ++++++------ Gmisc-1.4.1/Gmisc/inst/doc/Transition-class.html | 4 - Gmisc-1.4.1/Gmisc/inst/doc/transitionPlot.html | 4 - Gmisc-1.4.1/Gmisc/man/Gmisc-deprecated.Rd | 2 Gmisc-1.4.1/Gmisc/man/Transition-class.Rd | 10 +- Gmisc-1.4.1/Gmisc/man/bezierArrowGradient.Rd | 4 - Gmisc-1.4.1/Gmisc/man/bezierArrowSmpl.Rd | 2 Gmisc-1.4.1/Gmisc/man/convertShowMissing.Rd |only Gmisc-1.4.1/Gmisc/man/descGetMissing.Rd |only Gmisc-1.4.1/Gmisc/man/describeFactors.Rd | 4 - Gmisc-1.4.1/Gmisc/man/docx_document.Rd | 4 - Gmisc-1.4.1/Gmisc/man/fastDoCall.Rd | 2 Gmisc-1.4.1/Gmisc/man/getDescriptionStatsBy.Rd | 8 +- Gmisc-1.4.1/Gmisc/man/getPval.Rd | 2 Gmisc-1.4.1/Gmisc/man/getSvdMostInfluential.Rd | 2 Gmisc-1.4.1/Gmisc/man/prCaptionFix.Rd | 4 - Gmisc-1.4.1/Gmisc/man/prGetStatistics.Rd | 2 Gmisc-1.4.1/Gmisc/man/prGridPlotTitle.Rd | 2 Gmisc-1.4.1/Gmisc/man/prTcPlotArrows.Rd | 2 Gmisc-1.4.1/Gmisc/man/prTpGetBoxPropClr.Rd | 4 - Gmisc-1.4.1/Gmisc/man/prTpGetColors.Rd | 4 - Gmisc-1.4.1/Gmisc/man/prTpPlotArrows.Rd | 2 Gmisc-1.4.1/Gmisc/man/prTpPlotBoxes.Rd | 8 +- Gmisc-1.4.1/Gmisc/man/transitionPlot.Rd | 14 +-- Gmisc-1.4.1/Gmisc/tests/testthat/test-boxGrobs.R |only Gmisc-1.4/Gmisc/man/prConvertShowMissing.Rd |only Gmisc-1.4/Gmisc/man/prDescGetMissing.Rd |only 49 files changed, 180 insertions(+), 237 deletions(-)
Title: Estimation of Extreme Value Dependence for Time Series Data
Description: Estimation of the sample univariate, cross and return time extremograms. The package can also adds empirical confidence bands to each of the extremogram plots via a permutation procedure under the assumption that the data are independent. Finally, the stationary bootstrap allows us to construct credible confidence bands for the extremograms.
Author: Nadezda Frolova, Ivor Cribben
Maintainer: Nadezda Frolova <nfrolova@ualberta.ca>
Diff between extremogram versions 1.0.1 dated 2016-03-28 and 1.0.2 dated 2016-10-08
DESCRIPTION | 8 ++++---- MD5 | 30 +++++++++++++++--------------- R/bootconf1.R | 19 +++++++------------ R/bootconf2.R | 13 +++++++------ R/bootconfr.R | 11 +++++++---- R/extremogram1.R | 22 +++++++--------------- R/extremogram2.R | 16 +++++++++------- R/extremogramr.R | 24 +++++++----------------- R/permfn1.R | 4 ++-- R/permfn2.R | 8 ++++---- man/bootconf1.Rd | 4 +--- man/bootconf2.Rd | 4 +--- man/bootconfr.Rd | 4 +--- man/extremogram1.Rd | 5 +---- man/extremogram2.Rd | 4 +--- man/extremogramr.Rd | 4 +--- 16 files changed, 75 insertions(+), 105 deletions(-)
Title: "Finding Groups in Data": Cluster Analysis Extended Rousseeuw et
al.
Description: Methods for Cluster analysis. Much extended the original from
Peter Rousseeuw, Anja Struyf and Mia Hubert,
based on Kaufman and Rousseeuw (1990) "Finding Groups in Data".
Author: Martin Maechler [aut, cre],
Peter Rousseeuw [aut] (Fortran original),
Anja Struyf [aut] (S original),
Mia Hubert [aut] (S original),
Kurt Hornik [trl, ctb] (port to R; maintenance(1999-2000)),
Matthias Studer [ctb],
Pierre Roudier [ctb],
Juan Gonzalez [ctb]
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between cluster versions 2.0.4 dated 2016-04-18 and 2.0.5 dated 2016-10-08
DESCRIPTION | 14 +++--- MD5 | 34 ++++++++-------- R/clusGap.R | 46 ++++++++++++++++------ R/daisy.q | 10 ++-- R/diana.q | 10 ++-- R/pam.q | 12 ++++- R/plotpart.q | 15 +++---- README | 2 inst/NEWS.Rd | 45 ++++++++++++++++----- man/clusGap.Rd | 99 +++++++++++++++++++++++++++++++++--------------- man/clusplot.default.Rd | 24 ++++------- man/daisy.Rd | 13 ++++-- man/diana.Rd | 6 ++ man/fanny.Rd | 2 man/pam.Rd | 4 + man/silhouette.Rd | 10 ++-- src/pam.c | 7 ++- src/twins.c | 20 ++++----- 18 files changed, 241 insertions(+), 132 deletions(-)