Title: A Toolbox for Public Health and Epidemiology
Description: A toolbox for making R functions and capabilities more
accessible to students and professionals from Epidemiology and
Public Health related disciplines. Includes a function to report
coefficients and confidence intervals from models using robust
standard errors (when available), functions that expand lattice
plots and functions relevant for introductory papers in Epidemiology
or Public Health. Please note that use of the
provided data sets is for educational purposes only.
Author: Josie Athens [aut, cre],
Deepayan Sarkar [ctb],
Mark Stevenson [ctb],
Simon Firestone [ctb],
Cord Heuer [ctb],
Jim Robison-Cox [ctb],
Frank Harell [ctb],
John Fox [ctb],
Kazuki Yoshida [ctb],
Tomas Aragon [ctb],
R-Core [ctb]
Maintainer: Josie Athens <josie.athens@otago.ac.nz>
Diff between pubh versions 0.1.6 dated 2018-01-19 and 0.1.7 dated 2018-02-05
DESCRIPTION | 14 ++--- MD5 | 8 +-- inst/doc/introduction.html | 48 +++++++++--------- inst/doc/regression.html | 12 ++-- inst/rmarkdown/templates/report/skeleton/skeleton.Rmd | 46 +++++++---------- 5 files changed, 61 insertions(+), 67 deletions(-)
Title: Graph Theory Analysis of Brain MRI Data
Description: A set of tools for performing graph theory analysis of brain MRI
data. It works with data from a Freesurfer analysis (cortical thickness,
volumes, local gyrification index, surface area), diffusion tensor
tractography data (e.g., from FSL) and resting-state fMRI data (e.g., from
DPABI). It contains a graphical user interface for graph visualization and
data exploration, along with several functions for generating useful
figures.
Author: Christopher G. Watson <cgwatson@bu.edu>
Maintainer: Christopher G. Watson <cgwatson@bu.edu>
Diff between brainGraph versions 1.0.0 dated 2017-04-10 and 2.0.0 dated 2018-02-05
brainGraph-1.0.0/brainGraph/R/assign_lobes.R |only brainGraph-1.0.0/brainGraph/R/check_resid.R |only brainGraph-1.0.0/brainGraph/R/choose_edges.R |only brainGraph-1.0.0/brainGraph/R/color_vertices_edges.R |only brainGraph-1.0.0/brainGraph/R/cor_diff_test.R |only brainGraph-1.0.0/brainGraph/R/graph_attr_dt.R |only brainGraph-1.0.0/brainGraph/R/make_ego_brainGraph.R |only brainGraph-1.0.0/brainGraph/R/make_empty_brainGraph.R |only brainGraph-1.0.0/brainGraph/R/plot_boot.R |only brainGraph-1.0.0/brainGraph/R/plot_brainGraph_mni.R |only brainGraph-1.0.0/brainGraph/R/plot_perm_diffs.R |only brainGraph-1.0.0/brainGraph/R/sim_rand_graph_clust.R |only brainGraph-1.0.0/brainGraph/R/sim_rand_graph_par.R |only brainGraph-1.0.0/brainGraph/R/vertex_attr_dt.R |only brainGraph-1.0.0/brainGraph/man/assign_lobes.Rd |only brainGraph-1.0.0/brainGraph/man/boot_global.Rd |only brainGraph-1.0.0/brainGraph/man/check.resid.Rd |only brainGraph-1.0.0/brainGraph/man/graph_attr_dt.Rd |only brainGraph-1.0.0/brainGraph/man/permute.group.Rd |only brainGraph-1.0.0/brainGraph/man/plot_boot.Rd |only brainGraph-1.0.0/brainGraph/man/plot_brainGraph.Rd |only brainGraph-1.0.0/brainGraph/man/plot_brainGraph_mni.Rd |only brainGraph-1.0.0/brainGraph/man/plot_group_means.Rd |only brainGraph-1.0.0/brainGraph/man/plot_perm_diffs.Rd |only brainGraph-1.0.0/brainGraph/man/sim.rand.graph.clust.Rd |only brainGraph-1.0.0/brainGraph/man/sim.rand.graph.par.Rd |only brainGraph-1.0.0/brainGraph/man/vertex_attr_dt.Rd |only brainGraph-2.0.0/brainGraph/DESCRIPTION | 24 brainGraph-2.0.0/brainGraph/MD5 | 215 +- brainGraph-2.0.0/brainGraph/NAMESPACE | 92 - brainGraph-2.0.0/brainGraph/NEWS.md | 235 ++ brainGraph-2.0.0/brainGraph/R/NBS.R | 339 ++- brainGraph-2.0.0/brainGraph/R/analysis_random_graphs.R | 151 - brainGraph-2.0.0/brainGraph/R/boot_global.R | 211 +- brainGraph-2.0.0/brainGraph/R/brainGraph_GLM.R | 906 +++++++--- brainGraph-2.0.0/brainGraph/R/brainGraph_init.R | 141 - brainGraph-2.0.0/brainGraph/R/brainGraph_mediate.R |only brainGraph-2.0.0/brainGraph/R/centr_lev.R | 3 brainGraph-2.0.0/brainGraph/R/communicability.R |only brainGraph-2.0.0/brainGraph/R/contract_brainGraph.R | 13 brainGraph-2.0.0/brainGraph/R/corr_matrix.R | 77 brainGraph-2.0.0/brainGraph/R/count_edges.R | 2 brainGraph-2.0.0/brainGraph/R/create_graphs.R |only brainGraph-2.0.0/brainGraph/R/create_mats.R | 325 ++- brainGraph-2.0.0/brainGraph/R/data_tables.R |only brainGraph-2.0.0/brainGraph/R/edge_asymmetry.R | 27 brainGraph-2.0.0/brainGraph/R/get_resid.R | 250 ++ brainGraph-2.0.0/brainGraph/R/graph_efficiency.R | 52 brainGraph-2.0.0/brainGraph/R/individ_contrib.R | 94 - brainGraph-2.0.0/brainGraph/R/mtpc.R |only brainGraph-2.0.0/brainGraph/R/permute_group.R | 590 +++++- brainGraph-2.0.0/brainGraph/R/plot_brainGraph.R | 308 ++- brainGraph-2.0.0/brainGraph/R/plot_brainGraph_gui.R | 591 ++---- brainGraph-2.0.0/brainGraph/R/plot_brainGraph_list.R | 10 brainGraph-2.0.0/brainGraph/R/plot_brainGraph_multi.R | 41 brainGraph-2.0.0/brainGraph/R/plot_corr_mat.R | 9 brainGraph-2.0.0/brainGraph/R/plot_global.R | 7 brainGraph-2.0.0/brainGraph/R/plot_group_means.R | 52 brainGraph-2.0.0/brainGraph/R/plot_rich_norm.R | 18 brainGraph-2.0.0/brainGraph/R/plot_vertex_measures.R | 4 brainGraph-2.0.0/brainGraph/R/random_graphs.R |only brainGraph-2.0.0/brainGraph/R/rich_club.R | 58 brainGraph-2.0.0/brainGraph/R/robustness.R | 18 brainGraph-2.0.0/brainGraph/R/s_core.R |only brainGraph-2.0.0/brainGraph/R/set_brainGraph_attributes.R | 105 - brainGraph-2.0.0/brainGraph/R/spatial_dist.R | 2 brainGraph-2.0.0/brainGraph/R/update_brainGraph_gui.R | 486 ++--- brainGraph-2.0.0/brainGraph/R/utils.R | 281 +++ brainGraph-2.0.0/brainGraph/R/vertex_roles.R | 1 brainGraph-2.0.0/brainGraph/R/vulnerability.R | 11 brainGraph-2.0.0/brainGraph/R/write_brainnet.R | 2 brainGraph-2.0.0/brainGraph/man/NBS.Rd | 59 brainGraph-2.0.0/brainGraph/man/analysis_random_graphs.Rd | 45 brainGraph-2.0.0/brainGraph/man/apply_thresholds.Rd |only brainGraph-2.0.0/brainGraph/man/args_as_list.Rd |only brainGraph-2.0.0/brainGraph/man/auc_diff.Rd | 12 brainGraph-2.0.0/brainGraph/man/bg_to_mediate.Rd |only brainGraph-2.0.0/brainGraph/man/brainGraph_GLM.Rd | 144 - brainGraph-2.0.0/brainGraph/man/brainGraph_GLM_design.Rd | 26 brainGraph-2.0.0/brainGraph/man/brainGraph_GLM_fit.Rd | 63 brainGraph-2.0.0/brainGraph/man/brainGraph_boot.Rd |only brainGraph-2.0.0/brainGraph/man/brainGraph_init.Rd | 93 - brainGraph-2.0.0/brainGraph/man/brainGraph_mediate.Rd |only brainGraph-2.0.0/brainGraph/man/brainGraph_permute.Rd |only brainGraph-2.0.0/brainGraph/man/centr_betw_comm.Rd |only brainGraph-2.0.0/brainGraph/man/centr_lev.Rd | 5 brainGraph-2.0.0/brainGraph/man/choose.edges.Rd | 22 brainGraph-2.0.0/brainGraph/man/coeff_var.Rd |only brainGraph-2.0.0/brainGraph/man/color_vertices_edges.Rd | 30 brainGraph-2.0.0/brainGraph/man/communicability.Rd |only brainGraph-2.0.0/brainGraph/man/contract_brainGraph.Rd | 11 brainGraph-2.0.0/brainGraph/man/cor.diff.test.Rd | 6 brainGraph-2.0.0/brainGraph/man/corr.matrix.Rd | 55 brainGraph-2.0.0/brainGraph/man/create_mats.Rd | 54 brainGraph-2.0.0/brainGraph/man/data_tables.Rd |only brainGraph-2.0.0/brainGraph/man/delete_all_attr.Rd | 3 brainGraph-2.0.0/brainGraph/man/edge_asymmetry.Rd | 11 brainGraph-2.0.0/brainGraph/man/efficiency.Rd | 29 brainGraph-2.0.0/brainGraph/man/get.resid.Rd | 47 brainGraph-2.0.0/brainGraph/man/glm_fit_helper.Rd |only brainGraph-2.0.0/brainGraph/man/individ_contrib.Rd | 33 brainGraph-2.0.0/brainGraph/man/is.brainGraph.Rd |only brainGraph-2.0.0/brainGraph/man/make_brainGraph.Rd |only brainGraph-2.0.0/brainGraph/man/make_ego_brainGraph.Rd | 12 brainGraph-2.0.0/brainGraph/man/make_empty_brainGraph.Rd | 24 brainGraph-2.0.0/brainGraph/man/make_glm_brainGraph.Rd |only brainGraph-2.0.0/brainGraph/man/make_intersection_brainGraph.Rd |only brainGraph-2.0.0/brainGraph/man/make_mediate_brainGraph.Rd |only brainGraph-2.0.0/brainGraph/man/make_nbs_brainGraph.Rd |only brainGraph-2.0.0/brainGraph/man/mtpc.Rd |only brainGraph-2.0.0/brainGraph/man/partition.Rd |only brainGraph-2.0.0/brainGraph/man/plot.bg_GLM.Rd |only brainGraph-2.0.0/brainGraph/man/plot.brainGraph.Rd |only brainGraph-2.0.0/brainGraph/man/plot.brainGraph_GLM.Rd |only brainGraph-2.0.0/brainGraph/man/plot.brainGraph_NBS.Rd |only brainGraph-2.0.0/brainGraph/man/plot.brainGraph_boot.Rd |only brainGraph-2.0.0/brainGraph/man/plot.brainGraph_mediate.Rd |only brainGraph-2.0.0/brainGraph/man/plot.brainGraph_mtpc.Rd |only brainGraph-2.0.0/brainGraph/man/plot.brainGraph_permute.Rd |only brainGraph-2.0.0/brainGraph/man/plot.brainGraph_resids.Rd |only brainGraph-2.0.0/brainGraph/man/plot.mtpc.Rd |only brainGraph-2.0.0/brainGraph/man/plot_brainGraph_gui.Rd | 9 brainGraph-2.0.0/brainGraph/man/plot_brainGraph_list.Rd | 9 brainGraph-2.0.0/brainGraph/man/plot_brainGraph_multi.Rd | 30 brainGraph-2.0.0/brainGraph/man/plot_corr_mat.Rd | 4 brainGraph-2.0.0/brainGraph/man/plot_volumetric.Rd |only brainGraph-2.0.0/brainGraph/man/random_graphs.Rd |only brainGraph-2.0.0/brainGraph/man/randomise.Rd |only brainGraph-2.0.0/brainGraph/man/rich_club_norm.Rd | 24 brainGraph-2.0.0/brainGraph/man/robustness.Rd | 16 brainGraph-2.0.0/brainGraph/man/rotation.Rd | 1 brainGraph-2.0.0/brainGraph/man/rstudent_mat.Rd |only brainGraph-2.0.0/brainGraph/man/s_core.Rd |only brainGraph-2.0.0/brainGraph/man/set_brainGraph_attr.Rd | 64 brainGraph-2.0.0/brainGraph/man/setup_glm.Rd |only brainGraph-2.0.0/brainGraph/man/setup_randomise.Rd |only brainGraph-2.0.0/brainGraph/man/subset_graph.Rd |only brainGraph-2.0.0/brainGraph/man/summary.NBS.Rd |only brainGraph-2.0.0/brainGraph/man/summary.bg_GLM.Rd |only brainGraph-2.0.0/brainGraph/man/summary.bg_mediate.Rd |only brainGraph-2.0.0/brainGraph/man/summary.brainGraph.Rd |only brainGraph-2.0.0/brainGraph/man/summary.brainGraph_boot.Rd |only brainGraph-2.0.0/brainGraph/man/summary.brainGraph_permute.Rd |only brainGraph-2.0.0/brainGraph/man/summary.brainGraph_resids.Rd |only brainGraph-2.0.0/brainGraph/man/summary.mtpc.Rd |only brainGraph-2.0.0/brainGraph/man/symmetrize_mats.Rd |only brainGraph-2.0.0/brainGraph/man/update_brainGraph_gui.Rd | 37 brainGraph-2.0.0/brainGraph/man/vec.transform.Rd | 1 brainGraph-2.0.0/brainGraph/man/xfm.weights.Rd |only 149 files changed, 4413 insertions(+), 2317 deletions(-)
Title: Algorithms using Alternating Direction Method of Multipliers
Description: Provides algorithms to solve popular optimization problems in statistics such as regression or denoising based on Alternating Direction Method of Multipliers (ADMM).
See Boyd et al (2010) <doi:10.1561/2200000016> for complete introduction to the method.
Author: Kisung You [aut, cre] (<https://orcid.org/0000-0002-8584-459X>)
Maintainer: Kisung You <kyou@nd.edu>
Diff between ADMM versions 0.2.0 dated 2018-01-26 and 0.2.1 dated 2018-02-05
DESCRIPTION | 8 ++++---- MD5 | 20 +++++++++++++------- NAMESPACE | 2 ++ R/RcppExports.R | 12 ++++++++++++ R/admm.rpca.R |only R/admm.spca.R |only R/admm.tv.R | 12 ++++++------ build/partial.rdb |binary inst/REFERENCES.bib | 36 +++++++++++++++++++++++++++++++++++- man/RPCA.Rd |only man/SPCA.Rd |only src/RcppExports.cpp | 33 +++++++++++++++++++++++++++++++++ src/admm_rpca.cpp |only src/admm_spca.cpp |only 14 files changed, 105 insertions(+), 18 deletions(-)
Title: Infrastructure for Ordering Objects Using Seriation
Description: Infrastructure for seriation with an implementation of several
seriation/sequencing techniques to reorder matrices, dissimilarity
matrices, and dendrograms. Also provides (optimally) reordered heatmaps,
color images and clustering visualizations like dissimilarity plots, and
visual assessment of cluster tendency plots (VAT and iVAT).
Author: Michael Hahsler [aut, cre, cph],
Christian Buchta [aut, cph],
Kurt Hornik [aut, cph],
Fionn Murtagh [ctb, cph],
Michael Brusco [ctb, cph],
Stephanie Stahl [ctb, cph],
Hans-Friedrich Koehn [ctb, cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between seriation versions 1.2-2 dated 2017-05-09 and 1.2-3 dated 2018-02-05
DESCRIPTION | 8 +++--- MD5 | 46 +++++++++++++++++------------------ NEWS.md | 8 ++++++ R/AAAregistry.R | 24 +++++++++--------- R/bea.R | 4 +-- R/criterion.matrix.R | 9 +++--- R/seriate_BEA.R | 7 +++-- R/seriate_SPIN.R | 2 - README.md | 3 +- build/vignette.rds |binary data/Chameleon.rda |binary data/Irish.rda |binary data/Munsingen.rda |binary data/Psych24.rda |binary data/SupremeCourt.rda |binary data/Townships.rda |binary data/Wood.rda |binary data/Zoo.rda |binary inst/doc/seriation.R | 62 ++++++++++++++++++++++++------------------------ inst/doc/seriation.Rnw | 7 +++-- inst/doc/seriation.pdf |binary src/init.c | 4 +-- vignettes/seriation.Rnw | 7 +++-- vignettes/seriation.bib | 17 ++++++++++--- 24 files changed, 119 insertions(+), 89 deletions(-)
Title: Generative Mechanism Estimation in Temporal Complex Networks
Description: Statistical methods for estimating preferential attachment and node fitness generative mechanisms in temporal complex networks are provided.
Author: Thong Pham, Paul Sheridan, Hidetoshi Shimodaira
Maintainer: Thong Pham <thongpham@thongpham.net>
Diff between PAFit versions 1.0.0.1 dated 2017-06-30 and 1.0.0.3 dated 2018-02-05
DESCRIPTION | 11 ++++--- MD5 | 42 +++++++++++++++--------------- NAMESPACE | 17 +++++++++++- R/CreateDataCV.R | 61 ++++++++++++++++++++++++-------------------- R/CreateDataCV_onlyA.R | 14 ++++++---- R/PAFit.R | 12 +++++++- R/RcppExports.R | 28 ++++++++++---------- R/as.PAFit_net.R | 4 ++ R/get_statistics.R | 41 ++++++++++++++++++++--------- R/joint_estimate.R | 12 ++++++++ R/only_A_estimate.R | 51 +++++++++++++++++++++++++++--------- R/summary.pafit_data.r | 6 +++- build/vignette.rds |binary inst/CITATION | 27 ++++++++++++++++++- inst/NEWS.Rd | 7 +++++ man/PAFit-package.Rd | 4 +- man/joint_estimate.rd | 4 +- man/only_A_estimate.rd | 6 ++-- src/Cpp_code.cpp | 60 +++++++++++++++++++++++++------------------ src/RcppExports.cpp | 28 ++++++++++---------- src/init.c | 57 ++++++++++++++++++++--------------------- tests/test_joint_estimate.R | 8 ++--- 22 files changed, 320 insertions(+), 180 deletions(-)
Title: Visualization and Analysis Tools for Neural Networks
Description: Visualization and analysis tools to aid in the interpretation of
neural network models. Functions are available for plotting,
quantifying variable importance, conducting a sensitivity analysis, and
obtaining a simple list of model weights.
Author: Marcus W. Beck [aut, cre]
Maintainer: Marcus W. Beck <marcusb@sccwrp.org>
Diff between NeuralNetTools versions 1.5.0 dated 2016-11-24 and 1.5.1 dated 2018-02-05
NeuralNetTools-1.5.0/NeuralNetTools/README.md |only NeuralNetTools-1.5.1/NeuralNetTools/DESCRIPTION | 14 ++-- NeuralNetTools-1.5.1/NeuralNetTools/MD5 | 37 +++++------ NeuralNetTools-1.5.1/NeuralNetTools/R/NeuralNetTools_lek.R | 4 - NeuralNetTools-1.5.1/NeuralNetTools/R/NeuralNetTools_old.R | 6 - NeuralNetTools-1.5.1/NeuralNetTools/R/NeuralNetTools_utils.R | 2 NeuralNetTools-1.5.1/NeuralNetTools/man/bias_lines.Rd | 1 NeuralNetTools-1.5.1/NeuralNetTools/man/bias_points.Rd | 1 NeuralNetTools-1.5.1/NeuralNetTools/man/garson.Rd | 5 - NeuralNetTools-1.5.1/NeuralNetTools/man/get_ys.Rd | 1 NeuralNetTools-1.5.1/NeuralNetTools/man/layer_lines.Rd | 1 NeuralNetTools-1.5.1/NeuralNetTools/man/layer_points.Rd | 3 NeuralNetTools-1.5.1/NeuralNetTools/man/lekgrps.Rd | 1 NeuralNetTools-1.5.1/NeuralNetTools/man/lekprofile.Rd | 9 +- NeuralNetTools-1.5.1/NeuralNetTools/man/neuraldat.Rd | 1 NeuralNetTools-1.5.1/NeuralNetTools/man/neuralskips.Rd | 1 NeuralNetTools-1.5.1/NeuralNetTools/man/neuralweights.Rd | 5 - NeuralNetTools-1.5.1/NeuralNetTools/man/olden.Rd | 5 - NeuralNetTools-1.5.1/NeuralNetTools/man/plotnet.Rd | 5 - NeuralNetTools-1.5.1/NeuralNetTools/man/pred_sens.Rd | 1 20 files changed, 44 insertions(+), 59 deletions(-)
More information about NeuralNetTools at CRAN
Permanent link
Title: Model II Regression
Description: Computes model II simple linear regression using ordinary
least squares (OLS), major axis (MA), standard major axis (SMA), and
ranged major axis (RMA).
Author: Pierre Legendre
Maintainer: Jari Oksanen <jari.oksanen@oulu.fi>
Diff between lmodel2 versions 1.7-2 dated 2014-02-24 and 1.7-3 dated 2018-02-05
DESCRIPTION | 13 +++++-------- MD5 | 26 +++++++++++++------------- NAMESPACE | 3 ++- build/vignette.rds |binary data/mod2ex1.rda |binary data/mod2ex2.rda |binary data/mod2ex3.rda |binary data/mod2ex4.rda |binary data/mod2ex5.rda |binary inst/doc/mod2user.R | 20 ++++++++++---------- inst/doc/mod2user.Rnw | 31 +++++++++++++++---------------- inst/doc/mod2user.pdf |binary vignettes/lmodel2.bib | 6 +++--- vignettes/mod2user.Rnw | 31 +++++++++++++++---------------- 14 files changed, 63 insertions(+), 67 deletions(-)
Title: Download Qualtrics Survey Data Directly into R
Description: Qualtrics <https://www.qualtrics.com/about/>
allows users to collect online data through surveys.
This package contains convenience functions to pull
survey results straight into R using the Qualtrics
API. See <https://api.qualtrics.com/> for more
information about the Qualtrics API. This package is
community-maintained and is not officially supported
by Qualtrics.
Author: Jasper Ginn
Maintainer: Jasper Ginn <jasperginn@gmail.com>
Diff between qualtRics versions 2.2 dated 2017-10-27 and 3.0 dated 2018-02-05
qualtRics-2.2/qualtRics/vignettes/config_step1.png |only qualtRics-2.2/qualtRics/vignettes/config_step2.png |only qualtRics-2.2/qualtRics/vignettes/qualtricsdf.png |only qualtRics-3.0/qualtRics/DESCRIPTION | 14 qualtRics-3.0/qualtRics/MD5 | 73 +-- qualtRics-3.0/qualtRics/NAMESPACE | 21 qualtRics-3.0/qualtRics/R/assertions.R | 23 qualtRics-3.0/qualtRics/R/getSurvey.R | 30 - qualtRics-3.0/qualtRics/R/getSurveyQuestions.R | 31 - qualtRics-3.0/qualtRics/R/getSurveys.R | 9 qualtRics-3.0/qualtRics/R/metadata.R |only qualtRics-3.0/qualtRics/R/qualtRicsConfigFile.R | 10 qualtRics-3.0/qualtRics/R/readSurvey.R | 55 -- qualtRics-3.0/qualtRics/R/registerOptions.R | 76 ++- qualtRics-3.0/qualtRics/R/utils.R | 241 ++++++---- qualtRics-3.0/qualtRics/R/zzz.R | 45 + qualtRics-3.0/qualtRics/build/vignette.rds |binary qualtRics-3.0/qualtRics/inst/doc/qualtRics.R |only qualtRics-3.0/qualtRics/inst/doc/qualtRics.Rmd | 95 +-- qualtRics-3.0/qualtRics/inst/doc/qualtRics.html | 81 --- qualtRics-3.0/qualtRics/man/metadata.Rd |only qualtRics-3.0/qualtRics/man/qualtRicsConfigFile.Rd | 4 qualtRics-3.0/qualtRics/man/readSurvey.Rd | 9 qualtRics-3.0/qualtRics/man/registerOptions.Rd | 7 qualtRics-3.0/qualtRics/tests/testthat.R | 2 qualtRics-3.0/qualtRics/tests/testthat/files/file_getSurvey.rds |only qualtRics-3.0/qualtRics/tests/testthat/t.qualtrics.com |only qualtRics-3.0/qualtRics/tests/testthat/test-assert_register_api_key.R | 3 qualtRics-3.0/qualtRics/tests/testthat/test-exist_save_directory.R | 3 qualtRics-3.0/qualtRics/tests/testthat/test-getSurvey.R |only qualtRics-3.0/qualtRics/tests/testthat/test-getSurveyQuestions.R |only qualtRics-3.0/qualtRics/tests/testthat/test-getSurveyQuestions_throws_error.R | 3 qualtRics-3.0/qualtRics/tests/testthat/test-getSurvey_reads_stored_survey.R | 7 qualtRics-3.0/qualtRics/tests/testthat/test-getSurveys.R |only qualtRics-3.0/qualtRics/tests/testthat/test-getSurveys_throws_error.R | 3 qualtRics-3.0/qualtRics/tests/testthat/test-qualtRicsConfFile_message_works.R | 2 qualtRics-3.0/qualtRics/tests/testthat/test-readSurvey_reads_qualtrics_csv.R | 10 qualtRics-3.0/qualtRics/tests/testthat/test-registerOptions_reads_from_file.R | 6 qualtRics-3.0/qualtRics/tests/testthat/test-root_url_fails.R | 4 qualtRics-3.0/qualtRics/tests/testthat/test-seenUnansweredRecode.R | 3 qualtRics-3.0/qualtRics/vignettes/qualtRics.Rmd | 95 +-- 41 files changed, 492 insertions(+), 473 deletions(-)
Title: Simulation and Reconstruction of PET Images
Description: Implementation of different analytic/direct and
iterative reconstruction methods of radon transformed data
such as PET data. It also offer the possibility to simulate PET data.
Author: Joern Schulz <jschulz78@web.de>
Peter Toft <pto@imm.dtu.dk>
Jesper James Jensen <jjj@oedan.dk>
Peter Philipsen <pap@imm.dtu.dk>
Maintainer: Joern Schulz <jschulz78@web.de>
Diff between PET versions 0.4.9 dated 2010-08-23 and 0.5.0 dated 2018-02-05
PET-0.4.9/PET/COPYRIGHT |only PET-0.4.9/PET/Info |only PET-0.4.9/PET/R/Firstlib.r |only PET-0.5.0/PET/DESCRIPTION | 24 ++++++++++++------------ PET-0.5.0/PET/MD5 |only PET-0.5.0/PET/NAMESPACE | 27 ++++++++++++++++++++++++++- PET-0.5.0/PET/R/partEllipse.r | 2 +- PET-0.5.0/PET/R/phantom.r | 6 +++--- PET-0.5.0/PET/R/readData.r | 2 +- PET-0.5.0/PET/R/viewData.r | 11 +++-------- PET-0.5.0/PET/R/writeData.r | 4 ++-- PET-0.5.0/PET/inst |only PET-0.5.0/PET/src/PET_init.c |only PET-0.5.0/PET/src/art.c | 25 +++++++++++++++++++------ PET-0.5.0/PET/src/calc.c | 2 +- PET-0.5.0/PET/src/misc.c | 4 +++- PET-0.5.0/PET/src/sparse.c | 2 +- 17 files changed, 72 insertions(+), 37 deletions(-)
Title: Linear Optimal Low-Rank Projection (LOL)
Description: Supervised learning techniques designed for the situation when the dimensionality exceeds the sample size have a tendency to overfit as the dimensionality of the data increases. To remedy this High dimensionality; low sample size (HDLSS) situation, we attempt to learn a lower-dimensional representation of the data before learning a classifier. That is, we project the data to a situation where the dimensionality is more manageable, and then are able to better apply standard classification or clustering techniques since we will have fewer dimensions to overfit. A number of previous works have focused on how to strategically reduce dimensionality in the unsupervised case, yet in the supervised HDLSS regime, few works have attempted to devise dimensionality reduction techniques that leverage the labels associated with the data. In this package, we provide several methods for feature extraction, some utilizing labels and some not, along with easily extensible utilities to simplify cross-validative efforts to identify the best feature extraction method. Additionally, we include a series of adaptable benchmark simulations to serve as a standard for future investigative efforts into supervised HDLSS. Finally, we produce a comprehensive comparison of the included algorithms across a range of benchmark simulations and real data applications.
Author: Eric Bridgeford [aut, cre],
Minh Tang [ctb],
Jason Yim [ctb],
Joshua Vogelstein [ths]
Maintainer: Eric Bridgeford <ericwb95@gmail.com>
Diff between lolR versions 1.0 dated 2018-02-05 and 1.0.1 dated 2018-02-05
DESCRIPTION | 8 ++-- MD5 | 70 ++++++++++++++++++------------------ build/vignette.rds |binary inst/doc/cpca.Rmd | 4 +- inst/doc/cpca.html | 26 ++++++------- inst/doc/extend_classification.Rmd | 6 +-- inst/doc/extend_classification.html | 12 +++--- inst/doc/extend_embedding.Rmd | 2 - inst/doc/extend_embedding.html | 4 +- inst/doc/lol.Rmd | 2 - inst/doc/lol.html | 22 +++++------ inst/doc/lrcca.Rmd | 2 - inst/doc/lrcca.html | 22 +++++------ inst/doc/mdp.Rmd | 2 - inst/doc/mdp.html | 16 ++++---- inst/doc/nearestCentroid.Rmd | 2 - inst/doc/nearestCentroid.html | 13 ++---- inst/doc/pca.Rmd | 2 - inst/doc/pca.html | 22 +++++------ inst/doc/qoq.Rmd | 2 - inst/doc/qoq.html | 16 ++++---- inst/doc/simulations.Rmd | 4 +- inst/doc/simulations.html | 26 ++++++------- inst/doc/xval.Rmd | 2 - inst/doc/xval.html | 8 ++-- vignettes/cpca.Rmd | 4 +- vignettes/extend_classification.Rmd | 6 +-- vignettes/extend_embedding.Rmd | 2 - vignettes/lol.Rmd | 2 - vignettes/lrcca.Rmd | 2 - vignettes/mdp.Rmd | 2 - vignettes/nearestCentroid.Rmd | 2 - vignettes/pca.Rmd | 2 - vignettes/qoq.Rmd | 2 - vignettes/simulations.Rmd | 4 +- vignettes/xval.Rmd | 2 - 36 files changed, 161 insertions(+), 164 deletions(-)
Title: Get Data for Brazilian Bonds (Tesouro Direto)
Description: Downloads and aggregates data for Brazilian government issued bonds directly from the website of Tesouro Direto <http://www.tesouro.fazenda.gov.br/tesouro-direto-balanco-e-estatisticas>.
Author: Marcelo Perlin [aut, cre]
Maintainer: Marcelo Perlin <marceloperlin@gmail.com>
Diff between GetTDData versions 1.3 dated 2017-09-14 and 1.3.1 dated 2018-02-05
DESCRIPTION | 10 +++++--- MD5 | 10 ++++---- R/gtdd_get_yield_curve.R | 39 ++++++++++++++++----------------- build/vignette.rds |binary inst/doc/gtdd-vignette_GetTDData.html | 4 +-- inst/doc/gtdd-vignette_YieldCurve.html | 15 +++++------- 6 files changed, 40 insertions(+), 38 deletions(-)
Title: Area-Proportional Euler and Venn Diagrams with Circles or
Ellipses
Description: Generate area-proportional Euler diagrams
using numerical optimization. An Euler diagram is a generalization of a Venn
diagram, relaxing the criterion that all interactions need to be
represented. Diagrams may be fit with ellipses and circles via
a wide range of inputs and can be visualized in numerous ways.
Author: Johan Larsson [aut, cre],
A. Jonathan R. Godfrey [ctb],
Tim Kelley [ctb] (original Nelder-Mead code),
David H. Eberly [ctb] (geometric algorithms),
Peter Gustafsson [ctb],
Emanuel Huber [ctb] (root solver code)
Maintainer: Johan Larsson <johanlarsson@outlook.com>
Diff between eulerr versions 3.1.0 dated 2018-01-02 and 4.0.0 dated 2018-02-05
eulerr-3.1.0/eulerr/R/label.euler.R |only eulerr-3.1.0/eulerr/R/lattice-imports.R |only eulerr-3.1.0/eulerr/R/sysdata.rda |only eulerr-3.1.0/eulerr/man/label.Rd |only eulerr-3.1.0/eulerr/man/panel.euler.Rd |only eulerr-3.1.0/eulerr/man/panel.euler.circles.Rd |only eulerr-3.1.0/eulerr/man/panel.euler.ellipses.Rd |only eulerr-3.1.0/eulerr/man/panel.euler.labels.Rd |only eulerr-3.1.0/eulerr/man/prepanel.euler.Rd |only eulerr-3.1.0/eulerr/man/qualpalr_pal.Rd |only eulerr-3.1.0/eulerr/man/shelf_pack.Rd |only eulerr-4.0.0/eulerr/DESCRIPTION | 26 eulerr-4.0.0/eulerr/MD5 | 157 - eulerr-4.0.0/eulerr/NAMESPACE | 50 eulerr-4.0.0/eulerr/NEWS.md | 53 eulerr-4.0.0/eulerr/R/RcppExports.R | 70 eulerr-4.0.0/eulerr/R/euler-methods.R |only eulerr-4.0.0/eulerr/R/euler.R | 265 +- eulerr-4.0.0/eulerr/R/eulerr.R | 16 eulerr-4.0.0/eulerr/R/eulerr_deprecated.R |only eulerr-4.0.0/eulerr/R/eulerr_options.R |only eulerr-4.0.0/eulerr/R/geometry.R | 83 eulerr-4.0.0/eulerr/R/layout.R | 164 - eulerr-4.0.0/eulerr/R/plot.euler.R | 1359 ++++++++----- eulerr-4.0.0/eulerr/R/print.euler.R | 70 eulerr-4.0.0/eulerr/R/utils.R | 179 + eulerr-4.0.0/eulerr/R/zzz.R |only eulerr-4.0.0/eulerr/README.md | 182 - eulerr-4.0.0/eulerr/build/vignette.rds |binary eulerr-4.0.0/eulerr/inst/CITATION | 28 eulerr-4.0.0/eulerr/inst/doc/introduction.R | 178 - eulerr-4.0.0/eulerr/inst/doc/introduction.Rnw | 31 eulerr-4.0.0/eulerr/inst/doc/introduction.pdf |binary eulerr-4.0.0/eulerr/inst/doc/under-the-hood.R | 833 ++++--- eulerr-4.0.0/eulerr/inst/doc/under-the-hood.Rnw | 25 eulerr-4.0.0/eulerr/inst/doc/under-the-hood.pdf |binary eulerr-4.0.0/eulerr/man/bit_indexr.Rd | 36 eulerr-4.0.0/eulerr/man/center_layout.Rd | 38 eulerr-4.0.0/eulerr/man/coef.euler.Rd |only eulerr-4.0.0/eulerr/man/compress_layout.Rd | 40 eulerr-4.0.0/eulerr/man/diagError.Rd | 44 eulerr-4.0.0/eulerr/man/dont_plot.Rd | 42 eulerr-4.0.0/eulerr/man/dont_print.Rd | 40 eulerr-4.0.0/eulerr/man/ellipse.Rd |only eulerr-4.0.0/eulerr/man/euler.Rd | 359 +-- eulerr-4.0.0/eulerr/man/eulerr-package.Rd | 70 eulerr-4.0.0/eulerr/man/eulerr_default_options.Rd |only eulerr-4.0.0/eulerr/man/eulerr_deprecated.Rd |only eulerr-4.0.0/eulerr/man/eulerr_options.Rd |only eulerr-4.0.0/eulerr/man/fitted.euler.Rd |only eulerr-4.0.0/eulerr/man/get_bounding_box.Rd | 52 eulerr-4.0.0/eulerr/man/get_constraints.Rd | 36 eulerr-4.0.0/eulerr/man/is_false.Rd | 36 eulerr-4.0.0/eulerr/man/label_deprecated.Rd |only eulerr-4.0.0/eulerr/man/mix_colors.Rd |only eulerr-4.0.0/eulerr/man/n_sets.Rd | 36 eulerr-4.0.0/eulerr/man/normalize_angle.Rd | 36 eulerr-4.0.0/eulerr/man/normalize_pars.Rd | 36 eulerr-4.0.0/eulerr/man/panel.euler.circles_deprecated.Rd |only eulerr-4.0.0/eulerr/man/panel.euler.ellipses_deprecated.Rd |only eulerr-4.0.0/eulerr/man/panel.euler.labels_deprecated.Rd |only eulerr-4.0.0/eulerr/man/panel.euler_deprecated.Rd |only eulerr-4.0.0/eulerr/man/plot.euler.Rd | 246 +- eulerr-4.0.0/eulerr/man/plot.eulergram.Rd |only eulerr-4.0.0/eulerr/man/poly_clip.Rd |only eulerr-4.0.0/eulerr/man/prepanel.euler_deprecated.Rd |only eulerr-4.0.0/eulerr/man/print.euler.Rd | 53 eulerr-4.0.0/eulerr/man/regionError.Rd | 40 eulerr-4.0.0/eulerr/man/replace_list.Rd |only eulerr-4.0.0/eulerr/man/rescale.Rd | 44 eulerr-4.0.0/eulerr/man/separate_two_discs.Rd | 46 eulerr-4.0.0/eulerr/man/setup_geometry.Rd |only eulerr-4.0.0/eulerr/man/setup_gpar.Rd |only eulerr-4.0.0/eulerr/man/setup_grobs.Rd |only eulerr-4.0.0/eulerr/man/skyline_pack.Rd | 36 eulerr-4.0.0/eulerr/man/tally_combinations.Rd | 40 eulerr-4.0.0/eulerr/man/update_list.Rd | 47 eulerr-4.0.0/eulerr/src/areas.h | 19 eulerr-4.0.0/eulerr/src/constants.h | 16 eulerr-4.0.0/eulerr/src/conversions.h | 16 eulerr-4.0.0/eulerr/src/geometry.h | 18 eulerr-4.0.0/eulerr/src/helpers.h | 16 eulerr-4.0.0/eulerr/src/intersections.h | 16 eulerr-4.0.0/eulerr/src/neldermead.h | 16 eulerr-4.0.0/eulerr/src/optim_final.cpp | 20 eulerr-4.0.0/eulerr/src/optim_init.cpp | 16 eulerr-4.0.0/eulerr/src/overlap_centers.cpp | 18 eulerr-4.0.0/eulerr/src/solver.h | 16 eulerr-4.0.0/eulerr/src/transformations.h | 16 eulerr-4.0.0/eulerr/src/utils.cpp | 18 eulerr-4.0.0/eulerr/tests/testthat/test_inputs.R | 128 - eulerr-4.0.0/eulerr/tests/testthat/test_plotting.R | 41 eulerr-4.0.0/eulerr/tests/testthat/test_reproducibility.R | 128 - eulerr-4.0.0/eulerr/tests/testthat/test_utils.R |only eulerr-4.0.0/eulerr/tools/README-plot_method-1.png |binary eulerr-4.0.0/eulerr/vignettes/introduction.Rnw | 31 eulerr-4.0.0/eulerr/vignettes/under-the-hood.Rnw | 25 97 files changed, 3349 insertions(+), 2447 deletions(-)
Title: Entropy Partitioning to Measure Diversity
Description: Measurement and partitioning of diversity, based on Tsallis entropy, following Marcon and Herault (2015) <doi:10.18637/jss.v067.i08>.
entropart provides functions to calculate alpha, beta and gamma diversity of communities, including phylogenetic and functional diversity.
Estimation-bias corrections are available.
Author: Eric Marcon [aut, cre],
Bruno Herault [aut]
Maintainer: Eric Marcon <eric.marcon@ecofog.gf>
Diff between entropart versions 1.4-8 dated 2017-11-22 and 1.5-3 dated 2018-02-05
entropart-1.4-8/entropart/data/datalist |only entropart-1.4-8/entropart/inst/doc/Introduction.R |only entropart-1.4-8/entropart/inst/doc/Introduction.Rmd |only entropart-1.4-8/entropart/inst/doc/Introduction.html |only entropart-1.4-8/entropart/inst/doc/Phylogenies.R |only entropart-1.4-8/entropart/inst/doc/Phylogenies.Rmd |only entropart-1.4-8/entropart/inst/doc/Phylogenies.html |only entropart-1.4-8/entropart/inst/doc/entropart.R |only entropart-1.4-8/entropart/inst/doc/entropart.Rnw |only entropart-1.4-8/entropart/inst/doc/entropart.pdf |only entropart-1.4-8/entropart/vignettes/Introduction.Rmd |only entropart-1.4-8/entropart/vignettes/Phylogenies.Rmd |only entropart-1.4-8/entropart/vignettes/Tree.pdf |only entropart-1.4-8/entropart/vignettes/entropart.Rnw |only entropart-1.5-3/entropart/DESCRIPTION | 18 entropart-1.5-3/entropart/MD5 | 211 ++---- entropart-1.5-3/entropart/NAMESPACE | 2 entropart-1.5-3/entropart/NEWS | 17 entropart-1.5-3/entropart/R/ArgumentOriginalName.R | 10 entropart-1.5-3/entropart/R/CheckentropartArguments.R | 40 - entropart-1.5-3/entropart/R/CommunityProfile.R | 11 entropart-1.5-3/entropart/R/DivPart.R | 73 +- entropart-1.5-3/entropart/R/DivProfile.R | 16 entropart-1.5-3/entropart/R/Diversity.R | 10 entropart-1.5-3/entropart/R/Dqz.R | 10 entropart-1.5-3/entropart/R/GammaEntropy.R | 39 - entropart-1.5-3/entropart/R/GenSimpson.R | 13 entropart-1.5-3/entropart/R/GenSimpsonD.R | 13 entropart-1.5-3/entropart/R/Hqz.R | 50 - entropart-1.5-3/entropart/R/HqzBeta.R | 79 +- entropart-1.5-3/entropart/R/Hurlbert.R | 10 entropart-1.5-3/entropart/R/HurlbertD.R | 10 entropart-1.5-3/entropart/R/MetaCommunity.R | 2 entropart-1.5-3/entropart/R/PhyloApply.R | 46 + entropart-1.5-3/entropart/R/PhyloBetaEntropy.R | 43 + entropart-1.5-3/entropart/R/PhyloDiversity.R | 10 entropart-1.5-3/entropart/R/PhyloEntropy.R | 39 - entropart-1.5-3/entropart/R/Preprocess.MC.R | 5 entropart-1.5-3/entropart/R/Rao.R | 10 entropart-1.5-3/entropart/R/Richness.R | 10 entropart-1.5-3/entropart/R/Shannon.R | 38 - entropart-1.5-3/entropart/R/ShannonBeta.R | 39 - entropart-1.5-3/entropart/R/Simpson.R | 10 entropart-1.5-3/entropart/R/SimpsonBeta.R | 39 - entropart-1.5-3/entropart/R/SpeciesDistribution.R | 59 - entropart-1.5-3/entropart/R/Tsallis.R | 77 +- entropart-1.5-3/entropart/R/TsallisBeta.R | 39 - entropart-1.5-3/entropart/README.md | 18 entropart-1.5-3/entropart/build/vignette.rds |binary entropart-1.5-3/entropart/data/Paracou618.RData |binary entropart-1.5-3/entropart/inst/doc/docs.Rmd |only entropart-1.5-3/entropart/inst/doc/docs.html |only entropart-1.5-3/entropart/inst/doc/rd.Rmd |only entropart-1.5-3/entropart/inst/doc/rd.html |only entropart-1.5-3/entropart/man/AbdFreqCount.Rd | 24 entropart-1.5-3/entropart/man/AllenH.Rd | 42 - entropart-1.5-3/entropart/man/AlphaDiversity.Rd | 34 entropart-1.5-3/entropart/man/AlphaEntropy.Rd | 34 entropart-1.5-3/entropart/man/BetaDiversity.Rd | 32 entropart-1.5-3/entropart/man/BetaEntropy.Rd | 34 entropart-1.5-3/entropart/man/ChaoPD.Rd | 44 - entropart-1.5-3/entropart/man/CommunityProfile.Rd | 90 +- entropart-1.5-3/entropart/man/Coverage.Rd | 18 entropart-1.5-3/entropart/man/DivEst.Rd | 48 - entropart-1.5-3/entropart/man/DivPart.Rd | 36 - entropart-1.5-3/entropart/man/DivProfile.Rd | 60 - entropart-1.5-3/entropart/man/Diversity.Rd | 58 - entropart-1.5-3/entropart/man/Dqz.Rd | 50 - entropart-1.5-3/entropart/man/EightSpAbundance.Rd | 2 entropart-1.5-3/entropart/man/Enq.Rd | 18 entropart-1.5-3/entropart/man/EntropyCI.Rd | 50 - entropart-1.5-3/entropart/man/GammaDiversity.Rd | 32 entropart-1.5-3/entropart/man/GammaEntropy.Rd | 35 - entropart-1.5-3/entropart/man/GenSimpson.Rd | 73 +- entropart-1.5-3/entropart/man/Hqz.Rd | 71 +- entropart-1.5-3/entropart/man/HqzBeta.Rd | 61 - entropart-1.5-3/entropart/man/Hurlbert.Rd | 73 +- entropart-1.5-3/entropart/man/KLq.Rd | 24 entropart-1.5-3/entropart/man/MCdiversity.Rd | 6 entropart-1.5-3/entropart/man/MCentropy.Rd | 6 entropart-1.5-3/entropart/man/MergeMC.Rd | 10 entropart-1.5-3/entropart/man/MetaCommunity.Rd | 53 - entropart-1.5-3/entropart/man/Optimal.Similarity.Rd | 28 entropart-1.5-3/entropart/man/PDFD.Rd | 20 entropart-1.5-3/entropart/man/PPtree.Rd | 13 entropart-1.5-3/entropart/man/Paracou618.MC.Rd | 2 entropart-1.5-3/entropart/man/Paracou618.Taxonomy.Rd | 6 entropart-1.5-3/entropart/man/PhyloApply.Rd | 47 - entropart-1.5-3/entropart/man/PhyloBetaEntropy.Rd | 78 +- entropart-1.5-3/entropart/man/PhyloDiversity.Rd | 71 +- entropart-1.5-3/entropart/man/PhyloEntropy.Rd | 71 +- entropart-1.5-3/entropart/man/PhyloValue.Rd | 12 entropart-1.5-3/entropart/man/Preprocess.MC.Rd | 6 entropart-1.5-3/entropart/man/Preprocess.Tree.Rd | 2 entropart-1.5-3/entropart/man/Rao.Rd | 48 - entropart-1.5-3/entropart/man/Richness.Rd | 59 - entropart-1.5-3/entropart/man/Shannon.Rd | 67 - entropart-1.5-3/entropart/man/ShannonBeta.Rd | 66 - entropart-1.5-3/entropart/man/SimTest.Rd | 24 entropart-1.5-3/entropart/man/Simpson.Rd | 48 - entropart-1.5-3/entropart/man/SimpsonBeta.Rd | 72 +- entropart-1.5-3/entropart/man/SpeciesDistribution.Rd | 70 -- entropart-1.5-3/entropart/man/Tsallis.Rd | 68 + entropart-1.5-3/entropart/man/TsallisBeta.Rd | 62 - entropart-1.5-3/entropart/man/entropart-package.Rd | 31 entropart-1.5-3/entropart/man/expq.Rd | 14 entropart-1.5-3/entropart/man/lnq.Rd | 14 entropart-1.5-3/entropart/man/mergeandlabel.Rd | 2 entropart-1.5-3/entropart/man/rCommunity.Rd | 32 entropart-1.5-3/entropart/tests/testthat/testOrder2.R | 1 entropart-1.5-3/entropart/tests/testthat/testPhyloEntropy.R | 22 entropart-1.5-3/entropart/tests/testthat/testTsallis.R | 14 entropart-1.5-3/entropart/tests/testthat/testlnqexpq.R |only entropart-1.5-3/entropart/vignettes/Tree.png |only entropart-1.5-3/entropart/vignettes/docs.Rmd |only entropart-1.5-3/entropart/vignettes/entropart.bib | 417 ++++++------ entropart-1.5-3/entropart/vignettes/rd.Rmd |only entropart-1.5-3/entropart/vignettes/rd_index.yaml |only 118 files changed, 2074 insertions(+), 1647 deletions(-)
Title: Markov Model for the Online Multi-Channel Attribution Problem
Description: Advertisers use a variety of online marketing channels to reach consumers and they want to know the degree each channel contributes to their marketing success. This is called the online multi-channel attribution problem. This package contains a probabilistic algorithm for the attribution problem. The model uses a k-order Markov representation to identify structural correlations in the customer journey data. The package also contains three heuristic algorithms (first-touch, last-touch and linear-touch approach) for the same problem. The algorithms are implemented in C++.
Author: Davide Altomare, David Loris
Maintainer: Davide Altomare <davide.altomare@gmail.com>
Diff between ChannelAttribution versions 1.11 dated 2018-02-02 and 1.12 dated 2018-02-05
ChannelAttribution-1.11/ChannelAttribution/src/ChannelAttribution-init.c |only ChannelAttribution-1.12/ChannelAttribution/DESCRIPTION | 10 ++++---- ChannelAttribution-1.12/ChannelAttribution/MD5 | 12 +++++----- ChannelAttribution-1.12/ChannelAttribution/NAMESPACE | 4 +-- ChannelAttribution-1.12/ChannelAttribution/man/ChannelAttribution-package.Rd | 4 +-- ChannelAttribution-1.12/ChannelAttribution/man/heuristic_models.Rd | 2 - ChannelAttribution-1.12/ChannelAttribution/man/markov_model.Rd | 2 - ChannelAttribution-1.12/ChannelAttribution/src/init.c |only 8 files changed, 17 insertions(+), 17 deletions(-)
More information about ChannelAttribution at CRAN
Permanent link
Title: Item Response Theory Demo Collection
Description: Includes a collection of shiny applications to demonstrate
or to explore fundamental item response theory (IRT) concepts
such as estimation, scoring, and multidimensional IRT models.
Author: Metin Bulus [aut,cre]
Wes Bonifay [aut,cre]
Maintainer: Metin Bulus <bulusmetin@gmail.com>
Diff between irtDemo versions 0.1.2 dated 2016-08-21 and 0.1.3 dated 2018-02-05
DESCRIPTION | 10 ++++------ MD5 | 42 ++++++++++++++++++++++++++++++++++++------ NAMESPACE | 1 + NEWS.md | 4 +++- R/irtDemo.R | 36 +++++++++++++++++------------------- README.md | 14 ++++++++------ inst |only man/irtDemo.Rd | 39 ++++++++++++++++++--------------------- 8 files changed, 87 insertions(+), 59 deletions(-)
Title: Fitting Frailty Models with the EM Algorithm
Description: Contains functions for fitting shared frailty models with a semi-parametric
baseline hazard with the Expectation-Maximization algorithm. Supported data formats
include clustered failures with left truncation and recurrent events in gap-time
or Andersen-Gill format. Several frailty distributions, such as the the gamma, positive stable
and the Power Variance Family are supported.
Author: Theodor Adrian Balan, Hein Putter
Maintainer: Theodor Adrian Balan <t.a.balan@lumc.nl>
Diff between frailtyEM versions 0.8.1 dated 2018-01-25 and 0.8.3 dated 2018-02-05
DESCRIPTION | 6 ++-- MD5 | 22 +++++++------- NAMESPACE | 2 + NEWS.md | 4 ++ R/em_fit.R | 48 ++++++++++++++++++-------------- R/emfrail.R | 63 +++++++++++++++++++++++++++++------------- R/emfrail_arguments.R | 30 ++++++++++++-------- R/print.emfrail_summary.R | 2 - R/summary.emfrail.R | 8 ++--- inst/doc/frailtyEM_manual.pdf |binary man/emfrail.Rd | 14 +++++++-- man/emfrail_control.Rd | 14 ++++++--- 12 files changed, 135 insertions(+), 78 deletions(-)
Title: Genotype Simulations for Rare or Common Variants Using
Haplotypes from 1000 Genomes
Description: Generates realistic simulated genetic data in families or unrelated individuals.
Author: Apostolos Dimitromanolakis <apostolis@live.ca>,
Jingxiong Xu <jingxiong.xu@mail.utoronto.ca>,
Agnieszka Krol <krol@lunenfeld.ca>,
Laurent Briollais <laurent@lunenfeld.ca>
Maintainer: Apostolos Dimitromanolakis <apostolis@live.ca>
Diff between sim1000G versions 1.33 dated 2017-12-15 and 1.37 dated 2018-02-05
sim1000G-1.33/sim1000G/inst/examples/simple-example.R |only sim1000G-1.37/sim1000G/DESCRIPTION | 12 sim1000G-1.37/sim1000G/MD5 | 103 +- sim1000G-1.37/sim1000G/NAMESPACE | 10 sim1000G-1.37/sim1000G/R/1000G-package.r | 1 sim1000G-1.37/sim1000G/R/readvcf.R | 215 ++++- sim1000G-1.37/sim1000G/R/recombination.R | 177 +++- sim1000G-1.37/sim1000G/R/simulation.R | 391 +++++++++- sim1000G-1.37/sim1000G/README.md | 4 sim1000G-1.37/sim1000G/build/vignette.rds |binary sim1000G-1.37/sim1000G/inst/datasets |only sim1000G-1.37/sim1000G/inst/doc/Example1.R |only sim1000G-1.37/sim1000G/inst/doc/Example1.Rmd |only sim1000G-1.37/sim1000G/inst/doc/Example1.html |only sim1000G-1.37/sim1000G/inst/doc/SimulatingFamilyData.R | 34 sim1000G-1.37/sim1000G/inst/doc/SimulatingFamilyData.Rmd | 43 - sim1000G-1.37/sim1000G/inst/examples/20130606_g1k.ped |only sim1000G-1.37/sim1000G/inst/examples/amelia |only sim1000G-1.37/sim1000G/inst/examples/examine-maf-and-correlation.R |only sim1000G-1.37/sim1000G/inst/examples/example1-single-population.R |only sim1000G-1.37/sim1000G/inst/examples/example1x-single-population.R |only sim1000G-1.37/sim1000G/inst/examples/example2-population-stratification.R |only sim1000G-1.37/sim1000G/inst/examples/example2-stratification-qqplots-and-summary.R |only sim1000G-1.37/sim1000G/inst/examples/example4-population-stratification.R |only sim1000G-1.37/sim1000G/inst/examples/extract-1000genomes-genes.R |only sim1000G-1.37/sim1000G/inst/examples/extracting-vcf-files |only sim1000G-1.37/sim1000G/inst/examples/generate-sim-cmds.R |only sim1000G-1.37/sim1000G/inst/examples/plot1.R |only sim1000G-1.37/sim1000G/inst/examples/region-chr4-93-TMEM156.vcf.gz |only sim1000G-1.37/sim1000G/inst/examples/sample_subset1.txt |only sim1000G-1.37/sim1000G/inst/examples/sample_subset2.txt |only sim1000G-1.37/sim1000G/inst/examples/timings.R |only sim1000G-1.37/sim1000G/man/SIM.Rd | 3 sim1000G-1.37/sim1000G/man/computePairIBD1.Rd | 3 sim1000G-1.37/sim1000G/man/computePairIBD12.Rd | 3 sim1000G-1.37/sim1000G/man/computePairIBD2.Rd | 3 sim1000G-1.37/sim1000G/man/createVCF.Rd | 1 sim1000G-1.37/sim1000G/man/crossoverCDFvector.Rd | 1 sim1000G-1.37/sim1000G/man/downloadGeneticMap.Rd | 11 sim1000G-1.37/sim1000G/man/generateChromosomeRecombinationPositions.Rd |only sim1000G-1.37/sim1000G/man/generateFakeWholeGenomeGeneticMap.Rd |only sim1000G-1.37/sim1000G/man/generateRecombinationDistances.Rd | 19 sim1000G-1.37/sim1000G/man/generateRecombinationDistances_noInterference.Rd | 1 sim1000G-1.37/sim1000G/man/generateSingleRecombinationVector.Rd | 3 sim1000G-1.37/sim1000G/man/generateUniformGeneticMap.Rd | 5 sim1000G-1.37/sim1000G/man/generateUnrelatedIndividuals.Rd |only sim1000G-1.37/sim1000G/man/geneticMap.Rd | 1 sim1000G-1.37/sim1000G/man/getCMfromBP.Rd | 1 sim1000G-1.37/sim1000G/man/loadSimulation.Rd |only sim1000G-1.37/sim1000G/man/newFamily3generations.Rd | 3 sim1000G-1.37/sim1000G/man/newFamilyWithOffspring.Rd | 1 sim1000G-1.37/sim1000G/man/newNuclearFamily.Rd | 3 sim1000G-1.37/sim1000G/man/pkg.opts.Rd |only sim1000G-1.37/sim1000G/man/plotRegionalGeneticMap.Rd | 1 sim1000G-1.37/sim1000G/man/printMatrix.Rd | 1 sim1000G-1.37/sim1000G/man/readGeneticMap.Rd | 24 sim1000G-1.37/sim1000G/man/readGeneticMapFromFile.Rd | 1 sim1000G-1.37/sim1000G/man/readVCF.Rd | 25 sim1000G-1.37/sim1000G/man/retrieveGenotypes.Rd |only sim1000G-1.37/sim1000G/man/saveSimulation.Rd |only sim1000G-1.37/sim1000G/man/setRecombinationModel.Rd |only sim1000G-1.37/sim1000G/man/sim1000G-package.Rd | 1 sim1000G-1.37/sim1000G/man/startSimulation.Rd | 12 sim1000G-1.37/sim1000G/man/subsetVCF.Rd |only sim1000G-1.37/sim1000G/man/writePED.Rd | 1 sim1000G-1.37/sim1000G/vignettes/Example1.Rmd |only sim1000G-1.37/sim1000G/vignettes/Example1.nb.html |only sim1000G-1.37/sim1000G/vignettes/SimulatingFamilyData.Rmd | 43 - sim1000G-1.37/sim1000G/vignettes/region.vcf.gz |only 69 files changed, 920 insertions(+), 241 deletions(-)
Title: SOM Bound to Realize Euclidean and Relational Outputs
Description: The stochastic (also called on-line) version of the Self-Organising
Map (SOM) algorithm is provided. Different versions of the
algorithm are implemented, for numeric and relational data and for
contingency tables as described, respectively, in Kohonen (2001)
<isbn:3-540-67921-9>, Olteanu & Villa-Vialaneix (2005)
<doi:10.1016/j.neucom.2013.11.047> and Cottrell et al (2004)
<doi:10.1016/j.neunet.2004.07.010>. The package also contains many
plotting features (to help the user interpret the results) and a
graphical user interface based on 'shiny'.
Author: Nathalie Villa-Vialaneix [aut, cre],
Jerome Mariette [aut],
Madalina Olteanu [aut],
Fabrice Rossi [aut],
Laura Bendhaiba [ctb],
Julien Boelaert [ctb]
Maintainer: Nathalie Villa-Vialaneix <nathalie.villa-vialaneix@inra.fr>
Diff between SOMbrero versions 1.2-2 dated 2017-09-20 and 1.2-3 dated 2018-02-05
SOMbrero-1.2-2/SOMbrero/tests/euclidian-relational-test.R |only SOMbrero-1.2-2/SOMbrero/tests/prediction-test.R |only SOMbrero-1.2-2/SOMbrero/tests/relational-test.R |only SOMbrero-1.2-2/SOMbrero/tests/scaling-test.R |only SOMbrero-1.2-3/SOMbrero/DESCRIPTION | 23 +++++----- SOMbrero-1.2-3/SOMbrero/MD5 | 31 ++++++++------ SOMbrero-1.2-3/SOMbrero/NAMESPACE | 1 SOMbrero-1.2-3/SOMbrero/NEWS | 13 +++++ SOMbrero-1.2-3/SOMbrero/R/init.R | 3 - SOMbrero-1.2-3/SOMbrero/R/som.R | 20 +-------- SOMbrero-1.2-3/SOMbrero/build/vignette.rds |binary SOMbrero-1.2-3/SOMbrero/inst/doc/doc-relationalSOM.html | 4 - SOMbrero-1.2-3/SOMbrero/inst/shiny/ui.R | 2 SOMbrero-1.2-3/SOMbrero/man/SOMbrero-package.Rd | 4 - SOMbrero-1.2-3/SOMbrero/tests/testthat |only SOMbrero-1.2-3/SOMbrero/tests/testthat.R |only SOMbrero-1.2-3/SOMbrero/vignettes/doc-korrespSOM_cache |only 17 files changed, 52 insertions(+), 49 deletions(-)
Title: Multivariate Bias Correction of Climate Model Outputs
Description: Calibrate and apply multivariate bias correction algorithms
for climate model simulations of multiple climate variables. Three methods
described by Cannon (2016) <doi:10.1175/JCLI-D-15-0679.1> and
Cannon (2018) <doi:10.1007/s00382-017-3580-6> are implemented:
(i) MBC Pearson correlation (MBCp), (ii) MBC rank correlation (MBCr),
and (iii) MBC N-dimensional PDF transform (MBCn).
Author: Alex J. Cannon
Maintainer: Alex J. Cannon <alex.cannon@canada.ca>
Diff between MBC versions 0.10-3 dated 2017-12-04 and 0.10-4 dated 2018-02-05
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/MBC-QDM.R | 6 ++++++ inst/CITATION | 8 ++++---- man/MBC-package.Rd | 6 +++--- man/MBCn.Rd | 8 ++++---- 6 files changed, 26 insertions(+), 20 deletions(-)
Title: Get Data from the 'KOF Datenservice' API
Description: Read Swiss time series data from the 'KOF Datenservice' API, <https://datenservice.kof.ethz.ch>. The API provides macroeconomic survey data, business cycle and further macro economic time series about Switzerland. The package itself is a set of wrappers around the 'KOF Datenservice' API. The 'kofdata' package is able to consume public information as well as data that requires an API token.
Author: Matthias Bannert [aut, cre],
Severin Thoeni [aut]
Maintainer: Matthias Bannert <bannert@kof.ethz.ch>
Diff between kofdata versions 0.1.1 dated 2018-01-04 and 0.1.3 dated 2018-02-05
kofdata-0.1.1/kofdata/R/translate_legacy_key.R |only kofdata-0.1.1/kofdata/man/translate_legacy_key.Rd |only kofdata-0.1.3/kofdata/DESCRIPTION | 6 +- kofdata-0.1.3/kofdata/MD5 | 29 ++++++----- kofdata-0.1.3/kofdata/NAMESPACE | 4 + kofdata-0.1.3/kofdata/NEWS | 1 kofdata-0.1.3/kofdata/R/cantons.R |only kofdata-0.1.3/kofdata/R/download_cached_file.R | 8 +-- kofdata-0.1.3/kofdata/R/get_cdc_files.R | 9 ++- kofdata-0.1.3/kofdata/R/get_dataset.R | 9 ++- kofdata-0.1.3/kofdata/R/get_metadata.R | 9 ++- kofdata-0.1.3/kofdata/R/get_quota.R | 5 + kofdata-0.1.3/kofdata/R/get_time_series.R | 13 +++- kofdata-0.1.3/kofdata/R/list_public_keys.R |only kofdata-0.1.3/kofdata/R/translate_legacy_keys.R |only kofdata-0.1.3/kofdata/README.md | 2 kofdata-0.1.3/kofdata/man/cantons.Rd |only kofdata-0.1.3/kofdata/man/list_public_keys.Rd |only kofdata-0.1.3/kofdata/man/translate_legacy_keys.Rd |only kofdata-0.1.3/kofdata/tests/testthat/test_list_public_keys.R |only 20 files changed, 60 insertions(+), 35 deletions(-)
Title: Process Biogas Data and Predict Biogas Production
Description: High- and low-level functions for processing biogas data and predicting biogas production. Molar mass and calculated oxygen demand (COD') can be determined from a chemical formula. Measured gas volume can be corrected for water vapor and to (possibly user-defined) standard temperature and pressure. Gas quantity can be converted between volume, mass, and moles. Gas composition, cumulative production, or other variables can be interpolated to a specified time. Cumulative biogas and methane production (and rates) can be calculated using volumetric, manometric, or gravimetric methods for any number of reactors. With cumulative methane production data and data on reactor contents, biochemical methane potential (BMP) can be calculated and summarized, including subtraction of the inoculum contribution and normalization by substrate mass. Cumulative production and production rates can be summarized in several different ways (e.g., omitting normalization) using the same function. Biogas quantity and composition can be predicted from substrate composition and additional, optional data. Lastly, inoculum and substrate mass can be determined for planning BMP experiments.
Author: Sasha D. Hafner [aut, cre],
Charlotte Rennuit [aut],
Jin Mi Triolo [ctb],
Ali Heidarzadeh Vazifehkhoran [ctb]
Maintainer: Sasha D. Hafner <sasha.hafner@eng.au.dk>
Diff between biogas versions 1.9.0 dated 2018-01-03 and 1.10.0 dated 2018-02-05
ChangeLog | 32 ++++++++++++++ DESCRIPTION | 15 ++++-- MD5 | 22 +++++----- NAMESPACE | 3 - NEWS | 19 ++++++++ R/planBMP.R |only R/startup.R | 2 R/summBg.R | 69 +++++++++++++++++--------------- inst/doc/biogas_quick_start.pdf |binary inst/doc/predBg_function.pdf |binary man/planBMP.Rd |only man/summBg.Rd | 12 +++-- tests/testthat/test_LowLevelFunctions.R | 8 +++ 13 files changed, 127 insertions(+), 55 deletions(-)
Title: Normalizing Transformation Functions
Description: Estimate a suite of normalizing transformations, including
a new adaptation of a technique based on ranks which can guarantee
normally distributed transformed data if there are no ties: ordered
quantile normalization (ORQ). ORQ normalization combines a rank-mapping
approach with a shifted logit approximation that allows
the transformation to work on data outside the original domain. It is
also able to handle new data within the original domain via linear
interpolation. The package is built to estimate the best normalizing
transformation for a vector consistently and accurately. It implements
the Box-Cox transformation, the Yeo-Johnson transformation, three types
of Lambert WxF transformations, and the ordered quantile normalization
transformation.
Author: Ryan Andrew Peterson [aut, cre]
Maintainer: Ryan Andrew Peterson <ryan-peterson@uiowa.edu>
Diff between bestNormalize versions 1.0.0 dated 2018-01-04 and 1.0.1 dated 2018-02-05
DESCRIPTION | 24 - MD5 | 20 - NEWS.md | 8 R/bestNormalize.R | 14 R/orderNorm.R | 46 ++- README.md | 14 inst/doc/bestNormalize.Rmd | 8 inst/doc/bestNormalize.html | 651 ++++++++++++++++++++++++++++---------------- man/bestNormalize.Rd | 14 man/orderNorm.Rd | 46 ++- vignettes/bestNormalize.Rmd | 8 11 files changed, 569 insertions(+), 284 deletions(-)
Title: Methods for the Indirect Estimation of Bilateral Migration
Description: Indirect methods for estimating bilateral migration flows in the presence of partial or missing data. Methods might be relevant to other categorical data situations on non-migration data, where for example, marginal totals are known and only auxiliary bilateral data is available.
Author: Guy J. Abel
Maintainer: Guy J. Abel <g.j.abel@gmail.com>
Diff between migest versions 1.7.3 dated 2016-10-26 and 1.7.4 dated 2018-02-05
migest-1.7.3/migest/R/block.matrix.R.R |only migest-1.7.3/migest/R/block.sum.R.R |only migest-1.7.3/migest/R/fm.R |only migest-1.7.3/migest/R/ipf2.b.R.R |only migest-1.7.3/migest/R/ipf3.qi.R.R |only migest-1.7.3/migest/man/block.matrix.Rd |only migest-1.7.3/migest/man/block.sum.Rd |only migest-1.7.3/migest/man/fm.Rd |only migest-1.7.3/migest/man/ipf2.b.Rd |only migest-1.7.3/migest/man/ipf3.qi.Rd |only migest-1.7.4/migest/DESCRIPTION | 15 - migest-1.7.4/migest/MD5 | 77 ++++--- migest-1.7.4/migest/NAMESPACE | 23 ++ migest-1.7.4/migest/R/block_matrix.R |only migest-1.7.4/migest/R/block_sum.R |only migest-1.7.4/migest/R/cm2.R | 56 ++++- migest-1.7.4/migest/R/cm3.R | 79 ++++++- migest-1.7.4/migest/R/ffs.R | 311 ++++++++++++++++++++---------- migest-1.7.4/migest/R/ffs_diff.R |only migest-1.7.4/migest/R/ipf2.R | 108 +++++++--- migest-1.7.4/migest/R/ipf2_block.R |only migest-1.7.4/migest/R/ipf2_stripe.R |only migest-1.7.4/migest/R/ipf3.R | 159 +++++++++++---- migest-1.7.4/migest/R/ipf3_diag.R |only migest-1.7.4/migest/R/ipf3_qi.R |only migest-1.7.4/migest/R/ipf_net.R |only migest-1.7.4/migest/R/net_param.R |only migest-1.7.4/migest/R/net_scale.R |only migest-1.7.4/migest/R/net_sum.R |only migest-1.7.4/migest/R/od_sum.R |only migest-1.7.4/migest/R/quadratic_eqn.R |only migest-1.7.4/migest/R/rc9.R | 30 ++ migest-1.7.4/migest/R/rc9.fund.R |only migest-1.7.4/migest/R/stripe_matrix.R |only migest-1.7.4/migest/README.md | 2 migest-1.7.4/migest/demo/cfplot_reg2.R | 6 migest-1.7.4/migest/inst/imr |only migest-1.7.4/migest/man/block_matrix.Rd |only migest-1.7.4/migest/man/block_sum.Rd |only migest-1.7.4/migest/man/cm2.Rd | 88 +++----- migest-1.7.4/migest/man/cm3.Rd | 88 +++----- migest-1.7.4/migest/man/ffs.Rd | 144 ++++++------- migest-1.7.4/migest/man/ffs_diff.Rd |only migest-1.7.4/migest/man/ipf2.Rd | 94 ++++----- migest-1.7.4/migest/man/ipf2_block.Rd |only migest-1.7.4/migest/man/ipf2_stripe.Rd |only migest-1.7.4/migest/man/ipf3.Rd | 99 ++++----- migest-1.7.4/migest/man/ipf3_diag.Rd |only migest-1.7.4/migest/man/ipf3_qi.Rd |only migest-1.7.4/migest/man/ipf_net.Rd |only migest-1.7.4/migest/man/migest-package.Rd | 6 migest-1.7.4/migest/man/net_param.Rd |only migest-1.7.4/migest/man/net_scale.Rd |only migest-1.7.4/migest/man/net_sum.Rd |only migest-1.7.4/migest/man/od_sum.Rd |only migest-1.7.4/migest/man/quadratic_eqn.Rd |only migest-1.7.4/migest/man/rc9.Rd | 51 ++-- migest-1.7.4/migest/man/rc9.fund.Rd | 37 +-- migest-1.7.4/migest/man/stripe_matrix.Rd |only 59 files changed, 924 insertions(+), 549 deletions(-)
Title: Utilities for Producing Maps
Description: A minimal, light-weight set of tools for producing nice looking maps in R, with support for map projections.
Author: Patrick Brown <patrick.brown@utoronto.ca>
Maintainer: Patrick Brown <patrick.brown@utoronto.ca>
Diff between mapmisc versions 1.6.3 dated 2017-08-29 and 1.7.0 dated 2018-02-05
mapmisc-1.6.3/mapmisc/inst/extdata/cartocdn.com.dark_all |only mapmisc-1.6.3/mapmisc/inst/extdata/cartocdn.com.light_all |only mapmisc-1.6.3/mapmisc/inst/extdata/de.tiles.osmde |only mapmisc-1.6.3/mapmisc/inst/extdata/fr.hot |only mapmisc-1.6.3/mapmisc/inst/extdata/fr.osmfr |only mapmisc-1.6.3/mapmisc/inst/extdata/maps.sputnik.ru |only mapmisc-1.6.3/mapmisc/inst/extdata/openseamap.org.seamark |only mapmisc-1.6.3/mapmisc/inst/extdata/org/12 |only mapmisc-1.6.3/mapmisc/inst/extdata/org/14 |only mapmisc-1.6.3/mapmisc/inst/extdata/org/2 |only mapmisc-1.6.3/mapmisc/inst/extdata/se.hydda.base |only mapmisc-1.6.3/mapmisc/inst/extdata/se.hydda.full |only mapmisc-1.6.3/mapmisc/inst/extdata/se.hydda.roads_and_labels |only mapmisc-1.6.3/mapmisc/inst/extdata/stamen.com.terrain |only mapmisc-1.6.3/mapmisc/inst/extdata/stamen.com.terrain.background |only mapmisc-1.6.3/mapmisc/inst/extdata/stamen.com.terrain.labels |only mapmisc-1.6.3/mapmisc/inst/extdata/stamen.com.toner |only mapmisc-1.6.3/mapmisc/inst/extdata/stamen.com.watercolor |only mapmisc-1.6.3/mapmisc/inst/extdata/wmflabs.org.bw.mapnik |only mapmisc-1.6.3/mapmisc/inst/extdata/wmflabs.org.osm.no.labels |only mapmisc-1.7.0/mapmisc/DESCRIPTION | 12 mapmisc-1.7.0/mapmisc/MD5 | 136 - mapmisc-1.7.0/mapmisc/NAMESPACE | 2 mapmisc-1.7.0/mapmisc/R/breaksForRates.R |only mapmisc-1.7.0/mapmisc/R/colourScale.R | 1015 +++++----- mapmisc-1.7.0/mapmisc/R/geonames.R | 18 mapmisc-1.7.0/mapmisc/R/getTiles.R | 4 mapmisc-1.7.0/mapmisc/R/map.new.R | 14 mapmisc-1.7.0/mapmisc/R/mapmiscCache.R | 36 mapmisc-1.7.0/mapmisc/R/openmap.R | 8 mapmisc-1.7.0/mapmisc/R/openmapAttribution.R | 249 +- mapmisc-1.7.0/mapmisc/build/vignette.rds |binary mapmisc-1.7.0/mapmisc/inst/doc/mapLayers.Rmd | 28 mapmisc-1.7.0/mapmisc/inst/doc/mapLayers.html | 115 - mapmisc-1.7.0/mapmisc/inst/doc/mapmisc.Rnw | 43 mapmisc-1.7.0/mapmisc/inst/doc/mapmisc.pdf |binary mapmisc-1.7.0/mapmisc/inst/doc/north.Rmd | 84 mapmisc-1.7.0/mapmisc/inst/doc/north.html | 100 mapmisc-1.7.0/mapmisc/inst/doc/perspective.Rmd | 135 - mapmisc-1.7.0/mapmisc/inst/doc/perspective.html | 142 - mapmisc-1.7.0/mapmisc/inst/extdata/geocode/Guam..FALSE.Rdata |binary mapmisc-1.7.0/mapmisc/inst/extdata/geocode/Hong.Kong..FALSE.Rdata |binary mapmisc-1.7.0/mapmisc/inst/extdata/geocode/Okinawa..FALSE.Rdata |binary mapmisc-1.7.0/mapmisc/inst/extdata/opencyclemap.org.landscape |only mapmisc-1.7.0/mapmisc/inst/extdata/opentopomap.org |only mapmisc-1.7.0/mapmisc/inst/extdata/org/13 |only mapmisc-1.7.0/mapmisc/inst/extdata/org/18 |only mapmisc-1.7.0/mapmisc/inst/extdata/org/19 |only mapmisc-1.7.0/mapmisc/inst/extdata/tile2.maptoolkit.net.terrain |only mapmisc-1.7.0/mapmisc/inst/extdoc |only mapmisc-1.7.0/mapmisc/man/colourScale.Rd | 17 mapmisc-1.7.0/mapmisc/man/modis.Rd | 6 mapmisc-1.7.0/mapmisc/man/openmap.Rd | 25 mapmisc-1.7.0/mapmisc/tests/openmap.R | 45 mapmisc-1.7.0/mapmisc/tests/worldMap.R | 22 mapmisc-1.7.0/mapmisc/vignettes/Makefile | 12 mapmisc-1.7.0/mapmisc/vignettes/mapLayers.Rmd | 28 mapmisc-1.7.0/mapmisc/vignettes/mapmisc.Rnw | 43 mapmisc-1.7.0/mapmisc/vignettes/north.Rmd | 84 mapmisc-1.7.0/mapmisc/vignettes/perspective.Rmd | 135 - 60 files changed, 1404 insertions(+), 1154 deletions(-)
Title: Kernel for 'Jupyter'
Description: Provides a full implementation of the 'Jupyter' <http://jupyter.org/> messaging protocol in C++ by leveraging 'Rcpp' and 'Xeus' <https://github.com/QuantStack/xeus>.
'Jupyter' supplies an interactive computing environment and a messaging protocol defined over 'ZeroMQ' for multiple programming languages. This package implements
the 'Jupyter' kernel interface so that 'R' is exposed to this interactive computing environment. 'ZeroMQ' functionality is provided by the 'pbdZMQ' package.
'Xeus' is a C++ library that facilitates the implementation of kernels for 'Jupyter'. Additionally, 'Xeus' provides an interface to libraries that exist in the 'Jupyter' ecosystem for building widgets,
plotting, and more <https://blog.jupyter.org/interactive-workflows-for-c-with-jupyter-fe9b54227d92>. 'JuniperKernel' uses 'Xeus' as a library for the 'Jupyter' messaging protocol.
Author: Spencer Aiello [aut, cre, cph],
Wei-Chen Chen [ctb],
Stephan Brumme [cph],
Jake Luciani [cph],
Tony Plate [cph],
Matthieu Decorde [cph],
RStudio (Hadley Wickham) [cph],
Sylvain Corlay [cph],
Johan Mabille [cph],
Niels Lohmann [cph]
Maintainer: Spencer Aiello <spnrpa@gmail.com>
Diff between JuniperKernel versions 1.2.2.0 dated 2018-01-16 and 1.2.3.0 dated 2018-02-05
DESCRIPTION | 8 +-- MD5 | 24 +++++------ NAMESPACE | 1 NEWS.md | 9 +++- R/RcppExports.R | 30 +++++++------- R/juniper.R | 1 R/zzz.R | 9 +++- inst/include/juniper/juniper.h | 1 inst/include/juniper/requests.h | 2 inst/include/xeus/xeus.hpp | 4 - inst/include/xtl/xhash.hpp | 75 +++++++++++++------------------------ inst/include/xtl/xtl_config.hpp | 4 - inst/include/xtl/xvariant_impl.hpp | 2 13 files changed, 80 insertions(+), 90 deletions(-)
Title: Data Visualization for Statistics in Social Science
Description: Collection of plotting and table output functions for data
visualization. Results of various statistical analyses (that are commonly used
in social sciences) can be visualized using this package, including simple and
cross tabulated frequencies, histograms, box plots, (generalized) linear models,
mixed effects models, principal component analysis and correlation matrices,
cluster analyses, scatter plots, stacked scales, effects plots of regression
models (including interaction terms) and much more. This package supports
labelled data.
Author: Daniel Lüdecke [aut, cre],
Carsten Schwemmer [ctb]
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>
Diff between sjPlot versions 2.4.0 dated 2017-10-19 and 2.4.1 dated 2018-02-05
sjPlot-2.4.0/sjPlot/R/sjTabDataFrame.R |only sjPlot-2.4.0/sjPlot/R/sjTabMannWhitney.R |only sjPlot-2.4.0/sjPlot/inst/doc/sjpglm.R |only sjPlot-2.4.0/sjPlot/inst/doc/sjpglm.Rmd |only sjPlot-2.4.0/sjPlot/inst/doc/sjpglm.html |only sjPlot-2.4.0/sjPlot/inst/doc/sjplmer.R |only sjPlot-2.4.0/sjPlot/inst/doc/sjplmer.Rmd |only sjPlot-2.4.0/sjPlot/inst/doc/sjplmer.html |only sjPlot-2.4.0/sjPlot/man/sjt.df.Rd |only sjPlot-2.4.0/sjPlot/man/sjt.mwu.Rd |only sjPlot-2.4.0/sjPlot/vignettes/sjpglm.Rmd |only sjPlot-2.4.0/sjPlot/vignettes/sjplmer.Rmd |only sjPlot-2.4.1/sjPlot/DESCRIPTION | 19 sjPlot-2.4.1/sjPlot/MD5 | 182 sjPlot-2.4.1/sjPlot/NAMESPACE | 26 sjPlot-2.4.1/sjPlot/NEWS.md | 41 sjPlot-2.4.1/sjPlot/R/S3-methods.R | 395 ++ sjPlot-2.4.1/sjPlot/R/color_utils.R | 213 - sjPlot-2.4.1/sjPlot/R/helpfunctions.R | 1631 ++++---- sjPlot-2.4.1/sjPlot/R/html_print.R |only sjPlot-2.4.1/sjPlot/R/plot_diag_linear.R | 63 sjPlot-2.4.1/sjPlot/R/plot_diag_stan.R | 4 sjPlot-2.4.1/sjPlot/R/plot_model.R | 506 +- sjPlot-2.4.1/sjPlot/R/plot_model_estimates.R | 28 sjPlot-2.4.1/sjPlot/R/plot_models.R | 42 sjPlot-2.4.1/sjPlot/R/plot_point_estimates.R | 54 sjPlot-2.4.1/sjPlot/R/plot_type_eff.R | 2 sjPlot-2.4.1/sjPlot/R/plot_type_est.R | 10 sjPlot-2.4.1/sjPlot/R/plot_type_int.R | 2 sjPlot-2.4.1/sjPlot/R/plot_type_ranef.R | 583 +-- sjPlot-2.4.1/sjPlot/R/plot_type_slope.R | 382 +- sjPlot-2.4.1/sjPlot/R/save_plot.R |only sjPlot-2.4.1/sjPlot/R/sjPlotClusterAnalysis.R | 2 sjPlot-2.4.1/sjPlot/R/sjPlotFrequencies.R | 1254 +++--- sjPlot-2.4.1/sjPlot/R/sjPlotGLME.R | 18 sjPlot-2.4.1/sjPlot/R/sjPlotGroupFrequencies.R | 1748 ++++----- sjPlot-2.4.1/sjPlot/R/sjPlotGroupPropTable.R | 2 sjPlot-2.4.1/sjPlot/R/sjPlotInteractions.R | 5 sjPlot-2.4.1/sjPlot/R/sjPlotLikert.R | 1177 +++--- sjPlot-2.4.1/sjPlot/R/sjPlotLinreg.R | 11 sjPlot-2.4.1/sjPlot/R/sjPlotOdds.R | 13 sjPlot-2.4.1/sjPlot/R/sjPlotPolynomials.R | 5 sjPlot-2.4.1/sjPlot/R/sjTabCorr.R | 10 sjPlot-2.4.1/sjPlot/R/sjTabFA.R | 933 ++--- sjPlot-2.4.1/sjPlot/R/sjTabFrequencies.R | 1415 +++---- sjPlot-2.4.1/sjPlot/R/sjTabGrpmean.R | 227 - sjPlot-2.4.1/sjPlot/R/sjTabItemAnalysis.R | 262 - sjPlot-2.4.1/sjPlot/R/sjTabLinReg.R | 2929 +++++++--------- sjPlot-2.4.1/sjPlot/R/sjTabOdds.R | 2559 ++++++------- sjPlot-2.4.1/sjPlot/R/sjTabPCA.R | 1088 ++--- sjPlot-2.4.1/sjPlot/R/sjTabPropTable.R | 15 sjPlot-2.4.1/sjPlot/R/sjTabSPSS.R | 104 sjPlot-2.4.1/sjPlot/R/sjTabStackFrq.R | 6 sjPlot-2.4.1/sjPlot/R/sjplot.R | 6 sjPlot-2.4.1/sjPlot/R/sjplot_themes.R | 460 +- sjPlot-2.4.1/sjPlot/R/tidiers.R | 1113 +++--- sjPlot-2.4.1/sjPlot/R/utils.R | 41 sjPlot-2.4.1/sjPlot/build/partial.rdb |binary sjPlot-2.4.1/sjPlot/build/vignette.rds |binary sjPlot-2.4.1/sjPlot/inst/doc/blackwhitefigures.html | 6 sjPlot-2.4.1/sjPlot/inst/doc/custplot.html | 4 sjPlot-2.4.1/sjPlot/inst/doc/plot_interactions.R |only sjPlot-2.4.1/sjPlot/inst/doc/plot_interactions.Rmd |only sjPlot-2.4.1/sjPlot/inst/doc/plot_interactions.html |only sjPlot-2.4.1/sjPlot/inst/doc/plot_marginal_effects.R |only sjPlot-2.4.1/sjPlot/inst/doc/plot_marginal_effects.Rmd |only sjPlot-2.4.1/sjPlot/inst/doc/plot_marginal_effects.html |only sjPlot-2.4.1/sjPlot/inst/doc/plot_model_estimates.R | 35 sjPlot-2.4.1/sjPlot/inst/doc/plot_model_estimates.Rmd | 393 +- sjPlot-2.4.1/sjPlot/inst/doc/plot_model_estimates.html | 44 sjPlot-2.4.1/sjPlot/inst/doc/sjtbasic.html | 16 sjPlot-2.4.1/sjPlot/inst/doc/sjtitemanalysis.html | 591 +-- sjPlot-2.4.1/sjPlot/inst/doc/sjtlm.html | 4 sjPlot-2.4.1/sjPlot/inst/doc/sjtlmer.html | 4 sjPlot-2.4.1/sjPlot/man/plot_model.Rd | 379 +- sjPlot-2.4.1/sjPlot/man/plot_models.Rd | 86 sjPlot-2.4.1/sjPlot/man/save_plot.Rd |only sjPlot-2.4.1/sjPlot/man/sjPlot-themes.Rd | 2 sjPlot-2.4.1/sjPlot/man/sjp.frq.Rd | 6 sjPlot-2.4.1/sjPlot/man/sjp.glm.Rd | 1 sjPlot-2.4.1/sjPlot/man/sjp.glmer.Rd | 1 sjPlot-2.4.1/sjPlot/man/sjp.grpfrq.Rd | 17 sjPlot-2.4.1/sjPlot/man/sjp.int.Rd | 6 sjPlot-2.4.1/sjPlot/man/sjp.likert.Rd | 4 sjPlot-2.4.1/sjPlot/man/sjp.lm.Rd | 1 sjPlot-2.4.1/sjPlot/man/sjp.lmer.Rd | 25 sjPlot-2.4.1/sjPlot/man/sjp.scatter.Rd | 6 sjPlot-2.4.1/sjPlot/man/sjt.corr.Rd | 2 sjPlot-2.4.1/sjPlot/man/sjt.fa.Rd | 2 sjPlot-2.4.1/sjPlot/man/sjt.frq.Rd | 2 sjPlot-2.4.1/sjPlot/man/sjt.glm.Rd | 2 sjPlot-2.4.1/sjPlot/man/sjt.glmer.Rd | 2 sjPlot-2.4.1/sjPlot/man/sjt.grpmean.Rd | 94 sjPlot-2.4.1/sjPlot/man/sjt.itemanalysis.Rd | 29 sjPlot-2.4.1/sjPlot/man/sjt.lm.Rd | 2 sjPlot-2.4.1/sjPlot/man/sjt.lmer.Rd | 5 sjPlot-2.4.1/sjPlot/man/sjt.pca.Rd | 2 sjPlot-2.4.1/sjPlot/man/sjt.stackfrq.Rd | 2 sjPlot-2.4.1/sjPlot/man/sjt.xtab.Rd | 11 sjPlot-2.4.1/sjPlot/man/tab_df.Rd |only sjPlot-2.4.1/sjPlot/man/view_df.Rd | 54 sjPlot-2.4.1/sjPlot/vignettes/plot_interactions.Rmd |only sjPlot-2.4.1/sjPlot/vignettes/plot_marginal_effects.Rmd |only sjPlot-2.4.1/sjPlot/vignettes/plot_model_estimates.Rmd | 393 +- 104 files changed, 11226 insertions(+), 10593 deletions(-)
Title: An Interactive Application for ODE Parameter Inference Using
Gradient Matching
Description: An interactive Shiny application to perform fast parameter inference on
dynamical systems (described by ordinary differential equations) using gradient matching.
Please see the project page for more details.
Author: Joe Wandy
Maintainer: Joe Wandy <joe.wandy@glasgow.ac.uk>
Diff between shinyKGode versions 1.0.1 dated 2017-11-14 and 1.0.3 dated 2018-02-05
DESCRIPTION | 10 - MD5 | 8 - README.md | 12 +- inst/application/server.R | 275 ++++++++++++++++++++++++++++++++++++++++++---- inst/application/ui.R | 64 +++++++--- 5 files changed, 317 insertions(+), 52 deletions(-)
Title: Tools for Identifying Important Nodes in Networks
Description: Includes assorted tools for network analysis. Useful for
calculating and plotting expected influence, bridge centrality, and impact statistics.
Author: Payton Jones [aut, cre]
Maintainer: Payton Jones <payton_jones@g.harvard.edu>
Diff between networktools versions 1.1.0 dated 2017-08-09 and 1.1.1 dated 2018-02-05
networktools-1.1.0/networktools/inst/doc/networktools.pdf |only networktools-1.1.1/networktools/DESCRIPTION | 11 networktools-1.1.1/networktools/MD5 | 30 +- networktools-1.1.1/networktools/NAMESPACE | 11 networktools-1.1.1/networktools/NEWS.md | 6 networktools-1.1.1/networktools/R/bridge.R | 152 ++++++------- networktools-1.1.1/networktools/R/goldbricker.R |only networktools-1.1.1/networktools/R/hidden_functions.R | 63 ++++- networktools-1.1.1/networktools/R/imports.R |only networktools-1.1.1/networktools/R/net_reduce.R |only networktools-1.1.1/networktools/R/summary_print_plot.R | 21 + networktools-1.1.1/networktools/build/vignette.rds |binary networktools-1.1.1/networktools/inst/doc/Impact.Rmd | 4 networktools-1.1.1/networktools/inst/doc/Impact.pdf |binary networktools-1.1.1/networktools/man/bridge.Rd | 21 + networktools-1.1.1/networktools/man/coerce_to_adjacency.Rd | 2 networktools-1.1.1/networktools/man/goldbricker.Rd |only networktools-1.1.1/networktools/man/net_reduce.Rd |only networktools-1.1.1/networktools/vignettes/Impact.Rmd | 4 19 files changed, 214 insertions(+), 111 deletions(-)
Title: Hierarchical Multinomial Processing Tree Modeling
Description: User-friendly analysis of hierarchical multinomial processing tree (MPT)
models that are often used in cognitive psychology. Implements the latent-trait
MPT approach (Klauer, 2010) <DOI:10.1007/s11336-009-9141-0> and the beta-MPT
approach (Smith & Batchelder, 2010) <DOI:10.1016/j.jmp.2009.06.007> to model
heterogeneity of participants. MPT models are conveniently specified by an
.eqn-file as used by other MPT software and data are provided by a .csv-file
or directly in R. Models are either fitted by calling JAGS or by an MPT-tailored
Gibbs sampler in C++ (only for nonhierarchical and beta MPT models). Provides
tests of heterogeneity and MPT-tailored summaries and plotting functions.
Author: Daniel W. Heck [aut, cre],
Nina R. Arnold [aut, dtc],
Denis Arnold [aut],
Alexander Ly [ctb]
Maintainer: Daniel W. Heck <heck@uni-mannheim.de>
Diff between TreeBUGS versions 1.2.0 dated 2018-01-19 and 1.3.0 dated 2018-02-05
DESCRIPTION | 14 +- MD5 | 20 ++-- NEWS | 8 + R/callingSampler.R | 39 ++++---- R/fitModel.R | 50 +++------- R/fitTraitMPT.R | 47 ++++++++- R/makeModelDescription.R | 182 +++++++++++++++++++------------------- R/printMPT.R | 16 +-- inst/doc/TreeBUGS_1_intro.html | 4 inst/doc/TreeBUGS_2_extended.html | 4 man/traitMPT.Rd | 48 ++++++++-- 11 files changed, 255 insertions(+), 177 deletions(-)
Title: Bayesian Analysis of Finite Mixtures of Plackett-Luce Models for
Partial Rankings/Orderings
Description: Fit finite mixtures of Plackett-Luce models for partial top rankings/orderings within the Bayesian framework. It provides MAP point estimates via EM algorithm and posterior MCMC simulations via Gibbs Sampling. It also fits MLE as a special case of the noninformative Bayesian analysis with vague priors. In addition to inferential techniques, the package assists other fundamental phases of a model-based analysis for partial rankings/orderings, by including functions for data manipulation, simulation, descriptive summary, model selection and goodness-of-fit evaluation.
Author: Cristina Mollica [aut, cre],
Luca Tardella [aut]
Maintainer: Cristina Mollica <cristina.mollica@uniroma1.it>
Diff between PLMIX versions 1.0 dated 2016-12-21 and 2.0 dated 2018-02-05
DESCRIPTION | 17 MD5 | 78 - NAMESPACE | 24 NEWS |only R/PLMIXfunctions.R | 1724 +++++++++++++++++++++++-------------------- R/RcppExports.R | 44 - data/d_apa.RData |binary data/d_carconf.RData |binary data/d_german.RData |binary inst/CITATION | 28 man/PLMIX-package.Rd | 75 + man/bicPLMIX.Rd | 40 man/binary_group_ind.Rd | 2 man/d_apa.Rd | 19 man/d_carconf.Rd | 23 man/d_dublinwest.Rd | 16 man/d_german.Rd | 14 man/d_nascar.Rd | 23 man/freq_to_unit.Rd | 18 man/gibbsPLMIX.Rd | 48 - man/label_switchPLMIX.Rd |only man/loglikelihood.Rd | 25 man/make_complete.Rd | 35 man/make_partial.Rd | 33 man/mapPLMIX.Rd | 46 - man/mapPLMIX_multistart.Rd | 49 - man/paired_comparisons.Rd | 12 man/ppcheckPLMIX.Rd | 121 +-- man/ppcheckPLMIX_cond.Rd | 89 +- man/rPLMIX.Rd | 25 man/rank_ord_switch.Rd | 15 man/rank_summaries.Rd | 21 man/selectPLMIX.Rd | 100 +- man/unit_to_freq.Rd | 10 src/Estep.cpp | 3 src/RcppExports.cpp | 75 + src/UpPhetpartial.cpp | 4 src/chisqmeasureobscond.cpp | 10 src/chisqmeasuretheo1dim.cpp | 37 src/chisqmeasuretheocond.cpp | 8 src/loglikPLMIX.cpp | 11 41 files changed, 1549 insertions(+), 1373 deletions(-)
Title: Apply Functions to Multiple Multidimensional Arguments
Description: The base apply function and its variants, as well as the related functions in the 'plyr' package, typically apply user-defined functions to a single argument (or a list of vectorized arguments in the case of mapply). The 'multiApply' package extends this paradigm to functions taking a list of multiple unidimensional or multidimensional arguments (or combinations thereof) as input, which can have different numbers of dimensions as well as different dimension lengths.
Author: BSC-CNS [aut, cph],
Alasdair Hunter [aut, cre],
Nicolau Manubens [aut]
Maintainer: Alasdair Hunter <alasdair.hunter@bsc.es>
Diff between multiApply versions 0.0.1 dated 2017-07-17 and 1.0.0 dated 2018-02-05
DESCRIPTION | 8 MD5 | 9 NAMESPACE | 7 R/Apply.R | 611 ++++++++++++++++++++++++++++++++++++++++++++++++++++------- R/zzz.R |only man/Apply.Rd | 34 +-- 6 files changed, 567 insertions(+), 102 deletions(-)
Title: Fingertips Data for Public Health
Description: Fingertips (<http://fingertips.phe.org.uk/>) contains data for many indicators of public health in England. The underlying data is now more easily accessible by making use of the API.
Author: Sebastian Fox [aut, cre],
Julian Flowers [aut, ctb],
Crown Copyright 2018 [cph]
Maintainer: Sebastian Fox <sebastian.fox@phe.gov.uk>
Diff between fingertipsR versions 0.1.4 dated 2018-02-02 and 0.1.5 dated 2018-02-05
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 6 +++++- R/enhancements.R | 2 +- inst/doc/lifeExpectancy.html | 12 ++++++------ 5 files changed, 19 insertions(+), 15 deletions(-)
Title: Draws Overview of Outliers (O3) Plots
Description: Potential outliers are identified for all combinations of a dataset's variables. The available methods are HDoutliers() from the package 'HDoutliers', FastPCS() from the package 'FastPCS', mvBACON() from 'robustX', adjOutlyingness() from 'robustbase', DectectDeviatingCells() from 'cellWise', covMcd() from 'robustbase'.
Author: Antony Unwin
Maintainer: Antony Unwin <unwin@math.uni-augsburg.de>
Diff between OutliersO3 versions 0.2.1 dated 2017-09-26 and 0.5.1 dated 2018-02-05
OutliersO3-0.2.1/OutliersO3/R/O3plot.R |only OutliersO3-0.2.1/OutliersO3/man/O3a.Rd |only OutliersO3-0.2.1/OutliersO3/man/O3plot.Rd |only OutliersO3-0.2.1/OutliersO3/man/sortO3.Rd |only OutliersO3-0.5.1/OutliersO3/DESCRIPTION | 16 - OutliersO3-0.5.1/OutliersO3/MD5 | 49 +++-- OutliersO3-0.5.1/OutliersO3/NAMESPACE | 8 OutliersO3-0.5.1/OutliersO3/NEWS | 33 +++ OutliersO3-0.5.1/OutliersO3/R/O3a.R | 84 ++++++-- OutliersO3-0.5.1/OutliersO3/R/O3plotColours.R |only OutliersO3-0.5.1/OutliersO3/R/O3plotM.R |only OutliersO3-0.5.1/OutliersO3/R/O3plotT.R |only OutliersO3-0.5.1/OutliersO3/R/O3prep.R |only OutliersO3-0.5.1/OutliersO3/R/sortO3.R | 8 OutliersO3-0.5.1/OutliersO3/README.md |only OutliersO3-0.5.1/OutliersO3/build/vignette.rds |binary OutliersO3-0.5.1/OutliersO3/inst/doc/O3-alphas-vignette.R |only OutliersO3-0.5.1/OutliersO3/inst/doc/O3-alphas-vignette.Rmd |only OutliersO3-0.5.1/OutliersO3/inst/doc/O3-alphas-vignette.html |only OutliersO3-0.5.1/OutliersO3/inst/doc/O3-newMethod-vignette.R |only OutliersO3-0.5.1/OutliersO3/inst/doc/O3-newMethod-vignette.Rmd |only OutliersO3-0.5.1/OutliersO3/inst/doc/O3-newMethod-vignette.html |only OutliersO3-0.5.1/OutliersO3/inst/doc/O3-pcps-vignette.R |only OutliersO3-0.5.1/OutliersO3/inst/doc/O3-pcps-vignette.Rmd |only OutliersO3-0.5.1/OutliersO3/inst/doc/O3-pcps-vignette.html |only OutliersO3-0.5.1/OutliersO3/inst/doc/O3-vignette.R | 26 +- OutliersO3-0.5.1/OutliersO3/inst/doc/O3-vignette.Rmd | 63 +++--- OutliersO3-0.5.1/OutliersO3/inst/doc/O3-vignette.html | 95 +++++----- OutliersO3-0.5.1/OutliersO3/man/O3plotColours.Rd |only OutliersO3-0.5.1/OutliersO3/man/O3plotM.Rd |only OutliersO3-0.5.1/OutliersO3/man/O3plotT.Rd |only OutliersO3-0.5.1/OutliersO3/man/O3prep.Rd |only OutliersO3-0.5.1/OutliersO3/man/OutliersO3.Rd | 10 - OutliersO3-0.5.1/OutliersO3/man/figures |only OutliersO3-0.5.1/OutliersO3/vignettes/O3-alphas-vignette.Rmd |only OutliersO3-0.5.1/OutliersO3/vignettes/O3-newMethod-vignette.Rmd |only OutliersO3-0.5.1/OutliersO3/vignettes/O3-pcps-vignette.Rmd |only OutliersO3-0.5.1/OutliersO3/vignettes/O3-vignette.Rmd | 63 +++--- 38 files changed, 291 insertions(+), 164 deletions(-)
Title: Fit Rank-Ordered Logit (RO-Logit) Model
Description: Implements the rank-ordered logit (RO-logit) model for stratified
analysis of continuous outcomes introduced by
Tan et al. (2017) <doi:10.1177/0962280217747309>. Model diagnostics based on
the heuristic residuals and estimates in linear scales are available from
the package, and outcomes with ties are supported.
Author: Tan Chuen Seng, Ning Yilin
Maintainer: Ning Yilin <ningyilinnyl@gmail.com>
Diff between ROlogit versions 0.1.0 dated 2018-01-29 and 0.1.1 dated 2018-02-05
DESCRIPTION | 6 - MD5 | 19 +++-- NAMESPACE | 22 +++--- inst |only man/hresid.Rd | 68 ++++++++++----------- man/inpat_bg.Rd | 74 +++++++++++----------- man/loglikhresid.Rd | 46 +++++++------- man/qqplot.EVT1.Rd | 44 ++++++------- man/rologit.Rd | 158 ++++++++++++++++++++++++------------------------- man/rologit.coxph.Rd | 50 +++++++-------- man/summary.rologit.Rd | 32 ++++----- 11 files changed, 260 insertions(+), 259 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-12-18 0.4.0-0
2017-11-10 0.3.0-0
2017-10-23 0.2.0-0
2017-09-15 0.1.1-0
2017-09-11 0.1.0-0
Title: Manipulate and Explore UK Biobank Data
Description: A set of tools to create a UK Biobank <http://www.ukbiobank.ac.uk/> dataset from a UKB fileset (.tab, .r, .html),
visualize primary demographic data for a sample subset, query ICD diagnoses,
retrieve genetic metadata, read and write standard file formats for genetic analyses.
Author: Ken Hanscombe [aut, cre]
Maintainer: Ken Hanscombe <ken.hanscombe@gmail.com>
Diff between ukbtools versions 0.10.0 dated 2017-11-27 and 0.10.1 dated 2018-02-05
DESCRIPTION | 8 ++--- MD5 | 26 ++++++++-------- NAMESPACE | 1 NEWS.md | 11 +++++++ R/diagnosis.R | 6 +-- R/readwrite.R | 10 +++--- R/ukb_dataset.R | 63 ++++++++++++++++++++++------------------- build/vignette.rds |binary inst/doc/explore-ukb-data.html | 4 +- man/ukb_df_duplicated_name.Rd | 2 - man/ukb_df_full_join.Rd | 2 - man/ukb_gen_read_fam.Rd | 4 +- man/ukb_gen_write_plink.Rd | 6 +-- man/ukb_icd_freq_by.Rd | 4 +- 14 files changed, 82 insertions(+), 65 deletions(-)
Title: Models for Simulating Populations
Description: Run population simulations using an Individual-Based Model (IBM) compiled in C.
Author: Guillaume Chapron
Maintainer: Guillaume Chapron <gchapron@carnivoreconservation.org>
Diff between population versions 0.1 dated 2015-12-23 and 0.2 dated 2018-02-05
DESCRIPTION | 9 +++++---- MD5 | 15 ++++++++------- NAMESPACE | 4 ++-- man/population-package.Rd | 6 ++++-- src/main.c | 2 +- src/mc.c | 16 +++++++--------- src/pop.c | 12 ++++-------- src/pop.h | 3 +-- src/population_init.c |only 9 files changed, 32 insertions(+), 35 deletions(-)
Title: Programming with Big Data -- Base Wrappers for Distributed
Matrices
Description: An interface to and extensions for the 'PBLAS' and
'ScaLAPACK' numerical libraries. This enables R to utilize
distributed linear algebra for codes written in the 'SPMD' fashion.
This interface is deliberately low-level and mimics the style of
the native libraries it wraps. For a much higher level way of
managing distributed matrices, see the 'pbdDMAT' package.
Author: Drew Schmidt [aut, cre],
Wei-Chen Chen [aut],
George Ostrouchov [aut],
Pragneshkumar Patel [aut],
Ewan Higgs [ctb]
Maintainer: ORPHANED
Diff between pbdBASE versions 0.4-5 dated 2016-10-12 and 0.4-5.1 dated 2018-02-05
DESCRIPTION | 11 +++++++---- MD5 | 4 ++-- src/export_blacs/pkg_tools.c | 2 +- 3 files changed, 10 insertions(+), 7 deletions(-)
Title: Efficient and Publishing-Oriented Workflow for Psychological
Science
Description: Toolbox for psychologists, neuropsychologists and neuroscientists.
It implements methods to create report-ready outputs for statistical models,
as well as various convenient statistical functions used in psychological science,
such as correlation matrices and normalization.
Author: Dominique Makowski [aut, cre],
Viliam Simko [ctb]
Maintainer: Dominique Makowski <dom.makowski@gmail.com>
Diff between psycho versions 0.0.8 dated 2018-01-10 and 0.1.0 dated 2018-02-05
psycho-0.0.8/psycho/R/normalize.R |only psycho-0.0.8/psycho/man/normalize.Rd |only psycho-0.0.8/psycho/tests/testthat/test-normalize.R |only psycho-0.1.0/psycho/DESCRIPTION | 10 psycho-0.1.0/psycho/MD5 | 54 +- psycho-0.1.0/psycho/NAMESPACE | 7 psycho-0.1.0/psycho/NEWS.md | 28 + psycho-0.1.0/psycho/R/analyze.glmerMod.R | 2 psycho-0.1.0/psycho/R/analyze.merMod.R |only psycho-0.1.0/psycho/R/analyze.merModLmerTest.R | 14 psycho-0.1.0/psycho/R/analyze.stanreg.R | 10 psycho-0.1.0/psycho/R/correlation.R | 209 ++++++++-- psycho-0.1.0/psycho/R/formatting.R | 5 psycho-0.1.0/psycho/R/n_factors.R | 10 psycho-0.1.0/psycho/R/print.psychobject.R | 3 psycho-0.1.0/psycho/R/psychobject.R |only psycho-0.1.0/psycho/R/standardize.R |only psycho-0.1.0/psycho/README.md | 7 psycho-0.1.0/psycho/inst/doc/overview.R | 64 ++- psycho-0.1.0/psycho/inst/doc/overview.Rmd | 89 +++- psycho-0.1.0/psycho/inst/doc/overview.html | 269 ++++++------- psycho-0.1.0/psycho/man/analyze.merMod.Rd |only psycho-0.1.0/psycho/man/correlation.Rd | 7 psycho-0.1.0/psycho/man/format_string.Rd | 3 psycho-0.1.0/psycho/man/is.psychobject.Rd |only psycho-0.1.0/psycho/man/standardize.Rd |only psycho-0.1.0/psycho/tests/testthat/test-analyze.glmerMod.R | 2 psycho-0.1.0/psycho/tests/testthat/test-analyze.merMod.R |only psycho-0.1.0/psycho/tests/testthat/test-correlation.R | 10 psycho-0.1.0/psycho/tests/testthat/test-is.psychobject.R |only psycho-0.1.0/psycho/tests/testthat/test-standardize.R |only psycho-0.1.0/psycho/vignettes/images/images.pptx |binary psycho-0.1.0/psycho/vignettes/images/workflow.PNG |binary psycho-0.1.0/psycho/vignettes/overview.Rmd | 89 +++- 34 files changed, 615 insertions(+), 277 deletions(-)
Title: Geometry Decomposition
Description: Build a map of path-based geometry, this is a simple description of the number
of parts in an object and their basic structure. Translation and restructuring operations for
planar shapes and other hierarchical types require a data model with a record of the underlying
relationships between elements. The gibble() function creates a geometry map, a simple record of
the underlying structure in path-based hierarchical types. There are methods for the planar shape
types in the 'sf' and 'sp' packages.
Author: Michael Sumner [aut, cre]
Maintainer: Michael Sumner <mdsumner@gmail.com>
Diff between gibble versions 0.0.1 dated 2017-09-08 and 0.0.2 dated 2018-02-05
gibble-0.0.1/gibble/R/ibble.R |only gibble-0.0.2/gibble/DESCRIPTION | 25 +++++++++-------- gibble-0.0.2/gibble/MD5 | 22 ++++++++++----- gibble-0.0.2/gibble/NAMESPACE | 13 +++++++++ gibble-0.0.2/gibble/NEWS.md |only gibble-0.0.2/gibble/R/gibble-package.R | 7 ++++ gibble-0.0.2/gibble/R/gibble-sf.R |only gibble-0.0.2/gibble/R/gibble-sp.R |only gibble-0.0.2/gibble/R/gibble.R | 47 +++++++-------------------------- gibble-0.0.2/gibble/R/ibble-sf.R |only gibble-0.0.2/gibble/R/ibble-sp.R |only gibble-0.0.2/gibble/README.md | 4 -- gibble-0.0.2/gibble/data/hsh.rda |only gibble-0.0.2/gibble/man/gibble.Rd | 41 ++++++++++++++++++++++++++++ gibble-0.0.2/gibble/man/hsh.Rd |only gibble-0.0.2/gibble/tests |only 16 files changed, 100 insertions(+), 59 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-01-06 0.1.1
2017-01-05 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-08-31 0.20.11
2016-08-28 0.20.10
2016-06-02 0.20.7
2016-05-10 0.20.3
2016-05-05 0.19.2
2016-05-01 0.19.1
2015-05-05 0.17.10
2014-11-07 0.17.5
2014-11-04 0.17.4
2014-03-27 0.17.3
2013-07-16 0.17.1
2013-07-12 0.17
2013-05-18 0.16
2013-04-23 0.15
2013-03-22 0.14
2013-01-11 0.13
2012-10-07 0.12
2012-05-17 0.11
2012-04-28 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-11-06 1.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-12-07 0.1.1
2017-10-16 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-07-12 2017.07.12
2017-07-11 2017.07.11
2017-06-19 2017.06.08
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-01-13 0.3.4
2017-10-03 0.3.3
2017-02-10 0.3.2
2016-12-09 0.3.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-12-07 0.1.2
2017-10-07 0.1.1
2017-09-28 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-12-06 0.2-2
2015-11-29 0.2-1
2015-08-09 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2013-12-13 0.5.0
2013-02-21 0.4.0
2013-02-21 0.4.0-1
2013-01-22 0.3.0
2012-12-24 0.2.0
2012-12-12 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-01-30 0.3.0
2018-01-02 0.2.0
2017-11-24 0.1.3
2017-11-13 0.1.2
2017-09-24 0.1.1
2017-09-21 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-11-16 0.1.4
2017-11-02 0.1.3
2017-10-29 0.1.2
Title: Survival Support Vector Analysis
Description: Performs support vectors analysis for data sets with survival
outcome. Three approaches are available in the package: The regression approach
takes censoring into account when formulating the inequality constraints of
the support vector problem. In the ranking approach, the inequality constraints
set the objective to maximize the concordance index for comparable pairs
of observations. The hybrid approach combines the regression and ranking
constraints in the same model.
Author: Cesaire J. K. Fouodo
Maintainer: Cesaire Fouodo <fouodo@imbs.uni-luebeck.de>
Diff between survivalsvm versions 0.0.4 dated 2018-01-08 and 0.0.5 dated 2018-02-05
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/predictions.R | 2 +- R/prints.R | 10 ++++++++-- man/predict.survivalsvm.Rd | 2 +- 5 files changed, 17 insertions(+), 11 deletions(-)
Title: Algorithms for Quantile- And Mean-Optimal Treatment Regimes
Description: Estimation methods for optimal treatment regimes under three different criteria, namely marginal quantile, marginal mean, and mean absolute difference. For the first two criteria, both one-stage and two-stage estimation method are implemented. A doubly robust estimator for estimating the quantile-optimal treatment regime is also included.
Author: Yu Zhou [cre, aut],
Lan Wang [ctb],
Ben Sherwood [ctb],
Rui Song [ctb]
Maintainer: Yu Zhou <zhou0269@umn.edu>
Diff between quantoptr versions 0.1.2 dated 2017-03-12 and 0.1.3 dated 2018-02-05
quantoptr-0.1.2/quantoptr/man/quantoptr-package.Rd |only quantoptr-0.1.3/quantoptr/DESCRIPTION | 18 ++++--- quantoptr-0.1.3/quantoptr/MD5 | 49 ++++++++++----------- quantoptr-0.1.3/quantoptr/NAMESPACE | 1 quantoptr-0.1.3/quantoptr/R/Abso_diff_est.R | 2 quantoptr-0.1.3/quantoptr/R/DR_Qopt.R | 4 - quantoptr-0.1.3/quantoptr/R/IPWE_MADopt.R | 6 +- quantoptr-0.1.3/quantoptr/R/IPWE_Mopt.R | 2 quantoptr-0.1.3/quantoptr/R/IPWE_Qopt.R | 6 +- quantoptr-0.1.3/quantoptr/R/TwoStg_Mopt.R | 4 - quantoptr-0.1.3/quantoptr/R/TwoStg_Qopt.R | 8 +-- quantoptr-0.1.3/quantoptr/R/dr_quant_est.R | 4 - quantoptr-0.1.3/quantoptr/R/mean_est.R | 4 - quantoptr-0.1.3/quantoptr/R/qestimate.R | 3 - quantoptr-0.1.3/quantoptr/R/quantoptr.R | 9 +-- quantoptr-0.1.3/quantoptr/build/partial.rdb |binary quantoptr-0.1.3/quantoptr/inst/REFERENCES.bib | 15 +++--- quantoptr-0.1.3/quantoptr/man/DR_Qopt.Rd | 4 - quantoptr-0.1.3/quantoptr/man/IPWE_MADopt.Rd | 6 +- quantoptr-0.1.3/quantoptr/man/IPWE_Qopt.Rd | 4 - quantoptr-0.1.3/quantoptr/man/TwoStg_Mopt.Rd | 4 - quantoptr-0.1.3/quantoptr/man/TwoStg_Qopt.Rd | 8 +-- quantoptr-0.1.3/quantoptr/man/abso_diff_est.Rd | 2 quantoptr-0.1.3/quantoptr/man/augX.Rd | 4 - quantoptr-0.1.3/quantoptr/man/mean_est.Rd | 3 - quantoptr-0.1.3/quantoptr/man/qestimate.Rd | 2 26 files changed, 87 insertions(+), 85 deletions(-)