Title: Design of Experiments Suite: Generate and Evaluate Optimal
Designs
Description: Generates and evaluates D, I, A, Alias, E, T, and G optimal designs. Supports generation and evaluation of split/split-split/.../N-split plot designs. Includes parametric and Monte Carlo power evaluation functions, and supports calculating power for censored responses. Provides a framework to evaluate power using functions provided in other packages or written by the user. Includes a Shiny graphical user interface that displays the underlying code used to create and evaluate the design to improve ease-of-use and make analyses more reproducible.
Author: Tyler Morgan-Wall [aut, cre],
George Khoury [aut]
Maintainer: Tyler Morgan-Wall <tylermw@gmail.com>
Diff between skpr versions 0.49.1 dated 2018-05-30 and 0.53.3 dated 2018-07-11
DESCRIPTION | 10 MD5 | 46 NAMESPACE | 4 NEWS | 60 - R/RcppExports.R | 4 R/constructRunMatrix.R | 13 R/eval_design_mc.R | 44 R/eval_design_survival_mc.R | 2 R/gen_design.R | 210 +++ R/plot_correlations.R | 27 R/skprGUI.R | 1928 +++++++++++++++++------------------ R/skprGUIserver.R |only inst/shiny/skprGUI/server.R | 134 +- inst/shiny/skprGUI/ui.R | 528 ++++----- man/constructRunMatrix.Rd | 2 man/eval_design_mc.Rd | 10 man/gen_design.Rd | 56 - man/plot_correlations.Rd | 7 man/skprGUIserver.Rd |only src/IOptimality.cpp | 4 src/RcppExports.cpp | 9 src/genOptimalDesign.cpp | 226 +--- tests/testthat/Rplots.pdf |binary tests/testthat/testDeltaProcessing.R | 1 tests/testthat/testExampleCode.R | 8 25 files changed, 1765 insertions(+), 1568 deletions(-)
Title: Interface to 'Dygraphs' Interactive Time Series Charting Library
Description: An R interface to the 'dygraphs' JavaScript charting library
(a copy of which is included in the package). Provides rich facilities
for charting time-series data in R, including highly configurable
series- and axis-display and interactive features like zoom/pan and
series/point highlighting.
Author: Dan Vanderkam [aut, cph] (dygraphs library in htmlwidgets/lib,
http://dygraphs.com/),
Petr Shevtsov [cre, cph],
JJ Allaire [aut],
RStudio [cph],
Jonathan Owen [aut, cph],
Daniel Gromer [aut, cph],
Benoit Thieurmel [aut, cph],
Kent Laukhuf [ctb],
jQuery Foundation [cph] (jQuery library),
jQuery contributors [ctb, cph] (jQuery library; authors listed in
inst/htmlwidgets/lib/jquery/AUTHORS.txt)
Maintainer: Petr Shevtsov <petr.shevtsov@gmail.com>
Diff between dygraphs versions 1.1.1.5 dated 2018-06-28 and 1.1.1.6 dated 2018-07-11
DESCRIPTION | 6 +++--- MD5 | 6 +++--- inst/NEWS | 7 ++++++- inst/htmlwidgets/dygraphs.js | 4 ++-- 4 files changed, 14 insertions(+), 9 deletions(-)
Title: Software for Project AERO
Description: Implements methods for anticipating the emergence and eradication
of infectious diseases from surveillance time series. Also provides support
for computational experiments testing the performance of such methods.
Author: Eamon O'Dea [aut, cre]
Maintainer: Eamon O'Dea <odea35@gmail.com>
Diff between spaero versions 0.2.0 dated 2016-10-12 and 0.3.0 dated 2018-07-11
DESCRIPTION | 16 ++-- LICENSE |only MD5 | 30 ++++--- NEWS.md | 18 +++- R/analysis.R | 148 ++++++++++++++++++++------------------ R/simulation.R | 48 ++++++++---- README.md |only build/vignette.rds |binary inst/doc/spaero-introduction.Rmd | 51 +++++++++---- inst/doc/spaero-introduction.pdf |binary man/create_simulator.Rd | 11 +- man/get_stats.Rd | 46 ++++++----- src/init.c |only src/spaero_internal.h |only src/transition_rates.c | 20 +++-- tests/testthat/test-simulator.R | 66 +++++++++++++--- tests/testthat/test-stats.R | 40 ++++++++-- vignettes/spaero-introduction.Rmd | 51 +++++++++---- 18 files changed, 357 insertions(+), 188 deletions(-)
Title: Qualitative Comparative Analysis
Description: An extensive set of functions to perform Qualitative Comparative Analysis:
crisp sets ('csQCA'), temporal ('tQCA'), multi-value ('mvQCA')
and fuzzy sets ('fsQCA'), using a GUI - graphical user interface.
'QCA' is a methodology that bridges the qualitative and quantitative divide
in social science research. It uses a Boolean algorithm that results in a
minimal causal combination that explains a given phenomenon.
Author: Adrian Dusa [aut, cre, cph],
jQuery Foundation [cph] (jQuery library and jQuery UI library),
jQuery contributors [ctb, cph] (jQuery library; authors listed in
inst/gui/www/shared/jquery-AUTHORS.txt),
Vasil Dinkov [ctb, cph] (jquery.smartmenus.js library),
Dmitry Baranovskiy [ctb, cph] (raphael.js library),
Emmanuel Quentin [ctb, cph] (raphael.inline_text_editing.js library),
Jimmy Breck-McKye [ctb, cph] (raphael-paragraph.js library),
Alrik Thiem [aut] (from version 1.0-0 up to version 1.1-3)
Maintainer: Adrian Dusa <dusa.adrian@unibuc.ro>
Diff between QCA versions 3.2 dated 2018-03-27 and 3.3 dated 2018-07-11
QCA-3.2/QCA/inst/gui/www/shared/Raphael/LICENSE-MIT |only QCA-3.2/QCA/inst/gui/www/shared/Raphael/raphael-2.1.2.js |only QCA-3.2/QCA/inst/gui/www/shared/jquery-3.1.1.min.js |only QCA-3.3/QCA/DESCRIPTION | 8 QCA-3.3/QCA/MD5 | 108 - QCA-3.3/QCA/R/calibrate.R | 44 QCA-3.3/QCA/R/export.R | 1 QCA-3.3/QCA/R/factorize.R | 18 QCA-3.3/QCA/R/onAttach.R | 4 QCA-3.3/QCA/R/retention.R | 4 QCA-3.3/QCA/R/runGUI.R | 2 QCA-3.3/QCA/R/sop.R | 124 - QCA-3.3/QCA/R/string.R | 4 QCA-3.3/QCA/R/superSubset.R | 2 QCA-3.3/QCA/R/translate.R | 8 QCA-3.3/QCA/R/truthTable.R | 6 QCA-3.3/QCA/R/verifyQCA.R | 12 QCA-3.3/QCA/inst/CITATION | 8 QCA-3.3/QCA/inst/ChangeLog | 1114 +++++------ QCA-3.3/QCA/inst/TODO | 6 QCA-3.3/QCA/inst/gui/server.R | 10 QCA-3.3/QCA/inst/gui/www/index.html | 4 QCA-3.3/QCA/inst/gui/www/js/maincode.js | 1060 +++++++--- QCA-3.3/QCA/inst/gui/www/js/utils.js | 206 +- QCA-3.3/QCA/inst/gui/www/shared/Raphael/license.txt |only QCA-3.3/QCA/inst/gui/www/shared/Raphael/raphael-2.2.0-min.js |only QCA-3.3/QCA/inst/gui/www/shared/jquery-3.3.1.min.js |only QCA-3.3/QCA/inst/staticdocs/CV.html | 4 QCA-3.3/QCA/inst/staticdocs/LegacyDatasets.html | 4 QCA-3.3/QCA/inst/staticdocs/Lipset.html | 4 QCA-3.3/QCA/inst/staticdocs/QCA.package.html | 8 QCA-3.3/QCA/inst/staticdocs/RS.html | 4 QCA-3.3/QCA/inst/staticdocs/SOPexpression.html | 4 QCA-3.3/QCA/inst/staticdocs/XYplot.html | 4 QCA-3.3/QCA/inst/staticdocs/Xplot.html | 4 QCA-3.3/QCA/inst/staticdocs/calibrate.html | 27 QCA-3.3/QCA/inst/staticdocs/causalChain.html | 4 QCA-3.3/QCA/inst/staticdocs/chartFunctions.html | 4 QCA-3.3/QCA/inst/staticdocs/export.html | 4 QCA-3.3/QCA/inst/staticdocs/factorize.html | 190 - QCA-3.3/QCA/inst/staticdocs/findRows.html | 4 QCA-3.3/QCA/inst/staticdocs/findTh.html | 4 QCA-3.3/QCA/inst/staticdocs/fuzzyops.html | 4 QCA-3.3/QCA/inst/staticdocs/implicantMatrixFunctions.html | 4 QCA-3.3/QCA/inst/staticdocs/index.html | 4 QCA-3.3/QCA/inst/staticdocs/intersection.html | 4 QCA-3.3/QCA/inst/staticdocs/minimize.html | 4 QCA-3.3/QCA/inst/staticdocs/modelFit.html | 4 QCA-3.3/QCA/inst/staticdocs/negate.html | 4 QCA-3.3/QCA/inst/staticdocs/pof.html | 4 QCA-3.3/QCA/inst/staticdocs/recode.html | 4 QCA-3.3/QCA/inst/staticdocs/retention.html | 4 QCA-3.3/QCA/inst/staticdocs/runGUI.html | 4 QCA-3.3/QCA/inst/staticdocs/subsetsAndSupersets.html | 4 QCA-3.3/QCA/inst/staticdocs/truthTable.html | 4 QCA-3.3/QCA/man/QCA.package.Rd | 4 QCA-3.3/QCA/man/calibrate.Rd | 29 QCA-3.3/QCA/man/factorize.Rd | 6 58 files changed, 1841 insertions(+), 1276 deletions(-)
Title: Empirical Transition Matrix
Description: The etm (empirical transition matrix) package permits to estimate the matrix of transition probabilities for any time-inhomogeneous multistate model with finite state space using the Aalen-Johansen estimator. Functions for data preparation and for displaying are also included (Allignol et al., 2011 <doi:10.18637/jss.v038.i04>). Functionals of the Aalen-Johansen estimator, e.g., excess length-of-stay in an intermediate state, can also be computed (Allignol et al. 2011 <doi:10.1007/s00180-010-0200-x>).
Author: Arthur Allignol
Maintainer: Arthur Allignol <arthur.allignol@gmail.com>
Diff between etm versions 1.0.3 dated 2018-07-04 and 1.0.4 dated 2018-07-11
DESCRIPTION | 9 ++++----- MD5 | 6 +++--- inst/doc/etmCIF_tutorial.pdf |binary src/cov_aj.cc | 2 +- 4 files changed, 8 insertions(+), 9 deletions(-)
Title: Directional Statistics
Description: A collection of functions for directional data analysis. Hypothesis testing, discriminant and regression analysis, MLE of distributions and more are included. The standard textbook for such data is the "Directional Statistics" by Mardia, K. V. and Jupp, P. E. (2000).
Author: Michail Tsagris, Giorgos Athineou, Anamul Sajib, Eli Amson, Micah J. Waldstein
Maintainer: Michail Tsagris <mtsagris@yahoo.gr>
Diff between Directional versions 3.2 dated 2018-06-11 and 3.3 dated 2018-07-11
DESCRIPTION | 10 ++++---- MD5 | 28 ++++++++++++------------ R/dirda.cv.R | 52 ++++++++++++++++++++++++++++++++++----------- R/kent.datacontour.R | 4 +-- R/kent.density.R |only R/kent.mle.R | 6 ++--- R/spml.reg.R | 1 R/vec.R | 2 - R/vmf.kerncontour.R | 41 +++++++++++++++++++++++++---------- man/Directional-package.Rd | 7 +++--- man/ESAGdensity.Rd | 2 - man/dirda.cv.Rd | 7 ++++-- man/kent.density.Rd |only man/kent.mle.Rd | 11 ++++++--- man/vmf.kde.Rd | 8 +++--- man/vmf.kerncontour.Rd | 34 +++++++++++++++++++++++++---- 16 files changed, 147 insertions(+), 66 deletions(-)
Title: Calculates Disproportionate Impact When Binary Success Data are
Disaggregated by Subgroups
Description: Implements methods for calculating disproportionate impact: the percentage point gap, proportionality index, and the 80% index.
California Community Colleges Chancellor's Office (2017). Percentage Point Gap Method. <http://extranet.cccco.edu/Portals/1/TRIS/Research/Analysis/PercentagePointGapMethod2017.pdf>.
California Community Colleges Chancellor's Office (2014). Guidelines for Measuring Disproportionate Impact in Equity Plans. <http://extranet.cccco.edu/Portals/1/TRIS/Research/Accountability/GUIDELINES%20FOR%20MEASURING%20DISPROPORTIONATE%20IMPACT%20IN%20EQUITY%20PLANS.pdf>.
Author: Vinh Nguyen [aut, cre]
Maintainer: Vinh Nguyen <nguyenvq714@gmail.com>
Diff between DisImpact versions 0.0.2 dated 2018-06-16 and 0.0.3 dated 2018-07-11
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ R/80_percent_index.R | 2 +- R/percentage_point_gap.R | 4 ++-- inst/doc/Tutorial.html | 30 +++++++++++++++--------------- man/di_80_index.Rd | 2 +- man/di_ppg.Rd | 2 +- 7 files changed, 29 insertions(+), 29 deletions(-)
Title: Common Plots for Analysis
Description: Select data analysis plots, under a standardized calling interface implemented on top of 'ggplot2' and 'plotly'.
Plots of interest include: 'ROC', gain curve, scatter plot with marginal distributions,
conditioned scatter plot with marginal densities,
box and stem with matching theoretical distribution, and density with matching theoretical distribution.
Author: John Mount [aut, cre],
Nina Zumel [aut],
Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>
Diff between WVPlots versions 1.0.0 dated 2018-05-24 and 1.0.1 dated 2018-07-11
DESCRIPTION | 12 ++--- MD5 | 33 ++++++++------- NAMESPACE | 26 +++++++++++ NEWS.md | 9 +++- R/ScatterHist.R | 15 +++++- R/ScatterHistC.R | 4 + R/ShadedDensity.R | 86 ++++++++++++++++++++++++++++++++++++--- R/wrapr_exports.R |only build/vignette.rds |binary inst/doc/WVPlots_concept.html | 18 ++++---- inst/doc/WVPlots_examples.R | 9 ++++ inst/doc/WVPlots_examples.Rmd | 11 +++++ inst/doc/WVPlots_examples.html | 90 ++++++++++++++++++++++------------------- man/ScatterHist.Rd | 8 +++ man/ScatterHistC.Rd | 6 ++ man/ShadedDensity.Rd | 12 ++++- man/ShadedDensityCenter.Rd |only man/reexports.Rd |only vignettes/WVPlots_examples.Rmd | 11 +++++ 19 files changed, 267 insertions(+), 83 deletions(-)
Title: A Statistically Sound 'data.frame' Processor/Conditioner
Description: A 'data.frame' processor/conditioner that prepares real-world data for predictive modeling in a statistically sound manner.
'vtreat' prepares variables so that data has fewer exceptional cases, making
it easier to safely use models in production. Common problems 'vtreat' defends
against: 'Inf', 'NA', too many categorical levels, rare categorical levels, and new
categorical levels (levels seen during application, but not during training). Reference:
"'vtreat': a data.frame Processor for Predictive Modeling", 'Zumel', 'Mount', 2016, DOI:10.5281/zenodo.1173314.
Author: John Mount [aut, cre],
Nina Zumel [aut],
Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>
Diff between vtreat versions 1.2.2 dated 2018-07-04 and 1.2.3 dated 2018-07-11
DESCRIPTION | 8 ++--- MD5 | 30 ++++++++++---------- NEWS.md | 5 +++ R/prevalenceFact.R | 7 ++-- R/utils.R | 10 +++--- README.md | 18 ++++++------ inst/doc/SavingTreamentPlans.html | 14 ++++----- inst/doc/vtreat.html | 56 +++++++++++++++++++------------------- inst/doc/vtreatCrossFrames.html | 44 ++++++++++++++--------------- inst/doc/vtreatGrouping.html | 10 +++--- inst/doc/vtreatOverfit.html | 42 ++++++++++++++-------------- inst/doc/vtreatRareLevels.html | 20 ++++++------- inst/doc/vtreatScaleMode.html | 16 +++++----- inst/doc/vtreatSignificance.html | 20 ++++++------- inst/doc/vtreatSplitting.html | 8 ++--- inst/doc/vtreatVariableTypes.html | 42 ++++++++++++++-------------- 16 files changed, 178 insertions(+), 172 deletions(-)
Title: Utilities for Start-Up Messages
Description: Provides utilities to create or suppress start-up messages.
Author: Peter Ruckdeschel [cre, cph, aut]
Maintainer: Peter Ruckdeschel <peter.ruckdeschel@uni-oldenburg.de>
Diff between startupmsg versions 0.9.4 dated 2017-04-23 and 0.9.5 dated 2018-07-11
DESCRIPTION | 16 ++++++++-------- MD5 | 8 ++++---- NAMESPACE | 2 +- R/illustration.R | 2 +- man/myStartupUtilities.Rd | 2 +- 5 files changed, 15 insertions(+), 15 deletions(-)
Title: Easy-to-Use Tools for Common Forms of Random Assignment and
Sampling
Description: Generates random assignments for common experimental designs and
random samples for common sampling designs.
Author: Alexander Coppock [aut, cre],
Jasper Cooper [ctb],
Neal Fultz [ctb] (C version of restricted partitions)
Maintainer: Alexander Coppock <acoppock@gmail.com>
Diff between randomizr versions 0.16.0 dated 2018-05-28 and 0.16.1 dated 2018-07-11
DESCRIPTION | 6 MD5 | 86 ++-- NAMESPACE | 3 R/block_and_cluster_ra.R | 10 R/block_ra.R | 54 +- R/cluster_ra.R | 78 ++- R/cluster_rs.R | 5 R/complete_ra.R | 5 R/complete_rs.R | 27 - R/declare_ra.R | 128 ++++-- R/declare_rs.R | 86 ++-- R/generated_methods.R | 292 +++++++++----- R/helper_functions.R | 515 ++++++++++++++----------- R/methods.R | 26 - R/obtain_num_permutations.R | 155 +++---- R/obtain_permutation_matrix.R | 289 +++++++------- R/obtain_permutation_probabilities.R | 269 ++++++------- R/simple_ra.R | 42 +- R/strata_and_cluster_rs.R | 13 R/strata_rs.R | 28 - inst/doc/randomizr_vignette.html | 1 man/block_and_cluster_ra.Rd | 4 man/block_and_cluster_ra_probabilities.Rd | 4 man/block_ra.Rd | 4 man/block_ra_probabilities.Rd | 4 man/obtain_num_permutations.Rd | 2 man/simple_ra.Rd | 5 tests/testthat/test-assignment_probabilities.R | 379 ++++++++++-------- tests/testthat/test-block_and_cluster_ra.R | 90 ++-- tests/testthat/test-block_ra.R | 158 +++++-- tests/testthat/test-cluster_rs.R | 36 + tests/testthat/test-complete_ra.R | 102 ++-- tests/testthat/test-complete_rs.R | 8 tests/testthat/test-condition-names.R | 75 +-- tests/testthat/test-custom-ra.R | 39 - tests/testthat/test-empirical-probabilities.R | 65 +-- tests/testthat/test-methods.R | 34 + tests/testthat/test-permutations.R | 416 +++++++++----------- tests/testthat/test-simple_ra.R | 3 tests/testthat/test-strata_and_cluster_rs.R | 77 ++- tests/testthat/test-strata_rs.R | 53 +- tests/testthat/test-tricky-examples.R | 195 +++++---- tests/testthat/test_assignment_declarations.R | 389 +++++++++++------- tests/testthat/test_sampling_declarations.R | 8 44 files changed, 2430 insertions(+), 1838 deletions(-)
Title: Geostatistical Modelling of Spatially Referenced Prevalence Data
Description: Provides functions for both likelihood-based
and Bayesian analysis of spatially referenced prevalence data, and is
also an extension of the 'geoR' package.
Author: Emanuele Giorgi, Peter J. Diggle
Maintainer: Emanuele Giorgi <e.giorgi@lancaster.ac.uk>
Diff between PrevMap versions 1.4.1 dated 2017-06-06 and 1.4.2 dated 2018-07-11
DESCRIPTION | 10 - MD5 | 122 ++++++------ NAMESPACE | 204 ++++++++++----------- build/vignette.rds |binary inst/doc/PrevMap.pdf |binary man/Laplace.sampling.Rd | 144 +++++++-------- man/Laplace.sampling.SPDE.Rd | 110 +++++------ man/Laplace.sampling.lr.Rd | 112 +++++------ man/adjust.sigma2.Rd | 98 +++++----- man/autocor.plot.Rd | 50 ++--- man/binary.probit.Bayes.Rd | 182 +++++++++---------- man/binomial.logistic.Bayes.Rd | 284 +++++++++++++++--------------- man/binomial.logistic.MCML.Rd | 264 +++++++++++++-------------- man/coef.PrevMap.Rd | 48 ++--- man/coef.PrevMap.ps.Rd | 44 ++-- man/continuous.sample.Rd | 118 ++++++------ man/contour.pred.PrevMap.Rd | 50 ++--- man/control.mcmc.Bayes.Rd | 136 +++++++------- man/control.mcmc.Bayes.SPDE.Rd | 108 +++++------ man/control.mcmc.MCML.Rd | 74 +++---- man/control.prior.Rd | 96 +++++----- man/control.profile.Rd | 72 +++---- man/create.ID.coords.Rd | 64 +++--- man/data_sim.Rd | 46 ++-- man/dens.plot.Rd | 60 +++--- man/discrete.sample.Rd | 142 +++++++-------- man/galicia.Rd | 54 ++--- man/galicia.boundary.Rd | 42 ++-- man/linear.model.Bayes.Rd | 210 +++++++++++----------- man/linear.model.MLE.Rd | 256 +++++++++++++-------------- man/lm.ps.MCML.Rd | 268 ++++++++++++++-------------- man/loaloa.Rd | 66 +++--- man/loglik.ci.Rd | 52 ++--- man/loglik.linear.model.Rd | 82 ++++---- man/matern.kernel.Rd | 66 +++--- man/plot.pred.PrevMap.Rd | 50 ++--- man/plot.pred.PrevMap.ps.Rd | 50 ++--- man/plot.profile.PrevMap.Rd | 58 +++--- man/plot.shape.matern.Rd | 58 +++--- man/poisson.log.MCML.Rd | 218 +++++++++++------------ man/set.par.ps.Rd | 60 +++--- man/shape.matern.Rd | 90 ++++----- man/spatial.pred.binomial.Bayes.Rd | 100 +++++----- man/spatial.pred.binomial.MCML.Rd | 108 +++++------ man/spatial.pred.linear.Bayes.Rd | 100 +++++----- man/spatial.pred.linear.MLE.Rd | 114 ++++++------ man/spatial.pred.lm.ps.Rd | 110 +++++------ man/spatial.pred.poisson.MCML.Rd | 108 +++++------ man/summary.Bayes.PrevMap.Rd | 92 ++++----- man/summary.PrevMap.Rd | 96 +++++----- man/summary.PrevMap.ps.Rd | 76 ++++---- man/trace.plot.MCML.Rd | 46 ++-- man/trace.plot.Rd | 54 ++--- vignettes/Images/acf_loaloa.png |binary vignettes/Images/autocorrelogram.png |binary vignettes/Images/data_sim_pred.png |binary vignettes/Images/diagnostic.png |binary vignettes/Images/loaloa1.png |binary vignettes/Images/loaloa_pred.png |binary vignettes/Images/loaloa_profile.png |binary vignettes/Images/loaloa_profile_kappa.png |binary vignettes/Images/sim_loc.png |binary 62 files changed, 2661 insertions(+), 2661 deletions(-)
Title: Local Projections Impulse Response Functions
Description: Contains functions to estimate linear and nonlinear impulse
responses based on local projections by Jordà (2005) <doi:10.1257/0002828053828518>.
Nonlinear impulse responses are estimated for two regimes based on
a transition function as used in Auerbach and Gorodnichenko (2012) <doi:10.1257/pol.4.2.1>.
Author: Philipp Adämmer [aut, cre] (<https://orcid.org/0000-0003-3770-0097>),
James P. LeSage [ctb],
Mehmet. Balcilar [ctb]
Maintainer: Philipp Adämmer <adaemmer@hsu-hh.de>
Diff between lpirfs versions 0.1.0 dated 2018-07-05 and 0.1.1 dated 2018-07-11
lpirfs-0.1.0/lpirfs/R/lm_function.R |only lpirfs-0.1.0/lpirfs/R/reduced_var.R |only lpirfs-0.1.0/lpirfs/R/switching_series.R |only lpirfs-0.1.0/lpirfs/man/find_lag_c.Rd |only lpirfs-0.1.0/lpirfs/man/lm_function.Rd |only lpirfs-0.1.0/lpirfs/man/newey_west_c.Rd |only lpirfs-0.1.0/lpirfs/man/reduced_var.Rd |only lpirfs-0.1.0/lpirfs/man/switching_series.Rd |only lpirfs-0.1.0/lpirfs/src/find_lag_c.cpp |only lpirfs-0.1.0/lpirfs/src/newey_west_c.cpp |only lpirfs-0.1.1/lpirfs/DESCRIPTION | 15 +-- lpirfs-0.1.1/lpirfs/MD5 | 54 ++++++----- lpirfs-0.1.1/lpirfs/NEWS.md | 22 ++++ lpirfs-0.1.1/lpirfs/R/RcppExports.R | 44 ++++++--- lpirfs-0.1.1/lpirfs/R/create_lags.R | 1 lpirfs-0.1.1/lpirfs/R/create_lin_data.R | 2 lpirfs-0.1.1/lpirfs/R/create_nl_data.R | 5 - lpirfs-0.1.1/lpirfs/R/get_mat_chol.R |only lpirfs-0.1.1/lpirfs/R/get_resids_ols.R |only lpirfs-0.1.1/lpirfs/R/get_vals_switching.R |only lpirfs-0.1.1/lpirfs/R/lp_lin.R | 13 +- lpirfs-0.1.1/lpirfs/R/lp_nl.R | 10 +- lpirfs-0.1.1/lpirfs/README.md | 93 ++++++++++++-------- lpirfs-0.1.1/lpirfs/inst |only lpirfs-0.1.1/lpirfs/man/create_lags.Rd | 1 lpirfs-0.1.1/lpirfs/man/create_lin_data.Rd | 1 lpirfs-0.1.1/lpirfs/man/create_nl_data.Rd | 1 lpirfs-0.1.1/lpirfs/man/get_mat_chol.Rd |only lpirfs-0.1.1/lpirfs/man/get_resids_ols.Rd |only lpirfs-0.1.1/lpirfs/man/get_vals_lagcrit.Rd |only lpirfs-0.1.1/lpirfs/man/get_vals_switching.Rd |only lpirfs-0.1.1/lpirfs/man/hp_filter.Rd |only lpirfs-0.1.1/lpirfs/man/lp_lin.Rd | 2 lpirfs-0.1.1/lpirfs/man/newey_west.Rd |only lpirfs-0.1.1/lpirfs/src/RcppExports.cpp | 33 ++++--- lpirfs-0.1.1/lpirfs/src/get_vals_lagcrit.cpp |only lpirfs-0.1.1/lpirfs/src/hp_filter.cpp |only lpirfs-0.1.1/lpirfs/src/newey_west.cpp |only lpirfs-0.1.1/lpirfs/tests/testthat/test-hp_filter.R |only lpirfs-0.1.1/lpirfs/tests/testthat/test-lp_lin.R | 8 - 40 files changed, 197 insertions(+), 108 deletions(-)
Title: Determining and Evaluating High-Risk Zones
Description: Functions for determining and evaluating high-risk zones and
simulating and thinning point process data, as described in 'Determining
high risk zones using point process methodology - Realization by building
an R package' Seibold (2012) <http://highriskzone.r-forge.r-project.org/Bachelorarbeit.pdf>
and 'Determining high-risk zones for unexploded World War II bombs by using point
process methodology', Mahling et al. (2013) <doi:10.1111/j.1467-9876.2012.01055.x>.
Author: Heidi Seibold <Heidi.Seibold@uzh.ch>, Monia Mahling
<monia.mahling@stat.uni-muenchen.de>, Sebastian Linne
<Sebastian.Linne@campus.lmu.de>, Felix Guenther
<felix.guenther@stat.uni-muenchen.de>
Maintainer: Felix Guenther <felix.guenther@stat.uni-muenchen.de>
Diff between highriskzone versions 1.4-2 dated 2017-11-27 and 1.4.5 dated 2018-07-11
DESCRIPTION | 18 +++++++++--------- MD5 | 18 +++++++++--------- NAMESPACE | 2 +- R/est_intens_spde.R | 11 ++++------- R/evalmethod.R | 25 +++++++++++++------------ R/highriskzone-package.R | 12 +----------- data/craterA.RData |binary data/craterB.RData |binary man/est_intens_spde.Rd | 2 +- man/highriskzone-package.Rd | 10 ---------- 10 files changed, 38 insertions(+), 60 deletions(-)
Title: Object Oriented Implementation of Distributions
Description: S4-classes and methods for distributions.
Author: Florian Camphausen [ctb] (contributed as student in the initial phase
--2005),
Matthias Kohl [aut, cph],
Peter Ruckdeschel [cre, cph],
Thomas Stabla [ctb] (contributed as student in the initial phase
--2005),
R Core Team [ctb, cph] (for source file ks.c/ routines 'pKS2' and
'pKolmogorov2x')
Maintainer: Peter Ruckdeschel <peter.ruckdeschel@uni-oldenburg.de>
Diff between distr versions 2.6.2 dated 2017-04-22 and 2.7.0 dated 2018-07-11
distr-2.6.2/distr/inst/doc/newDistributions.R |only distr-2.6.2/distr/inst/doc/newDistributions.Rnw |only distr-2.6.2/distr/inst/doc/newDistributions.pdf |only distr-2.6.2/distr/vignettes/newDistributions.Rnw |only distr-2.7.0/distr/DESCRIPTION | 34 distr-2.7.0/distr/MD5 | 135 distr-2.7.0/distr/NAMESPACE | 207 - distr-2.7.0/distr/R/AllInitialize.R | 2 distr-2.7.0/distr/R/CompoundDistribution.R | 14 distr-2.7.0/distr/R/ContDistribution.R | 77 distr-2.7.0/distr/R/Convpow.R | 4 distr-2.7.0/distr/R/DiscreteDistribution.R | 30 distr-2.7.0/distr/R/ExtraConvolutionMethods.R | 4 distr-2.7.0/distr/R/LatticeDistribution.R | 6 distr-2.7.0/distr/R/MinMaximum.R | 8 distr-2.7.0/distr/R/Truncate.R | 8 distr-2.7.0/distr/R/UnivarLebDecDistribution.R | 11 distr-2.7.0/distr/R/UnivarMixingDistribution.R | 4 distr-2.7.0/distr/R/bAcDcLcDistribution.R | 11 distr-2.7.0/distr/R/getLow.R | 38 distr-2.7.0/distr/R/internalUtils.R | 6 distr-2.7.0/distr/R/internalUtils_LCD.R | 2 distr-2.7.0/distr/R/internalUtils_trunc.R | 16 distr-2.7.0/distr/R/internals-qqplot.R | 6 distr-2.7.0/distr/R/liesInSupport.R | 12 distr-2.7.0/distr/R/makeAbscontDistribution.R | 4 distr-2.7.0/distr/R/plot-methods.R | 8 distr-2.7.0/distr/R/plot-methods_LebDec.R | 16 distr-2.7.0/distr/R/qqbounds.R | 2 distr-2.7.0/distr/R/qqplot.R | 4 distr-2.7.0/distr/build |only distr-2.7.0/distr/inst/CITATION | 4 distr-2.7.0/distr/inst/MASKING | 2 distr-2.7.0/distr/inst/NEWS | 1754 +++++----- distr-2.7.0/distr/inst/TOBEDONE | 2 distr-2.7.0/distr/inst/doc/newDistributions-knitr.R |only distr-2.7.0/distr/inst/doc/newDistributions-knitr.Rnw |only distr-2.7.0/distr/inst/doc/newDistributions-knitr.pdf |only distr-2.7.0/distr/man/0distr-package.Rd | 16 distr-2.7.0/distr/man/AbscontDistribution-class.Rd | 1 distr-2.7.0/distr/man/AbscontDistribution.Rd | 2 distr-2.7.0/distr/man/Arcsine-class.Rd | 5 distr-2.7.0/distr/man/Beta-class.Rd | 1 distr-2.7.0/distr/man/Binom-class.Rd | 1 distr-2.7.0/distr/man/Cauchy-class.Rd | 1 distr-2.7.0/distr/man/Chisq-class.Rd | 1 distr-2.7.0/distr/man/DExp-class.Rd | 1 distr-2.7.0/distr/man/Dirac-class.Rd | 1 distr-2.7.0/distr/man/DiscreteDistribution-class.Rd | 1 distr-2.7.0/distr/man/Exp-class.Rd | 1 distr-2.7.0/distr/man/Fd-class.Rd | 1 distr-2.7.0/distr/man/Gammad-class.Rd | 1 distr-2.7.0/distr/man/Geom-class.Rd | 1 distr-2.7.0/distr/man/Hyper-class.Rd | 1 distr-2.7.0/distr/man/LatticeDistribution-class.Rd | 1 distr-2.7.0/distr/man/Lnorm-class.Rd | 1 distr-2.7.0/distr/man/Logis-class.Rd | 1 distr-2.7.0/distr/man/Nbinom-class.Rd | 1 distr-2.7.0/distr/man/Norm-class.Rd | 1 distr-2.7.0/distr/man/Pois-class.Rd | 1 distr-2.7.0/distr/man/Td-class.Rd | 1 distr-2.7.0/distr/man/Truncate-methods.Rd | 2 distr-2.7.0/distr/man/Unif-class.Rd | 1 distr-2.7.0/distr/man/UnivarLebDecDistribution-class.Rd | 1 distr-2.7.0/distr/man/Weibull-class.Rd | 1 distr-2.7.0/distr/man/internals.Rd | 2 distr-2.7.0/distr/man/q-methods.Rd | 1 distr-2.7.0/distr/tests/unitTests/runit.dontrunMinimum.save |binary distr-2.7.0/distr/tests/unitTests/runit.dontrunOperatorsMethods.save |binary distr-2.7.0/distr/tests/unitTests/runit.dontrunQQPlot1.save |binary distr-2.7.0/distr/tests/unitTests/runit.dontrunQQPlot2.save |binary distr-2.7.0/distr/tests/unitTests/runit.dontrunQQPlot3.save |binary distr-2.7.0/distr/vignettes/newDistributions-knitr.Rnw |only 73 files changed, 1286 insertions(+), 1196 deletions(-)
Title: Get Data Out of 'Tautulli' (Formerly 'PlexPy')
Description: 'Tautulli' (<http://tautulli.com>) is a monitoring application for 'Plex' Media Servers
(<https://www.plex.tv>) which collects a lot of data about media items and server
usage such as play counts. This package interacts with the 'Tautulli' API of any
specified server to get said data into R. The 'Tautulli' API documentation is available
at <https://github.com/Tautulli/Tautulli/blob/master/API.md>.
Author: Lukas Burk [aut, cre]
Maintainer: Lukas Burk <lukas@quantenbrot.de>
Diff between tauturri versions 0.1.1 dated 2018-02-26 and 0.3.0 dated 2018-07-11
DESCRIPTION | 10 - MD5 | 71 ++++++++----- NAMESPACE | 14 ++ NEWS.md | 20 +++ R/api_request.R | 48 +++++++- R/data.R | 4 R/get_history.R | 3 R/get_home_stats.R | 3 R/get_plays_by.R | 21 ++- R/get_recently_added.R | 9 + R/get_servers_info.R | 67 ++++++++++++ R/get_top10.R | 12 +- R/get_user.R | 129 ++++++++++++++++++++++-- R/pms.R |only R/search.R |only R/tautulli.R |only R/tauturri-package.R |only README.md | 93 ++++++++++------- man/api_request.Rd | 2 man/arnold.Rd |only man/figures/README-get_plays_by_date-1.png |binary man/figures/README-get_plays_by_dayofweek-1.png |binary man/figures/README-get_plays_by_hourofday-1.png |binary man/get_pms_update.Rd |only man/get_recently_added.Rd | 2 man/get_server_friendly_name.Rd |only man/get_server_id.Rd |only man/get_server_identity.Rd | 4 man/get_server_list.Rd | 4 man/get_servers_info.Rd | 4 man/get_user_ips.Rd |only man/get_user_logins.Rd |only man/get_users_table.Rd | 12 ++ man/search_server.Rd |only man/tauturri-package.Rd |only man/update_check.Rd |only man/update_tautulli.Rd |only man/words.Rd | 4 tests/testthat/test-api-interaction.R | 9 + tests/testthat/test-get_library.R | 6 - tests/testthat/test-get_user.R | 45 +++++++- tests/testthat/test-recently-added.R | 8 - tests/testthat/test-search.R |only tests/testthat/test-server-info.R | 15 ++ 44 files changed, 484 insertions(+), 135 deletions(-)
Title: Perceptual Analysis, Visualization and Organization of Spectral
Color Data in R
Description: A cohesive framework for parsing, analyzing and organizing color from spectral data.
Author: Rafael Maia [aut, cre],
Thomas White [aut],
Hugo Gruson [aut],
Chad Eliason [aut],
Pierre-Paul Bitton [aut]
Maintainer: Rafael Maia <rm72@zips.uakron.edu>
Diff between pavo versions 1.3.1 dated 2017-10-02 and 1.4.0 dated 2018-07-11
pavo-1.3.1/pavo/R/getspecf.R |only pavo-1.3.1/pavo/R/getspecf2.R |only pavo-1.3.1/pavo/man/getspecf.Rd |only pavo-1.3.1/pavo/man/getspecf2.Rd |only pavo-1.4.0/pavo/DESCRIPTION | 26 pavo-1.4.0/pavo/MD5 | 203 +- pavo-1.4.0/pavo/NAMESPACE | 4 pavo-1.4.0/pavo/NEWS.md | 82 - pavo-1.4.0/pavo/R/aggplot.R | 7 pavo-1.4.0/pavo/R/as.rspec.r | 237 +-- pavo-1.4.0/pavo/R/bootcoldist.R | 358 ++-- pavo-1.4.0/pavo/R/categorical.R | 185 +- pavo-1.4.0/pavo/R/catplot.R | 94 - pavo-1.4.0/pavo/R/cie.R | 160 +- pavo-1.4.0/pavo/R/cieplot.R | 289 ++- pavo-1.4.0/pavo/R/coc.R | 76 - pavo-1.4.0/pavo/R/cocplot.R | 10 pavo-1.4.0/pavo/R/coldist.R | 424 ++--- pavo-1.4.0/pavo/R/coldist2mat.R | 52 pavo-1.4.0/pavo/R/colspace.r | 138 - pavo-1.4.0/pavo/R/diplot.R | 78 - pavo-1.4.0/pavo/R/dispace.R | 153 +- pavo-1.4.0/pavo/R/explorespec.R | 10 pavo-1.4.0/pavo/R/getspec.R | 261 +-- pavo-1.4.0/pavo/R/hexagon.R | 178 +- pavo-1.4.0/pavo/R/hexplot.R | 162 +- pavo-1.4.0/pavo/R/internal.R | 386 +---- pavo-1.4.0/pavo/R/irrad2flux.R | 49 pavo-1.4.0/pavo/R/jnd2xyz.R | 415 ++--- pavo-1.4.0/pavo/R/jndplot.R | 421 ++--- pavo-1.4.0/pavo/R/jndrot.R | 4 pavo-1.4.0/pavo/R/merge.rspec.R | 22 pavo-1.4.0/pavo/R/parse_procspec.R |only pavo-1.4.0/pavo/R/pavo-deprecated.R | 18 pavo-1.4.0/pavo/R/pavo-package.R | 27 pavo-1.4.0/pavo/R/plotsmooth.R | 10 pavo-1.4.0/pavo/R/procspec.R | 226 +-- pavo-1.4.0/pavo/R/projplot.R | 12 pavo-1.4.0/pavo/R/segplot.R | 12 pavo-1.4.0/pavo/R/segspace.R | 2 pavo-1.4.0/pavo/R/sensdata.R | 3 pavo-1.4.0/pavo/R/spec2rgb.R | 60 pavo-1.4.0/pavo/R/subset.rspec.R | 88 - pavo-1.4.0/pavo/R/summary.colspace.R | 61 pavo-1.4.0/pavo/R/summary.rspec.R | 226 +-- pavo-1.4.0/pavo/R/summary.vismodel.R | 6 pavo-1.4.0/pavo/R/sysdata.rda |binary pavo-1.4.0/pavo/R/tcspace.R | 4 pavo-1.4.0/pavo/R/tcsplot.R | 24 pavo-1.4.0/pavo/R/tcspoints.R | 2 pavo-1.4.0/pavo/R/tcsvol.R | 2 pavo-1.4.0/pavo/R/tetraplot.R | 505 +++--- pavo-1.4.0/pavo/R/triplot.R | 110 - pavo-1.4.0/pavo/R/trispace.R | 177 +- pavo-1.4.0/pavo/R/vismodel.R | 826 +++++------ pavo-1.4.0/pavo/R/vol.R | 4 pavo-1.4.0/pavo/R/voloverlap.R | 322 ++-- pavo-1.4.0/pavo/README.md | 5 pavo-1.4.0/pavo/build/vignette.rds |binary pavo-1.4.0/pavo/inst/doc/pavo.R | 6 pavo-1.4.0/pavo/inst/doc/pavo.Rmd | 13 pavo-1.4.0/pavo/inst/doc/pavo.html | 285 ++- pavo-1.4.0/pavo/inst/testdata/OceanOptics_Linux.ProcSpec |only pavo-1.4.0/pavo/inst/testdata/OceanOptics_Windows.ProcSpec |only pavo-1.4.0/pavo/inst/testdata/OceanOptics_badencode.ProcSpec |only pavo-1.4.0/pavo/inst/testdata/avantes_export2.trt |only pavo-1.4.0/pavo/inst/testdata/avantes_export_long.ttt |only pavo-1.4.0/pavo/inst/testdata/flowers.csv |only pavo-1.4.0/pavo/inst/testdata/flowers.csv.zip |only pavo-1.4.0/pavo/man/as.rspec.Rd | 27 pavo-1.4.0/pavo/man/bootcoldist.Rd | 14 pavo-1.4.0/pavo/man/catplot.Rd | 4 pavo-1.4.0/pavo/man/cie.Rd | 24 pavo-1.4.0/pavo/man/cieplot.Rd | 12 pavo-1.4.0/pavo/man/coc.Rd | 4 pavo-1.4.0/pavo/man/coldist.Rd | 104 - pavo-1.4.0/pavo/man/coldist2mat.Rd | 6 pavo-1.4.0/pavo/man/colspace.Rd | 24 pavo-1.4.0/pavo/man/diplot.Rd | 4 pavo-1.4.0/pavo/man/dispace.Rd | 6 pavo-1.4.0/pavo/man/getspec.Rd | 23 pavo-1.4.0/pavo/man/hexagon.Rd | 12 pavo-1.4.0/pavo/man/hexplot.Rd | 16 pavo-1.4.0/pavo/man/irrad2flux.Rd | 11 pavo-1.4.0/pavo/man/jnd2xyz.Rd | 23 pavo-1.4.0/pavo/man/merge.rspec.Rd | 8 pavo-1.4.0/pavo/man/parse_procspec.Rd |only pavo-1.4.0/pavo/man/pavo-deprecated.Rd | 7 pavo-1.4.0/pavo/man/pavo-package.Rd | 43 pavo-1.4.0/pavo/man/procspec.Rd | 39 pavo-1.4.0/pavo/man/segspace.Rd | 1 pavo-1.4.0/pavo/man/sensdata.Rd | 12 pavo-1.4.0/pavo/man/spec2rgb.Rd | 2 pavo-1.4.0/pavo/man/subset.rspec.Rd | 16 pavo-1.4.0/pavo/man/summary.colspace.Rd | 24 pavo-1.4.0/pavo/man/summary.rspec.Rd | 48 pavo-1.4.0/pavo/man/tcsplot.Rd | 4 pavo-1.4.0/pavo/man/tetraplot.Rd | 16 pavo-1.4.0/pavo/man/triplot.Rd | 6 pavo-1.4.0/pavo/man/trispace.Rd | 12 pavo-1.4.0/pavo/man/vismodel.Rd | 92 - pavo-1.4.0/pavo/man/voloverlap.Rd | 41 pavo-1.4.0/pavo/tests/testthat/test-S3rspec.R |only pavo-1.4.0/pavo/tests/testthat/test-coldist.R | 10 pavo-1.4.0/pavo/tests/testthat/test-colspace.R | 46 pavo-1.4.0/pavo/tests/testthat/test-general.R | 14 pavo-1.4.0/pavo/tests/testthat/test-import.R | 31 pavo-1.4.0/pavo/tests/testthat/test-processing.R | 23 pavo-1.4.0/pavo/tests/testthat/test-voloverlap.R |only pavo-1.4.0/pavo/vignettes/pavo.Rmd | 13 110 files changed, 4292 insertions(+), 4050 deletions(-)
Title: Dirichlet Process Mixture Model Simulation for Clustering and
Image Segmentation
Description: The 'dpmixsim' package implements a Dirichlet Process Mixture (DPM)
model for clustering and image segmentation. The DPM model is
a Bayesian nonparametric methodology that relies on MCMC
simulations for exploring mixture models with an unknown number
of components. The code implements conjugate models with
normal structure (conjugate normal-normal DP mixture model).
The package's applications are oriented towards the
classification of magnetic resonance images according to tissue
type or region of interest.
Author: Adelino Ferreira da Silva <afs@fct.unl.pt>
Maintainer: Adelino Ferreira da Silva <afs@fct.unl.pt>
Diff between dpmixsim versions 0.0-8 dated 2012-07-25 and 0.0-9 dated 2018-07-11
dpmixsim-0.0-8/dpmixsim/src/RCS |only dpmixsim-0.0-9/dpmixsim/DESCRIPTION | 15 ++++++----- dpmixsim-0.0-9/dpmixsim/MD5 | 10 +++---- dpmixsim-0.0-9/dpmixsim/NAMESPACE | 22 +++++++++++++++-- dpmixsim-0.0-9/dpmixsim/NEWS | 4 +++ dpmixsim-0.0-9/dpmixsim/src/gibbsclustersamplealpha.cc | 4 +-- dpmixsim-0.0-9/dpmixsim/src/registerDynamicSymbol.c |only 7 files changed, 39 insertions(+), 16 deletions(-)
Title: Bayesian Multilevel Mediation
Description: Easy estimation of Bayesian multilevel mediation models with Stan.
Author: Matti Vuorre [aut, cre] (<https://orcid.org/0000-0001-5052-066X>)
Maintainer: Matti Vuorre <mv2521@columbia.edu>
Diff between bmlm versions 1.3.6 dated 2018-06-07 and 1.3.7 dated 2018-07-11
bmlm-1.3.6/bmlm/man/tab2doc.Rd |only bmlm-1.3.7/bmlm/DESCRIPTION | 10 ++++----- bmlm-1.3.7/bmlm/MD5 | 9 +++----- bmlm-1.3.7/bmlm/NAMESPACE | 1 bmlm-1.3.7/bmlm/NEWS.md | 6 ++++- bmlm-1.3.7/bmlm/R/utils.R | 43 ----------------------------------------- 6 files changed, 14 insertions(+), 55 deletions(-)
Title: Analysis of Data with Mixed Measurement Error and
Misclassification in Covariates
Description: Implementation of the augmented
Simulation-Extrapolation (SIMEX) algorithm proposed by Yi et al. (2015) <doi:10.1080/01621459.2014.922777>
for analyzing the data with mixed measurement error and misclassification. The main
function provides a similar summary output as that of glm() function. Both parametric and
empirical SIMEX are considered in the package.
Author: Qihuang Zhang <qihuang.zhang@uwaterloo.ca>, Grace Y. Yi <yyi@uwaterloo.ca>
Maintainer: Qihuang Zhang <qihuang.zhang@uwaterloo.ca>
Diff between augSIMEX versions 2.0 dated 2018-05-13 and 2.1 dated 2018-07-11
DESCRIPTION | 8 ++-- MD5 | 14 ++++---- R/SIMEX_functions.R | 75 +++++++++----------------------------------- R/augSIMEX.R | 17 +++++---- R/print.augSIMEX.R | 21 ------------ man/augSIMEX.Rd | 41 ++++++++++++++---------- man/plotaugSIMEX.Rd | 4 +- src/scoremodifiedglmcpp.cpp | 8 ++-- 8 files changed, 68 insertions(+), 120 deletions(-)
Title: Plotting ggplot2 Graphics in an XKCD Style
Description: Plotting ggplot2 graphs using the XKCD style.
Author: Emilio Torres-Manzanera
Maintainer: Emilio Torres-Manzanera <torres@uniovi.es>
Diff between xkcd versions 0.0.5 dated 2016-01-13 and 0.0.6 dated 2018-07-11
xkcd-0.0.5/xkcd/R/xkcd-package.R |only xkcd-0.0.6/xkcd/DESCRIPTION | 11 xkcd-0.0.6/xkcd/MD5 | 49 +- xkcd-0.0.6/xkcd/NAMESPACE | 2 xkcd-0.0.6/xkcd/NEWS | 14 xkcd-0.0.6/xkcd/R/theme_xkcd.R | 9 xkcd-0.0.6/xkcd/R/xkcdaxis.R | 301 +++++++++--------- xkcd-0.0.6/xkcd/R/xkcdline.R | 192 +++++------ xkcd-0.0.6/xkcd/R/xkcdman.R | 134 ++++---- xkcd-0.0.6/xkcd/R/xkcdrect.R | 137 ++++---- xkcd-0.0.6/xkcd/build/partial.rdb |only xkcd-0.0.6/xkcd/build/vignette.rds |binary xkcd-0.0.6/xkcd/inst/doc/xkcd-intro.pdf |binary xkcd-0.0.6/xkcd/man/theme_xkcd.Rd | 5 xkcd-0.0.6/xkcd/man/xkcd-package.Rd | 35 -- xkcd-0.0.6/xkcd/man/xkcdaxis.Rd | 5 xkcd-0.0.6/xkcd/man/xkcdline.Rd | 7 xkcd-0.0.6/xkcd/man/xkcdman.Rd | 9 xkcd-0.0.6/xkcd/man/xkcdrect.Rd | 3 xkcd-0.0.6/xkcd/vignettes/xkcd-intro-008.png |only xkcd-0.0.6/xkcd/vignettes/xkcd-intro-011.png |only xkcd-0.0.6/xkcd/vignettes/xkcd-intro-012.png |only xkcd-0.0.6/xkcd/vignettes/xkcd-intro-015.png |only xkcd-0.0.6/xkcd/vignettes/xkcd-intro-016.png |only xkcd-0.0.6/xkcd/vignettes/xkcd-intro-017.png |only xkcd-0.0.6/xkcd/vignettes/xkcd-intro-018.png |only xkcd-0.0.6/xkcd/vignettes/xkcd-intro-021.png |only xkcd-0.0.6/xkcd/vignettes/xkcd-intro-022.png |only xkcd-0.0.6/xkcd/vignettes/xkcd-intro-CaritasSpain.png |only xkcd-0.0.6/xkcd/vignettes/xkcd-intro-angles.png |only xkcd-0.0.6/xkcd/vignettes/xkcd-intro-facetcity.png |only xkcd-0.0.6/xkcd/vignettes/xkcd-intro-facetvs.png |only xkcd-0.0.6/xkcd/vignettes/xkcd-intro-motherday.png |only xkcd-0.0.6/xkcd/vignettes/xkcd-intro-twoman.png |only 34 files changed, 488 insertions(+), 425 deletions(-)
Title: Wraps 'libnabo', a Fast K Nearest Neighbour Library for Low
Dimensions
Description: An R wrapper for 'libnabo', an exact or approximate k nearest
neighbour library which is optimised for low dimensional spaces (e.g. 3D).
'libnabo' has speed and space advantages over the 'ANN' library wrapped by
package 'RANN'. 'nabor' includes a knn function that is designed as a
drop-in replacement for 'RANN' function nn2. In addition, objects which
include the k-d tree search structure can be returned to speed up repeated
queries of the same set of target points.
Author: Stephane Mangenat (for 'libnabo'), Gregory Jefferis
Maintainer: Gregory Jefferis <jefferis@gmail.com>
Diff between nabor versions 0.4.7 dated 2017-05-20 and 0.5.0 dated 2018-07-11
nabor-0.4.7/nabor/NEWS |only nabor-0.5.0/nabor/DESCRIPTION | 6 +-- nabor-0.5.0/nabor/MD5 | 28 +++++++------- nabor-0.5.0/nabor/NEWS.md |only nabor-0.5.0/nabor/R/RcppExports.R | 4 +- nabor-0.5.0/nabor/R/WKNNClasses.R | 12 +++--- nabor-0.5.0/nabor/R/knn.R | 27 +++++++++++-- nabor-0.5.0/nabor/man/WKNN-class.Rd | 12 +++--- nabor-0.5.0/nabor/man/knn.Rd | 21 +++++++++- nabor-0.5.0/nabor/src/RcppExports.cpp | 7 ++- nabor-0.5.0/nabor/src/WKNN.cpp | 25 +++++++++--- nabor-0.5.0/nabor/src/WKNN.h | 6 +-- nabor-0.5.0/nabor/src/index_heap.h | 4 +- nabor-0.5.0/nabor/src/nabor.cpp | 5 +- nabor-0.5.0/nabor/tests/testthat/test-WKNND.R | 52 +++++++++++++++----------- nabor-0.5.0/nabor/tests/testthat/test-WKNNF.R | 38 +++++++++---------- 16 files changed, 155 insertions(+), 92 deletions(-)
Title: Treatment Effects with Multiple Periods and Groups
Description: The standard Difference-in-Differences (DID) setup involves two periods and two groups -- a treated group and untreated group. Many applications of DID methods involve more than two periods and have individuals that are treated at different points in time. This package contains tools for computing average treatment effect parameters in Difference in Differences models with more than two periods and with variation in treatment timing using the methods developed in Callaway and Sant'Anna (2018) <https://ssrn.com/abstract=3148250>. The main parameters are group-time average treatment effects which are the average treatment effect for a particular group at a a particular time. These can be aggregated into a fewer number of treatment effect parameters, and the package deals with the cases where there is selective treatment timing, dynamic treatment effects, calendar time effects, or combinations of these. There are also functions for testing the Difference in Differences assumption, and plotting group-time average treatment effects.
Author: Brantly Callaway [aut, cre],
Pedro H.C. Sant'Anna [aut]
Maintainer: Brantly Callaway <brantly.callaway@temple.edu>
Diff between did versions 1.0.0 dated 2018-04-03 and 1.1.0 dated 2018-07-11
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/did.R | 26 +++++++++++++++++++++++--- man/mp.spatt.Rd | 15 ++++++++++++--- 5 files changed, 46 insertions(+), 13 deletions(-)
Title: Making Optimal Matching Size-Scalable Using Optimal Calipers
Description: Implements optimal matching with near-fine balance in large observational studies with the use of optimal calipers to get a sparse network. The caliper is optimal in the sense that it is as small as possible such that a matching exists. The main functions in the 'bigmatch' package are optcal() to find the optimal caliper, optconstant() to find the optimal number of nearest neighbors and nfmatch() to find a near-fine balance match with a caliper and a restriction on number of nearest neighbors.
Glover, F. (1967). <DOI:10.1002/nav.3800140304>.
Lipski, W., Jr, and Preparata, F. P. (1981). <DOI:10.1007/BF00264533>.
Rosenbaum, P.R. (1989). <DOI:10.1080/01621459.1989.10478868>.
Yang, D., Small, D. S., Silber, J. H., and Rosenbaum, P. R. (2012). <DOI:10.1111/j.1541-0420.2011.01691.x>.
Author: Ruoqi Yu
Maintainer: Ruoqi Yu <ruoqiyu@wharton.upenn.edu>
Diff between bigmatch versions 0.2.1 dated 2018-06-24 and 0.3.1 dated 2018-07-11
DESCRIPTION | 8 ++--- MD5 | 34 ++++++++++++------------ R/findexact.R | 4 +- R/glover.R | 7 ++--- R/nfmatch.R | 25 +++++++++++++++--- R/optcal.R | 20 +++++++++++++- R/optconstant.R | 73 ++++++++++++++++++++++++++++++++++++++++++----------- R/smahal.R | 43 +++++++++++++++++++++++++++++-- man/check.Rd | 11 +++---- man/findexact.Rd | 14 +++++----- man/glover.Rd | 22 ++++++--------- man/nearfine.Rd | 31 ++++++++-------------- man/netfine.Rd | 14 ++++------ man/nfmatch.Rd | 18 +++++++------ man/nh0506.Rd | 64 +++++++++++++++++++++++----------------------- man/optcal.Rd | 14 +++++----- man/optconstant.Rd | 21 ++++++++------- man/smahal.Rd | 34 +++++++++--------------- 18 files changed, 276 insertions(+), 181 deletions(-)
Title: Leveraging Learning to Automatically Manage Algorithms
Description: Provides functionality to train and evaluate algorithm selection models for portfolios.
Author: Lars Kotthoff [aut,cre],
Bernd Bischl [aut],
Barry Hurley [ctb],
Talal Rahwan [ctb]
Maintainer: Lars Kotthoff <larsko@cs.ubc.ca>
Diff between llama versions 0.9.1 dated 2015-12-05 and 0.9.2 dated 2018-07-11
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NAMESPACE | 6 +++--- NEWS | 3 +++ R/classifyPairs.R | 19 ++++++++++++------- R/helpers.R | 2 +- man/classifyPairs.Rd | 4 ++-- tests/testthat/helper_testData.R | 19 ++++++++++++++++--- tests/testthat/test.classifyPairs.R | 25 +++++++++++++++++++++---- tests/testthat/test.regressionPairs.R | 17 +++++++++++++++++ 10 files changed, 88 insertions(+), 33 deletions(-)
Title: Produce Descriptive and Comparative Tables Easily
Description: Easily create descriptive and comparative tables.
It makes use and integrates directly with the tidyverse family of packages, and pipes.
Tables are produced as data frames/lists of data frames for easy manipulation after creation,
and ready to be saved as csv, or piped to DT::datatable() or pander::pander() to integrate into reports.
Author: Maxime Wack [aut, cre]
Maintainer: Maxime Wack <maximewack@free.fr>
Diff between desctable versions 0.1.2 dated 2018-05-27 and 0.1.3 dated 2018-07-11
DESCRIPTION | 6 MD5 | 25 NEWS |only R/build.R | 8 R/convenience_functions.R | 15 R/imports.R | 1 R/output.R | 5 R/stats.R | 44 R/tests.R | 6 R/utils.R | 15 README.md | 2447 +++++++--------------------------------------- build/vignette.rds |binary inst/doc/desctable.html | 171 +-- man/stats_default.Rd | 6 14 files changed, 590 insertions(+), 2159 deletions(-)
Title: Meta-Analysis of Studies with Non Statistically-Significant
Unreported Effects
Description: Novel method to unbiasedly include studies with Non Statistically-Significant Unreported Effects (NSUEs) in a meta-analysis <doi:10.1001/jamapsychiatry.2015.2196>. Briefly, the method first calculates the interval where the unreported effects (e.g. t-values) should be according to the threshold of statistical significance used in each study. Afterwards, maximum likelihood techniques are used to impute the expected effect size of each study with NSUEs, accounting for between-study heterogeneity and potential covariates. Multiple imputations of the NSUEs are then randomly created based on the expected value, variance and statistical significance bounds. Finally, a restricted-maximum likelihood random-effects meta-analysis is separately conducted for each set of imputations, and estimations from these meta-analyses are pooled. Please read the reference in 'metansue' for details of the procedure.
Author: Joaquim Radua
Maintainer: Joaquim Radua <jradua@fidmag.com>
Diff between metansue versions 2.1 dated 2018-03-13 and 2.2 dated 2018-07-11
metansue-2.1/metansue/man/smc_from_t.Rd |only metansue-2.2/metansue/DESCRIPTION | 8 metansue-2.2/metansue/MD5 | 18 metansue-2.2/metansue/NAMESPACE | 29 metansue-2.2/metansue/NEWS | 14 metansue-2.2/metansue/R/source.R | 1128 ++++++++++---------------------- metansue-2.2/metansue/inst/CITATION | 51 - metansue-2.2/metansue/man/forest.Rd | 3 metansue-2.2/metansue/man/leave1out.Rd | 9 metansue-2.2/metansue/man/meta.Rd | 23 metansue-2.2/metansue/man/nsue.Rd |only 11 files changed, 461 insertions(+), 822 deletions(-)
Title: Twitter Collector for R and Export to 'SQLite', 'postGIS' and
'GIS' Format
Description: This is an improved implementation of the package 'StreamR' to
capture tweets and store it into R, SQLite, 'postGIS' data base or GIS format. The package
performs a description of harvested data and performs space time exploratory analysis.
Author: Pau Aragó, Pablo Juan, Jeroen Staab.
Maintainer: Pau Aragó <parago@uji.es>
Diff between tweet2r versions 1.0 dated 2016-06-15 and 1.1 dated 2018-07-11
ChangeLog | 59 ++++--- DESCRIPTION | 14 - LICENSE |only MD5 | 62 ++++--- NAMESPACE | 58 +++---- R/t2DataFrame.R | 65 +++----- R/t2STIDF.R | 58 +++---- R/t2SpatialPointDataFrame.R | 46 ++--- R/t2gis.R | 152 +++++++++---------- R/t2pgis.R | 119 +++++++------- R/t2sqlite.R | 124 +++++++-------- R/t2summary.R | 166 ++++++++++---------- R/tglm.R | 310 +++++++++++++++++++------------------- R/theatmap.R | 68 ++++---- R/tspan.R | 146 +++++++++--------- R/tsubset.R | 96 ++++++------ R/tweet2r.R | 328 ++++++++++++++++++++--------------------- R/valjson.R | 79 ++++----- README.md |only man/t2DataFrame.Rd | 102 ++++++------ man/t2STIDF.Rd | 88 +++++------ man/t2SpatialPointDataFrame.Rd | 98 ++++++------ man/t2gis.Rd | 102 ++++++------ man/t2pgis.Rd | 94 ++++++----- man/t2sqlite.Rd | 102 ++++++------ man/t2summary.Rd | 114 +++++++------- man/tglm.Rd | 86 +++++----- man/theatmap.Rd | 86 +++++----- man/tspan.Rd | 138 ++++++++--------- man/tsubset.Rd | 70 ++++---- man/tweet2r-package.Rd | 38 ++-- man/tweet2r.Rd | 158 +++++++++---------- man/valjson.Rd | 76 +++++---- 33 files changed, 1662 insertions(+), 1640 deletions(-)
Title: Bayesian Cost Effectiveness Analysis
Description: Produces an economic evaluation of a Bayesian model in the form of MCMC simulations. Given suitable variables of cost and effectiveness / utility for two or more interventions, This package computes the most cost-effective alternative and produces graphical summaries and probabilistic sensitivity analysis.
Author: Gianluca Baio, Andrea Berardi, Anna Heath
Maintainer: Gianluca Baio <gianluca@stats.ucl.ac.uk>
Diff between BCEA versions 2.2-5 dated 2016-11-18 and 2.2-6 dated 2018-07-11
DESCRIPTION | 14 MD5 | 70 NAMESPACE | 35 R/BCEA-package.R |only R/BCEAweb.R |only R/CEriskav.R |only R/CEriskav.default.R |only R/CreateInputs.R |only R/bcea.R | 4180 +++------------------------------------------------ R/bcea.default.R |only R/ceac.plot.R |only R/ceaf.plot.R |only R/ceef.plot.R |only R/ceplane.plot.R |only R/contour.bcea.R |only R/contour2.R |only R/diag.evppi.R |only R/eib.plot.R |only R/evi.plot.R |only R/evppi.R |only R/evppi.default.R |only R/ib.plot.R |only R/info.rank.R |only R/mce.plot.R |only R/mixedAn.R |only R/mixedAn.default.R |only R/multi.ce.R |only R/plot.CEriskav.R |only R/plot.bcea.R |only R/plot.evppi.R |only R/plot.mixedAn.R |only R/sim.table.R |only R/struct.psa.R |only R/summary.bcea.R |only R/summary.mixedAn.R |only R/zzz.R |only inst |only man/BCEA-package.Rd | 4 man/BCEAweb.Rd |only man/CreateInputs.Rd | 18 man/evppi.Rd | 349 ++-- man/mce.plot.Rd | 9 42 files changed, 560 insertions(+), 4119 deletions(-)
Title: A Rules Engine Based on 'Drools'
Description: An interface for using the popular Java based Drools, which is a Business Rule Management System (See <https://www.drools.org> for more information). This package provides data scientists an intuitive interface to execute business rules on datasets for the purpose of analysis or designing intelligent systems, while leveraging the Drools rule engine. Rules can be defined in a simple format in a CSV, imported into the R Session as a data frame, and passed directly to the rule-checking functions. Rules written in DRL format, accepted natively by Drools, can also be executed through an R interface. Credits to Mu Sigma for their continued support throughout the development of the package.
Author: Dheekshitha PS [aut],
Naren Srinivasan [cre, aut],
Mayukh Bose [aut],
Ashwin Raaghav [aut],
SMS Chauhan [aut],
Zubin Dowlaty [aut],
Arushi Khattri [aut]
Maintainer: Naren Srinivasan <Naren.Srinivasan@mu-sigma.com>
Diff between Rdrools versions 1.0.3 dated 2018-02-28 and 1.1.0 dated 2018-07-11
Rdrools-1.0.3/Rdrools/inst/java/drools-1.0.2.jar |only Rdrools-1.0.3/Rdrools/inst/java/drools-1.0.3.jar |only Rdrools-1.0.3/Rdrools/man/Rdrools-internal.Rd |only Rdrools-1.0.3/Rdrools/man/Rdrools-package.Rd |only Rdrools-1.0.3/Rdrools/man/rulesSession.Rd |only Rdrools-1.0.3/Rdrools/man/runRules.Rd |only Rdrools-1.1.0/Rdrools/DESCRIPTION | 31 Rdrools-1.1.0/Rdrools/MD5 | 48 - Rdrools-1.1.0/Rdrools/NAMESPACE | 11 Rdrools-1.1.0/Rdrools/R/Rdrools.R | 689 ++++++++++++++- Rdrools-1.1.0/Rdrools/R/Rdrools_package.R |only Rdrools-1.1.0/Rdrools/R/data.R |only Rdrools-1.1.0/Rdrools/R/sysdata.rda |only Rdrools-1.1.0/Rdrools/build |only Rdrools-1.1.0/Rdrools/data/class.rda |binary Rdrools-1.1.0/Rdrools/data/irisRules.rda |only Rdrools-1.1.0/Rdrools/data/rules.rda |binary Rdrools-1.1.0/Rdrools/data/transactionData.rda |only Rdrools-1.1.0/Rdrools/data/transactionRules.rda |only Rdrools-1.1.0/Rdrools/inst/doc |only Rdrools-1.1.0/Rdrools/inst/java/drools-1.1.0.jar |only Rdrools-1.1.0/Rdrools/man/Rdrools.Rd |only Rdrools-1.1.0/Rdrools/man/changecolnamesInRules.Rd |only Rdrools-1.1.0/Rdrools/man/class.Rd | 36 Rdrools-1.1.0/Rdrools/man/executeRulesOnDataset.Rd |only Rdrools-1.1.0/Rdrools/man/formatOutput.Rd |only Rdrools-1.1.0/Rdrools/man/getConditionForMultiGroupBy.Rd |only Rdrools-1.1.0/Rdrools/man/getDrlForFilterRules.Rd |only Rdrools-1.1.0/Rdrools/man/getDrlForRowwiseRules.Rd |only Rdrools-1.1.0/Rdrools/man/getrequiredColumns.Rd |only Rdrools-1.1.0/Rdrools/man/irisRules.Rd |only Rdrools-1.1.0/Rdrools/man/ruleToCompareColumns.Rd |only Rdrools-1.1.0/Rdrools/man/rules.Rd | 25 Rdrools-1.1.0/Rdrools/man/rulesSessionDrl.Rd |only Rdrools-1.1.0/Rdrools/man/runRulesDrl.Rd |only Rdrools-1.1.0/Rdrools/man/transactionData.Rd |only Rdrools-1.1.0/Rdrools/man/transactionRules.Rd |only Rdrools-1.1.0/Rdrools/tests |only Rdrools-1.1.0/Rdrools/vignettes |only 39 files changed, 760 insertions(+), 80 deletions(-)
Title: Imputation of Time Series Based on Dynamic Time Warping
Description: Functions to impute large gaps within time series based on Dynamic Time Warping methods. It contains all required functions to create large missing consecutive values within time series and to fill them, according to the paper Phan et al. (2017), <DOI:10.1016/j.patrec.2017.08.019>. Performance criteria are added to compare similarity between two signals (query and reference).
Author: Camille Dezecache, T. T. Hong Phan, Emilie Poisson-Caillault
Maintainer: Emilie Poisson-Caillault <emilie.poisson@univ-littoral.fr>
Diff between DTWBI versions 1.0 dated 2018-05-29 and 1.1 dated 2018-07-11
DTWBI-1.0/DTWBI/R/3_3Find_global_threshold_univariate_AFBDTW.R |only DTWBI-1.1/DTWBI/DESCRIPTION | 12 DTWBI-1.1/DTWBI/MD5 | 61 ++-- DTWBI-1.1/DTWBI/R/1_1Similarity.R | 2 DTWBI-1.1/DTWBI/R/1_2NMAE.R | 2 DTWBI-1.1/DTWBI/R/1_4RMSE.R | 2 DTWBI-1.1/DTWBI/R/1_5FSD.R | 2 DTWBI-1.1/DTWBI/R/1_6FB.R | 2 DTWBI-1.1/DTWBI/R/1_7FA2.R | 2 DTWBI-1.1/DTWBI/R/2_1DDTW.R | 2 DTWBI-1.1/DTWBI/R/2_2AFBDTW.R | 2 DTWBI-1.1/DTWBI/R/2_3DTWcost.R | 2 DTWBI-1.1/DTWBI/R/3_1Create_large_gaps.R | 5 DTWBI-1.1/DTWBI/R/3_2Estimate_global_features.R | 5 DTWBI-1.1/DTWBI/R/3_3Find_global_threshold_univariate.R | 70 ++--- DTWBI-1.1/DTWBI/R/3_4Find_similar_windows_univariate.R | 72 +---- DTWBI-1.1/DTWBI/R/3_4Find_similar_windows_univariate_AFBDTW.R | 75 +---- DTWBI-1.1/DTWBI/R/3_5DTWBI_algorithm_simple_univariate.R | 133 ++++------ DTWBI-1.1/DTWBI/build/partial.rdb |binary DTWBI-1.1/DTWBI/data/dataDTWBI.rda |binary DTWBI-1.1/DTWBI/man/DTWBI-package.Rd | 7 DTWBI-1.1/DTWBI/man/DTWBI_univariate.Rd | 24 - DTWBI-1.1/DTWBI/man/compute.fa2.Rd | 2 DTWBI-1.1/DTWBI/man/compute.fb.Rd | 2 DTWBI-1.1/DTWBI/man/compute.fsd.Rd | 2 DTWBI-1.1/DTWBI/man/compute.nmae.Rd | 2 DTWBI-1.1/DTWBI/man/compute.rmse.Rd | 2 DTWBI-1.1/DTWBI/man/compute.sim.Rd | 2 DTWBI-1.1/DTWBI/man/dist_afbdtw.Rd | 2 DTWBI-1.1/DTWBI/man/gapCreation.Rd | 2 DTWBI-1.1/DTWBI/man/local.derivative.ddtw.Rd | 2 DTWBI-1.1/DTWBI/man/minCost.Rd | 2 32 files changed, 196 insertions(+), 306 deletions(-)
Title: Gaussian Mixture Models (GMM)
Description: Multimodal distributions can be modelled as a mixture of components. The model is derived using the Pareto Density Estimation (PDE) for an estimation of the pdf. PDE has been designed in particular to identify groups/classes in a dataset. Precise limits for the classes can be calculated using the theorem of Bayes. Verification of the model is possible by QQ plot, Chi-squared test and Kolmogorov-Smirnov test. The package is based on the publication of Ultsch, A., Thrun, M.C., Hansen-Goos, O., Lotsch, J. (2015) <DOI:10.3390/ijms161025897>.
Author: Michael Thrun, Onno Hansen-Goos, Rabea Griese, Catharina Lippmann, Florian Lerch, Jorn Lotsch, Alfred Ultsch
Maintainer: Florian Lerch <lerch@mathematik.uni-marburg.de>
Diff between AdaptGauss versions 1.3.3 dated 2017-03-15 and 1.3.5 dated 2018-07-11
DESCRIPTION | 10 +++++----- MD5 | 4 ++-- NAMESPACE | 2 +- 3 files changed, 8 insertions(+), 8 deletions(-)
Title: Visualising Bipartite Networks and Calculating Some (Ecological)
Indices
Description: Functions to visualise webs and calculate a series of indices commonly used to describe pattern in (ecological) webs. It focuses on webs consisting of only two levels (bipartite), e.g. pollination webs or predator-prey-webs. Visualisation is important to get an idea of what we are actually looking at, while the indices summarise different aspects of the web's topology.
Author: Carsten F. Dormann, Jochen Fruend and Bernd Gruber, with additional code from Stephen Beckett, Mariano Devoto, Jose Iriondo, Rouven Strauss and Diego Vazquez, also based on C-code developed by Nils Bluethgen, Aaron Clauset/Rouven Strauss and Miguel Rodriguez-Girones
Maintainer: Carsten F. Dormann <carsten.dormann@biom.uni-freiburg.de>
Diff between bipartite versions 2.08 dated 2017-03-31 and 2.11 dated 2018-07-11
DESCRIPTION | 14 MD5 | 50 - NAMESPACE | 4 R/ND.r | 15 R/computeModules.R | 31 R/metaComputeModules.R | 2 R/modulesLPA.R | 24 R/nested.r | 6 R/networklevel.R | 1394 +++++++++++++++++++-------------------- R/nullmodel.r | 7 data/olito2015.rda |only inst/doc/Dormann2008Rnews.pdf |binary man/H2fun.Rd | 1 man/ND.rd | 6 man/bipartite-package.Rd | 25 man/computeModules.Rd | 33 man/discrepancy.Rd | 2 man/listModuleInformation.Rd | 2 man/modulesLPA.Rd | 16 man/nested.Rd | 2 man/networklevel.Rd | 468 ++++++------- man/olito2015.Rd |only man/plotModuleWeb.Rd | 2 man/plotweb.Rd | 2 man/plotweb2.rd | 4 man/printoutModuleInformation.Rd | 2 src/MersenneTwister.h | 44 - 27 files changed, 1104 insertions(+), 1052 deletions(-)
Title: Estimating Hidden Population Size using Respondent Driven
Sampling Data
Description: Estimate the size of a networked population based on
respondent-driven sampling data. The package is part of the "RDS Analyst"
suite of packages for the analysis of respondent-driven sampling data.
See Handcock, Gile and Mar (2014) <doi:10.1214/14-EJS923> and
Handcock, Gile and Mar (2015) <doi:10.1111/biom.12255>.
Author: Mark S. Handcock [aut, cre, cph],
Krista J. Gile [aut, cph]
Maintainer: Mark S. Handcock <handcock@stat.ucla.edu>
Diff between sspse versions 0.5-5 dated 2017-11-21 and 0.5-6 dated 2018-07-11
DESCRIPTION | 8 ++++---- MD5 | 14 ++++++++------ R/plot.sspse.R | 5 +++-- R/poscmp.R | 43 ++++++++++++++++++++++++++++++++++++++++--- R/posteriorsize.R | 48 ++++++++++++++++++++++++++++++++++++------------ man/plot.sspse.Rd | 4 +++- man/posteriorsize.Rd | 31 +++++++++++++++++++++---------- src/posteriorcmp2.c |only src/posteriorcmp2.h |only 9 files changed, 115 insertions(+), 38 deletions(-)
Title: The Pharmacokinetics (PK) of Multi-Component Drugs Using a
Metabolomics Approach
Description: Poly-PK strategy is a new strategy of pharmacokinetic analysis of multi-component drugs (Guoxiang Xie, Tianlu Chen, Wei Jia, et al. (2012)<doi:10.1021/pr300318m>; Ke Lan, Guoxiang Xie and Wei Jia. (2013)<doi:10.1155/2013/819147>). This package is the first implementation of the Poly-PK strategy with 10 easy-to-use functions.
Author: Mengci Li, Shouli Wang, Guoxiang Xie, Tianlu Chen and Wei Jia
Maintainer: Tianlu Chen <chentianlu@sjtu.edu.cn>
Diff between polyPK versions 3.0.0 dated 2017-12-18 and 3.1.0 dated 2018-07-11
DESCRIPTION | 8 - MD5 | 8 - NEWS | 8 + R/GetDiffData.R | 32 +--- inst/doc/my-vignette.html | 356 +++++++++++++++++++++++----------------------- 5 files changed, 204 insertions(+), 208 deletions(-)
Title: R Interface to the 'Protocol Buffers' 'API' (Version 2 or 3)
Description: Protocol Buffers are a way of encoding structured data in an
efficient yet extensible format. Google uses Protocol Buffers for almost all
of its internal 'RPC' protocols and file formats. Additional documentation
is available in two included vignettes one of which corresponds to our 'JSS'
paper (2016, <doi:10.18637/jss.v071.i02>. Either version 2 or 3 of the
'Protocol Buffers' 'API' is supported.
Author: Romain Francois, Dirk Eddelbuettel, Murray Stokely and Jeroen Ooms
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RProtoBuf versions 0.4.11 dated 2017-10-03 and 0.4.12 dated 2018-07-11
ChangeLog | 61 +++++++++ DESCRIPTION | 8 - MD5 | 67 +++++----- NAMESPACE | 2 R/internals.R | 58 +++++++++ R/rexp_obj.R | 9 + R/zzz.R | 3 build/vignette.rds |binary inst/NEWS.Rd | 18 ++ inst/doc/RProtoBuf-intro.pdf |binary inst/doc/RProtoBuf-paper.R | 10 - inst/doc/RProtoBuf-paper.Rnw | 8 - inst/doc/RProtoBuf-paper.pdf |binary inst/doc/RProtoBuf-quickref.pdf |binary inst/doc/RProtoBuf-unitTests.pdf |binary inst/unitTests/data/cyclical |only inst/unitTests/data/recursive |only inst/unitTests/data/subdir |only inst/unitTests/data/unittest.proto | 3 inst/unitTests/runit.golden.message.R | 219 +++++++++++++++++----------------- inst/unitTests/runit.import.R | 54 ++++++++ inst/unitTests/runit.serialize.R | 119 +++++++++--------- inst/unitTests/runit.serialize_pb.R | 71 ++++++----- man/readProtoFiles.Rd | 53 ++++---- src/DescriptorPoolLookup.cpp | 20 ++- src/DescriptorPoolLookup.h | 4 src/Makevars.win | 6 src/RSourceTree.cpp | 1 src/RSourceTree.h | 1 src/init.c | 6 src/rprotobuf.cpp | 10 + src/wrapper_Message.cpp | 2 tools/winlibs.R | 6 vignettes/RProtoBuf-paper.Rnw | 8 - vignettes/figures/fig-SER.pdf |binary 35 files changed, 541 insertions(+), 286 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2010-11-08 0.2
2010-06-04 0.1
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 0.2.2 dated 2018-07-04 and 0.3.0 dated 2018-07-11
DESCRIPTION | 14 MD5 | 33 R/data.R | 8 R/misc_functions.R | 29 R/plot_functions.R | 8 build/vignette.rds |binary inst/doc/introduction.R | 38 inst/doc/introduction.Rmd | 42 inst/doc/introduction.html | 1546 ++++++----- inst/doc/regression.R | 130 inst/doc/regression.Rmd | 155 - inst/doc/regression.html | 2520 ++++++++++-------- inst/rmarkdown/templates/report/skeleton/skeleton.Rmd | 14 man/Thall.Rd | 8 man/pseudo_r2.Rd |only man/xymultiple.Rd | 6 vignettes/introduction.Rmd | 42 vignettes/regression.Rmd | 155 - 18 files changed, 2647 insertions(+), 2101 deletions(-)
Title: Tidy Statistical Inference
Description: The objective of this package is to perform inference using an expressive statistical grammar that coheres with the tidy design framework.
Author: Andrew Bray [aut, cre],
Chester Ismay [aut],
Ben Baumer [aut],
Mine Cetinkaya-Rundel [aut],
Ted Laderas [ctb],
Nick Solomon [ctb],
Johanna Hardin [ctb],
Albert Kim [ctb],
Neal Fultz [ctb],
Doug Friedman [ctb],
Richie Cotton [ctb]
Maintainer: Andrew Bray <abray@reed.edu>
Diff between infer versions 0.2.0 dated 2018-05-14 and 0.3.0 dated 2018-07-11
DESCRIPTION | 12 MD5 | 95 +++---- NAMESPACE | 5 R/calculate.R | 472 +++++++++++++++++++---------------- R/conf_int.R |only R/generate.R | 109 ++------ R/hypothesize.R | 102 +------ R/infer.R | 3 R/p_value.R |only R/pipe.R | 4 R/set_params.R | 28 +- R/specify.R | 43 +-- R/utils.R |only R/visualize.R | 371 ++++++++++++++++++--------- R/wrappers.R | 102 ++++++- build/vignette.rds |binary inst/doc/chisq_test.R | 15 - inst/doc/chisq_test.Rmd | 29 +- inst/doc/chisq_test.html | 92 +++++- inst/doc/flights_examples.R | 47 ++- inst/doc/flights_examples.Rmd | 53 ++- inst/doc/flights_examples.html | 87 +++--- inst/doc/mtcars_examples.R | 6 inst/doc/mtcars_examples.Rmd | 15 - inst/doc/mtcars_examples.html | 151 +++++------ inst/doc/observed_stat_examples.R |only inst/doc/observed_stat_examples.Rmd |only inst/doc/observed_stat_examples.html |only inst/doc/two_sample_t.R | 17 - inst/doc/two_sample_t.Rmd | 27 +- inst/doc/two_sample_t.html | 83 +++++- man/calculate.Rd | 12 man/chisq_stat.Rd | 2 man/generate.Rd | 2 man/get_ci.Rd |only man/get_pvalue.Rd |only man/hypothesize.Rd | 2 man/pipe.Rd | 4 man/t_stat.Rd | 2 man/t_test.Rd | 20 + man/visualize.Rd | 33 +- tests/testthat/test-calculate.R | 111 ++++++-- tests/testthat/test-conf_int.R |only tests/testthat/test-generate.R | 171 ++++++++++++ tests/testthat/test-hypothesize.R | 70 +++++ tests/testthat/test-p_value.R |only tests/testthat/test-specify.R | 26 + tests/testthat/test-visualize.R | 117 ++++++++ tests/testthat/test-wrappers.R | 87 ++++++ vignettes/chisq_test.Rmd | 29 +- vignettes/flights_examples.Rmd | 53 ++- vignettes/mtcars_examples.Rmd | 15 - vignettes/observed_stat_examples.Rmd |only vignettes/two_sample_t.Rmd | 27 +- 54 files changed, 1866 insertions(+), 885 deletions(-)
Title: Automated Spectral Deconvolution, Alignment, and Metabolite
Identification in GC/MS-Based Untargeted Metabolomics
Description: Automated compound deconvolution, alignment across samples, and identification of metabolites by spectral library matching in Gas Chromatography - Mass spectrometry (GC-MS) untargeted metabolomics. Outputs a table with compound names, matching scores and the integrated area of the compound for each sample. Package implementation is described in Domingo-Almenara et al. (2016) <doi:10.1021/acs.analchem.6b02927>.
Author: Xavier Domingo-Almenara [aut, cre, cph], Sara Samino [aut], Maria Vinaixa [aut], Alexandre Perera [aut, ths], Jesus Brezmes [aut, ths], Oscar Yanes [aut, ths]
Maintainer: Xavier Domingo-Almenara <xdomingo@scripps.edu>
Diff between erah versions 1.0.5 dated 2017-01-13 and 1.1.0 dated 2018-07-11
DESCRIPTION | 17 ++++------ MD5 | 64 ++++++++++++++++++++----------------- NAMESPACE | 9 ++--- R/MSexport.R | 79 +++++++++++++++++++++++++++------------------- R/MSimport.R | 26 ++++++++++++--- R/RI.R |only R/erah.R | 18 ++++------ R/file.R | 10 +++-- R/missingCompRecovery.R | 2 - R/plotting.R | 8 ++++ R/preprocessing.R | 35 ++++++++------------ R/processing.R | 53 ++++++++++++++++++++----------- R/support.R | 42 ++++++++++++++++++++---- R/support_methods.R | 8 ++-- R/zzz.R | 26 ++++++++++++--- build/vignette.rds |binary data/mslib.rda |binary inst/CITATION | 8 ++-- inst/NEWS | 38 +++++++++++++--------- inst/doc/eRahManual.pdf |binary man/alignList.Rd | 2 - man/computeRIerror.Rd |only man/createdt.Rd | 10 ++--- man/deconvolveComp.Rd | 16 +++++---- man/export2MSP.Rd | 4 +- man/findComp.Rd | 6 +-- man/importMSP.Rd | 81 +++++++++++++++++++++++++++++++++++++++++++++--- man/newExp.Rd | 10 ++--- man/plotChr.Rd | 16 ++++----- man/plotSpectra.Rd | 2 - man/sampleInfo.Rd | 1 man/setAlPar.Rd | 3 - man/setDecPar.Rd | 10 ++--- src |only 34 files changed, 387 insertions(+), 217 deletions(-)