Title: Tools for Preprocessing Visual World Data
Description: Gaze data from the Visual World Paradigm requires significant
preprocessing prior to plotting and analyzing the data. This package
provides functions for preparing visual world eye-tracking data for
statistical analysis and plotting. It can prepare data for linear
analyses (e.g., ANOVA, Gaussian-family LMER, Gaussian-family GAMM) as
well as logistic analyses (e.g., binomial-family LMER and binomial-family GAMM).
Additionally, it contains various plotting functions for creating grand average and
conditional average plots. See the vignette for samples of the functionality.
Currently, the functions in this package are designed for handling data
collected with SR Research Eyelink eye trackers using Sample Reports created
in SR Research Data Viewer. While we would like to add functionality
for data collected with other systems in the future, the current package is
considered to be feature-complete; further updates will mainly entail maintenance
and the addition of minor functionality.
Author: Vincent Porretta [aut, cre],
Aki-Juhani Kyröläinen [aut],
Jacolien van Rij [ctb],
Juhani Järvikivi [ctb]
Maintainer: Vincent Porretta <vincentporretta@gmail.com>
Diff between VWPre versions 1.0.0 dated 2017-10-24 and 1.0.1 dated 2017-12-04
DESCRIPTION | 10 MD5 | 26 R/plotting.R | 2161 ++++++++++++++++++----------------- build/vignette.rds |binary inst/NEWS | 28 inst/doc/SR_Basic_Preprocessing.R | 188 +-- inst/doc/SR_Basic_Preprocessing.html | 1026 +++++++++------- inst/doc/SR_Interest_Areas.R | 164 +- inst/doc/SR_Interest_Areas.html | 1032 +++++++++------- inst/doc/SR_Message_Alignment.R | 68 - inst/doc/SR_Message_Alignment.html | 796 ++++++++---- inst/doc/SR_Plotting.R | 348 ++--- inst/doc/SR_Plotting.html | 1112 ++++++++++-------- man/VWdat.Rd | 2 14 files changed, 3944 insertions(+), 3017 deletions(-)
Title: Sampling Design for Spatially Explicit Capture-Recapture
Description: Tools for designing spatially explicit capture-recapture studies of animal populations. This is primarily a simulation manager for package 'secr'. Extensions in version 2.5.0 include costing and evaluation of detector spacing.
Author: Murray Efford
Maintainer: Murray Efford <murray.efford@otago.ac.nz>
Diff between secrdesign versions 2.5.3 dated 2017-12-03 and 2.5.4 dated 2017-12-04
secrdesign-2.5.3/secrdesign/build |only secrdesign-2.5.3/secrdesign/inst/doc/secrdesign-vignette.R |only secrdesign-2.5.3/secrdesign/inst/doc/secrdesign-vignette.Rmd |only secrdesign-2.5.3/secrdesign/inst/doc/secrdesign-vignette.pdf |only secrdesign-2.5.3/secrdesign/vignettes |only secrdesign-2.5.4/secrdesign/DESCRIPTION | 11 - secrdesign-2.5.4/secrdesign/MD5 | 71 ----------- secrdesign-2.5.4/secrdesign/NEWS | 8 + secrdesign-2.5.4/secrdesign/inst/doc/secrdesign-manual.pdf |binary secrdesign-2.5.4/secrdesign/man/secrdesign-package.Rd | 9 - 10 files changed, 22 insertions(+), 77 deletions(-)
Title: Making Visual Exploratory Data Analysis with Nested Data Easier
Description: Functions for making visual exploratory data analysis with nested data easier.
Author: Charles Crabtree [aut, cre],
Michael J. Nelson [aut]
Maintainer: Charles Crabtree <ccrabtr@umich.edu>
Diff between plotrr versions 0.2.0 dated 2017-02-12 and 1.0.0 dated 2017-12-04
plotrr-0.2.0/plotrr/R/groupcor.r |only plotrr-0.2.0/plotrr/R/groupcorplot.r |only plotrr-0.2.0/plotrr/man/groupcor.Rd |only plotrr-0.2.0/plotrr/man/groupcorplot.Rd |only plotrr-0.2.0/plotrr/man/length.unique.Rd |only plotrr-1.0.0/plotrr/DESCRIPTION | 14 +++++---- plotrr-1.0.0/plotrr/MD5 | 47 +++++++++++++++---------------- plotrr-1.0.0/plotrr/NAMESPACE | 6 --- plotrr-1.0.0/plotrr/R/bivarplots.r | 6 +-- plotrr-1.0.0/plotrr/R/bivarrugplot.r | 8 +---- plotrr-1.0.0/plotrr/R/clear.r | 2 - plotrr-1.0.0/plotrr/R/dotplots.r | 6 +-- plotrr-1.0.0/plotrr/R/histplots.r | 6 +-- plotrr-1.0.0/plotrr/R/lengthunique.r | 8 +---- plotrr-1.0.0/plotrr/R/makefacnum.r | 6 +-- plotrr-1.0.0/plotrr/R/violinplots.r | 6 +-- plotrr-1.0.0/plotrr/README.md | 33 +++++++++++++++------ plotrr-1.0.0/plotrr/build |only plotrr-1.0.0/plotrr/inst |only plotrr-1.0.0/plotrr/man/bivarplots.Rd | 5 --- plotrr-1.0.0/plotrr/man/bivarrugplot.Rd | 7 +--- plotrr-1.0.0/plotrr/man/clear.Rd | 3 - plotrr-1.0.0/plotrr/man/dotplots.Rd | 5 --- plotrr-1.0.0/plotrr/man/histplots.Rd | 5 --- plotrr-1.0.0/plotrr/man/lengthunique.Rd |only plotrr-1.0.0/plotrr/man/makefacnum.Rd | 5 --- plotrr-1.0.0/plotrr/man/violinplots.Rd | 5 --- plotrr-1.0.0/plotrr/vignettes |only 28 files changed, 80 insertions(+), 103 deletions(-)
Title: Multi-Layer Perceptron Neural Network with Optional Monotonicity
Constraints
Description: Train and make predictions from a multi-layer perceptron neural
network with optional partial monotonicity constraints.
Author: Alex J. Cannon
Maintainer: Alex J. Cannon <alex.cannon@canada.ca>
Diff between monmlp versions 1.1.4 dated 2017-03-23 and 1.1.5 dated 2017-12-04
DESCRIPTION | 9 ++++---- MD5 | 16 +++++++-------- man/gam.style.Rd | 16 +++++++-------- man/linear.Rd | 2 - man/logistic.Rd | 2 - man/monmlp-package.Rd | 51 ++++++++++++++++++++++++++++++++++---------------- man/monmlp.fit.Rd | 10 ++++----- man/monmlp.predict.Rd | 8 +++---- man/tansig.Rd | 2 - 9 files changed, 68 insertions(+), 48 deletions(-)
Title: Management of Survey Data and Presentation of Analysis Results
Description: An infrastructure for the management of survey data including
value labels, definable missing values, recoding of variables,
production of code books, and import of (subsets of) 'SPSS' and
'Stata' files is provided. Further, the package allows to produce
tables and data frames of arbitrary descriptive statistics and
(almost) publication-ready tables of regression model
estimates, which can be exported to 'LaTeX' and HTML.
Author: Martin Elff (with contributions from Christopher N. Lawrence, Dave Atkins, Jason W. Morgan, Achim Zeileis)
Maintainer: Martin Elff <memisc@elff.eu>
Diff between memisc versions 0.99.14.5 dated 2017-11-06 and 0.99.14.7 dated 2017-12-04
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- R/mtable.R | 2 +- R/zzz.R | 39 ++++++++++++++++++++------------------- inst/ChangeLog | 18 +++++++++++++----- inst/doc/anes48.html | 2 +- man/mtable.Rd | 4 ++-- man/percentages.Rd | 2 +- src/pspp-system-for-R.c | 22 ++++++++++++++-------- 9 files changed, 64 insertions(+), 49 deletions(-)
Title: GEV Conditional Density Estimation Network
Description: Implements a flexible nonlinear modelling framework for nonstationary generalized extreme value analysis in hydroclimatology following Cannon (2010) <doi:10.1002/hyp.7506>.
Author: Alex J. Cannon
Maintainer: Alex J. Cannon <alex.cannon@canada.ca>
Diff between GEVcdn versions 1.1.5 dated 2017-03-23 and 1.1.6 dated 2017-12-04
DESCRIPTION | 9 ++++----- MD5 | 4 ++-- man/GEVcdn-package.Rd | 5 ----- 3 files changed, 6 insertions(+), 12 deletions(-)
Title: Conditional Density Estimation Network Construction and
Evaluation
Description: Parameters of a user-specified probability distribution are modelled by a multi-layer perceptron artificial neural network. This framework can be used to implement probabilistic nonlinear models including mixture density networks, heteroscedastic regression models, zero-inflated models, etc. following Cannon (2012) <doi:10.1016/j.cageo.2011.08.023>.
Author: Alex J. Cannon
Maintainer: Alex J. Cannon <alex.cannon@canada.ca>
Diff between CaDENCE versions 1.2.4 dated 2017-03-23 and 1.2.5 dated 2017-12-04
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- man/CaDENCE-package.Rd | 5 ----- 3 files changed, 6 insertions(+), 11 deletions(-)
Title: Applications of Empirical Dynamic Modeling from Time Series
Description: A new implementation of EDM algorithms based on research software previously developed for internal use in the Sugihara Lab (UCSD/SIO). Contains C++ compiled objects that use time delay embedding to perform state-space reconstruction and nonlinear forecasting and an R interface to those objects using 'Rcpp'. It supports both the simplex projection method from Sugihara & May (1990) <DOI:10.1038/344734a0> and the S-map algorithm in Sugihara (1994) <DOI:10.1098/rsta.1994.0106>. In addition, this package implements convergent cross mapping as described in Sugihara et al. (2012) <DOI:10.1126/science.1227079> and multiview embedding as described in Ye & Sugihara (2016) <DOI:10.1126/science.aag0863>.
Author: Hao Ye [aut, cre],
Adam Clark [aut],
Ethan Deyle [aut],
Steve Munch [aut],
Oliver Keyes [ctb],
Jun Cai [ctb],
Ethan White [ctb],
Jane Cowles [ctb],
James Stagge [ctb],
Yair Daon [ctb],
Andrew Edwards [ctb],
George Sugihara [ctb, ccp]
Maintainer: Hao Ye <hao.ye@weecology.org>
Diff between rEDM versions 0.6.5 dated 2017-11-07 and 0.6.9 dated 2017-12-04
DESCRIPTION | 11 MD5 | 92 +- R/block_GP.R | 239 +++--- R/block_lnlp_interface.R | 181 +--- R/ccm_interface.R | 115 +- R/diagnostic_functions.R | 69 - R/helper_functions.R |only R/lnlp_interface.R | 153 +-- R/multiview_interface.R | 239 +++--- R/rEDM_package.R | 32 R/tde_gp.R | 38 R/zzz.R | 3 build/vignette.rds |binary inst/doc/rEDM-algorithms.pdf |binary inst/doc/rEDM-coprediction.html | 6 inst/doc/rEDM-time-delay-ccm.R |only inst/doc/rEDM-time-delay-ccm.Rmd |only inst/doc/rEDM-time-delay-ccm.html |only inst/doc/rEDM-tutorial.R | 16 inst/doc/rEDM-tutorial.Rmd | 43 - inst/doc/rEDM-tutorial.html | 89 +- inst/tests/Rplots.pdf |binary inst/tests/test_block_gp.R | 9 inst/tests/test_block_lnlp.R | 14 inst/tests/test_ccm.R | 6 inst/tests/test_lnlp.R | 14 inst/tests/test_make_block.R |only inst/tests/test_multiview.R |only inst/tests/test_simplex_calculation.R |only inst/tests/test_tde_gp.R | 6 man/block_3sp.Rd | 4 man/block_gp.Rd | 60 - man/block_lnlp.Rd | 52 - man/ccm.Rd | 17 man/ccm_means.Rd | 14 man/compute_stats.Rd | 4 man/e120_biodiversity.Rd | 6 man/make_block.Rd | 13 man/make_surrogate_data.Rd | 6 man/multiview.Rd | 67 - man/rEDM.Rd | 6 man/sardine_anchovy_sst.Rd | 5 man/simplex.Rd | 54 - man/tde_gp.Rd | 19 man/tentmap_del.Rd | 3 man/test_nonlinearity.Rd | 3 man/two_species_model.Rd | 4 src/forecast_machine.cpp | 19 vignettes/figure_1.svg | 1323 +++++++++++++++++----------------- vignettes/rEDM-time-delay-ccm.Rmd |only vignettes/rEDM-tutorial.Rmd | 43 - 51 files changed, 1572 insertions(+), 1525 deletions(-)
Title: Parallel Distance Matrix Computation using Multiple Threads
Description: A fast parallelized alternative to R's native 'dist' function to
calculate distance matrices for continuous, binary, and multi-dimensional
input matrices, which supports a broad variety of 39 predefined distance
functions from the 'stats', 'proxy' and 'dtw' R packages, as well as user-
defined functions written in C++. For ease of use, the 'parDist' function
extends the signature of the 'dist' function and uses the same parameter
naming conventions as distance methods of existing R packages. The package
is mainly implemented in C++ and leverages the 'RcppParallel' package to
parallelize the distance computations with the help of the 'TinyThread'
library. Furthermore, the 'Armadillo' linear algebra library is used for
optimized matrix operations during distance calculations. The curiously
recurring template pattern (CRTP) technique is applied to avoid virtual
functions, which improves the Dynamic Time Warping calculations while
the implementation stays flexible enough to support different DTW step
patterns and normalization methods.
Author: Alexander Eckert [aut, cre]
Maintainer: Alexander Eckert <info@alexandereckert.com>
Diff between parallelDist versions 0.2.0 dated 2017-09-27 and 0.2.1 dated 2017-12-04
DESCRIPTION | 10 MD5 | 36 - NAMESPACE | 8 R/RcppExports.R | 22 R/parDist.R | 288 +++++----- README.md | 138 ++-- build/vignette.rds |binary inst/NEWS.Rd | 36 - inst/doc/parallelDist.R | 559 +++++++++---------- inst/doc/parallelDist.Rnw | 814 ++++++++++++++--------------- inst/doc/parallelDist.pdf |binary man/parDist.Rd | 676 ++++++++++++------------ tests/testthat.R | 48 - tests/testthat/testMatrixCustomDistances.R | 136 ++-- tests/testthat/testMatrixDTWDistances.R | 212 +++---- tests/testthat/testMatrixDistances.R | 448 +++++++-------- tests/testthat/testMatrixListDistances.R | 438 +++++++-------- vignettes/parallelDist.Rnw | 814 ++++++++++++++--------------- vignettes/parallelDist.bib | 104 +-- 19 files changed, 2382 insertions(+), 2405 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 (2017) <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 0.10-2 dated 2017-03-28 and 0.10-3 dated 2017-12-04
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- R/MBC-QDM.R | 32 +++++++++++++++++--------------- man/MBC-package.Rd | 10 +++------- man/MBCn.Rd | 6 +++++- man/MBCp.Rd | 6 +++++- man/MBCr.Rd | 6 +++++- man/QDM.Rd | 5 ++++- 8 files changed, 51 insertions(+), 38 deletions(-)
Title: 'ttf2pt1' Program
Description: Contains the program 'ttf2pt1', for use with the
'extrafont' package. This product includes software developed by the 'TTF2PT1'
Project and its contributors.
Author: Winston Chang,
Andrew Weeks,
Frank M. Siegert,
Mark Heath,
Thomas Henlick,
Sergey Babkin,
Turgut Uyar,
Rihardas Hepas,
Szalay Tamas,
Johan Vromans,
Petr Titera,
Lei Wang,
Chen Xiangyang,
Zvezdan Petkovic,
Rigel,
I. Lee Hetherington
Maintainer: Winston Chang <winston@stdout.org>
Diff between Rttf2pt1 versions 1.3.4 dated 2016-05-19 and 1.3.5 dated 2017-12-04
DESCRIPTION | 9 +++++---- MD5 | 14 +++++++------- NEWS | 11 +++++++++++ R/Rttf2pt1.r | 1 + man/Rttf2pt1.Rd | 3 +-- man/which_ttf2pt1.Rd | 1 - src/Makefile.win | 12 ++---------- src/install.libs.R | 4 ++-- 8 files changed, 29 insertions(+), 26 deletions(-)
Title: Construct Process Maps Using Event Data
Description: Visualize of process maps based on
event logs, in the form of directed graphs. Part of the 'bupaR' framework.
Author: Gert Janssenswillen [aut, cre],
Benoît Depaire [ctb],
Felix Mannhardt [ctb],
Thijs Beuving [ctb]
Maintainer: Gert Janssenswillen <gert.janssenswillen@uhasselt.be>
Diff between processmapR versions 0.2.0 dated 2017-09-03 and 0.2.1 dated 2017-12-04
DESCRIPTION | 22 ++ MD5 | 34 ++-- NAMESPACE | 14 + R/dotted_chart.R | 283 +++++++++++++++++++++++++------------- R/frequency.R | 3 R/performance.R | 6 R/precedence_matrix.R | 23 ++- R/precedence_matrix.plot.R | 6 R/process_map.R | 335 +++++++++++++++++++++++---------------------- R/processmapR.R | 17 +- R/resource_matrix.R | 10 + R/trace_explorer.R | 48 ++++-- R/utils.R | 72 ++------- inst/doc/processmapr.html | 4 man/dotted_chart.Rd | 38 ++++- man/frequency.Rd | 2 man/performance.Rd | 6 man/trace_explorer.Rd | 5 18 files changed, 557 insertions(+), 371 deletions(-)
Title: Tools for Interacting with the Brazilian Flora 2020
Description: Tools to quickly compile taxonomic and distribution data from
the Brazilian Flora 2020.
Author: Gustavo Carvalho
Maintainer: Gustavo Carvalho <gustavo.bio@gmail.com>
Diff between flora versions 0.2.8 dated 2017-01-12 and 0.3.0 dated 2017-12-04
DESCRIPTION | 12 +++++------ MD5 | 50 ++++++++++++++++++++++++----------------------- NAMESPACE | 2 + NEWS | 15 ++++++++------ R/get.taxa.R | 45 +++++++++++++++++++++++------------------- R/get_lifeform.R |only R/help.R | 2 - R/suggest.names.R | 7 ++++-- R/sysdata.rda |binary data/plants.rda |binary man/df2phytaxa.Rd | 1 man/fixCase.Rd | 1 man/flora.Rd | 2 - man/get.synonyms.Rd | 1 man/get.taxa.Rd | 1 man/get_domains.Rd | 1 man/get_lifeform.Rd |only man/get_vegtype.Rd | 1 man/lower.taxa.Rd | 1 man/occurrence.Rd | 1 man/plants.Rd | 1 man/remove.authors.Rd | 1 man/standardize.names.Rd | 1 man/suggest.names.Rd | 1 man/trim.Rd | 1 man/vernacular.Rd | 1 man/web.flora.Rd | 1 27 files changed, 75 insertions(+), 75 deletions(-)
Title: Business Process Analysis in R
Description: Comprehensive Business Process Analysis toolkit. Creates S3-class for event log objects, and related handler functions. Imports related packages for filtering event data, computation of descriptive statistics, handling of 'Petri Net' objects and visualization of process maps. See also packages 'edeaR','processmapR', 'eventdataR' and 'processmonitR'.
Author: Gert Janssenswillen [aut, cre]
Maintainer: Gert Janssenswillen <gert.janssenswillen@uhasselt.be>
Diff between bupaR versions 0.3.0 dated 2017-09-06 and 0.3.2 dated 2017-12-04
bupaR-0.3.0/bupaR/man/group_by.eventlog.Rd |only bupaR-0.3.0/bupaR/man/mutate.eventlog.Rd |only bupaR-0.3.0/bupaR/man/sample_n.eventlog.Rd |only bupaR-0.3.0/bupaR/man/slice.eventlog.Rd |only bupaR-0.3.0/bupaR/man/summary.eventlog.Rd |only bupaR-0.3.2/bupaR/DESCRIPTION | 21 +- bupaR-0.3.2/bupaR/MD5 | 141 +++++++++------ bupaR-0.3.2/bupaR/NAMESPACE | 85 +++++++++ bupaR-0.3.2/bupaR/R/act_collapse.R |only bupaR-0.3.2/bupaR/R/act_recode.R |only bupaR-0.3.2/bupaR/R/act_unite.R |only bupaR-0.3.2/bupaR/R/activities.R | 57 ++++-- bupaR-0.3.2/bupaR/R/activities_to_eventlog.R |only bupaR-0.3.2/bupaR/R/activity_id.R | 24 +- bupaR-0.3.2/bupaR/R/activity_instance_id.R | 26 +- bupaR-0.3.2/bupaR/R/arrange.eventlog.R |only bupaR-0.3.2/bupaR/R/bupar.R | 14 - bupaR-0.3.2/bupaR/R/case_id.r | 30 +-- bupaR-0.3.2/bupaR/R/case_list.R |only bupaR-0.3.2/bupaR/R/cases.r | 60 +++--- bupaR-0.3.2/bupaR/R/durations.R | 24 -- bupaR-0.3.2/bupaR/R/eventlog.R | 184 +++++++++++--------- bupaR-0.3.2/bupaR/R/filter.R |only bupaR-0.3.2/bupaR/R/filter_attributes.R |only bupaR-0.3.2/bupaR/R/group_by.eventlog.R | 84 ++++++++- bupaR-0.3.2/bupaR/R/lifecycle_id.R | 22 +- bupaR-0.3.2/bupaR/R/mapping.R | 11 - bupaR-0.3.2/bupaR/R/mutate.eventlog.R | 24 +- bupaR-0.3.2/bupaR/R/n_activities.R | 25 ++ bupaR-0.3.2/bupaR/R/n_activity_instances.R | 24 ++ bupaR-0.3.2/bupaR/R/n_cases.R | 21 +- bupaR-0.3.2/bupaR/R/n_events.R | 21 ++ bupaR-0.3.2/bupaR/R/n_resources.R | 23 ++ bupaR-0.3.2/bupaR/R/n_traces.R | 23 ++ bupaR-0.3.2/bupaR/R/print.eventlog.R | 14 + bupaR-0.3.2/bupaR/R/re_map.R | 7 bupaR-0.3.2/bupaR/R/resource_id.R | 25 +- bupaR-0.3.2/bupaR/R/resources.R | 48 ++++- bupaR-0.3.2/bupaR/R/sample_n.eventlog.R | 31 ++- bupaR-0.3.2/bupaR/R/slice.eventlog.R | 30 ++- bupaR-0.3.2/bupaR/R/summary.eventlog.R | 17 + bupaR-0.3.2/bupaR/R/timestamp.R | 31 +-- bupaR-0.3.2/bupaR/R/trace_list.R |only bupaR-0.3.2/bupaR/R/traces.R | 74 ++++---- bupaR-0.3.2/bupaR/R/unite.eventlog.R |only bupaR-0.3.2/bupaR/R/utils.R | 128 ------------- bupaR-0.3.2/bupaR/R/zzz.R |only bupaR-0.3.2/bupaR/README.md | 6 bupaR-0.3.2/bupaR/man/act_collapse.Rd |only bupaR-0.3.2/bupaR/man/act_recode.Rd |only bupaR-0.3.2/bupaR/man/act_unite.Rd |only bupaR-0.3.2/bupaR/man/activities.Rd | 13 + bupaR-0.3.2/bupaR/man/activities_to_eventlog.Rd |only bupaR-0.3.2/bupaR/man/activity_id.Rd | 25 ++ bupaR-0.3.2/bupaR/man/activity_instance_id.Rd | 24 ++ bupaR-0.3.2/bupaR/man/activity_labels.Rd |only bupaR-0.3.2/bupaR/man/arrange.Rd |only bupaR-0.3.2/bupaR/man/case_id.Rd | 25 ++ bupaR-0.3.2/bupaR/man/case_labels.Rd |only bupaR-0.3.2/bupaR/man/case_list.Rd |only bupaR-0.3.2/bupaR/man/cases.Rd | 10 - bupaR-0.3.2/bupaR/man/durations.Rd | 10 - bupaR-0.3.2/bupaR/man/eventlog.Rd | 8 bupaR-0.3.2/bupaR/man/filter.Rd |only bupaR-0.3.2/bupaR/man/filter_attributes.Rd |only bupaR-0.3.2/bupaR/man/group_by.Rd |only bupaR-0.3.2/bupaR/man/group_by_activity.Rd |only bupaR-0.3.2/bupaR/man/group_by_activity_instance.Rd |only bupaR-0.3.2/bupaR/man/group_by_case.Rd |only bupaR-0.3.2/bupaR/man/group_by_resource.Rd |only bupaR-0.3.2/bupaR/man/group_by_resource_activity.Rd |only bupaR-0.3.2/bupaR/man/lifecycle_id.Rd | 22 ++ bupaR-0.3.2/bupaR/man/mapping.Rd | 14 + bupaR-0.3.2/bupaR/man/mutate.Rd |only bupaR-0.3.2/bupaR/man/n_activities.Rd | 18 + bupaR-0.3.2/bupaR/man/n_activity_instances.Rd | 11 + bupaR-0.3.2/bupaR/man/n_cases.Rd | 19 ++ bupaR-0.3.2/bupaR/man/n_events.Rd | 19 ++ bupaR-0.3.2/bupaR/man/n_resources.Rd | 19 ++ bupaR-0.3.2/bupaR/man/n_traces.Rd | 19 ++ bupaR-0.3.2/bupaR/man/reexports.Rd | 10 - bupaR-0.3.2/bupaR/man/resource_id.Rd | 25 ++ bupaR-0.3.2/bupaR/man/resource_labels.Rd |only bupaR-0.3.2/bupaR/man/resources.Rd | 13 + bupaR-0.3.2/bupaR/man/sample_n.Rd |only bupaR-0.3.2/bupaR/man/slice.Rd |only bupaR-0.3.2/bupaR/man/summary.Rd |only bupaR-0.3.2/bupaR/man/timestamp.Rd | 24 ++ bupaR-0.3.2/bupaR/man/trace_list.Rd |only bupaR-0.3.2/bupaR/man/traces.Rd | 19 +- bupaR-0.3.2/bupaR/man/unite.Rd |only 91 files changed, 1180 insertions(+), 522 deletions(-)
Title: Create Hyperlinks to Biological Databases and Resources
Description: Generate urls and hyperlinks to commonly used biological databases
and resources based on standard identifiers. This is primarily useful when
writing dynamic reports that reference things like gene symbols in text or
tables, allowing you to, for example, convert gene identifiers to hyperlinks
pointing to their entry in the NCBI Gene database. Currently supports NCBI
Gene, PubMed, Gene Ontology, CRAN and Bioconductor.
Author: Aaron Wolen [aut, cre]
Maintainer: Aaron Wolen <aaron@wolen.com>
Diff between biolink versions 0.1.2 dated 2017-03-06 and 0.1.3 dated 2017-12-04
DESCRIPTION | 8 ++++---- MD5 | 17 ++++++++++------- NAMESPACE | 5 +++++ NEWS.md |only R/db-links.r | 6 ++++++ R/query-go.r |only R/utilities.r | 4 +++- README.md | 13 ++++++++++--- man/links.Rd | 6 ++++++ tests/testthat/test-links-go.r | 6 +++--- tests/testthat/test-tags-go.r |only 11 files changed, 47 insertions(+), 18 deletions(-)
Title: Amdahl's Profiler, Directed Optimization Made Easy
Description: Assists the evaluation of whether and
where to focus code optimization, using Amdahl's law and visual aids
based on line profiling. Amdahl's profiler organizes profiling output
files (including memory profiling) in a visually appealing way.
It is meant to help to balance development
vs. execution time by helping to identify the most promising sections
of code to optimize and projecting potential gains. The package is
an addition to R's standard profiling tools and is not a wrapper for them.
Author: Marco D. Visser
Maintainer: Marco D. Visser <marco.d.visser@gmail.com>
Diff between aprof versions 0.3.2 dated 2016-03-24 and 0.3.9 dated 2017-12-04
DESCRIPTION | 10 ++--- MD5 | 15 +++++--- R/aprof.R | 88 +++++++++++++++++++++++++++++-------------------- inst/CITATION | 2 - man/aprof.Rd | 4 +- man/summary.Rd | 4 +- man/targetedSummary.Rd | 2 - tests |only 8 files changed, 73 insertions(+), 52 deletions(-)
Title: Read and Write XES Files
Description: Read and write XES Files to create event log objects used by the 'bupaR' framework. XES (Extensible Event Stream) is the `IEEE` standard for storing and sharing event data (see <http://standards.ieee.org/findstds/standard/1849-2016.html> for more info).
Author: Gert Janssenswillen [aut, cre],
Benoît Depaire [ctb]
Maintainer: Gert Janssenswillen <gert.janssenswillen@uhasselt.be>
Diff between xesreadR versions 0.2.1 dated 2017-09-04 and 0.2.2 dated 2017-12-04
DESCRIPTION | 17 ++++++++++------- MD5 | 14 +++++++------- R/XES.r | 6 ++++-- R/read_xes.R | 17 +++++++++++++++++ R/read_xes_cases.R | 18 ++++++++++++++++++ R/write_xes.R | 5 ++++- R/xesreadR.R | 4 +--- inst/doc/xesreadr.html | 4 ++-- 8 files changed, 63 insertions(+), 22 deletions(-)
Title: Network Maze Generator
Description: A network Maze generator that creates different types of network mazes.
Author: Bao Sheng Loe (Aiden) [aut, cre, cph]
Maintainer: Bao Sheng Loe (Aiden) <bsl28@cam.ac.uk>
Diff between networkGen versions 0.1.0 dated 2017-07-08 and 0.1.1 dated 2017-12-04
DESCRIPTION | 8 +- MD5 | 26 +++---- NEWS.md | 5 + R/css.R | 81 +++++++++++++++++++++++- R/jsDrawLines.R | 164 ++++++++++++++++++-------------------------------- R/netHTML.R | 112 ++++++++++++---------------------- R/netHTML_1_arrow.R | 26 +++++-- R/netHTML_2_arrows.R | 29 ++++++-- R/netHTML_3_arrows.R | 30 ++++++--- man/netHTML.Rd | 6 + man/netHTML1arrow.Rd | 7 +- man/netHTML2arrows.Rd | 7 +- man/netHTML3arrows.Rd | 7 +- man/networkGen.Rd | 2 14 files changed, 280 insertions(+), 230 deletions(-)
Title: Elithorn Maze Generator
Description: A maze generator that creates the Elithorn Maze (HTML file) and the functions to calculate the associated maze parameters (i.e. Difficulty and Ability).
Author: Bao Sheng Loe (Aiden) [aut,cre,cph],
Maria Sanchez[ctb]
Maintainer: Bao Sheng Loe (Aiden) <bsl28@cam.ac.uk>
Diff between mazeGen versions 0.1.2 dated 2017-03-17 and 0.1.3 dated 2017-12-04
DESCRIPTION | 8 +-- MD5 | 12 ++--- NEWS.md | 14 +++++- R/jsTimer.R | 128 +++++++++++++++++++++++++++----------------------------- R/mazeHTML.R | 8 +-- README.md | 2 man/mazeHTML.Rd | 2 7 files changed, 91 insertions(+), 83 deletions(-)
Title: Extract Text from RTF File
Description: Extracts plain text from RTF (Rich Text Format) file.
Author: Kota Mori [aut, cre]
Maintainer: Kota Mori <kmori05@gmail.com>
Diff between striprtf versions 0.4.5 dated 2017-06-05 and 0.5.1 dated 2017-12-04
striprtf-0.4.5/striprtf/src/striprtf_init.c |only striprtf-0.4.5/striprtf/tests/testthat/hoge |only striprtf-0.5.1/striprtf/DESCRIPTION | 6 +- striprtf-0.5.1/striprtf/MD5 | 32 +++++++-------- striprtf-0.5.1/striprtf/NEWS | 17 +++++++ striprtf-0.5.1/striprtf/R/RcppExports.R | 6 +- striprtf-0.5.1/striprtf/R/global.R | 4 - striprtf-0.5.1/striprtf/R/striprtf.R | 6 +- striprtf-0.5.1/striprtf/R/sysdata.rda |binary striprtf-0.5.1/striprtf/README.md | 3 - striprtf-0.5.1/striprtf/man/read_rtf.Rd | 6 +- striprtf-0.5.1/striprtf/src/RcppExports.cpp | 18 +++++++- striprtf-0.5.1/striprtf/src/dechex.cpp | 14 ++++-- striprtf-0.5.1/striprtf/src/strip_helper.cpp | 2 striprtf-0.5.1/striprtf/tests/testthat/mac.rtf |only striprtf-0.5.1/striprtf/tests/testthat/special-chars.ans |only striprtf-0.5.1/striprtf/tests/testthat/special-chars.rtf |only striprtf-0.5.1/striprtf/tests/testthat/test-read.R | 23 ++++++++++ 18 files changed, 97 insertions(+), 40 deletions(-)
Title: Matrix Reconstruction from a Few Entries
Description: Matrix reconstruction, also known as matrix completion, is
the task of inferring missing entries of a partially observed matrix.
This package provides a method called OptSpace,
which was proposed by Keshavan, R.H., Oh, S., and Montanari, A. (2009)
<doi:10.1109/ISIT.2009.5205567> for a case under low-rank assumption.
Author: Kisung You [aut, cre]
Maintainer: Kisung You <kyou@nd.edu>
Diff between ROptSpace versions 0.1.1 dated 2017-09-06 and 0.1.2 dated 2017-12-04
DESCRIPTION | 9 +++++---- MD5 | 8 +++++--- R/OptSpace.R | 18 +++++++++--------- build |only inst |only man/OptSpace.Rd | 15 +++++++-------- 6 files changed, 26 insertions(+), 24 deletions(-)
Title: Detecting Politeness Features in Text
Description: Detecting markers of politeness in English natural language. This package allows researchers to easily visualize and quantify politeness between groups of documents. This package combines prior research on the linguistic markers of politeness (Brown & Levinson, 1987 <http://psycnet.apa.org/record/1987-97641-000>; Danescu-Niculescu-Mizil et al., 2013 <arXiv:1306.6078>; Voigt et al., 2017 <doi:10.1073/pnas.1702413114>). We thank the Spencer Foundation, the Hewlett Foundation, and Harvard's Institute for Quantitative Social Science for support.
Author: Mike Yeomans, Alejandro Kantor, Dustin Tingley
Maintainer: Mike Yeomans <yeomans@fas.harvard.edu>
Diff between politeness versions 0.1.1 dated 2017-11-02 and 0.1.2 dated 2017-12-04
DESCRIPTION | 8 ++--- MD5 | 22 +++++++-------- R/findPoliteTexts.R | 8 ++--- R/politeness.R | 3 +- R/politenessPlot.R | 25 +++++++++++++++--- R/politenessProjection.R | 41 ++++++++++++++++++----------- inst/doc/politeness.html | 16 +++++------ man/findPoliteTexts.Rd | 6 ++-- man/politenessPlot.Rd | 4 +- man/politenessProjection.Rd | 14 +++++----- tests/testthat/test-findPoliteTexts.R | 47 ++++++++++++++++++++++++++++++++++ tests/testthat/test-politenessPlot.R | 24 +++++++++++++++++ 12 files changed, 158 insertions(+), 60 deletions(-)
Title: Nonparametric Kernel Smoothing Methods for Mixed Data Types
Description: Nonparametric (and semiparametric) kernel methods that seamlessly handle a mix of continuous, unordered, and ordered factor data types. We would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC, <http://www.nserc-crsng.gc.ca>), the Social Sciences and Humanities Research Council of Canada (SSHRC, <http://www.sshrc-crsh.gc.ca>), and the Shared Hierarchical Academic Research Computing Network (SHARCNET, <http://www.sharcnet.ca>).
Author: Jeffrey S. Racine [aut, cre],
Tristen Hayfield [aut]
Maintainer: Jeffrey S. Racine <racinej@mcmaster.ca>
Diff between np versions 0.60-3 dated 2017-04-29 and 0.60-4 dated 2017-12-04
CHANGELOG | 55 +- DESCRIPTION | 10 MD5 | 40 - NAMESPACE | 2 R/cmstest.R | 6 R/np.plot.R | 701 ++++++++++++++++--------- R/np.quantile.R | 8 R/npregivderiv.R | 1204 ++------------------------------------------ R/zzz.R | 2 build/vignette.rds |binary data/cps71.rda |binary inst/doc/entropy_np.pdf |binary inst/doc/np.pdf |binary inst/doc/np_faq.Rnw | 89 ++- inst/doc/np_faq.pdf |binary man/np.distribution.Rd | 11 man/np.distribution.bw.Rd | 15 man/np.plot.Rd | 182 +++++- man/np.quantile.Rd | 35 - man/np.regressionivderiv.Rd | 92 --- vignettes/np_faq.Rnw | 89 ++- 21 files changed, 908 insertions(+), 1633 deletions(-)
Title: Unified Multiple Testing Procedures
Description: Designed to ease the application and comparison of multiple
hypothesis testing procedures for FWER, gFWER, FDR and FDX. Methods are
standardized and usable by the accompanying 'mutossGUI'.
Author: MuToss Coding Team (Berlin 2010), Gilles Blanchard, Thorsten Dickhaus,
Niklas Hack, Frank Konietschke, Kornelius Rohmeyer,
Jonathan Rosenblatt, Marsel Scheer, Wiebke Werft
Maintainer: Kornelius Rohmeyer <rohmeyer@small-projects.de>
Diff between mutoss versions 0.1-10 dated 2015-04-02 and 0.1-12 dated 2017-12-04
mutoss-0.1-10/mutoss/inst/unitTests |only mutoss-0.1-10/mutoss/tests/doRUnit.R |only mutoss-0.1-12/mutoss/DESCRIPTION | 17 +++++++++-------- mutoss-0.1-12/mutoss/MD5 | 16 ++++++++-------- mutoss-0.1-12/mutoss/NAMESPACE | 3 +++ mutoss-0.1-12/mutoss/NEWS | 13 +++++++++++++ mutoss-0.1-12/mutoss/build/vignette.rds |binary mutoss-0.1-12/mutoss/inst/doc/quickstart.pdf |binary mutoss-0.1-12/mutoss/inst/doc/simToolManual.pdf |binary mutoss-0.1-12/mutoss/tests/testthat |only mutoss-0.1-12/mutoss/tests/testthat.R |only 11 files changed, 33 insertions(+), 16 deletions(-)
Title: Lattice Options and Add-Ins
Description: Various plots and functions that make use of the lattice/trellis plotting framework.
The plots, which include loaPlot(), GoogleMap() and trianglePlot(), use panelPal(), a function that
extends 'lattice' and 'hexbin' package methods to automate plot subscript and panel-to-panel
and panel-to-key synchronization/management.
Author: Karl Ropkins
Maintainer: Karl Ropkins <k.ropkins@its.leeds.ac.uk>
Diff between loa versions 0.2.43.1 dated 2017-11-24 and 0.2.43.3 dated 2017-12-04
DESCRIPTION | 12 ++++++------ MD5 | 12 ++++++------ NEWS | 3 +++ R/loaPlot.R | 20 +++++++++++++++++++- R/plot.argument.handlers.R | 4 ++++ man/3.1.example.data.Rd | 4 ++-- man/loa-package.Rd | 4 ++-- 7 files changed, 42 insertions(+), 17 deletions(-)
Title: Joint Models for Longitudinal Measurements and Competing Risks
Failure Time Data
Description: Fit joint models of continuous or ordinal longitudinal data and time-to-event data with competing risks. For a detailed information, see Robert Elashoff, Gang li and Ning Li (2016, ISBN:9781439807828) ; Robert M. Elashoff,Gang Li and Ning Li (2008) <doi:10.1111/j.1541-0420.2007.00952.x> ; Ning Li, Robert Elashoff, Gang Li and Jeffrey Saver (2010) <doi:10.1002/sim.3798> .
Author: Hong Wang<wh@csu.edu.cn>, Ning Li<nli@biomath.ucla.edu> and Gang Li<vli@ucla.edu>
Maintainer: Hong Wang <wh@csu.edu.cn>
Diff between JMcmprsk versions 0.9 dated 2017-11-23 and 0.9.1 dated 2017-12-04
JMcmprsk-0.9.1/JMcmprsk/DESCRIPTION | 10 +++---- JMcmprsk-0.9.1/JMcmprsk/MD5 | 18 ++++++------- JMcmprsk-0.9.1/JMcmprsk/R/RcppExports.R | 8 ----- JMcmprsk-0.9.1/JMcmprsk/configure |only JMcmprsk-0.9.1/JMcmprsk/configure.ac |only JMcmprsk-0.9.1/JMcmprsk/inst/doc/JMcmprsk.Rmd | 7 ++--- JMcmprsk-0.9.1/JMcmprsk/inst/doc/JMcmprsk.html | 12 +++----- JMcmprsk-0.9.1/JMcmprsk/src/RcppExports.cpp | 34 ------------------------- JMcmprsk-0.9.1/JMcmprsk/src/jmo.h | 2 - JMcmprsk-0.9.1/JMcmprsk/vignettes/JMcmprsk.Rmd | 7 ++--- JMcmprsk-0.9/JMcmprsk/src/SimDataC.cpp |only JMcmprsk-0.9/JMcmprsk/src/SimDataO.cpp |only 12 files changed, 26 insertions(+), 72 deletions(-)
Title: Dynamic Estimation of Group-Level Opinion
Description: Fit dynamic group-level IRT and MRP models from individual or
aggregated item response data. This package handles common preprocessing
tasks and extends functions for inspecting results, poststratification, and
quick iteration over alternative models.
Author: James Dunham [aut, cre],
Devin Caughey [aut],
Christopher Warshaw [aut]
Maintainer: James Dunham <james@jdunham.io>
Diff between dgo versions 0.2.12 dated 2017-11-30 and 0.2.13 dated 2017-12-04
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS.md | 10 ++++++++-- R/shape_hierarchical.r | 3 +-- data/toy_dgirt_in.rda |binary data/toy_dgirtfit.rda |binary tests/testthat/dgirt_ret.Rds |binary tests/testthat/dgmrp_ret.Rds |binary tests/testthat/test-zz.r | 12 ++++++++++++ 9 files changed, 33 insertions(+), 16 deletions(-)
Title: Australian Government Bureau of Meteorology Data from R
Description: Provides functions to interface with Australian Government Bureau
of Meteorology (BoM) data, fetching data and returning a tidy data frame of
précis forecasts, current weather data from stations, agriculture
bulletin data, BoM 0900 or 1500 weather bulletins or a raster stack object
of satellite imagery from GeoTIFF files. Data (c) Australian Government
Bureau of Meteorology Creative Commons (CC) Attribution 3.0 licence or
Public Access Licence (PAL) as appropriate. See
<http://www.bom.gov.au/other/copyright.shtml> for further details.
Author: Adam Sparks [aut, cre] (https://orcid.org/0000-0002-0061-8359),
Mark Padgham [aut] (https://orcid.org/0000-0003-2172-5265),
Hugh Parsonage [aut] (https://orcid.org/0000-0003-4055-0835),
Keith Pembleton [aut] (https://orcid.org/0000-0002-1896-4516)
Maintainer: Adam Sparks <adamhsparks@gmail.com>
Diff between bomrang versions 0.0.8 dated 2017-10-27 and 0.1.0 dated 2017-12-04
bomrang-0.0.8/bomrang/man/manage_bomrang_cache.Rd |only bomrang-0.0.8/bomrang/tests/testthat/test-check_cache.R |only bomrang-0.1.0/bomrang/DESCRIPTION | 40 bomrang-0.1.0/bomrang/MD5 | 67 - bomrang-0.1.0/bomrang/NAMESPACE | 3 bomrang-0.1.0/bomrang/NEWS.md | 56 bomrang-0.1.0/bomrang/R/deprecated_functions.R |only bomrang-0.1.0/bomrang/R/get_ag_bulletin.R | 87 - bomrang-0.1.0/bomrang/R/get_precis_forecast.R | 151 -- bomrang-0.1.0/bomrang/R/get_satellite_imagery.R | 11 bomrang-0.1.0/bomrang/R/get_weather_bulletins.R | 2 bomrang-0.1.0/bomrang/R/internal_functions.R | 12 bomrang-0.1.0/bomrang/R/manage_cached_files.R | 173 -- bomrang-0.1.0/bomrang/R/sweep_for_stations.R | 1 bomrang-0.1.0/bomrang/R/update_forecast_towns.R | 2 bomrang-0.1.0/bomrang/R/update_station_locations.R | 4 bomrang-0.1.0/bomrang/R/zzz.R | 7 bomrang-0.1.0/bomrang/README.md | 4 bomrang-0.1.0/bomrang/build/vignette.rds |binary bomrang-0.1.0/bomrang/inst/doc/bomrang.Rmd | 20 bomrang-0.1.0/bomrang/inst/doc/bomrang.html | 652 ++++++---- bomrang-0.1.0/bomrang/inst/doc/use_case.R | 2 bomrang-0.1.0/bomrang/inst/doc/use_case.Rmd | 2 bomrang-0.1.0/bomrang/inst/doc/use_case.html | 454 +++++- bomrang-0.1.0/bomrang/inst/extdata/AAC_codes.rda |binary bomrang-0.1.0/bomrang/inst/extdata/JSONurl_site_list.rda |binary bomrang-0.1.0/bomrang/inst/extdata/stations_site_list.rda |binary bomrang-0.1.0/bomrang/man/bomrang-deprecated.Rd |only bomrang-0.1.0/bomrang/man/get_satellite_imagery.Rd | 6 bomrang-0.1.0/bomrang/man/get_weather_bulletin.Rd | 2 bomrang-0.1.0/bomrang/man/manage_cache.Rd |only bomrang-0.1.0/bomrang/man/update_forecast_towns.Rd | 2 bomrang-0.1.0/bomrang/man/update_station_locations.Rd | 2 bomrang-0.1.0/bomrang/tests/testthat/test-file_caching.R | 63 bomrang-0.1.0/bomrang/tests/testthat/test-get_satellite_imagery.R | 8 bomrang-0.1.0/bomrang/vignettes/bomrang.Rmd | 20 bomrang-0.1.0/bomrang/vignettes/use_case.Rmd | 2 37 files changed, 1108 insertions(+), 747 deletions(-)
Title: Restricted Statistical Estimation and Inference for Linear
Models
Description: Allow for easy-to-use testing of linear equality and inequality
restrictions about parameters and effects in (generalized) linear statistical models.
Author: Leonard Vanbrabant [aut, cre], Yves Rosseel [ctb]
Maintainer: Leonard Vanbrabant <Leonard.Vanbrabant@Ugent.be>
Diff between restriktor versions 0.1-70 dated 2017-08-24 and 0.1-80.711 dated 2017-12-04
DESCRIPTION | 6 MD5 | 44 +-- NAMESPACE | 5 R/conRLM.R | 78 ++--- R/conRLM_fit.R | 26 + R/conRLM_tests_F_Wald_score.R | 114 +++----- R/conTest.R | 6 R/conTest_ceq_conRLM_F_Wald_score.R | 44 +-- R/conTest_conRLM.R | 496 ++++++------------------------------ R/con_constraints.R | 2 R/con_goric.R | 321 ++++++++++++++++++----- R/restriktor_print.R | 8 R/restriktor_print_summary.R | 7 R/restriktor_summary.R | 8 R/utilities.R | 59 ++++ man/ConTest.Rd | 11 man/ConTestWald.Rd | 19 - man/conTest_ceq.Rd | 5 man/conTest_summary.Rd | 7 man/goric.Rd | 7 man/restriktor-package.rd | 4 man/restriktor.Rd | 12 man/restriktor_methods.Rd | 3 23 files changed, 608 insertions(+), 684 deletions(-)
Title: Bayes Factors, Model Choice and Variable Selection in Linear
Models
Description: Conceived to calculate Bayes factors in linear models and then to provide a formal Bayesian answer to testing and variable selection problems. From a theoretical side, the emphasis in this package is placed on the prior distributions and it allows a wide range of them: Jeffreys (1961); Zellner and Siow(1980)<DOI:10.1007/bf02888369>; Zellner and Siow(1984); Zellner (1986)<DOI:10.2307/2233941>; Fernandez et al. (2001)<DOI:10.1016/s0304-4076(00)00076-2>; Liang et al. (2008)<DOI:10.1198/016214507000001337> and Bayarri et al. (2012)<DOI:10.1214/12-aos1013>. The interaction with the package is through a friendly interface that syntactically mimics the well-known lm() command of R. The resulting objects can be easily explored providing the user very valuable information (like marginal, joint and conditional inclusion probabilities of potential variables; the highest posterior probability model, HPM; the median probability model, MPM) about the structure of the true -data generating- model. Additionally, this package incorporates abilities to handle problems with a large number of potential explanatory variables through parallel and heuristic versions of the main commands, Garcia-Donato and Martinez-Beneito (2013)<DOI:10.1080/01621459.2012.742443>.
Author: Gonzalo Garcia-Donato [aut],
Anabel Forte [aut, cre],
Carlos Vergara-Hernández [ctb]
Maintainer: Anabel Forte <anabel.forte@uv.es>
Diff between BayesVarSel versions 1.7.1 dated 2017-09-19 and 1.8.0 dated 2017-12-04
BayesVarSel-1.7.1/BayesVarSel/R/PBvs.R |only BayesVarSel-1.7.1/BayesVarSel/R/onAtUn.R |only BayesVarSel-1.7.1/BayesVarSel/R/print.Btest.R |only BayesVarSel-1.7.1/BayesVarSel/R/print.Bvs.R |only BayesVarSel-1.7.1/BayesVarSel/R/print.jointness.R |only BayesVarSel-1.7.1/BayesVarSel/R/print.summary.Bvs.R |only BayesVarSel-1.7.1/BayesVarSel/R/summary.Bvs.R |only BayesVarSel-1.7.1/BayesVarSel/man/PBvs.Rd |only BayesVarSel-1.7.1/BayesVarSel/man/bayesvarsel-package.rd |only BayesVarSel-1.7.1/BayesVarSel/man/histBMA.rd |only BayesVarSel-1.7.1/BayesVarSel/man/plotbvs.rd |only BayesVarSel-1.7.1/BayesVarSel/man/predictBvs.Rd |only BayesVarSel-1.8.0/BayesVarSel/DESCRIPTION | 27 BayesVarSel-1.8.0/BayesVarSel/MD5 | 66 BayesVarSel-1.8.0/BayesVarSel/NAMESPACE | 54 BayesVarSel-1.8.0/BayesVarSel/NEWS.md |only BayesVarSel-1.8.0/BayesVarSel/R/BMAcoeff.R | 330 ++- BayesVarSel-1.8.0/BayesVarSel/R/Btest.R | 454 +++- BayesVarSel-1.8.0/BayesVarSel/R/Bvs.R | 1585 +++++++++++---- BayesVarSel-1.8.0/BayesVarSel/R/GibbsBvs.R | 1222 ++++++++--- BayesVarSel-1.8.0/BayesVarSel/R/Jointness.R | 272 ++ BayesVarSel-1.8.0/BayesVarSel/R/histBMA.R | 273 ++ BayesVarSel-1.8.0/BayesVarSel/R/package.R |only BayesVarSel-1.8.0/BayesVarSel/R/plotBvs.R | 511 +++- BayesVarSel-1.8.0/BayesVarSel/R/predictBvs.R | 415 ++- BayesVarSel-1.8.0/BayesVarSel/README.md |only BayesVarSel-1.8.0/BayesVarSel/data/Hald.rda |binary BayesVarSel-1.8.0/BayesVarSel/data/Ozone35.rda |binary BayesVarSel-1.8.0/BayesVarSel/demo/BayesVarSel.Hald.R | 2 BayesVarSel-1.8.0/BayesVarSel/man/BMAcoeff.Rd | 104 BayesVarSel-1.8.0/BayesVarSel/man/BayesVarSel-package.Rd |only BayesVarSel-1.8.0/BayesVarSel/man/Btest.Rd | 216 +- BayesVarSel-1.8.0/BayesVarSel/man/Bvs.Rd | 260 +- BayesVarSel-1.8.0/BayesVarSel/man/GibbsBvs.Rd | 178 + BayesVarSel-1.8.0/BayesVarSel/man/Hald.Rd | 39 BayesVarSel-1.8.0/BayesVarSel/man/Jointness.Rd | 95 BayesVarSel-1.8.0/BayesVarSel/man/Ozone35.Rd | 118 - BayesVarSel-1.8.0/BayesVarSel/man/SDM.Rd | 168 - BayesVarSel-1.8.0/BayesVarSel/man/figures |only BayesVarSel-1.8.0/BayesVarSel/man/histBMA.Rd |only BayesVarSel-1.8.0/BayesVarSel/man/plot.Bvs.Rd |only BayesVarSel-1.8.0/BayesVarSel/man/predict.Bvs.Rd |only BayesVarSel-1.8.0/BayesVarSel/man/print.Btest.Rd |only BayesVarSel-1.8.0/BayesVarSel/man/print.Bvs.Rd |only BayesVarSel-1.8.0/BayesVarSel/man/print.jointness.Rd |only BayesVarSel-1.8.0/BayesVarSel/man/summary.Bvs.Rd |only 46 files changed, 4518 insertions(+), 1871 deletions(-)
Title: Import/Export Routines for 'MALDIquant'
Description: Functions for reading (tab, csv, Bruker fid, Ciphergen
XML, mzXML, mzML, imzML, Analyze 7.5, CDF, mMass MSD) and
writing (tab, csv, mMass MSD, mzML, imzML) different file
formats of mass spectrometry data into/from 'MALDIquant'
objects.
Author: Sebastian Gibb [aut, cre],
Pietro Franceschi [ctb]
Maintainer: Sebastian Gibb <mail@sebastiangibb.de>
Diff between MALDIquantForeign versions 0.11 dated 2017-09-06 and 0.11.1 dated 2017-12-04
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS | 9 +++++++++ R/filename-functions.R | 5 +++++ R/imzMl-functions.R | 3 ++- build/vignette.rds |binary inst/doc/MALDIquantForeign-intro.pdf |binary tests/testthat/test_filename-functions.R | 2 ++ 8 files changed, 29 insertions(+), 12 deletions(-)
More information about MALDIquantForeign at CRAN
Permanent link
Title: Combinatorics Iterators
Description: Provides iterators for combinations, permutations, subsets, and
Cartesian product, which allow one to go through all elements without creating a
huge set of all possible values.
Author: Kota Mori [aut, cre]
Maintainer: Kota Mori <kmori05@gmail.com>
Diff between combiter versions 1.0.2 dated 2017-05-26 and 1.0.3 dated 2017-12-04
combiter-1.0.2/combiter/src/combiter_init.c |only combiter-1.0.3/combiter/DESCRIPTION | 8 ++-- combiter-1.0.3/combiter/MD5 | 25 ++++++------- combiter-1.0.3/combiter/NAMESPACE | 2 - combiter-1.0.3/combiter/NEWS | 10 ++++- combiter-1.0.3/combiter/R/RcppExports.R | 16 ++++---- combiter-1.0.3/combiter/R/utils.R | 2 - combiter-1.0.3/combiter/README.md | 2 - combiter-1.0.3/combiter/src/RcppExports.cpp | 33 +++++++++++++----- combiter-1.0.3/combiter/tests/testthat/test-foreach.R | 1 combiter-1.0.3/combiter/tests/testthat/test-icartes.R | 16 +++++--- combiter-1.0.3/combiter/tests/testthat/test-icomb.R | 13 ++++--- combiter-1.0.3/combiter/tests/testthat/test-iperm.R | 7 ++- combiter-1.0.3/combiter/tests/testthat/test-isubset.R | 9 +--- 14 files changed, 86 insertions(+), 58 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-12-08 0.1
Title: A Graphical User Interface for the MuToss Project
Description: The mutossGUI package provides a graphical user interface for the MuToss Project.
Author: MuToss Coding Team (Berlin 2010), Gilles Blanchard, Thorsten Dickhaus,
Niklas Hack, Frank Konietschke, Kornelius Rohmeyer,
Jonathan Rosenblatt, Marsel Scheer, Wiebke Werft
Maintainer: Kornelius Rohmeyer <rohmeyer@small-projects.de>
Diff between mutossGUI versions 0.1-10 dated 2015-08-10 and 0.1-11 dated 2017-12-04
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/mutossGUI.R | 43 +++++++++++++++++++++++++++++++++++-------- R/onLoad.R | 7 ------- 4 files changed, 42 insertions(+), 22 deletions(-)
Title: Maximum Diversity Weighting
Description: Dimension-reduction methods aim at defining a score that maximizes signal diversity. Two approaches, namely maximum entropy weights and maximum variance weights, are provided.
Author: Zonglin He [aut, cre],
Youyi Fong [aut]
Maintainer: Zonglin He <nkhezl@gmail.com>
Diff between mdw versions 2017.8-27 dated 2017-08-28 and 2017.12-03 dated 2017-12-04
DESCRIPTION | 6 +++--- MD5 | 4 ++-- tests/doRUnit.R | 4 +++- 3 files changed, 8 insertions(+), 6 deletions(-)
Title: Collapses Levels, Computes Information Value and WoE
Description: An update to the previous version ( 0.1.0 ) of the package.
Functions in the previous version required the binary outcome variable of the data set to be strictly a factor.In version 0.2.0 the binary outcome variable may be both a factor (with two levels) or an integer (or numeric ).
All functions of the previous version have been retained.No new functions have been added.
Like the previous version,provides functions to collapse the levels of an attribute based on response rates.
It also provides functions to compute and display information value, and weight of evidence (WoE) for the attributes, and to convert numeric variables to categorical ones by binning.
These functions only work for binary classification problems.
Author: Krishanu Mukherjee
Maintainer: Krishanu Mukherjee <toton1181@gmail.com>
Diff between CollapseLevels versions 0.1.0 dated 2017-10-27 and 0.2.0 dated 2017-12-04
DESCRIPTION | 14 +++++--- MD5 | 48 ++++++++++++++-------------- NAMESPACE | 1 R/IVCalc.R | 13 ++++--- R/IVCalc2.R | 14 ++++---- R/displayIV.R | 13 ++++--- R/displayResponseRatebyLevels.R | 12 +++---- R/displayWOE.R | 13 +++---- R/gVar.R | 2 + R/levelsCollapser.R | 12 ++++--- R/numericToCategorical.R | 11 +++--- build/vignette.rds |binary data/German_Credit.RData |binary inst/doc/CollapseLevels.R | 24 -------------- inst/doc/CollapseLevels.Rmd | 33 +++---------------- inst/doc/CollapseLevels.html | 62 ++++++++----------------------------- man/German_Credit.Rd | 7 ++-- man/IVCalc.Rd | 6 --- man/IVCalc2.Rd | 6 --- man/displayIV.Rd | 7 +--- man/displayResponseRatebyLevels.Rd | 6 --- man/displayWOE.Rd | 6 --- man/levelsCollapser.Rd | 4 -- man/numericToCategorical.Rd | 5 -- vignettes/CollapseLevels.Rmd | 33 +++---------------- 25 files changed, 122 insertions(+), 230 deletions(-)
More information about CollapseLevels at CRAN
Permanent link
Title: Graph Based Multiple Comparison Procedures
Description: Functions and a graphical user interface for graphical described
multiple test procedures.
Author: Kornelius Rohmeyer [aut, cre],
Florian Klinglmueller [aut]
Maintainer: Kornelius Rohmeyer <rohmeyer@small-projects.de>
Diff between gMCP versions 0.8-11 dated 2017-11-13 and 0.8-12 dated 2017-12-04
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS | 3 +++ inst/doc/AQuickStart.pdf |binary inst/doc/gMCP.pdf |binary inst/doc/parametric.pdf |binary 6 files changed, 11 insertions(+), 8 deletions(-)
Title: Ensemble Forecast Verification for Large Data Sets
Description: Set of tools to simplify application of atomic forecast
verification metrics for (comparative) verification of ensemble forecasts
to large data sets. The forecast metrics are imported from the
'SpecsVerification' package, and additional forecast metrics are provided
with this package. Alternatively, new user-defined forecast scores can be
implemented using the example scores provided and applied using the
functionality of this package.
Author: MeteoSwiss [aut, cph],
Jonas Bhend [cre],
Jacopo Ripoldi [ctb],
Claudia Mignani [ctb],
Irina Mahlstein [ctb],
Rebecca Hiller [ctb],
Christoph Spirig [ctb],
Mark Liniger [ctb],
Andreas Weigel [ctb],
Joaqu'in Bedia Jimenez [ctb],
Matteo De Felice [ctb],
Stefan Siegert [ctb],
Katrin Sedlmeier [ctb]
Maintainer: Jonas Bhend <jonas.bhend@meteoswiss.ch>
Diff between easyVerification versions 0.4.3 dated 2017-07-04 and 0.4.4 dated 2017-12-04
DESCRIPTION | 18 ++++++++++-------- MD5 | 28 ++++++++++++++-------------- NEWS | 9 +++++++-- R/EnsIgn.R | 2 +- R/EnsRoca.R | 2 +- R/convert2prob.R | 2 +- R/veriApply.R | 24 ++++++++++++++++-------- R/veriUnwrap.R | 6 +++--- R/weisheimer.R | 2 +- man/EnsIgn.Rd | 2 +- man/EnsRoca.Rd | 2 +- man/convert2prob.Rd | 2 +- man/veriApply.Rd | 23 +++++++++++++++-------- man/weisheimer.Rd | 2 +- tests/testthat/test_veriApply.R | 10 ++++++++++ 15 files changed, 83 insertions(+), 51 deletions(-)
More information about easyVerification at CRAN
Permanent link
Title: Scatter Pie Plot
Description: Creates scatterpie plots, especially useful for plotting pies on a map.
Author: Guangchuang Yu [aut, cre] (0000-0002-6485-8781)
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between scatterpie versions 0.0.7 dated 2017-03-22 and 0.0.8 dated 2017-12-04
DESCRIPTION | 17 +-- MD5 | 16 +-- NEWS | 5 + R/geom_scatterpie.R | 13 ++ build/vignette.rds |binary inst/doc/scatterpie.html | 201 ++++++++++++++++++++++++------------------ man/geom_scatterpie.Rd | 5 - man/geom_scatterpie_legend.Rd | 1 man/recenter.Rd | 1 9 files changed, 150 insertions(+), 109 deletions(-)
Title: Functions Useful in the Design and ANOVA of Experiments
Description: The content falls into the following groupings: (i) Data, (ii)
Factor manipulation functions, (iii) Design functions, (iv) ANOVA functions, (v)
Matrix functions, (vi) Projector and canonical efficiency functions, and (vii)
Miscellaneous functions. There is a vignette describing how to use the
Design functions for randomizing and assessing designs available in the file
'daeDesignNotes.pdf'. The ANOVA functions facilitate the extraction of
information when the 'Error' function has been used in the call to 'aov'.
Author: Chris Brien <Chris.Brien@unisa.edu.au>.
Maintainer: Chris Brien <Chris.Brien@unisa.edu.au>
Diff between dae versions 3.0-04 dated 2017-07-08 and 3.0-12 dated 2017-12-04
dae-3.0-04/dae/R/designRandomize.r |only dae-3.0-12/dae/DESCRIPTION | 8 dae-3.0-12/dae/MD5 | 41 - dae-3.0-12/dae/NAMESPACE | 1 dae-3.0-12/dae/R/Interaction.ABC.Plot.r | 2 dae-3.0-12/dae/R/designPlot.v2.r | 36 dae-3.0-12/dae/R/designRandomize.v2.r |only dae-3.0-12/dae/R/fac.functions.r | 3 dae-3.0-12/dae/R/projs.canon.v5.r | 635 ++++++++++------- dae-3.0-12/dae/R/projs2.canon.v5.r | 8 dae-3.0-12/dae/R/pstructure.v2.r | 33 dae-3.0-12/dae/build/partial.rdb |binary dae-3.0-12/dae/inst/NEWS.Rd | 36 dae-3.0-12/dae/inst/doc/dae-manual.pdf |binary dae-3.0-12/dae/man/dae-package.Rd | 6 dae-3.0-12/dae/man/designPlot.Rd | 2 dae-3.0-12/dae/man/designPlotlabels.Rd |only dae-3.0-12/dae/man/designRandomize.Rd | 20 dae-3.0-12/dae/man/interaction.ABC.plot.Rd | 7 dae-3.0-12/dae/man/print.summary.pcanon.Rd | 3 dae-3.0-12/dae/man/summary.pcanon.Rd | 18 dae-3.0-12/dae/tests/testthat/testInteractionABCplot.r | 5 dae-3.0-12/dae/tests/testthat/testSources.r | 2 23 files changed, 579 insertions(+), 287 deletions(-)
Title: Color Calculations with Emphasis on Spectral Data
Description: Calculate with spectral properties of light sources, materials, cameras, eyes, and scanners.
Build complex systems from simpler parts using a spectral product algebra. For light sources,
compute CCT and CRI. For object colors, compute optimal colors and Logvinenko coordinates.
Work with the standard CIE illuminants and color matching functions, and read spectra from
text files, including CGATS files. A user guide and 5 vignettes are included.
Author: Glenn Davis [aut, cre]
Maintainer: Glenn Davis <gdavis@gluonics.com>
Diff between colorSpec versions 0.6-1 dated 2017-11-17 and 0.6-2 dated 2017-12-04
colorSpec-0.6-1/colorSpec/ChangeLog |only colorSpec-0.6-1/colorSpec/inst/doc/PhenolRed.R |only colorSpec-0.6-1/colorSpec/inst/doc/PhenolRed.Rmd |only colorSpec-0.6-1/colorSpec/inst/doc/PhenolRed.html |only colorSpec-0.6-1/colorSpec/vignettes/PhenolRed.Rmd |only colorSpec-0.6-2/colorSpec/DESCRIPTION | 8 colorSpec-0.6-2/colorSpec/MD5 | 69 - colorSpec-0.6-2/colorSpec/NEWS.md | 23 colorSpec-0.6-2/colorSpec/R/CGATS.R | 416 ++++++---- colorSpec-0.6-2/colorSpec/R/colorSpec.read.R | 333 +++++--- colorSpec-0.6-2/colorSpec/R/colorSpec.summary.R | 6 colorSpec-0.6-2/colorSpec/R/sysdata.rda |binary colorSpec-0.6-2/colorSpec/build/vignette.rds |binary colorSpec-0.6-2/colorSpec/data/colorSpec.rda |binary colorSpec-0.6-2/colorSpec/inst/doc/blueflame.pdf |binary colorSpec-0.6-2/colorSpec/inst/doc/colorSpec-guide.R | 4 colorSpec-0.6-2/colorSpec/inst/doc/colorSpec-guide.Rmd | 37 colorSpec-0.6-2/colorSpec/inst/doc/colorSpec-guide.html | 79 + colorSpec-0.6-2/colorSpec/inst/doc/gallery.pdf |binary colorSpec-0.6-2/colorSpec/inst/doc/lens-aging.pdf |binary colorSpec-0.6-2/colorSpec/inst/doc/optimals.pdf |binary colorSpec-0.6-2/colorSpec/inst/doc/phenolred.R |only colorSpec-0.6-2/colorSpec/inst/doc/phenolred.Rmd |only colorSpec-0.6-2/colorSpec/inst/doc/phenolred.html |only colorSpec-0.6-2/colorSpec/inst/extdata/targets/CC_Avg30_spectrum_CGATS.txt | 6 colorSpec-0.6-2/colorSpec/inst/extdata/targets/TCSforCRI.txt | 11 colorSpec-0.6-2/colorSpec/man/colorSpec-package.Rd | 4 colorSpec-0.6-2/colorSpec/man/computeCCT.Rd | 4 colorSpec-0.6-2/colorSpec/man/interpolate.Rd | 2 colorSpec-0.6-2/colorSpec/man/logging.Rd | 11 colorSpec-0.6-2/colorSpec/man/plot.Rd | 5 colorSpec-0.6-2/colorSpec/man/print.Rd | 14 colorSpec-0.6-2/colorSpec/man/readCGATS.Rd | 53 + colorSpec-0.6-2/colorSpec/man/readSpectra.Rd | 44 - colorSpec-0.6-2/colorSpec/man/resample.Rd | 12 colorSpec-0.6-2/colorSpec/tests/test-CGATS.R | 2 colorSpec-0.6-2/colorSpec/vignettes/colorSpec-guide.Rmd | 37 colorSpec-0.6-2/colorSpec/vignettes/phenolred.Rmd |only colorSpec-0.6-2/colorSpec/vignettes/tables/table-B.3.html | 27 colorSpec-0.6-2/colorSpec/vignettes/tables/table-C.2.html | 47 - 40 files changed, 836 insertions(+), 418 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-02-09 1.2
2014-05-23 1.1
2014-01-11 1.0-4
2013-06-05 1.0-3
2013-04-22 1.0-2
Title: A Clustering Method Based on Boosting on Single Attributes
Description: An overlap clustering algorithm for categorical ultra-dimension data.
Author: Peng Zhang [aut],
Kaixiu Jin [aut, cre]
Maintainer: Kaixiu Jin <jinkaixiu@zju.edu.cn>
Diff between boclust versions 0.1.1 dated 2017-11-22 and 0.1.2 dated 2017-12-04
DESCRIPTION | 10 +++++----- MD5 | 4 ++-- NEWS.md | 3 +++ 3 files changed, 10 insertions(+), 7 deletions(-)
Title: An R-Shiny Application for Smith's Mean Measure of Divergence
(MMD)
Description: Offers a Shiny user interface for the calculation of the mean measure of divergence, with facilities for trait selection and graphical representations.
Author: Frederic Santos
Maintainer: Frederic Santos <frederic.santos@u-bordeaux.fr>
Diff between AnthropMMD versions 2.3.0 dated 2017-11-27 and 2.3.2 dated 2017-12-04
DESCRIPTION | 8 +++---- MD5 | 10 ++++----- inst/AnthropMMDShinyApp/fisherTestTab.R | 3 +- inst/AnthropMMDShinyApp/server.R | 33 +++++++++++++++++++------------- man/AnthropMMD-package.Rd | 14 ++++++------- man/StartMMD.Rd | 10 ++++----- 6 files changed, 43 insertions(+), 35 deletions(-)