Title: 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra
Library
Description: 'Armadillo' is a templated C++ linear algebra library (by Conrad
Sanderson) that aims towards a good balance between speed and ease of use. Integer,
floating point and complex numbers are supported, as well as a subset of
trigonometric and statistics functions. Various matrix decompositions are
provided through optional integration with LAPACK and ATLAS libraries.
The 'RcppArmadillo' package includes the header files from the templated
'Armadillo' library. Thus users do not need to install 'Armadillo' itself in
order to use 'RcppArmadillo'. From release 7.800.0 on, 'Armadillo' is
licensed under Apache License 2; previous releases were under licensed as
MPL 2.0 from version 3.800.0 onwards and LGPL-3 prior to that;
'RcppArmadillo' (the 'Rcpp' bindings/bridge to Armadillo) is licensed under
the GNU GPL version 2 or later, as is the rest of 'Rcpp'. Note that
Armadillo requires a fairly recent compiler; for the g++ family at least
version 4.6.* is required.
Author: Dirk Eddelbuettel, Romain Francois, Doug Bates and Binxiang Ni
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppArmadillo versions 0.8.500.0 dated 2018-04-30 and 0.8.600.0.0 dated 2018-06-29
ChangeLog | 670 +++++++------- DESCRIPTION | 11 MD5 | 95 + R/RcppArmadillo.package.skeleton.R | 6 R/SciPy2R.R | 15 configure | 55 - configure.ac | 45 inst/NEWS.Rd | 37 inst/doc/RcppArmadillo-intro.pdf |binary inst/doc/RcppArmadillo-sparseMatrix.Rmd | 55 - inst/doc/RcppArmadillo-sparseMatrix.pdf |binary inst/doc/RcppArmadillo-unitTests.pdf |binary inst/include/armadillo | 3 inst/include/armadillo_bits/Cube_bones.hpp | 36 inst/include/armadillo_bits/Cube_meat.hpp | 564 +++++++++++ inst/include/armadillo_bits/MapMat_bones.hpp | 8 inst/include/armadillo_bits/MapMat_meat.hpp | 42 inst/include/armadillo_bits/ProxyCube.hpp | 44 inst/include/armadillo_bits/SpMat_bones.hpp | 1 inst/include/armadillo_bits/SpMat_iterators_meat.hpp | 4 inst/include/armadillo_bits/SpMat_meat.hpp | 150 +-- inst/include/armadillo_bits/SpSubview_iterators_meat.hpp | 12 inst/include/armadillo_bits/arma_forward.hpp | 1 inst/include/armadillo_bits/arma_rng.hpp | 4 inst/include/armadillo_bits/arma_rng_cxx98.hpp | 15 inst/include/armadillo_bits/arma_str.hpp | 24 inst/include/armadillo_bits/arma_version.hpp | 4 inst/include/armadillo_bits/auxlib_bones.hpp | 23 inst/include/armadillo_bits/auxlib_meat.hpp | 327 ++++++ inst/include/armadillo_bits/band_helper.hpp | 54 + inst/include/armadillo_bits/compiler_setup.hpp | 2 inst/include/armadillo_bits/constants.hpp | 4 inst/include/armadillo_bits/def_lapack.hpp | 51 + inst/include/armadillo_bits/fn_hess.hpp |only inst/include/armadillo_bits/glue_mixed_meat.hpp | 46 inst/include/armadillo_bits/glue_solve_meat.hpp | 32 inst/include/armadillo_bits/memory.hpp | 7 inst/include/armadillo_bits/mul_gemm_mixed.hpp | 315 ++---- inst/include/armadillo_bits/spglue_times_meat.hpp | 13 inst/include/armadillo_bits/strip.hpp | 10 inst/include/armadillo_bits/subview_cube_slices_bones.hpp |only inst/include/armadillo_bits/subview_cube_slices_meat.hpp |only inst/include/armadillo_bits/traits.hpp | 13 inst/include/armadillo_bits/unwrap.hpp | 177 ++- inst/include/armadillo_bits/wrapper_lapack.hpp | 113 ++ inst/unitTests/cpp/Rlapack.cpp | 20 inst/unitTests/runit.Rlapack.R | 11 inst/unitTests/runit.scipy2r.R | 7 vignettes/RcppArmadillo-sparseMatrix.Rmd | 55 - vignettes/RcppArmadillo.bib | 36 50 files changed, 2258 insertions(+), 959 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 1.3.6 dated 2018-02-22 and 1.3.7 dated 2018-06-29
Rttf2pt1-1.3.6/Rttf2pt1/NEWS |only Rttf2pt1-1.3.6/Rttf2pt1/src/README |only Rttf2pt1-1.3.7/Rttf2pt1/DESCRIPTION | 6 +++--- Rttf2pt1-1.3.7/Rttf2pt1/MD5 | 8 ++++---- Rttf2pt1-1.3.7/Rttf2pt1/NEWS.md |only Rttf2pt1-1.3.7/Rttf2pt1/src/README.md |only Rttf2pt1-1.3.7/Rttf2pt1/src/ttf2pt1/bitmap.c | 2 +- 7 files changed, 8 insertions(+), 8 deletions(-)
Title: Object Pooling
Description: Enables the creation of object pools, which make it less
computationally expensive to fetch a new object. Currently the
only supported pooled objects are 'DBI' connections.
Author: Joe Cheng [aut, cre],
Barbara Borges [aut],
RStudio [cph]
Maintainer: Joe Cheng <joe@rstudio.com>
Diff between pool versions 0.1.4 dated 2018-03-10 and 0.1.4.1 dated 2018-06-29
DESCRIPTION | 15 +++++++++------ MD5 | 4 ++-- NEWS.md | 5 +++++ 3 files changed, 16 insertions(+), 8 deletions(-)
Title: Nested Loop Cross Validation
Description: Nested loop cross validation for classification purposes for misclassification error rate estimation.
The package supports several methodologies for feature selection: random forest, Student t-test, limma,
and provides an interface to the following classification methods in the 'MLInterfaces' package: linear,
quadratic discriminant analyses, random forest, bagging, prediction analysis for microarray, generalized
linear model, support vector machine (svm and ksvm). Visualizations to assess the quality of
the classifier are included: plot of the ranks of the features, scores plot for a specific
classification algorithm and number of features, misclassification rate
for the different number of features and classification algorithms tested and ROC plot.
For further details about the methodology, please check:
Markus Ruschhaupt, Wolfgang Huber, Annemarie Poustka, and Ulrich Mansmann (2004)
<doi:10.2202/1544-6115.1078>.
Author: Willem Talloen, Tobias Verbeke
Maintainer: Laure Cougnaud <laure.cougnaud@openanalytics.eu>
Diff between nlcv versions 0.3.4 dated 2018-05-18 and 0.3.5 dated 2018-06-29
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/nlcv.R | 49 +++++++++++++++++++++++++++++++++---------------- build/vignette.rds |binary inst/NEWS | 3 +++ inst/doc/nlcv.pdf |binary man/nlcv.Rd | 4 +++- 7 files changed, 49 insertions(+), 27 deletions(-)
Title: Meta-Feature Extractor
Description: Extracts meta-features from datasets to support the design of
recommendation systems based on Meta-Learning. The meta-features, also called
characterization measures, are able to characterize the complexity of datasets
and to provide estimates of algorithm performance. The package contains not
only the standard characterization measures, but also more recent
characterization measures. By making available a large set of meta-feature
extraction functions, tasks like comprehensive data characterization, deep
data exploration and large number of Meta-Learning based data analysis can be
performed. These concepts are described in the paper: Fabio Pinto, Carlos
Soares, and Joao Mendes-Moreira. Towards automatic generation of metafeatures.
In Pacific-Asia Conference on Knowledge Discovery and Data Mining (PAKDD),
pages 215 - 226, 2016, <doi:10.1007/978-3-319-31753-3_18>.
Author: Adriano Rivolli [aut, cre],
Luis P. F. Garcia [aut],
Andre C. P. L. F. de Carvalho [ths]
Maintainer: Adriano Rivolli <rivolli@utfpr.edu.br>
Diff between mfe versions 0.1.0 dated 2017-01-31 and 0.1.1 dated 2018-06-29
mfe-0.1.0/mfe/R/discriminant.R |only mfe-0.1.0/mfe/man/ls.discriminant.Rd |only mfe-0.1.0/mfe/man/mf.discriminant.Rd |only mfe-0.1.0/mfe/man/mf.general.Rd |only mfe-0.1.0/mfe/man/mf.infotheo.Rd |only mfe-0.1.0/mfe/man/mf.landmarking.Rd |only mfe-0.1.0/mfe/man/mf.model.based.Rd |only mfe-0.1.0/mfe/man/mf.statistical.Rd |only mfe-0.1.0/mfe/tests/testthat/test_discriminant.R |only mfe-0.1.0/mfe/tests/testthat/test_metafeatuers.R |only mfe-0.1.0/mfe/tests/testthat/test_model.based.R |only mfe-0.1.0/mfe/tests/testthat/test_post.processing.R |only mfe-0.1.1/mfe/DESCRIPTION | 43 - mfe-0.1.1/mfe/MD5 | 77 +- mfe-0.1.1/mfe/NAMESPACE | 34 - mfe-0.1.1/mfe/NEWS.md | 15 mfe-0.1.1/mfe/R/general.R | 192 +++--- mfe-0.1.1/mfe/R/infotheo.R | 258 ++++----- mfe-0.1.1/mfe/R/internal.R | 105 +++ mfe-0.1.1/mfe/R/landmarking.R | 279 ++++------ mfe-0.1.1/mfe/R/metafeatures.R | 43 - mfe-0.1.1/mfe/R/model.based.R | 230 ++++---- mfe-0.1.1/mfe/R/post.processing.R | 63 +- mfe-0.1.1/mfe/R/statistical.R | 454 +++++++++++----- mfe-0.1.1/mfe/README.md | 51 - mfe-0.1.1/mfe/build/vignette.rds |binary mfe-0.1.1/mfe/inst/doc/mfe-vignette.R | 104 +-- mfe-0.1.1/mfe/inst/doc/mfe-vignette.Rmd | 267 ++++----- mfe-0.1.1/mfe/inst/doc/mfe-vignette.html | 550 +++++++++++++------- mfe-0.1.1/mfe/man/general.Rd |only mfe-0.1.1/mfe/man/infotheo.Rd |only mfe-0.1.1/mfe/man/landmarking.Rd |only mfe-0.1.1/mfe/man/ls.general.Rd | 1 mfe-0.1.1/mfe/man/ls.infotheo.Rd | 1 mfe-0.1.1/mfe/man/ls.landmarking.Rd | 3 mfe-0.1.1/mfe/man/ls.metafeatures.Rd | 1 mfe-0.1.1/mfe/man/ls.model.based.Rd | 1 mfe-0.1.1/mfe/man/ls.statistical.Rd | 1 mfe-0.1.1/mfe/man/metafeatures.Rd | 29 - mfe-0.1.1/mfe/man/model.based.Rd |only mfe-0.1.1/mfe/man/post.processing.Rd | 26 mfe-0.1.1/mfe/man/statistical.Rd |only mfe-0.1.1/mfe/tests/testthat/test_general.R | 66 -- mfe-0.1.1/mfe/tests/testthat/test_infotheo.R | 61 -- mfe-0.1.1/mfe/tests/testthat/test_landmarking.R | 56 -- mfe-0.1.1/mfe/tests/testthat/test_metafeatures.R |only mfe-0.1.1/mfe/tests/testthat/test_modelbased.R |only mfe-0.1.1/mfe/tests/testthat/test_statistical.R | 96 --- mfe-0.1.1/mfe/vignettes/mfe-vignette.Rmd | 267 ++++----- 49 files changed, 1794 insertions(+), 1580 deletions(-)
Title: Easy Handling Discrete Time Markov Chains
Description: Functions and S4 methods to create and manage discrete time Markov
chains more easily. In addition functions to perform statistical (fitting
and drawing random variates) and probabilistic (analysis of their structural
proprieties) analysis are provided.
Author: Giorgio Alfredo Spedicato [aut,cre], Tae Seung Kang [aut], Sai Bhargav
Yalamanchi [aut], Mildenberger Thoralf [ctb], Deepak Yadav [ctb], Nacho Cordón
Castillo [ctb], Vandit Jain [ctb]
Maintainer: Giorgio Alfredo Spedicato <spedicato_giorgio@yahoo.it>
Diff between markovchain versions 0.6.9.10 dated 2018-06-02 and 0.6.9.11 dated 2018-06-29
ChangeLog | 2 + DESCRIPTION | 8 +++--- MD5 | 18 +++++++-------- NEWS | 6 +---- inst/doc/GSoC-2017_additions.pdf |binary inst/doc/an_introduction_to_markovchain_package.pdf |binary inst/doc/complicateSteadyStates.pdf |binary inst/doc/higher_order_markov_chains.pdf |binary inst/doc/markovchainCrashIntro.pdf |binary vignettes/markovchainBiblio.bib | 23 ++++++-------------- 10 files changed, 24 insertions(+), 33 deletions(-)
Title: Interactive Tutorials for R
Description: Create interactive tutorials using R Markdown. Use a combination
of narrative, figures, videos, exercises, and quizzes to create self-paced
tutorials for learning about R and R packages.
Author: Barret Schloerke [aut, cre],
JJ Allaire [aut],
Barbara Borges [aut],
RStudio, Inc. [cph],
Ajax.org B.V. [ctb, cph] (Ace library),
Zeno Rocha [ctb, cph] (clipboard.js library),
Nick Payne [ctb, cph] (Bootbox library),
Julie Cameron [ctb] (SlickQuiz library),
Quicken Loans [cph] (SlickQuiz library),
Mozilla [ctb, cph] (localforage library)
Maintainer: Barret Schloerke <barret@rstudio.com>
Diff between learnr versions 0.9.2 dated 2018-03-09 and 0.9.2.1 dated 2018-06-29
DESCRIPTION | 14 ++++++++------ MD5 | 4 ++-- NEWS.md | 5 +++++ 3 files changed, 15 insertions(+), 8 deletions(-)
Title: R Markdown Format for Flexible Dashboards
Description: Format for converting an R Markdown document to a grid oriented
dashboard. The dashboard flexibly adapts the size of it's components to the
containing web page.
Author: Richard Iannone [aut, cre] (<https://orcid.org/0000-0003-3925-190X>),
JJ Allaire [aut],
Barbara Borges [aut],
RStudio [cph],
Keen IO [ctb, cph] (Dashboard CSS),
Abdullah Almsaeed [ctb, cph] (Dashboard CSS),
Jonas Mosbech [ctb, cph] (StickyTableHeaders),
Noel Bossart [ctb, cph] (Featherlight),
Lea Verou [ctb, cph] (Prism),
Dmitry Baranovskiy [ctb, cph] (Raphael.js),
Sencha Labs [ctb, cph] (Raphael.js),
Bojan Djuricic [ctb, cph] (JustGage),
Tomas Sardyha [ctb, cph] (Sly),
Bryan Lewis [ctb, cph] (Examples),
Carson Sievert [ctb, cph] (Examples),
Joshua Kunst [ctb, cph] (Examples),
Ryan Hafen [ctb, cph] (Examples),
Bob Rudis [ctb, cph] (Examples),
Joe Cheng [ctb] (Examples)
Maintainer: Richard Iannone <rich@rstudio.com>
Diff between flexdashboard versions 0.5.1 dated 2017-11-29 and 0.5.1.1 dated 2018-06-29
DESCRIPTION | 15 +++++++++------ MD5 | 4 ++-- NEWS.md | 5 +++++ 3 files changed, 16 insertions(+), 8 deletions(-)
Title: A Grammar of Data Manipulation
Description: A fast, consistent tool for working with data frame like objects,
both in memory and out of memory.
Author: Hadley Wickham [aut, cre] (<https://orcid.org/0000-0003-4757-117X>),
Romain François [aut] (<https://orcid.org/0000-0002-2444-4226>),
Lionel Henry [aut],
Kirill Müller [aut] (<https://orcid.org/0000-0002-1416-3412>),
RStudio [cph, fnd]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between dplyr versions 0.7.5 dated 2018-05-19 and 0.7.6 dated 2018-06-29
dplyr-0.7.5/dplyr/tests/testthat/utf-8.R |only dplyr-0.7.5/dplyr/vignettes/data_frames.html |only dplyr-0.7.5/dplyr/vignettes/databases.html |only dplyr-0.7.5/dplyr/vignettes/hybrid-evaluation.html |only dplyr-0.7.5/dplyr/vignettes/introduction.html |only dplyr-0.7.5/dplyr/vignettes/new-sql-backend.html |only dplyr-0.7.5/dplyr/vignettes/nse.html |only dplyr-0.7.6/dplyr/DESCRIPTION | 22 - dplyr-0.7.6/dplyr/MD5 | 62 ++-- dplyr-0.7.6/dplyr/NAMESPACE | 1 dplyr-0.7.6/dplyr/NEWS.md | 131 ++++++---- dplyr-0.7.6/dplyr/R/dataframe.R | 33 ++ dplyr-0.7.6/dplyr/R/error.R | 2 dplyr-0.7.6/dplyr/R/utils-tidy-eval.R | 8 dplyr-0.7.6/dplyr/build/vignette.rds |binary dplyr-0.7.6/dplyr/inst/doc/programming.html | 10 dplyr-0.7.6/dplyr/inst/include/dplyr/Collecter.h | 4 dplyr-0.7.6/dplyr/inst/include/dplyr/GroupedDataFrame.h | 6 dplyr-0.7.6/dplyr/inst/include/dplyr/JoinVisitorImpl.h | 6 dplyr-0.7.6/dplyr/inst/include/dplyr/Result/Lag.h | 4 dplyr-0.7.6/dplyr/inst/include/dplyr/Result/Lead.h | 4 dplyr-0.7.6/dplyr/inst/include/dplyr/Result/Mutater.h | 6 dplyr-0.7.6/dplyr/inst/include/dplyr/Result/Rank.h | 10 dplyr-0.7.6/dplyr/inst/include/dplyr/SubsetVectorVisitorImpl.h | 4 dplyr-0.7.6/dplyr/inst/include/tools/wrap_subset.h | 2 dplyr-0.7.6/dplyr/man/tidyeval.Rd | 6 dplyr-0.7.6/dplyr/src/api.cpp | 10 dplyr-0.7.6/dplyr/src/between.cpp | 2 dplyr-0.7.6/dplyr/src/bind.cpp | 6 dplyr-0.7.6/dplyr/src/group_indices.cpp | 4 dplyr-0.7.6/dplyr/src/test.cpp | 13 dplyr-0.7.6/dplyr/src/utils.cpp | 3 dplyr-0.7.6/dplyr/src/window.cpp | 2 dplyr-0.7.6/dplyr/tests/testthat/test-mutate.r | 2 dplyr-0.7.6/dplyr/tests/testthat/test-sets.R | 9 dplyr-0.7.6/dplyr/tests/testthat/utf-8.txt |only 36 files changed, 233 insertions(+), 139 deletions(-)
Title: Tables so Beautifully Fine-Tuned You Will Believe It's Magic
Description: The introduction of the 'broom' package has made converting model
objects into data frames as simple as a single function. While the 'broom'
package focuses on providing tidy data frames that can be used in advanced
analysis, it deliberately stops short of providing functionality for reporting
models in publication-ready tables. 'pixiedust' provides this functionality with
a programming interface intended to be similar to 'ggplot2's system of layers
with fine tuned control over each cell of the table. Options for output include
printing to the console and to the common markdown formats (markdown, HTML, and
LaTeX). With a little 'pixiedust' (and happy thoughts) tables can really fly.
Author: Benjamin Nutter [aut, cre],
David Kretch [ctb]
Maintainer: Benjamin Nutter <benjamin.nutter@gmail.com>
Diff between pixiedust versions 0.8.3 dated 2018-05-11 and 0.8.4 dated 2018-06-29
DESCRIPTION | 6 MD5 | 27 ++-- NAMESPACE | 1 NEWS | 5 R/gaze.R |only R/glance_foot.R | 4 inst/doc/advancedMagic.html | 4 inst/doc/pixiedust.R | 13 +- inst/doc/pixiedust.Rmd | 16 +- inst/doc/pixiedust.html | 213 ++++----------------------------- inst/doc/sprinkles.html | 4 man/gaze.Rd |only tests/testthat/test-dust.R | 7 - tests/testthat/test-gaze.R |only tests/testthat/test-perform_function.R | 4 vignettes/pixiedust.Rmd | 16 +- 16 files changed, 96 insertions(+), 224 deletions(-)
Title: Protein Secondary Structure Prediction Using the Bamboo Method
Description: Implementation of the Bamboo methods described in Li, Dahl, Vannucci, Joo, and Tsai (2014) <DOI:10.1371/journal.pone.0109832>.
Author: David B. Dahl [aut, cre]
Maintainer: David B. Dahl <dahl@stat.byu.edu>
Diff between bamboo versions 0.9.19 dated 2017-11-25 and 0.9.22 dated 2018-06-29
bamboo-0.9.19/bamboo/inst/java/scala-2.11/bamboo_2.11-0.9.19.jar |only bamboo-0.9.19/bamboo/inst/java/scala-2.12/bamboo_2.12-0.9.19.jar |only bamboo-0.9.22/bamboo/DESCRIPTION | 10 +- bamboo-0.9.22/bamboo/MD5 | 24 +++---- bamboo-0.9.22/bamboo/NEWS | 8 ++ bamboo-0.9.22/bamboo/R/bamboo.R | 34 +++++----- bamboo-0.9.22/bamboo/R/onLoad.R | 4 - bamboo-0.9.22/bamboo/data/bamboo.MSA.astral30.RData |binary bamboo-0.9.22/bamboo/data/bamboo.MSA.casp9.RData |binary bamboo-0.9.22/bamboo/data/bamboo.training.RData |binary bamboo-0.9.22/bamboo/data/bamboo.validation.astral30.RData |binary bamboo-0.9.22/bamboo/data/bamboo.validation.casp9.RData |binary bamboo-0.9.22/bamboo/inst/java/scala-2.11/bamboo_2.11-0.9.22.jar |only bamboo-0.9.22/bamboo/inst/java/scala-2.12/bamboo_2.12-0.9.22.jar |only bamboo-0.9.22/bamboo/java/bamboo-sources.jar |binary 15 files changed, 43 insertions(+), 37 deletions(-)
Title: Audio Interface for R
Description: Interfaces to audio devices (mainly sample-based) from R to allow recording and playback of audio. Built-in devices include Windows MM, Mac OS X AudioUnits and PortAudio (the last one is very experimental).
Author: Simon Urbanek <simon.urbanek@r-project.org>
Maintainer: Simon Urbanek <simon.urbanek@r-project.org>
Diff between audio versions 0.1-5 dated 2013-12-23 and 0.1-5.1 dated 2018-06-29
DESCRIPTION | 6 +++--- MD5 | 4 ++-- NAMESPACE | 17 +++++++++++++++++ 3 files changed, 22 insertions(+), 5 deletions(-)
Title: Suite of GR Hydrological Models for Precipitation-Runoff
Modelling
Description: Hydrological modelling tools developed at Irstea-Antony (HYCAR Research Unit, France). The package includes several conceptual rainfall-runoff models (GR4H, GR4J, GR5J, GR6J, GR2M, GR1A), a snow accumulation and melt model (CemaNeige) and the associated functions for their calibration and evaluation. Use help(airGR) for package description.
Author: Laurent Coron [aut, trl],
Charles Perrin [aut, ths],
Olivier Delaigue [aut, cre],
Guillaume Thirel [aut],
Claude Michel [aut, ths],
Vazken Andréassian [ctb, ths],
François Bourgin [ctb] ('Parameter estimation' vignettes),
Pierre Brigode [ctb],
Nicolas Le Moine [ctb],
Thibaut Mathevet [ctb],
Safouane Mouelhi [ctb],
Ludovic Oudin [ctb],
Raji Pushpalatha [ctb],
Audrey Valéry [ctb]
Maintainer: Olivier Delaigue <airGR@irstea.fr>
Diff between airGR versions 1.0.9.64 dated 2017-11-10 and 1.0.10.11 dated 2018-06-29
DESCRIPTION | 14 MD5 | 94 ++--- R/CreateInputsCrit.R | 50 +-- R/CreateInputsModel.R | 3 R/CreateRunOptions.R | 2 R/RunModel_GR2M.R | 2 R/plot.OutputsModel.R | 6 build/vignette.rds |binary inst/CITATION | 8 inst/doc/V01_get_started.R | 4 inst/doc/V01_get_started.Rmd | 6 inst/doc/V01_get_started.html | 570 ++++++++++++------------------------ inst/doc/V02.1_param_optim.R | 4 inst/doc/V02.1_param_optim.Rmd | 6 inst/doc/V02.1_param_optim.html | 421 ++++++++------------------ inst/doc/V02.2_param_mcmc.R | 1 inst/doc/V02.2_param_mcmc.Rmd | 1 inst/doc/V02.2_param_mcmc.html | 434 ++++++++------------------- inst/doc/V03_param_sets_GR4J.Rmd | 6 inst/doc/V03_param_sets_GR4J.html | 425 ++++++++------------------ man/Calibration.Rd | 8 man/Calibration_Michel.Rd | 8 man/CreateCalibOptions.Rd | 4 man/CreateInputsCrit.Rd | 19 - man/CreateInputsModel.Rd | 17 - man/CreateRunOptions.Rd | 8 man/DataAltiExtrapolation_Valery.Rd | 4 man/ErrorCrit.Rd | 4 man/Param_Sets_GR4J.Rd | 8 man/RunModel.Rd | 4 man/RunModel_CemaNeige.Rd | 10 man/RunModel_CemaNeigeGR4J.Rd | 4 man/RunModel_CemaNeigeGR5J.Rd | 4 man/RunModel_CemaNeigeGR6J.Rd | 4 man/RunModel_GR2M.Rd | 21 - man/RunModel_GR4H.Rd | 23 - man/RunModel_GR4J.Rd | 52 +-- man/RunModel_GR5J.Rd | 4 man/RunModel_GR6J.Rd | 4 man/SeriesAggreg.Rd | 2 man/airGR.Rd | 2 src/frun_GR2M.f | 15 src/frun_GR4J.f | 2 vignettes/V00_airgr_ref.bib | 2 vignettes/V01_get_started.Rmd | 6 vignettes/V02.1_param_optim.Rmd | 6 vignettes/V02.2_param_mcmc.Rmd | 1 vignettes/V03_param_sets_GR4J.Rmd | 6 48 files changed, 846 insertions(+), 1463 deletions(-)
Title: Analysis of Numerical Plankton Images
Description: A free (open source) solution for analyzing digital
images of plankton. In combination with ImageJ, a free image analysis
system, it processes digital images, measures individuals, trains for
automatic classification of taxa, and finally, measures plankton samples
(abundances, total and partial size spectra or biomasses, etc.).
Author: Philippe Grosjean [aut, cre],
Kevin Denis [aut],
Guillaume Wacquet [aut]
Maintainer: Philippe Grosjean <phgrosjean@sciviews.org>
Diff between zooimage versions 3.0-5 dated 2014-03-02 and 5.5.2 dated 2018-06-29
zooimage-3.0-5/zooimage/NEWS |only zooimage-5.5.2/zooimage/DESCRIPTION | 34 zooimage-5.5.2/zooimage/MD5 | 113 zooimage-5.5.2/zooimage/NAMESPACE | 68 zooimage-5.5.2/zooimage/R/ZICell.R |only zooimage-5.5.2/zooimage/R/ZIClass.R | 2 zooimage-5.5.2/zooimage/R/ZIRes.R | 83 zooimage-5.5.2/zooimage/R/ZITrain.R | 27 zooimage-5.5.2/zooimage/R/activeLearning.R |only zooimage-5.5.2/zooimage/R/correction.R |only zooimage-5.5.2/zooimage/R/fileutils.R | 73 zooimage-5.5.2/zooimage/R/gui.R | 642 ++++- zooimage-5.5.2/zooimage/R/guiutils.R | 2 zooimage-5.5.2/zooimage/R/import.R |only zooimage-5.5.2/zooimage/R/planktonSorter.R |only zooimage-5.5.2/zooimage/R/utilities.R | 1531 ++++++++----- zooimage-5.5.2/zooimage/R/zic.R | 2 zooimage-5.5.2/zooimage/R/zid.R | 331 +- zooimage-5.5.2/zooimage/R/zidb.R | 1167 +++++---- zooimage-5.5.2/zooimage/R/zie.R | 340 +- zooimage-5.5.2/zooimage/R/zim.R | 183 - zooimage-5.5.2/zooimage/R/zip.R | 2 zooimage-5.5.2/zooimage/R/zis.R | 53 zooimage-5.5.2/zooimage/R/zzz.R | 33 zooimage-5.5.2/zooimage/TODO |only zooimage-5.5.2/zooimage/inst/etc/Basic.zic | 66 zooimage-5.5.2/zooimage/inst/etc/Conversion.txt | 16 zooimage-5.5.2/zooimage/inst/etc/Detailed.zic | 106 zooimage-5.5.2/zooimage/inst/etc/Example.txt | 6 zooimage-5.5.2/zooimage/inst/etc/ImportTemplate.zie | 118 - zooimage-5.5.2/zooimage/inst/etc/Import_Example.zie | 172 - zooimage-5.5.2/zooimage/inst/etc/Scale2400_0.3mm.png |only zooimage-5.5.2/zooimage/inst/etc/Scale2400_0.5mm.png |only zooimage-5.5.2/zooimage/inst/etc/Scale2400_1mm.png |only zooimage-5.5.2/zooimage/inst/etc/Very_detailed.zic | 190 - zooimage-5.5.2/zooimage/inst/etc/ZooImageManual.pdf |binary zooimage-5.5.2/zooimage/inst/etc/ZooImageManual_french.pdf |only zooimage-5.5.2/zooimage/inst/examples/Description.zis | 52 zooimage-5.5.2/zooimage/inst/gui/Menus.txt | 46 zooimage-5.5.2/zooimage/inst/gui/MenusZIDlgWin.txt | 242 +- zooimage-5.5.2/zooimage/inst/gui/ToolbarsZIDlgWin.txt | 62 zooimage-5.5.2/zooimage/inst/gui/errorcorrection |only zooimage-5.5.2/zooimage/inst/planktonSorter |only zooimage-5.5.2/zooimage/inst/templates/Description.zis | 46 zooimage-5.5.2/zooimage/inst/templates/default.zim | 50 zooimage-5.5.2/zooimage/inst/templates/method.R |only zooimage-5.5.2/zooimage/man/ZIClass.Rd | 268 +- zooimage-5.5.2/zooimage/man/ZIRes.Rd | 138 - zooimage-5.5.2/zooimage/man/ZITrain.Rd | 197 - zooimage-5.5.2/zooimage/man/correctError.Rd |only zooimage-5.5.2/zooimage/man/fileutils.Rd | 244 +- zooimage-5.5.2/zooimage/man/gui.Rd | 200 - zooimage-5.5.2/zooimage/man/guiutils.Rd | 260 +- zooimage-5.5.2/zooimage/man/import.Rd |only zooimage-5.5.2/zooimage/man/utilities.Rd | 460 ++- zooimage-5.5.2/zooimage/man/zic.Rd | 64 zooimage-5.5.2/zooimage/man/zid.Rd | 124 - zooimage-5.5.2/zooimage/man/zidb.Rd | 190 - zooimage-5.5.2/zooimage/man/zie.Rd | 185 - zooimage-5.5.2/zooimage/man/zim.Rd | 684 ++--- zooimage-5.5.2/zooimage/man/zip.Rd | 222 - zooimage-5.5.2/zooimage/man/zis.Rd | 126 - zooimage-5.5.2/zooimage/man/zooimage.package.Rd | 103 63 files changed, 5338 insertions(+), 3985 deletions(-)
Title: Summarizing Distributions of Latent Structures
Description: Summaries of distributions on clusterings and feature allocations are provided. Specifically, point estimates are obtained by the sequentially-allocated latent structure optimization (SALSO) algorithm to minimize squared error loss, absolute error loss, Binder loss, or the lower bound of the variation of information loss. Clustering uncertainty can be assessed with the confidence calculations and the associated plot.
Author: David B. Dahl [aut, cre],
Peter Müller [aut]
Maintainer: David B. Dahl <dahl@stat.byu.edu>
Diff between sdols versions 1.4 dated 2017-12-05 and 1.6 dated 2018-06-29
sdols-1.4/sdols/R/latest.R |only sdols-1.6/sdols/DESCRIPTION | 10 +-- sdols-1.6/sdols/MD5 | 42 ++++++++-------- sdols-1.6/sdols/NAMESPACE | 1 sdols-1.6/sdols/NEWS | 7 ++ sdols-1.6/sdols/R/confidence.R | 21 +++----- sdols-1.6/sdols/R/dlso.R | 13 +++- sdols-1.6/sdols/R/expectedPairwiseAllocationMatrix.R | 5 + sdols-1.6/sdols/R/graph.R | 16 +++--- sdols-1.6/sdols/R/latentStructureFit.R | 14 ++--- sdols-1.6/sdols/R/onLoad.R | 7 +- sdols-1.6/sdols/R/plot.sdols.confidence.R | 26 +++++---- sdols-1.6/sdols/R/salso.R | 9 ++- sdols-1.6/sdols/R/scalaConvert.featureAllocation.R | 22 ++++---- sdols-1.6/sdols/inst/java/scala-2.10 |only sdols-1.6/sdols/inst/java/scala-2.11/sdols.jar |binary sdols-1.6/sdols/inst/java/scala-2.12/sdols.jar |binary sdols-1.6/sdols/java/sdols-sources.jar |binary sdols-1.6/sdols/man/confidence.Rd | 1 sdols-1.6/sdols/man/dlso.Rd | 9 +++ sdols-1.6/sdols/man/expectedPairwiseAllocationMatrix.Rd | 1 sdols-1.6/sdols/man/plot.sdols.confidence.Rd | 1 sdols-1.6/sdols/man/salso.Rd | 7 ++ 23 files changed, 124 insertions(+), 88 deletions(-)
Title: Handy File and String Manipulation
Description: Convenient functions for moving files, deleting directories,
and a variety of string operations that facilitate manipulating files
and extracting information from strings.
Author: Rory Nolan [aut, cre, cph] (<https://orcid.org/0000-0002-5239-4043>),
Sergi Padilla-Parra [ths] (<https://orcid.org/0000-0002-8010-9481>)
Maintainer: Rory Nolan <rorynoolan@gmail.com>
Diff between filesstrings versions 2.4.0 dated 2018-05-18 and 2.5.0 dated 2018-06-29
DESCRIPTION | 12 +++---- MD5 | 24 +++++++-------- NEWS.md | 9 +++++ R/files.R | 41 +++++++++++++++----------- R/strings.R | 36 +++++++++++------------ R/utils.R | 64 +++++++++++++++++++++++++++--------------- build/partial.rdb |binary inst/doc/files.html | 4 +- inst/doc/strings.html | 4 +- man/all_equal.Rd | 20 ++++++++----- tests/testthat/test_files.R | 28 ++++++++++++++---- tests/testthat/test_strings.R | 23 +++++++++++++++ tests/testthat/test_utils.R | 13 ++++++-- 13 files changed, 181 insertions(+), 97 deletions(-)
Title: Exponential Integral and Incomplete Gamma Function
Description: The exponential integrals E_1(x), E_2(x), E_n(x) and
Ei(x), and the incomplete gamma function G(a, x) defined for
negative values of its first argument. The package also gives easy
access to the underlying C routines through an API; see the package
vignette for details. A test package included in sub-directory
example_API provides an implementation. C routines derived from the
GNU Scientific Library <https://www.gnu.org/software/gsl/>.
Author: Vincent Goulet [cre, aut],
Gerard Jungman [aut] (Original GSL code),
Brian Gough [aut] (Original GSL code),
Jeffrey A. Ryan [aut] (Package API),
Robert Gentleman [aut] (Parts of the R to C interface),
Ross Ihaka [aut] (Parts of the R to C interface),
R Core Team [aut] (Parts of the R to C interface),
R Foundation [aut] (Parts of the R to C interface)
Maintainer: Vincent Goulet <vincent.goulet@act.ulaval.ca>
Diff between expint versions 0.1-4 dated 2017-05-05 and 0.1-5 dated 2018-06-29
expint-0.1-4/expint/vignettes/auto |only expint-0.1-5/expint/DESCRIPTION | 10 +++++---- expint-0.1-5/expint/MD5 | 24 +++++++++++------------ expint-0.1-5/expint/README.md | 25 +++++++++++++----------- expint-0.1-5/expint/build/partial.rdb |binary expint-0.1-5/expint/build/vignette.rds |binary expint-0.1-5/expint/inst/NEWS.Rd | 6 +++++ expint-0.1-5/expint/inst/doc/expint.R | 18 ++++++++--------- expint-0.1-5/expint/inst/doc/expint.Rnw | 32 +++++++++++++++++++++---------- expint-0.1-5/expint/inst/doc/expint.pdf |binary expint-0.1-5/expint/src/expint.c | 4 +-- expint-0.1-5/expint/src/gamma_inc.c | 22 ++++++++++++++++++--- expint-0.1-5/expint/vignettes/expint.Rnw | 32 +++++++++++++++++++++---------- expint-0.1-5/expint/vignettes/framed.sty |only 14 files changed, 112 insertions(+), 61 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-09-15 1.3
2014-03-02 1.2
2013-12-11 1.1
2012-08-19 1.0
Title: The SVR Path Algorithm
Description: Computes the entire solution paths for Support Vector Regression(SVR) with respect to the regularization parameter, lambda and epsilon in epsilon-intensive loss function, efficiently. We call each path algorithm svrpath and epspath. See Wang, G. et al (2008) <doi:10.1109/TNN.2008.2002077> for details regarding the method.
Author: Do Hyun Kim [aut, cre],
Seung Jun Shin [aut]
Maintainer: Do Hyun Kim <09dohkim@gmail.com>
Diff between svrpath versions 0.1.1 dated 2018-04-05 and 0.1.2 dated 2018-06-29
svrpath-0.1.1/svrpath/man/svrpath-internal.Rd |only svrpath-0.1.2/svrpath/DESCRIPTION | 14 +++---- svrpath-0.1.2/svrpath/MD5 | 47 ++++++++++++-------------- svrpath-0.1.2/svrpath/NAMESPACE | 8 ---- svrpath-0.1.2/svrpath/R/Initialization.R | 10 ----- svrpath-0.1.2/svrpath/R/e.Initialization.R | 2 - svrpath-0.1.2/svrpath/R/epspath.R | 10 ++--- svrpath-0.1.2/svrpath/R/loss.R | 2 - svrpath-0.1.2/svrpath/R/plot.epspath.R | 26 +++++--------- svrpath-0.1.2/svrpath/R/plot.svrpath.R | 24 ++++--------- svrpath-0.1.2/svrpath/R/predict.epspath.R | 19 ++-------- svrpath-0.1.2/svrpath/R/predict.svrpath.R | 19 +++------- svrpath-0.1.2/svrpath/R/re.e.initialization.R | 2 - svrpath-0.1.2/svrpath/R/re.initialization.R | 3 - svrpath-0.1.2/svrpath/R/solve.svr.R | 11 +++--- svrpath-0.1.2/svrpath/R/svr.gacv.R | 2 - svrpath-0.1.2/svrpath/R/svr.sic.R | 2 - svrpath-0.1.2/svrpath/R/svrpath.R | 14 +++---- svrpath-0.1.2/svrpath/man/epspath.Rd | 10 ++--- svrpath-0.1.2/svrpath/man/plot.epspath.Rd | 19 ++-------- svrpath-0.1.2/svrpath/man/plot.svrpath.Rd | 18 ++------- svrpath-0.1.2/svrpath/man/predict.epspath.Rd | 19 ++-------- svrpath-0.1.2/svrpath/man/predict.svrpath.Rd | 19 +++------- svrpath-0.1.2/svrpath/man/solve.svr.Rd | 11 +++--- svrpath-0.1.2/svrpath/man/svrpath.Rd | 14 +++---- 25 files changed, 120 insertions(+), 205 deletions(-)
Title: Inferring Developmental Chronologies from Single-Cell RNA
Sequencing Data
Description: An accurate and easy tool for performing trajectory inference on
single cells using single-cell RNA sequencing data. In addition, SCORPIUS
provides functions for discovering the most important genes with respect to
the reconstructed trajectory, as well as nice visualisation tools.
Cannoodt et al. (2016) <doi:10.1101/079509>.
Author: Robrecht Cannoodt [aut, cre] (<https://orcid.org/0000-0003-3641-729X>,
rcannood),
Wouter Saelens [aut] (<https://orcid.org/0000-0002-7114-6248>, zouter)
Maintainer: Robrecht Cannoodt <rcannood@gmail.com>
Diff between SCORPIUS versions 1.0 dated 2017-09-15 and 1.0.2 dated 2018-06-29
SCORPIUS-1.0.2/SCORPIUS/DESCRIPTION | 42 ++- SCORPIUS-1.0.2/SCORPIUS/MD5 | 89 +++--- SCORPIUS-1.0.2/SCORPIUS/NAMESPACE | 29 -- SCORPIUS-1.0.2/SCORPIUS/R/SCORPIUS.R | 7 SCORPIUS-1.0.2/SCORPIUS/R/data.R | 6 SCORPIUS-1.0.2/SCORPIUS/R/dimensionality_reduction.R | 131 ++++++++-- SCORPIUS-1.0.2/SCORPIUS/R/distance_functions.R | 93 ------- SCORPIUS-1.0.2/SCORPIUS/R/evaluation.R | 10 SCORPIUS-1.0.2/SCORPIUS/R/extract_modules.R | 9 SCORPIUS-1.0.2/SCORPIUS/R/gene_importances.R | 5 SCORPIUS-1.0.2/SCORPIUS/R/plotting.R | 8 SCORPIUS-1.0.2/SCORPIUS/R/trajectory_inference.R | 45 +-- SCORPIUS-1.0.2/SCORPIUS/build/vignette.rds |binary SCORPIUS-1.0.2/SCORPIUS/inst/doc/ginhoux.R | 25 - SCORPIUS-1.0.2/SCORPIUS/inst/doc/ginhoux.Rmd | 49 --- SCORPIUS-1.0.2/SCORPIUS/inst/doc/ginhoux.html | 42 --- SCORPIUS-1.0.2/SCORPIUS/inst/doc/simulated-data.R | 11 SCORPIUS-1.0.2/SCORPIUS/inst/doc/simulated-data.Rmd | 18 - SCORPIUS-1.0.2/SCORPIUS/inst/doc/simulated-data.html | 23 - SCORPIUS-1.0.2/SCORPIUS/man/SCORPIUS.Rd | 9 SCORPIUS-1.0.2/SCORPIUS/man/draw_trajectory_heatmap.Rd | 5 SCORPIUS-1.0.2/SCORPIUS/man/draw_trajectory_plot.Rd | 3 SCORPIUS-1.0.2/SCORPIUS/man/evaluate_dim_red.Rd | 3 SCORPIUS-1.0.2/SCORPIUS/man/evaluate_trajectory.Rd | 3 SCORPIUS-1.0.2/SCORPIUS/man/extract_modules.Rd | 3 SCORPIUS-1.0.2/SCORPIUS/man/figures |only SCORPIUS-1.0.2/SCORPIUS/man/gene_importances.Rd | 5 SCORPIUS-1.0.2/SCORPIUS/man/generate_dataset.Rd | 3 SCORPIUS-1.0.2/SCORPIUS/man/ginhoux.Rd | 3 SCORPIUS-1.0.2/SCORPIUS/man/infer_initial_trajectory.Rd | 3 SCORPIUS-1.0.2/SCORPIUS/man/infer_trajectory.Rd | 25 - SCORPIUS-1.0.2/SCORPIUS/man/reduce_dimensionality.Rd | 16 - SCORPIUS-1.0.2/SCORPIUS/man/reexports.Rd |only SCORPIUS-1.0.2/SCORPIUS/man/reverse_trajectory.Rd | 3 SCORPIUS-1.0.2/SCORPIUS/tests/testthat/test-dimensionality_reduction.R | 14 - SCORPIUS-1.0.2/SCORPIUS/tests/testthat/test-dimensionality_reduction_landmarked.R | 9 SCORPIUS-1.0.2/SCORPIUS/tests/testthat/test-trajectory_inference.R | 12 SCORPIUS-1.0.2/SCORPIUS/vignettes/ginhoux.Rmd | 49 --- SCORPIUS-1.0.2/SCORPIUS/vignettes/simulated-data.Rmd | 18 - SCORPIUS-1.0/SCORPIUS/R/deprecated.R |only SCORPIUS-1.0/SCORPIUS/R/dimensionality_reduction_landmarked.R |only SCORPIUS-1.0/SCORPIUS/R/outliers.R |only SCORPIUS-1.0/SCORPIUS/man/SCORPIUS-deprecated.Rd |only SCORPIUS-1.0/SCORPIUS/man/correlation_distance.Rd |only SCORPIUS-1.0/SCORPIUS/man/euclidean_distance.Rd |only SCORPIUS-1.0/SCORPIUS/man/outlier_filter.Rd |only SCORPIUS-1.0/SCORPIUS/man/outlierness.Rd |only SCORPIUS-1.0/SCORPIUS/man/reduce_dimensionality_landmarked.Rd |only SCORPIUS-1.0/SCORPIUS/src |only SCORPIUS-1.0/SCORPIUS/tests/testthat/test-outliers.R |only 50 files changed, 299 insertions(+), 529 deletions(-)
Title: Bridge Between 'R' and 'Scala' with Callbacks
Description: 'Scala' <http://www.scala-lang.org/> is embedded in 'R' and callbacks from 'Scala' to 'R' are available. Support is provided to write 'R' packages that access 'Scala'. 'Scala' versions in the 2.11.x and 2.12.x series are supported.
Author: David B. Dahl [aut, cre]
Maintainer: David B. Dahl <dahl@stat.byu.edu>
Diff between rscala versions 2.5.3 dated 2018-04-11 and 3.0.2 dated 2018-06-29
rscala-2.5.3/rscala/R/common.R |only rscala-2.5.3/rscala/R/completion.R |only rscala-2.5.3/rscala/R/globals.R |only rscala-2.5.3/rscala/R/is.scalaReference.R |only rscala-2.5.3/rscala/R/protocol.R |only rscala-2.5.3/rscala/R/rServer.R |only rscala-2.5.3/rscala/R/rscalaOptions.R |only rscala-2.5.3/rscala/R/scalaConvert.R |only rscala-2.5.3/rscala/R/scalaRequire.R |only rscala-2.5.3/rscala/R/zzz.R |only rscala-2.5.3/rscala/README |only rscala-2.5.3/rscala/build |only rscala-2.5.3/rscala/inst/bin |only rscala-2.5.3/rscala/inst/doc |only rscala-2.5.3/rscala/inst/java/scala-2.11/rscala_2.11-2.5.3.jar |only rscala-2.5.3/rscala/inst/java/scala-2.12/rscala_2.12-2.5.3.jar |only rscala-2.5.3/rscala/man/close.Rd |only rscala-2.5.3/rscala/man/constructor.Rd |only rscala-2.5.3/rscala/man/eval.Rd |only rscala-2.5.3/rscala/man/is.scalaReference.Rd |only rscala-2.5.3/rscala/man/print.Rd |only rscala-2.5.3/rscala/man/rscala-package.Rd |only rscala-2.5.3/rscala/man/rscalaOptions.Rd |only rscala-2.5.3/rscala/man/scalaConvert.Rd |only rscala-2.5.3/rscala/man/scalaRequire.Rd |only rscala-2.5.3/rscala/man/settings.Rd |only rscala-2.5.3/rscala/man/strintrpl.Rd |only rscala-2.5.3/rscala/vignettes |only rscala-3.0.2/rscala/DESCRIPTION | 21 rscala-3.0.2/rscala/LICENSE | 203 + rscala-3.0.2/rscala/MD5 | 98 rscala-3.0.2/rscala/NAMESPACE | 83 rscala-3.0.2/rscala/NEWS | 25 rscala-3.0.2/rscala/R/INTERNAL-callback.R |only rscala-3.0.2/rscala/R/INTERNAL-io.R |only rscala-3.0.2/rscala/R/INTERNAL-pop.R |only rscala-3.0.2/rscala/R/INTERNAL-protocol.R |only rscala-3.0.2/rscala/R/INTERNAL-push.R |only rscala-3.0.2/rscala/R/INTERNAL-rtypes.R |only rscala-3.0.2/rscala/R/INTERNAL-scalaEvaluate.R |only rscala-3.0.2/rscala/R/INTERNAL-scalaInvoke.R |only rscala-3.0.2/rscala/R/close.R |only rscala-3.0.2/rscala/R/dollar.R |only rscala-3.0.2/rscala/R/dollarNames.R |only rscala-3.0.2/rscala/R/percentTildePercent.R |only rscala-3.0.2/rscala/R/print.R |only rscala-3.0.2/rscala/R/scala.R | 1135 +--------- rscala-3.0.2/rscala/R/scalaAddJAR.R |only rscala-3.0.2/rscala/R/scalaHeapMaximum.R |only rscala-3.0.2/rscala/R/scalaInfo.R |only rscala-3.0.2/rscala/R/scalaInstall.R | 86 rscala-3.0.2/rscala/R/scalaLast.R |only rscala-3.0.2/rscala/R/scalaPackage.R |only rscala-3.0.2/rscala/R/scalaPackageUnload.R |only rscala-3.0.2/rscala/inst/COPYRIGHT |only rscala-3.0.2/rscala/inst/README | 10 rscala-3.0.2/rscala/inst/java/scala-2.11/rscala_2.11-3.0.2.jar |only rscala-3.0.2/rscala/inst/java/scala-2.12/rscala_2.12-3.0.2.jar |only rscala-3.0.2/rscala/java/rscala-sources.jar |binary rscala-3.0.2/rscala/man/close.rscalaBridge.Rd |only rscala-3.0.2/rscala/man/plus-.rscalaBridge.Rd |only rscala-3.0.2/rscala/man/pow-.rscalaBridge.Rd |only rscala-3.0.2/rscala/man/scala.Rd |only rscala-3.0.2/rscala/man/scalaAddJARs.Rd |only rscala-3.0.2/rscala/man/scalaHeapMaximum.Rd |only rscala-3.0.2/rscala/man/scalaInfo.Rd |only rscala-3.0.2/rscala/man/scalaInstall.Rd |only rscala-3.0.2/rscala/man/scalaLast.Rd |only rscala-3.0.2/rscala/man/scalaPackage.Rd |only rscala-3.0.2/rscala/man/scalaPackageUnload.Rd |only rscala-3.0.2/rscala/man/times-.rscalaBridge.Rd |only rscala-3.0.2/rscala/tests |only 72 files changed, 540 insertions(+), 1121 deletions(-)
Title: Multiple Imputation for Multivariate Panel or Clustered Data
Description: It provides functions and examples for maximum likelihood estimation for
generalized linear mixed models and Gibbs sampler for multivariate linear
mixed models with incomplete data, as described in Schafer JL (1997)
"Imputation of missing covariates under a multivariate linear mixed model".
Technical report 97-04, Dept. of Statistics, The Pennsylvania State University.
Author: Original by Joseph L. Schafer
Maintainer: Jing hua Zhao <jinghuazhao@hotmail.com>
Diff between pan versions 1.4 dated 2016-02-10 and 1.6 dated 2018-06-29
ChangeLog | 10 ++++++++++ DESCRIPTION | 16 ++++++++++------ MD5 | 13 +++++++------ build/vignette.rds |binary inst/doc/pan-tr.Rnw | 3 +-- inst/doc/pan-tr.pdf |binary src/package_native_routine_registration_skeleton.c |only vignettes/pan-tr.Rnw | 3 +-- 8 files changed, 29 insertions(+), 16 deletions(-)
Title: A 'dplyr' Interface for Crunch
Description: In order to facilitate analysis of datasets hosted on the Crunch
data platform <http://crunch.io/>, the 'crplyr' package implements 'dplyr'
methods on top of the Crunch backend. The usual methods 'select', 'filter',
'mutate', 'group_by', and 'summarize' are implemented in such a way as to
perform as much computation on the server and pull as little data locally
as possible.
Author: Neal Richardson [aut, cre],
Gordon Shotwell [aut]
Maintainer: Neal Richardson <neal@crunch.io>
Diff between crplyr versions 0.1.4 dated 2017-08-22 and 0.2.0 dated 2018-06-29
DESCRIPTION | 26 +- MD5 | 39 ++- NAMESPACE | 26 ++ NEWS.md | 17 + R/AllClasses.R | 3 R/as-tibble.R | 93 ++++++-- R/collect.R |only R/group-by.R | 21 + R/summarize.R | 72 +++++- README.md | 6 inst |only man/GroupedCrunchDataset-class.Rd | 2 man/as_tibble.CrunchCube.Rd |only man/collect.Rd |only man/unweighted_n.Rd |only tests/spelling.R |only tests/testthat/app.crunch.io/api/datasets/mtcars/cube-245a35.json |only tests/testthat/app.crunch.io/api/datasets/mtcars/cube-7deb2d.json |only tests/testthat/app.crunch.io/api/datasets/mtcars/summary-73a614.json |only tests/testthat/cubes |only tests/testthat/test-as-tibble.R | 107 ++++------ tests/testthat/test-collect.R |only tests/testthat/test-group-by.R | 9 tests/testthat/test-summarize.R | 55 ++++- 24 files changed, 344 insertions(+), 132 deletions(-)
Title: Statistical Methods for Phenology Analysis in Temperate Fruit
Trees
Description: The phenology of plants (i.e. the timing of their annual life
phases) depends on climatic cues. For temperate trees and many other plants,
spring phases, such as leaf emergence and flowering, have been found to result
from the effects of both cool (chilling) conditions and heat. Fruit tree
scientists (pomologists) have developed some metrics to quantify chilling
and heat (e.g. see Luedeling (2012) <doi.org/10.1016/j.scienta.2012.07.011>).
'chillR' contains functions for processing temperature records into
chilling (Chilling Hours, Utah Chill Units and Chill Portions) and heat units
(Growing Degree Hours). Regarding chilling metrics, Chill Portions are often
considered the most promising, but they are difficult to calculate. This package
makes it easy. 'chillR' also contains procedures for conducting a PLS analysis
relating phenological dates (e.g. bloom dates) to either mean temperatures or
mean chill and heat accumulation rates, based on long-term weather and phenology
records (Luedeling and Gassner (2012) <doi.org/10.1016/j.agrformet.2011.10.020>).
As of version 0.65, it also includes functions for generating weather
scenarios with a weather generator, for conducting climate change analyses
for temperature-based climatic metrics and for plotting results from such
analyses. Since version 0.70, 'chillR' contains a function for interpolating
hourly temperature records.
Author: Eike Luedeling
Maintainer: Eike Luedeling <eike@eikeluedeling.com>
Diff between chillR versions 0.70.2 dated 2018-01-06 and 0.70.6 dated 2018-06-29
DESCRIPTION | 11 MD5 | 63 NAMESPACE | 10 R/PLS_chill_force.R | 2 R/before_after_JDay.R |only R/bloom_prediction3.R |only R/check_temperature_scenario.R | 29 R/getClimateWizardData.R |only R/handle_cimis.R | 11 R/handle_gsod.R | 9 R/make_chill_plot.R | 57 R/make_climate_scenario.R |only R/make_daily_chill_plot.R | 13 R/plot_climate_scenarios.R | 11 R/plot_pheno_results.R | 1 R/save_temperature_scenarios.R |only R/tempResponse_daily_list.R |only R/temp_models.R | 9 R/temperature_generation.R | 62 R/temperature_scenario_baseline_adjustment.R | 113 - R/temperature_scenario_from_records.R | 55 build/vignette.rds |binary inst/doc/hourly_temperatures.html | 1750 ++++++++++-------------- man/JDay_count.Rd |only man/JDay_earlier.Rd |only man/JDay_later.Rd |only man/PLS_chill_force.Rd | 2 man/bloom_prediction3.Rd |only man/check_temperature_scenario.Rd | 13 man/getClimateWizardData.Rd |only man/load_temperature_scenarios.Rd |only man/make_chill_plot.Rd | 28 man/make_climate_scenario.Rd |only man/make_daily_chill_plot.Rd | 5 man/plot_climate_scenarios.Rd | 6 man/save_temperature_scenarios.Rd |only man/tempResponse_daily_list.Rd |only man/temperature_generation.Rd | 16 man/temperature_scenario_baseline_adjustment.Rd | 11 man/temperature_scenario_from_records.Rd | 29 40 files changed, 1134 insertions(+), 1182 deletions(-)
Title: Multivariate Chebyshev Interpolation
Description: Contains methods for creating multivariate Chebyshev
interpolations of functions on a hypercube. If available through fftw3, the DCT-II/FFT
is used to compute the coefficients, so it is reasonably fast. Some interpolation methods for
multivariate non-Chebyshev grids are also provided, as well as polyharmonic
splines with a linear term.
Author: Simen Gaure [aut, cre]
Maintainer: Simen Gaure <Simen.Gaure@frisch.uio.no>
Diff between chebpol versions 1.4-1 dated 2018-06-28 and 1.4-2 dated 2018-06-29
DESCRIPTION | 8 +-- MD5 | 20 ++++---- R/chebpol.R | 16 +++++- configure | 117 -------------------------------------------------- configure.ac | 1 inst/doc/chebpol.Rnw | 32 ++++++++++++- inst/doc/chebpol.pdf |binary src/Makevars.in | 6 +- src/Makevars.win | 5 +- src/chebpol.c | 4 + vignettes/chebpol.Rnw | 32 ++++++++++++- 11 files changed, 99 insertions(+), 142 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-06-20 1.41
Title: Handling Vegetation Data Sets
Description: Import and handling data from vegetation-plot databases, especially
data stored in 'Turboveg' (<https://www.synbiosys.alterra.nl/turboveg>).
Also import/export routines for exchange of data with 'Juice'
(<http://www.sci.muni.cz/botany/juice>) are implemented.
Author: Miguel Alvarez <kamapu78@gmail.com>
Maintainer: Miguel Alvarez <kamapu78@gmail.com>
Diff between vegtable versions 0.1.2 dated 2018-05-10 and 0.1.3 dated 2018-06-29
vegtable-0.1.2/vegtable/R/supporting_functions.R |only vegtable-0.1.3/vegtable/DESCRIPTION | 14 +++---- vegtable-0.1.3/vegtable/MD5 | 42 ++++++++++++----------- vegtable-0.1.3/vegtable/NAMESPACE | 3 + vegtable-0.1.3/vegtable/NEWS.md | 16 +++++++- vegtable-0.1.3/vegtable/R/add_releves.R |only vegtable-0.1.3/vegtable/R/coverconvert-methods.R | 14 ++++++- vegtable-0.1.3/vegtable/R/cross2db.R |only vegtable-0.1.3/vegtable/R/df2vegtable.R | 5 +- vegtable-0.1.3/vegtable/R/shaker-class.R | 9 ++++ vegtable-0.1.3/vegtable/R/shaker-methods.R | 13 ++++++- vegtable-0.1.3/vegtable/R/summary.R | 32 +++++++++++++++++ vegtable-0.1.3/vegtable/R/tv2vegtable.R | 2 - vegtable-0.1.3/vegtable/R/veg_relation.R | 7 +++ vegtable-0.1.3/vegtable/R/vegtable-class.R | 10 +++-- vegtable-0.1.3/vegtable/R/vegtable_stat.R | 2 - vegtable-0.1.3/vegtable/data/Kenya_veg.rda |binary vegtable-0.1.3/vegtable/data/Wetlands.rda |binary vegtable-0.1.3/vegtable/data/braun_blanquet.rda |binary vegtable-0.1.3/vegtable/data/dune_veg.rda |binary vegtable-0.1.3/vegtable/man/add_releves.Rd |only vegtable-0.1.3/vegtable/man/crosstable.Rd | 7 +++ vegtable-0.1.3/vegtable/man/transform.Rd | 1 vegtable-0.1.3/vegtable/man/veg_relation.Rd | 5 ++ 24 files changed, 138 insertions(+), 44 deletions(-)
Title: Flexible Modeling of Multivariate Count Data via the
Multivariate Conway-Maxwell-Poisson Distribution
Description: A toolkit containing statistical analysis models motivated by multivariate forms of the Conway-Maxwell-Poisson (COM-Poisson) distribution for flexible modeling of multivariate count data, especially in the presence of data dispersion. Currently the package only supports bivariate data, via the bivariate COM-Poisson distribution described in Sellers et al. (2016) <doi:10.1016/j.jmva.2016.04.007>. Future development will extend the package to higher-dimensional data.
Author: Kimberly Sellers [aut],
Darcy Steeg Morris [aut],
Narayanaswamy Balakrishnan [aut],
Diag Davenport [aut, cre]
Maintainer: Diag Davenport <diag.davenport@gmail.com>
Diff between multicmp versions 1.0 dated 2017-05-22 and 1.1 dated 2018-06-29
DESCRIPTION | 8 ++++---- MD5 | 7 ++++--- NAMESPACE | 1 + R/multicmpests.R | 24 ++++++++++++++++++++++++ man/dbivCMP.Rd |only 5 files changed, 33 insertions(+), 7 deletions(-)
Title: Dynamic Model Averaging and Dynamic Model Selection for
Continuous Outcomes
Description: Allows to estimate dynamic model averaging, dynamic model selection and median probability model. The original methods are implemented, as well as, selected further modifications of these methods. In particular the user might choose between recursive moment estimation and exponentially moving average for variance updating. Inclusion probabilities might be modified in a way using 'Google Trends'. The code is written in a way which minimises the computational burden (which is quite an obstacle for dynamic model averaging if many variables are used). For example, this package allows for parallel computations and Occam's window approach. The package is designed in a way that is hoped to be especially useful in economics and finance. Main reference: Raftery, A.E., Karny, M., Ettler, P. (2010) <doi:10.1198/TECH.2009.08104>.
Author: Krzysztof Drachal [aut, cre] (Faculty of Economic Sciences, University
of Warsaw, Poland)
Maintainer: Krzysztof Drachal <kdrachal@wne.uw.edu.pl>
Diff between fDMA versions 2.2.3 dated 2018-01-28 and 2.2.3.1 dated 2018-06-29
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NAMESPACE | 3 ++- NEWS | 8 ++++++++ 4 files changed, 17 insertions(+), 8 deletions(-)
Title: Evaluate Function Calls on HPC Schedulers (LSF, SGE, SLURM,
PBS/Torque)
Description: Evaluate arbitrary function calls using workers on HPC schedulers
in single line of code. All processing is done on the network without
accessing the file system. Remote schedulers are supported via SSH.
Author: Michael Schubert <mschu.dev@gmail.com>
Maintainer: Michael Schubert <mschu.dev@gmail.com>
Diff between clustermq versions 0.8.4 dated 2018-04-22 and 0.8.4.1 dated 2018-06-29
DESCRIPTION | 6 MD5 | 8 build/vignette.rds |binary inst/doc/clustermq.html | 697 ++++++++++++++++++------------------- tests/testthat/test-2-work_chunk.r | 2 5 files changed, 360 insertions(+), 353 deletions(-)
Title: An Implementation of Rubin's (1981) Bayesian Bootstrap
Description: Functions for performing the Bayesian bootstrap as introduced by
Rubin (1981) <doi:10.1214/aos/1176345338> and for summarizing the result.
The implementation can handle both summary statistics that works on a
weighted version of the data and summary statistics that works on a
resampled data set.
Author: Rasmus Bååth [aut, cre]
Maintainer: Rasmus Bååth <rasmus.baath@gmail.com>
Diff between bayesboot versions 0.2.1 dated 2016-04-06 and 0.2.2 dated 2018-06-29
DESCRIPTION | 12 ++++++------ MD5 | 27 +++++++++++++++------------ NEWS | 5 +++++ R/bayesboot.R | 1 + R/plotPost.R | 2 +- README.md | 16 ++++++++-------- man/as.bayesboot.Rd | 1 - man/bayesboot.Rd | 1 - man/figures/README-car_plot-1.png |only man/figures/README-height_comparison-1.png |only man/figures/README-president_summary-1.png |only man/plot.bayesboot.Rd | 1 - man/plotPost.Rd | 9 ++++----- man/print.bayesboot.Rd | 1 - man/rudirichlet.Rd | 1 - man/summary.bayesboot.Rd | 1 - 16 files changed, 40 insertions(+), 38 deletions(-)
Title: Handling Taxonomic Lists
Description: Handling taxonomic lists through objects of class 'taxlist'.
This package provides functions to import species lists from 'Turboveg'
(<https://www.synbiosys.alterra.nl/turboveg>) and the possibility to create
backups from resulting R-objects.
Also quick displays are implemented as summary-methods.
Author: Miguel Alvarez [aut, cre]
Maintainer: Miguel Alvarez <kamapu78@gmail.com>
Diff between taxlist versions 0.1.4 dated 2018-05-03 and 0.1.5 dated 2018-06-29
taxlist-0.1.4/taxlist/R/add_level.R |only taxlist-0.1.4/taxlist/R/add_parent.R |only taxlist-0.1.4/taxlist/R/add_trait.R |only taxlist-0.1.4/taxlist/R/supporting_functions.R |only taxlist-0.1.4/taxlist/man/add_concept.Rd |only taxlist-0.1.4/taxlist/man/add_level.Rd |only taxlist-0.1.4/taxlist/man/add_parent.Rd |only taxlist-0.1.4/taxlist/man/add_synonym.Rd |only taxlist-0.1.4/taxlist/man/add_trait.Rd |only taxlist-0.1.4/taxlist/man/add_view.Rd |only taxlist-0.1.4/taxlist/man/change_concept.Rd |only taxlist-0.1.5/taxlist/DESCRIPTION | 40 +++--- taxlist-0.1.5/taxlist/MD5 | 98 ++++++++-------- taxlist-0.1.5/taxlist/NAMESPACE | 30 +++-- taxlist-0.1.5/taxlist/NEWS.md | 27 ++++ taxlist-0.1.5/taxlist/R/accepted_name.R | 13 +- taxlist-0.1.5/taxlist/R/add_concept.R | 66 ++++++++++- taxlist-0.1.5/taxlist/R/auxiliary_functions.R |only taxlist-0.1.5/taxlist/R/backup_object.R | 2 taxlist-0.1.5/taxlist/R/basionym.R |only taxlist-0.1.5/taxlist/R/delete_name.R |only taxlist-0.1.5/taxlist/R/deprecated-functions.R |only taxlist-0.1.5/taxlist/R/levels.R | 29 +--- taxlist-0.1.5/taxlist/R/load_last.R | 36 +++--- taxlist-0.1.5/taxlist/R/match_names.R | 37 ++++-- taxlist-0.1.5/taxlist/R/print_name.R |only taxlist-0.1.5/taxlist/R/replace_view.R |only taxlist-0.1.5/taxlist/R/summary.R | 84 ++++++-------- taxlist-0.1.5/taxlist/R/synonyms.R |only taxlist-0.1.5/taxlist/R/tax2traits.R | 8 - taxlist-0.1.5/taxlist/R/update_concept.R |only taxlist-0.1.5/taxlist/R/update_name.R |only taxlist-0.1.5/taxlist/build/vignette.rds |binary taxlist-0.1.5/taxlist/data/Easplist.rda |binary taxlist-0.1.5/taxlist/inst/CITATION |only taxlist-0.1.5/taxlist/inst/doc/taxlist-intro.html | 119 ++++++++++---------- taxlist-0.1.5/taxlist/man/Easplist-data.Rd | 22 +-- taxlist-0.1.5/taxlist/man/Extract.Rd | 21 ++- taxlist-0.1.5/taxlist/man/accepted_name.Rd | 99 ++++++++++------ taxlist-0.1.5/taxlist/man/as.list.Rd | 23 ++- taxlist-0.1.5/taxlist/man/backup_object.Rd | 41 +++--- taxlist-0.1.5/taxlist/man/clean.Rd | 22 +-- taxlist-0.1.5/taxlist/man/deprecated-functions.Rd |only taxlist-0.1.5/taxlist/man/df2taxlist.Rd | 22 ++- taxlist-0.1.5/taxlist/man/dissect_name.Rd | 14 +- taxlist-0.1.5/taxlist/man/get_children.Rd | 8 - taxlist-0.1.5/taxlist/man/levels.Rd | 36 +++--- taxlist-0.1.5/taxlist/man/match_names.Rd | 24 +++- taxlist-0.1.5/taxlist/man/merge_taxa.Rd | 28 +++- taxlist-0.1.5/taxlist/man/print_name.Rd |only taxlist-0.1.5/taxlist/man/subset.Rd | 13 +- taxlist-0.1.5/taxlist/man/summary.Rd | 23 ++- taxlist-0.1.5/taxlist/man/tax2traits.Rd | 11 - taxlist-0.1.5/taxlist/man/taxlist-class.Rd | 43 +++---- taxlist-0.1.5/taxlist/man/taxlist-package.Rd | 35 +++-- taxlist-0.1.5/taxlist/man/taxon_names.Rd | 68 ++++++++--- taxlist-0.1.5/taxlist/man/taxon_relations.Rd | 63 +++++++++- taxlist-0.1.5/taxlist/man/taxon_traits.Rd | 25 +++- taxlist-0.1.5/taxlist/man/taxon_views.Rd | 33 +++++ taxlist-0.1.5/taxlist/man/tnrs.Rd | 3 taxlist-0.1.5/taxlist/tests/extras/TODO_check.R |only taxlist-0.1.5/taxlist/tests/extras/write_Easplist.R | 45 +++++-- 62 files changed, 815 insertions(+), 496 deletions(-)
Title: Toolkit for Item Factor Analysis with 'OpenMx'
Description: Tools, tutorials, and demos of Item Factor Analysis using 'OpenMx'.
Author: Joshua N. Pritikin [cre, aut]
Maintainer: Joshua N. Pritikin <jpritikin@pobox.com>
Diff between ifaTools versions 0.16 dated 2018-06-28 and 0.17 dated 2018-06-29
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- inst/doc/pritikin-schmidt.pdf |binary inst/modelBuilder/server.R | 7 +++++-- 4 files changed, 12 insertions(+), 9 deletions(-)
Title: GeoJSON to Simple Feature Converter
Description: Converts Between GeoJSON and simple feature objects.
Author: David Cooley [aut, cre]
Maintainer: David Cooley <dcooley@symbolix.com.au>
Diff between geojsonsf versions 1.0 dated 2018-05-01 and 1.1 dated 2018-06-29
DESCRIPTION | 7 ++-- MD5 | 12 +++---- NEWS.md | 6 ++- build/vignette.rds |binary inst/doc/geojson-sf-conversions.html | 60 +++++++++++++++++------------------ src/sf_geojson.cpp | 5 ++ tests/testthat/test-sf_geojson.R | 49 ++++++++++++---------------- 7 files changed, 72 insertions(+), 67 deletions(-)
Title: Bayesian Analysis of Quantile Regression Models
Description: Bayesian estimation and variable selection for quantile regression models.
Author: Rahim Alhamzawi
Maintainer: Rahim Alhamzawi (University of Al-Qadisiyah) <rahim.alhamzawi@qu.edu.iq>
Diff between Brq versions 2.0 dated 2017-03-02 and 2.1 dated 2018-06-29
Brq-2.0/Brq/R/BALTrq.R |only Brq-2.0/Brq/R/BALrq.R |only Brq-2.0/Brq/R/BBrq.R |only Brq-2.0/Brq/R/BLTrq.R |only Brq-2.0/Brq/R/BLrq.R |only Brq-2.0/Brq/R/BTrq.R |only Brq-2.0/Brq/man/BALTrq.Rd |only Brq-2.0/Brq/man/BALrq.Rd |only Brq-2.0/Brq/man/BBrq.Rd |only Brq-2.0/Brq/man/BLTrq.Rd |only Brq-2.0/Brq/man/BLrq.Rd |only Brq-2.0/Brq/man/BTrq.Rd |only Brq-2.0/Brq/man/Brq.Rd |only Brq-2.1/Brq/DESCRIPTION | 11 +-- Brq-2.1/Brq/MD5 | 50 ++++++++++----- Brq-2.1/Brq/NAMESPACE | 11 +++ Brq-2.1/Brq/R/Brq.R | 112 ----------------------------------- Brq-2.1/Brq/R/Brq.default.R |only Brq-2.1/Brq/R/Brq.formula.R |only Brq-2.1/Brq/R/Brq1.R |only Brq-2.1/Brq/R/Brq2.R |only Brq-2.1/Brq/R/Brq3.R |only Brq-2.1/Brq/R/Btqr1.R |only Brq-2.1/Brq/R/Btqr2.R |only Brq-2.1/Brq/R/Btqr3.R |only Brq-2.1/Brq/R/model.R |only Brq-2.1/Brq/R/plot.Brq.R |only Brq-2.1/Brq/R/print.Brq.R |only Brq-2.1/Brq/R/print.summary.Brq.R |only Brq-2.1/Brq/R/summary.Brq.R |only Brq-2.1/Brq/data/Prostate.rda |only Brq-2.1/Brq/data/wheat.rda |only Brq-2.1/Brq/inst |only Brq-2.1/Brq/man/Brq1.Rd |only Brq-2.1/Brq/man/Brq2.Rd |only Brq-2.1/Brq/man/Brq3.Rd |only Brq-2.1/Brq/man/Btqr1.Rd |only Brq-2.1/Brq/man/Btqr2.Rd |only Brq-2.1/Brq/man/Btqr3.Rd |only Brq-2.1/Brq/man/ImmunogG.Rd | 2 Brq-2.1/Brq/man/Prostate.Rd |only Brq-2.1/Brq/man/model.Rd |only Brq-2.1/Brq/man/plot.Brq.Rd |only Brq-2.1/Brq/man/print.Brq.Rd |only Brq-2.1/Brq/man/print.summary.Brq.Rd |only Brq-2.1/Brq/man/summary.Brq.Rd |only Brq-2.1/Brq/man/wheat.Rd |only 47 files changed, 51 insertions(+), 135 deletions(-)
Title: Spatio-Temporal Bayesian Modelling
Description: Fits, spatially predicts and temporally forecasts large amounts of space-time data using [1] Bayesian Gaussian Process (GP) Models, [2] Bayesian Auto-Regressive (AR) Models, and [3] Bayesian Gaussian Predictive Processes (GPP) based AR Models for spatio-temporal big-n problems. Bakar and Sahu (2015) <doi:10.18637/jss.v063.i15>.
Author: K. Shuvo Bakar & Sujit K. Sahu
Maintainer: Shuvo Bakar <shuvo.bakar@gmail.com>
Diff between spTimer versions 3.0-1 dated 2017-10-19 and 3.1 dated 2018-06-29
DESCRIPTION | 13 - MD5 | 20 +- NAMESPACE | 2 R/spAR.r | 411 ++++++++++++++++++++++++++++++++++++++++++++++++++-- R/spGP.r | 105 ++++++------- R/spGPP.r | 85 ++++++---- R/spTfnc.R | 61 ++++++- R/useful_commands.R | 68 ++++---- inst/CITATION | 2 inst/ChangeLog | 14 + man/spT.Gibbs.Rd | 77 +++++++++ 11 files changed, 695 insertions(+), 163 deletions(-)
Title: Spatial ARCH and GARCH Models (spGARCH)
Description: A collection of functions to deal with spatial and spatiotemporal autoregressive conditional heteroscedasticity (spatial ARCH and GARCH models) by Otto, Schmid, Garthoff (2017) <arXiv:1609.00711>: simulation of spatial ARCH-type processes (spARCH, exponential spARCH, complex spARCH); quasi-maximum-likelihood estimation of the parameters of spARCH models and spatial autoregressive models with spARCH disturbances, diagnostic checks, visualizations.
Author: Philipp Otto [cre, aut] (<https://orcid.org/0000-0002-9796-6682>)
Maintainer: Philipp Otto <potto@europa-uni.de>
Diff between spGARCH versions 0.1.4 dated 2018-04-19 and 0.1.5 dated 2018-06-29
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/Estimation.R | 11 ++++++++--- man/qml.SARspARCH.Rd | 5 ++++- 4 files changed, 18 insertions(+), 10 deletions(-)
Title: Basic Functions for Supporting an Implementation of Case 2
Best-Worst Scaling
Description: Provides three basic functions that support an implementation of Case 2 (profile case) best-worst scaling. The first is to convert an orthogonal main-effect design into questions, the second is to create a dataset suitable for analysis, and the third is to calculate count-based scores.
Author: Hideo Aizaki
Maintainer: Hideo Aizaki <azk-r@spa.nifty.com>
Diff between support.BWS2 versions 0.1-1 dated 2017-03-25 and 0.1-2 dated 2018-06-29
DESCRIPTION | 8 +++--- MD5 | 14 +++++----- NEWS | 4 +++ R/bws2.count.R | 57 ++++++++++++++++++++++++++++++++++++++------ R/bws2.dataset.paired.R | 12 +++++++++ man/bws2.count.Rd | 7 +++-- man/bws2.dataset.Rd | 4 +-- man/support.BWS2-package.Rd | 2 - 8 files changed, 84 insertions(+), 24 deletions(-)
Title: Access to Twitter Streaming API via R
Description: Functions to access Twitter's filter, sample, and user streams, and to
parse the output into data frames.
Author: Pablo Barbera <pablo.barbera@nyu.edu>
Maintainer: Pablo Barbera <pablo.barbera@nyu.edu>
Diff between streamR versions 0.4.2 dated 2018-05-17 and 0.4.3 dated 2018-06-29
ChangeLog | 2 ++ DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/parseTweets.R | 25 ++++++++++++++++++++++--- man/parseTweets.Rd | 6 ++++-- 5 files changed, 35 insertions(+), 12 deletions(-)
Title: Efficient Estimation of Grouped Survival Models Using the Exact
Likelihood Function
Description: These 'Rcpp'-based functions compute the efficient score statistics for grouped time-to-event data (Prentice and Gloeckler, 1978), with the optional inclusion of baseline covariates. Functions for estimating the parameter of interest and nuisance parameters, including baseline hazards, using maximum likelihood are also provided. A parallel set of functions allow for the incorporation of family structure of related individuals (e.g., trios). Note that the current implementation of the frailty model (Ripatti and Palmgren, 2000) is sensitive to departures from model assumptions, and should be considered experimental. For these data, the exact proportional-hazards-model-based likelihood is computed by evaluating multiple variable integration. The integration is accomplished using the 'Cuba' library (Hahn, 2005), and the source files are included in this package. The maximization process is carried out using Brent's algorithm, with the C++ code file from John Burkardt and John Denker (Brent, 2002).
Author: Jiaxing Lin [aut],
Alexander Sibley [aut],
Tracy Truong [aut],
Kouros Owzar [aut],
Zhiguo Li [aut],
Yu Jiang [ctb],
Janice McCarthy [ctb],
Andrew Allen [ctb]
Maintainer: Jiaxing Lin <jiaxing.lin@duke.edu>
Diff between groupedSurv versions 1.0.2 dated 2018-06-22 and 1.0.3 dated 2018-06-29
DESCRIPTION | 8 ++--- MD5 | 24 ++++++++-------- NEWS | 20 ++++++++------ inst/doc/groupedSurv.R | 16 +++++------ inst/doc/groupedSurv.Rnw | 64 ++++++++++++++++++++++++++------------------- inst/doc/groupedSurv.pdf |binary man/PvalueFam.Rd | 2 - man/geneStat.Rd | 2 - man/groupedSurv-package.Rd | 4 +- man/groupedSurv.Rd | 6 ++-- man/groupedSurvFam.Rd | 2 - src/helper_NF.h | 4 +- vignettes/groupedSurv.Rnw | 64 ++++++++++++++++++++++++++------------------- 13 files changed, 122 insertions(+), 94 deletions(-)
Title: Manage Google Spreadsheets from R
Description: Interact with Google Sheets from R.
Author: Jennifer Bryan [aut, cre],
Joanna Zhao [aut]
Maintainer: Jennifer Bryan <jenny@rstudio.com>
Diff between googlesheets versions 0.2.2 dated 2017-05-07 and 0.3.0 dated 2018-06-29
DESCRIPTION | 22 LICENSE | 2 MD5 | 88 NEWS.md | 5 R/googlesheet.R | 2 R/gs_download.R | 2 R/gs_ls.R | 2 R/gs_read_cellfeed.R | 3 R/gs_read_csv.R | 3 R/gs_read_listfeed.R | 3 R/gs_reshape_cellfeed.R | 6 R/gs_simplify_cellfeed.R | 2 R/utils.R | 4 README.md | 251 - build/vignette.rds |binary inst/doc/alternative-browser.html | 316 + inst/doc/basic-usage.R | 4 inst/doc/basic-usage.Rmd | 4 inst/doc/basic-usage.html | 2341 ++++++------ inst/doc/formulas-and-formatted-numbers.html | 563 +- inst/doc/managing-auth-tokens.html | 507 +- man/gd_user.Rd | 1 man/gs_auth.Rd | 1 man/gs_deauth.Rd | 1 man/gs_delete.Rd | 1 man/gs_grepdel.Rd | 1 man/gs_read.Rd | 1 man/gs_read_cellfeed.Rd | 1 man/gs_read_csv.Rd | 1 man/gs_read_listfeed.Rd | 1 man/gs_reshape_cellfeed.Rd | 1 man/gs_simplify_cellfeed.Rd | 1 tests/testthat/for_reference/ff.rds |binary tests/testthat/for_reference/gap_oceania_listfeed_query.rds |binary tests/testthat/for_reference/pts_special_chars.rds |binary tests/testthat/helper04_activate-test-token.R | 3 tests/testthat/test-auth.R | 20 tests/testthat/test-consume-data-private.R | 8 tests/testthat/test-gs-register.R | 2 tests/testthat/test-gs-upload.R | 4 tests/testthat/test-yy-axe-oauth-token.R | 2 tests/testthat/test-yy-consume-data-public-selective.R | 34 tests/testthat/test-yy-consume-data-public-tricky.R | 30 tests/testthat/test-yy-consume-data-public-whole-sheets.R | 20 vignettes/basic-usage.Rmd | 4 45 files changed, 2603 insertions(+), 1665 deletions(-)