Title: Tools for Parsing and Generating XML Within R and S-Plus
Description: Many approaches for both reading and
creating XML (and HTML) documents (including DTDs), both local
and accessible via HTTP or FTP. Also offers access to an
'XPath' "interpreter".
Author: CRAN Team [ctb, cre] ,
Duncan Temple Lang [aut] ,
Tomas Kalibera [ctb]
Maintainer: CRAN Team <CRAN@r-project.org>
Diff between XML versions 3.99-0.14 dated 2023-03-19 and 3.99-0.15 dated 2023-11-02
DESCRIPTION | 6 +++--- LICENSE | 1 + MD5 | 4 ++-- 3 files changed, 6 insertions(+), 5 deletions(-)
Title: General Network (HTTP/FTP/...) Client Interface for R
Description: A wrapper for 'libcurl' <https://curl.se/libcurl/>
Provides functions to allow one to compose general HTTP requests
and provides convenient functions to fetch URIs, get & post
forms, etc. and process the results returned by the Web server.
This provides a great deal of control over the HTTP/FTP/...
connection and the form of the request while providing a
higher-level interface than is available just using R socket
connections. Additionally, the underlying implementation is
robust and extensive, supporting FTP/FTPS/TFTP (uploads and
downloads), SSL/HTTPS, telnet, dict, ldap, and also supports
cookies, redirects, authentication, etc.
Author: CRAN Team [ctb, cre] ,
Duncan Temple Lang [aut]
Maintainer: CRAN Team <CRAN@r-project.org>
Diff between RCurl versions 1.98-1.12 dated 2023-03-27 and 1.98-1.13 dated 2023-11-02
DESCRIPTION | 6 +++--- LICENSE | 1 + MD5 | 4 ++-- 3 files changed, 6 insertions(+), 5 deletions(-)
Title: 'Rcpp' Integration for the 'Eigen' Templated Linear Algebra
Library
Description: R and 'Eigen' integration using 'Rcpp'.
'Eigen' is a C++ template library for linear algebra: matrices, vectors,
numerical solvers and related algorithms. It supports dense and sparse
matrices on integer, floating point and complex numbers, decompositions of
such matrices, and solutions of linear systems. Its performance on many
algorithms is comparable with some of the best implementations based on
'Lapack' and level-3 'BLAS'. The 'RcppEigen' package includes the header
files from the 'Eigen' C++ template library. Thus users do not need to
install 'Eigen' itself in order to use 'RcppEigen'. Since version 3.1.1,
'Eigen' is licensed under the Mozilla Public License (version 2); earlier
version were licensed under the GNU LGPL version 3 or later. 'RcppEigen'
(the 'Rcpp' bindings/bridge to 'Eigen') is licensed under the GNU GPL
version 2 or later, as is the rest of 'Rcpp'.
Author: Douglas Bates, Dirk Eddelbuettel, Romain Francois, and Yixuan Qiu;
the authors of Eigen for the included version of Eigen
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppEigen versions 0.3.3.9.3 dated 2022-11-05 and 0.3.3.9.4 dated 2023-11-02
RcppEigen-0.3.3.9.3/RcppEigen/inst/include/RcppEigenStubs.h |only RcppEigen-0.3.3.9.3/RcppEigen/src/init.c |only RcppEigen-0.3.3.9.4/RcppEigen/ChangeLog | 57 RcppEigen-0.3.3.9.4/RcppEigen/DESCRIPTION | 24 RcppEigen-0.3.3.9.4/RcppEigen/MD5 | 43 RcppEigen-0.3.3.9.4/RcppEigen/NAMESPACE | 1 RcppEigen-0.3.3.9.4/RcppEigen/R/RcppEigen.package.skeleton.R | 5 RcppEigen-0.3.3.9.4/RcppEigen/R/RcppExports.R | 18 RcppEigen-0.3.3.9.4/RcppEigen/R/fastLm.R | 4 RcppEigen-0.3.3.9.4/RcppEigen/README.md | 3 RcppEigen-0.3.3.9.4/RcppEigen/build/vignette.rds |binary RcppEigen-0.3.3.9.4/RcppEigen/inst/CITATION | 31 RcppEigen-0.3.3.9.4/RcppEigen/inst/NEWS.Rd | 17 RcppEigen-0.3.3.9.4/RcppEigen/inst/doc/RcppEigen-Introduction.pdf |binary RcppEigen-0.3.3.9.4/RcppEigen/inst/include/Eigen/CholmodSupport | 4 RcppEigen-0.3.3.9.4/RcppEigen/inst/include/Eigen/src/CholmodSupport/CholmodSupport.h | 26 RcppEigen-0.3.3.9.4/RcppEigen/inst/include/RcppEigenCholmod.h | 1075 ---------- RcppEigen-0.3.3.9.4/RcppEigen/inst/include/RcppEigenForward.h | 7 RcppEigen-0.3.3.9.4/RcppEigen/inst/include/RcppEigenStubs.cpp |only RcppEigen-0.3.3.9.4/RcppEigen/inst/include/RcppEigenWrap.h | 45 RcppEigen-0.3.3.9.4/RcppEigen/src/Makevars | 10 RcppEigen-0.3.3.9.4/RcppEigen/src/Makevars.win | 10 RcppEigen-0.3.3.9.4/RcppEigen/src/RcppEigen.cpp | 13 RcppEigen-0.3.3.9.4/RcppEigen/src/RcppExports.cpp | 76 24 files changed, 233 insertions(+), 1236 deletions(-)
Title: Package for Sequence Analysis by Local Score
Description: Functionalities for calculating the local score and calculating statistical relevance (p-value) to find a local Score in a sequence of given distribution (S. Mercier and J.-J. Daudin (2001) <https://hal.science/hal-00714174/>) ; S. Karlin and S. Altschul (1990) <https://www.ncbi.nlm.nih.gov/pmc/articles/PMC53667/> ; S. Mercier, D. Cellier and F. Charlot (2003) <https://hal.science/hal-00937529v1/> ; A. Lagnoux, S. Mercier and P. Valois (2017) <doi:10.1093/bioinformatics/btw699> ).
Author: Sebastian Simon [aut],
David Robelin [aut, cre],
Sabine Mercier [aut],
Sebastien Dejean [aut],
The authors of Eigen the library for the included version of Eigen
[cph]
Maintainer: David Robelin <david.robelin@inrae.fr>
Diff between localScore versions 1.0.10 dated 2023-11-02 and 1.0.11 dated 2023-11-02
DESCRIPTION | 6 MD5 | 10 - inst/doc/localScorePackageDocumentation.html | 193 ++++++++++++--------------- src/pValueMethods.cpp | 10 - tests/testthat/test-karlin.R | 17 +- tests/testthat/test-mcc.R | 17 +- 6 files changed, 123 insertions(+), 130 deletions(-)
Title: Sensitivities of Prices of Financial Options and Implied
Volatilities
Description: Methods to calculate sensitivities of financial option prices for
European, geometric and arithmetic Asian, and American options, with various
payoff functions in the Black Scholes model, and in more general jump diffusion
models. A shiny app to interactively plot the results is included. Furthermore,
methods to compute implied volatilities are provided for a wide range of option
types and custom payoff functions. Classical formulas are implemented for
European options in the Black Scholes Model, as is presented in Hull, J. C.
(2017), Options, Futures, and Other Derivatives.
In the case of Asian options, Malliavin Monte Carlo Greeks are implemented, see
Hudde, A. & Rüschendorf, L. (2023). European and Asian Greeks for exponential
Lévy processes. <doi:10.1007/s11009-023-10014-5>. For American
options, the Binomial Tree Method is implemented, as is presented in Hull,
J. C. (2017).
Author: Anselm Hudde [aut, cre]
Maintainer: Anselm Hudde <anselmhudde@gmx.de>
Diff between greeks versions 1.3 dated 2023-09-14 and 1.3.1 dated 2023-11-02
greeks-1.3.1/greeks/DESCRIPTION | 8 - greeks-1.3.1/greeks/LICENSE | 2 greeks-1.3.1/greeks/MD5 | 45 ++++------ greeks-1.3.1/greeks/R/BS_European_Greeks.R | 2 greeks-1.3.1/greeks/R/BS_Geometric_Asian_Greeks.R | 6 - greeks-1.3.1/greeks/R/BS_Implied_Volatility.R | 3 greeks-1.3.1/greeks/R/BS_Malliavin_Asian_Greeks.R | 10 +- greeks-1.3.1/greeks/R/Greeks.R | 32 ++++--- greeks-1.3.1/greeks/R/Malliavin_Asian_Greeks.R | 3 greeks-1.3.1/greeks/R/Malliavin_European_Greeks.R | 19 ++-- greeks-1.3.1/greeks/build/vignette.rds |binary greeks-1.3.1/greeks/inst/doc/using_greeks.Rmd | 6 - greeks-1.3.1/greeks/inst/doc/using_greeks.html | 9 -- greeks-1.3.1/greeks/man/BS_European_Greeks.Rd | 4 greeks-1.3.1/greeks/man/BS_Geometric_Asian_Greeks.Rd | 7 - greeks-1.3.1/greeks/man/BS_Implied_Volatility.Rd | 6 - greeks-1.3.1/greeks/man/BS_Malliavin_Asian_Greeks.Rd | 11 +- greeks-1.3.1/greeks/man/Greeks.Rd | 18 +++- greeks-1.3.1/greeks/man/Greeks_UI.Rd | 22 ++-- greeks-1.3.1/greeks/man/Malliavin_Asian_Greeks.Rd | 6 - greeks-1.3.1/greeks/man/Malliavin_European_Greeks.Rd | 18 +--- greeks-1.3.1/greeks/tests/testthat/test-Malliavin_European_Greeks.R |only greeks-1.3.1/greeks/vignettes/using_greeks.Rmd | 6 - greeks-1.3/greeks/README.md |only greeks-1.3/greeks/src/BS_European_Greek_cpp.cpp |only 25 files changed, 132 insertions(+), 111 deletions(-)
Title: Fully-Latent Principal Stratification
Description: Simulation and analysis of Fully-Latent Principal Stratification (FLPS) with measurement models. Sales & Pane (2019). <doi:10.1214/18-AOAS1196>. This package is supported by the Institute of Education Sciences, U.S. Department of Education, through Grant R305D210036.
Author: Sooyong Lee [aut, cre],
Adam Sales [aut],
Hyeon-Ah Kang [aut],
Tiffany Whittaker [aut]
Maintainer: Sooyong Lee <sooyongl09@utexas.edu>
Diff between flps versions 0.1.0 dated 2023-05-05 and 1.0.0 dated 2023-11-02
flps-0.1.0/flps/inst/stan/flps_GRM_multi.stan |only flps-0.1.0/flps/inst/stan/flps_IRT_multi.stan |only flps-0.1.0/flps/inst/stan/flps_RASCH_multi.stan |only flps-0.1.0/flps/inst/stan/flps_SEM_multi.stan |only flps-0.1.0/flps/man/FLPS-package.Rd |only flps-1.0.0/flps/DESCRIPTION | 21 - flps-1.0.0/flps/MD5 | 104 +++++-- flps-1.0.0/flps/NAMESPACE | 4 flps-1.0.0/flps/NEWS.md | 14 flps-1.0.0/flps/R/data_desc.r |only flps-1.0.0/flps/R/flps-package.r | 11 flps-1.0.0/flps/R/load_rstan.r | 181 +++++++----- flps-1.0.0/flps/R/make_FLPSdata.r | 252 +++++++---------- flps-1.0.0/flps/R/plot_function.r | 134 ++++++++- flps-1.0.0/flps/R/priors.r | 17 + flps-1.0.0/flps/R/run_FLPS.r | 103 +++---- flps-1.0.0/flps/R/summary_function.r | 22 + flps-1.0.0/flps/R/z_utils.r | 24 + flps-1.0.0/flps/R/z_validate.r | 58 ++++ flps-1.0.0/flps/R/zzz.r | 4 flps-1.0.0/flps/README.md | 223 +++++++-------- flps-1.0.0/flps/build/vignette.rds |binary flps-1.0.0/flps/data |only flps-1.0.0/flps/inst/doc/flps.R | 11 flps-1.0.0/flps/inst/doc/flps.Rmd | 58 ++-- flps-1.0.0/flps/inst/doc/flps.html | 323 ++++++++++++----------- flps-1.0.0/flps/inst/stan/multilevel |only flps-1.0.0/flps/inst/stan/singlelevel |only flps-1.0.0/flps/inst/stan/test_grm_Multi.stan |only flps-1.0.0/flps/inst/stan/test_grm_Single.stan |only flps-1.0.0/flps/inst/stan/test_irt_Multi.stan |only flps-1.0.0/flps/inst/stan/test_irt_Single.stan |only flps-1.0.0/flps/inst/stan/test_lca_Multi.stan |only flps-1.0.0/flps/inst/stan/test_lca_Single.stan |only flps-1.0.0/flps/inst/stan/test_lpa_Multi.stan |only flps-1.0.0/flps/inst/stan/test_lpa_Single.stan |only flps-1.0.0/flps/inst/stan/test_rasch_Multi.stan |only flps-1.0.0/flps/inst/stan/test_rasch_Single.stan |only flps-1.0.0/flps/inst/stan/test_sem_Multi.stan |only flps-1.0.0/flps/inst/stan/test_sem_Single.stan |only flps-1.0.0/flps/man/binary.Rd |only flps-1.0.0/flps/man/continuous.Rd |only flps-1.0.0/flps/man/flps-package.Rd |only flps-1.0.0/flps/man/flps_plot.Rd | 40 +- flps-1.0.0/flps/man/graded.Rd |only flps-1.0.0/flps/man/importModel.Rd |only flps-1.0.0/flps/man/makeInpData.Rd | 194 ++++++------- flps-1.0.0/flps/man/makeSimData.Rd | 196 ++++++------- flps-1.0.0/flps/man/modelBuilder.Rd | 8 flps-1.0.0/flps/man/plot.Rd | 48 +-- flps-1.0.0/flps/man/print.Rd | 38 +- flps-1.0.0/flps/man/runFLPS.Rd | 76 ++--- flps-1.0.0/flps/man/summary.flps.Rd | 2 flps-1.0.0/flps/tests/testthat/test-runFLPS.r |only flps-1.0.0/flps/vignettes/flps.Rmd | 58 ++-- 55 files changed, 1267 insertions(+), 957 deletions(-)
Title: Wrapper Functions Collection Used in Data Pipelines
Description: The goal of this package is to provide wrapper functions in the
data cleaning and cleansing processes. These function helps in messages and
interaction with the user, keep track of information in pipelines, help in
the wrangling, munging, assessment and visualization of data frame-like
material.
Author: Guillaume Fabre [aut, cre],
Maelstrom-Research [fnd]
Maintainer: Guillaume Fabre <guijoseph.fabre@gmail.com>
Diff between fabR versions 2.0.0 dated 2023-09-28 and 2.0.1 dated 2023-11-02
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 7 ++++++- R/00-utils.R | 3 ++- build/vignette.rds |binary inst/doc/fabR-vignette.R | 2 +- man/deprecated.Rd | 30 +++++++++++++++--------------- 7 files changed, 33 insertions(+), 27 deletions(-)
Title: Non-Homogeneous Markov and Hidden Markov Multistate Models
Description: Fits non-homogeneous Markov multistate models and misclassification-type hidden Markov models in continuous time to intermittently observed data. Implements the methods in Titman (2011) <doi:10.1111/j.1541-0420.2010.01550.x>. Uses direct numerical solution of the Kolmogorov forward equations to calculate the transition probabilities.
Author: Andrew Titman [aut, cre]
Maintainer: Andrew Titman <a.titman@lancaster.ac.uk>
Diff between nhm versions 0.1.0 dated 2019-10-11 and 0.1.1 dated 2023-11-02
nhm-0.1.0/nhm/inst/doc/nhm-manual.Rnw |only nhm-0.1.0/nhm/vignettes/Sweave-local.sty |only nhm-0.1.0/nhm/vignettes/nhm-manual.Rnw |only nhm-0.1.1/nhm/.Rinstignore |only nhm-0.1.1/nhm/DESCRIPTION | 9 nhm-0.1.1/nhm/MD5 | 18 nhm-0.1.1/nhm/NEWS |only nhm-0.1.1/nhm/R/main.R | 10 nhm-0.1.1/nhm/R/process.R | 1486 +++++++++++++++---------------- nhm-0.1.1/nhm/R/utils.R | 19 nhm-0.1.1/nhm/build/vignette.rds |binary nhm-0.1.1/nhm/inst/doc/nhm-manual.pdf |binary nhm-0.1.1/nhm/inst/doc/nhm-manual.tex |only nhm-0.1.1/nhm/vignettes/nhm-manual.tex |only 14 files changed, 780 insertions(+), 762 deletions(-)
Title: 'DataRobot' Predictive Modeling API
Description: For working with the 'DataRobot' predictive modeling platform's API <https://www.datarobot.com/>.
Author: Ron Pearson [aut],
Zachary Deane-Mayer [aut],
David Chudzicki [aut],
Dallin Akagi [aut],
Sergey Yurgenson [aut],
Thakur Raj Anand [aut],
Peter Hurford [aut],
Chester Ismay [aut],
AJ Alon [aut],
Andrew Watson [aut],
Gregory Williams [aut],
Anastasiia [...truncated...]
Maintainer: AJ Alon <api-maintainer@datarobot.com>
Diff between datarobot versions 2.18.4 dated 2023-08-07 and 2.18.5 dated 2023-11-02
DESCRIPTION | 6 - MD5 | 64 +++++++------- NEWS.md | 11 ++ R/Enums.R | 3 R/GetPredictions.R | 9 +- R/ListModelJobs.R | 16 ++- R/MultiSeries.R | 7 - R/PredictionDatasets.R | 7 - R/Projects.R | 11 +- R/StartRetryWaiter.R | 8 - inst/doc/AdvancedTuning.html | 115 ++++++++++++------------- inst/doc/AdvancedVignette.html | 117 +++++++++++++------------- inst/doc/Calendars.html | 115 ++++++++++++------------- inst/doc/ComparingSubsets.html | 133 ++++++++++++++---------------- inst/doc/ComplianceDocumentation.html | 115 ++++++++++++------------- inst/doc/DatetimePartitionedProjects.html | 115 ++++++++++++------------- inst/doc/Deployment.html | 115 ++++++++++++------------- inst/doc/IntroductionToDataRobot.html | 115 ++++++++++++------------- inst/doc/Multiclass.html | 115 ++++++++++++------------- inst/doc/PartialDependence.html | 133 ++++++++++++++---------------- inst/doc/PredictionExplanations.html | 115 ++++++++++++------------- inst/doc/RatingTables.html | 115 ++++++++++++------------- inst/doc/TimeSeries.html | 115 ++++++++++++------------- inst/doc/TrainingPredictions.html | 115 ++++++++++++------------- inst/doc/VariableImportance.html | 133 ++++++++++++++---------------- man/DeploymentAccuracyMetric.Rd | 2 man/GetModelJob.Rd | 32 +++---- man/ListModelJobs.Rd | 26 ++--- man/ListProjects.Rd | 6 - man/Predict.Rd | 2 man/RequestCrossSeriesDetection.Rd | 2 man/RequestPredictions.Rd | 6 - man/StartRetryWaiter.Rd | 8 - 33 files changed, 1004 insertions(+), 1003 deletions(-)
Title: The Field of Cyclotomic Numbers
Description: The cyclotomic numbers are complex numbers that can be
thought of as the rational numbers extended with the roots of unity. They
are represented exactly, enabling exact computations. They contain the
Gaussian rationals (complex numbers with rational real and imaginary
parts) as well as the square roots of all rational numbers. They also
contain the sine and cosine of all rational multiples of pi. The
algorithms implemented in this package are taken from the 'Haskell'
package 'cyclotomic', whose algorithms are adapted from code by Martin
Schoenert and Thomas Breuer in the 'GAP' project
(<https://www.gap-system.org/>). Cyclotomic numbers have applications in
number theory, algebraic geometry, algebraic number theory, coding
theory, and in the theory of graphs and combinatorics. They have
connections to the theory of modular functions and modular curves.
Author: Stephane Laurent [aut, cre],
Scott N. Walck [cph]
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Diff between cyclotomic versions 1.2.0 dated 2023-07-15 and 1.3.0 dated 2023-11-02
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NAMESPACE | 8 ++++---- NEWS.md | 6 ++++++ R/arithmetic.R | 13 ++++++++----- R/mkCyclotomic.R | 13 +++++++------ 6 files changed, 34 insertions(+), 24 deletions(-)
Title: Creates and Saves Out a Correlation Table with Significance
Levels Indicated
Description: After using this, a publication-ready correlation table with p-values
indicated will be created. The input can be a full data frame; any
string and Boolean terms will be dropped as part of functionality. Correlations and
p-values are calculated using the 'Hmisc' framework. Output of the
correlation_matrix() function is a table of strings; this gets saved out to a '.csv2'
with the save_correlation_matrix() function for easy insertion into a paper.
For more details about the process, consult
<https://paulvanderlaken.com/2020/07/28/publication-ready-correlation-matrix-significance-r/>.
Author: Paul van der Laken [aut] ,
Laura Lambert [ctb, cre]
Maintainer: Laura Lambert <laura.lambert.99@gmail.com>
Diff between corrtable versions 0.1.0 dated 2022-09-12 and 0.1.1 dated 2023-11-02
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 2 ++ R/correlation_matrix.R | 2 +- 4 files changed, 9 insertions(+), 7 deletions(-)
Title: Time Series Prediction Integrated Tuning
Description: Prediction is one of the most important activities while working with time series. There are many alternative ways to model the time series. Finding the right one is challenging to model them. Most data-driven models (either statistical or machine learning) demand tuning. Setting them right is mandatory for good predictions. It is even more complex since time series prediction also demands choosing a data pre-processing that complies with the chosen model. Many time series frameworks have features to build and tune models. The package differs as it provides a framework that seamlessly integrates tuning data pre-processing activities with the building of models. The package provides functions for defining and conducting time series prediction, including data pre(post)processing, decomposition, tuning, modeling, prediction, and accuracy assessment. More information is available at Izau et al. <doi:10.5753/sbbd.2022.224330>.
Author: Rebecca Salles [aut],
Cristiane Gea [aut],
Vitoria Birindiba [aut],
Carla Pacheco [aut],
Eduardo Bezerra [aut],
Esther Pacitti [aut],
Fabio Porto [aut],
Eduardo Ogasawara [aut, ths, cre]
,
Federal Center for Technological Education of Rio de Janeiro [...truncated...]
Maintainer: Eduardo Ogasawara <eogasawara@ieee.org>
Diff between tspredit versions 1.0.707 dated 2023-07-19 and 1.0.727 dated 2023-11-02
DESCRIPTION | 24 ++++++++++++------ MD5 | 62 +++++++++++++++++++++++++++--------------------- NAMESPACE | 33 ++++++++++++++++++++++++- R/bal_oversampling.R | 5 +++ R/bal_subsampling.R | 5 +++ R/cla_fs.R | 5 +++ R/cla_fs_fss.R | 4 +++ R/cla_fs_ig.R | 5 +++ R/cla_fs_lasso.R | 4 +++ R/cla_fs_relief.R | 4 +++ R/recursive_filter.R |only R/ts_aug_awareness.R | 7 ++++- R/ts_aug_awaresmooth.R | 10 ++++++- R/ts_aug_flip.R | 7 ++++- R/ts_aug_jitter.R | 8 +++++- R/ts_aug_none.R | 4 +++ R/ts_aug_shrink.R | 7 ++++- R/ts_aug_stretch.R | 7 ++++- R/ts_aug_wormhole.R | 10 ++++++- R/ts_fil_ema.R | 4 +++ R/ts_fil_hp.R |only R/ts_fil_lowess.R |only R/ts_fil_ma.R | 4 +++ R/ts_fil_none.R | 4 +++ R/ts_fil_seas_adj.R |only R/ts_fil_smooth.R | 9 +++--- R/ts_fil_spline.R |only R/ts_maintune.R | 46 ++++++++++++++++++++++++----------- R/ts_norm_none.R | 4 +++ README.md | 20 +++++++++++++-- man/ts_fil_hp.Rd |only man/ts_fil_lowess.Rd |only man/ts_fil_recursive.Rd |only man/ts_fil_seas_adj.Rd |only man/ts_fil_smooth.Rd | 5 --- man/ts_fil_spline.Rd |only man/ts_maintune.Rd | 4 +-- 37 files changed, 233 insertions(+), 78 deletions(-)
Title: R Client for 'iRODS'
Description: The open sourced data management software 'Integrated Rule-Oriented
Data System' ('iRODS') offers solutions for the whole data life cycle
(<https://irods.org/>). The loosely constructed and highly configurable
architecture of 'iRODS' frees the user from strict formatting constraints
and single-vendor solutions. This package provides an interface to the
'iRODS' REST API, allowing you to manage your data and metadata in 'iRODS'
with R. Storage of annotated files and R objects in 'iRODS' ensures
findability, accessibility, interoperability, and reusability of data.
Author: Martin Schobben [aut, cre, cph]
,
Mariana Montes [aut],
Terrell Russell [ctb],
Christine Staiger [ctb],
Ton Smeele [ctb],
Alan King [ctb]
Maintainer: Martin Schobben <schobbenmartin@gmail.com>
Diff between rirods versions 0.1.1 dated 2023-06-30 and 0.1.2 dated 2023-11-02
DESCRIPTION | 15 MD5 | 299 +++++----- NEWS.md | 8 R/data-objects.R | 16 R/irods-demo.R | 19 R/metadata.R | 39 + R/navigation.R | 13 README.md | 36 - build/vignette.rds |binary inst/CITATION | 4 inst/WORDLIST | 24 inst/doc/demo.R |only inst/doc/demo.Rmd |only inst/doc/demo.html |only inst/doc/develop.R | 2 inst/doc/icommands.R |only inst/doc/icommands.Rmd |only inst/doc/icommands.html |only inst/doc/local-irods.R |only inst/doc/local-irods.Rmd |only inst/doc/local-irods.html |only inst/doc/metadata.R |only inst/doc/metadata.Rmd |only inst/doc/metadata.html |only inst/irods_demo/LICENSE |only inst/irods_demo/docker-compose.yml | 1 inst/irods_demo/irods_client_icommands/Dockerfile | 1 inst/irods_demo/irods_client_rest_cpp/irods_client_rest_cpp.Dockerfile | 2 inst/shell_scripts/docker-images-remove.sh | 2 man/figures |only man/iget.Rd | 12 man/iput.Rd | 2 man/iquery.Rd | 15 tests/testthat/add-data-collections/list-88a93f.R | 2 tests/testthat/add-data-collections/list-90a58c.R | 2 tests/testthat/add-data-collections/list-e3f267.R | 2 tests/testthat/add-data-collections/list-f91c86.R | 2 tests/testthat/add-data-collections/logicalpath-05e661-DELETE.R | 2 tests/testthat/add-data-collections/logicalpath-649e27-DELETE.R | 2 tests/testthat/add-data-collections/logicalpath-673d59-DELETE.R | 2 tests/testthat/add-data-collections/logicalpath-b92dc4-POST.R | 2 tests/testthat/add-data-collections/logicalpath-d7e80e-POST.R | 2 tests/testthat/coerce-irods_df/list-45dbe0.R | 2 tests/testthat/coerce-irods_df/list-e12d92.R | 2 tests/testthat/coerce-irods_df/logicalpath-b947e4-DELETE.R | 2 tests/testthat/coerce-irods_df/metadata-8584b1-POST.R | 2 tests/testthat/coerce-irods_df/stream-07de5f-PUT.R | 2 tests/testthat/coerce-irods_df/stream-322103-PUT.R | 2 tests/testthat/expand-path/list-20ba52.R | 2 tests/testthat/expand-path/list-f91c86.R | 2 tests/testthat/ils/list-2adf82.R | 2 tests/testthat/ils/list-716135.R | 2 tests/testthat/ils/list-79a573.R | 2 tests/testthat/ils/list-f91c86.R | 2 tests/testthat/ils/list-f9b983.R | 2 tests/testthat/irods-rest-call/list-e2482c.R | 2 tests/testthat/large-data-objects/list-1a9392.R | 6 tests/testthat/large-data-objects/list-3c89f1.R | 2 tests/testthat/large-data-objects/list-7e8be2.R | 6 tests/testthat/large-data-objects/list-8d106a.R | 6 tests/testthat/large-data-objects/list-95f825.R | 2 tests/testthat/large-data-objects/logicalpath-09bddd-DELETE.R | 2 tests/testthat/large-data-objects/logicalpath-e91799-DELETE.R | 2 tests/testthat/large-data-objects/stream-0ffc94-PUT.R | 2 tests/testthat/large-data-objects/stream-1f74c7.R | 2 tests/testthat/large-data-objects/stream-41f49c-PUT.R | 2 tests/testthat/large-data-objects/stream-4b5007.R | 2 tests/testthat/large-data-objects/stream-5279b4-PUT.R | 2 tests/testthat/large-data-objects/stream-5279b4.R | 4 tests/testthat/large-data-objects/stream-70ad3e-PUT.R | 2 tests/testthat/large-data-objects/stream-93cc74.R | 2 tests/testthat/large-data-objects/stream-ef5306-PUT.R | 2 tests/testthat/large-data-objects/stream-f219d5-PUT.R | 2 tests/testthat/metadata-1/list-45dbe0.R | 2 tests/testthat/metadata-1/list-ec443a.R | 2 tests/testthat/metadata-1/metadata-b357da-POST.R | 2 tests/testthat/metadata-1/stream-3b4fe7-PUT.R | 2 tests/testthat/metadata-1/stream-560aa9-PUT.R | 2 tests/testthat/metadata-2/list-45dbe0.R | 2 tests/testthat/metadata-2/list-ec443a.R | 2 tests/testthat/metadata-2/metadata-02d501-POST.R | 2 tests/testthat/metadata-3/list-45dbe0.R | 2 tests/testthat/metadata-3/list-7f041c.R | 2 tests/testthat/metadata-3/list-ec443a.R | 2 tests/testthat/metadata-3/logicalpath-9f16e8-DELETE.R | 2 tests/testthat/metadata-3/metadata-02d501-POST.R | 2 tests/testthat/metadata-3/stream-012c54-PUT.R | 2 tests/testthat/metadata-3/stream-e4f82a-PUT.R | 2 tests/testthat/metadata-errors/list-ec443a.R | 2 tests/testthat/metadata-query/query-51f291.R | 2 tests/testthat/metadata-query/query-e28a0f.R |only tests/testthat/metadata-remove/list-45dbe0.R | 2 tests/testthat/metadata-remove/list-ec443a.R | 2 tests/testthat/metadata-remove/logicalpath-add13d-DELETE.R | 2 tests/testthat/metadata-remove/metadata-1956b8-POST.R | 2 tests/testthat/navigation/list-79a573.R | 2 tests/testthat/navigation/list-9de04e.R | 2 tests/testthat/navigation/list-f91c86.R | 2 tests/testthat/navigation/list-fe4aa0.R | 2 tests/testthat/navigation/logicalpath-b87c6d-DELETE.R | 2 tests/testthat/navigation/stream-178e79-PUT.R | 2 tests/testthat/navigation/stream-9b29ff-PUT.R | 2 tests/testthat/object-helpers/list-20ba52.R | 2 tests/testthat/object-helpers/list-2adf82.R | 2 tests/testthat/object-helpers/list-d4592f.R | 2 tests/testthat/object-helpers/list-ec443a.R | 2 tests/testthat/object-helpers/logicalpath-add13d-DELETE.R | 2 tests/testthat/object-helpers/stream-3b4fe7-PUT.R | 2 tests/testthat/object-helpers/stream-560aa9-PUT.R | 2 tests/testthat/overwrite-data-objects-errors/list-381167.R | 2 tests/testthat/overwrite-data-objects-errors/logicalpath-a7251e-DELETE.R | 2 tests/testthat/overwrite-data-objects-errors/stream-2bdbf2-PUT.R | 2 tests/testthat/overwrite-data-objects-errors/stream-bfee42-PUT.R | 2 tests/testthat/print-1/list-f91c86.R | 2 tests/testthat/print-2/list-426d3d.R | 2 tests/testthat/print-2/list-45dbe0.R | 2 tests/testthat/print-2/list-c54ec9.R | 2 tests/testthat/print-2/list-f91c86.R | 2 tests/testthat/print-2/metadata-a30c47-POST.R | 2 tests/testthat/print-2/stream-0c01b5-PUT.R | 2 tests/testthat/print-2/stream-45c328-PUT.R | 2 tests/testthat/print-2/stream-57f480-PUT.R | 2 tests/testthat/print-2/stream-92b2f2-PUT.R | 2 tests/testthat/print-3/list-426d3d.R | 2 tests/testthat/print-3/list-45dbe0.R | 2 tests/testthat/print-3/metadata-021672-POST.R | 2 tests/testthat/print-4/list-426d3d.R | 2 tests/testthat/print-4/list-45dbe0.R | 2 tests/testthat/print-4/list-a880ed.R | 2 tests/testthat/print-4/list-c54ec9.R | 2 tests/testthat/print-4/logicalpath-5e99dd-DELETE.R | 2 tests/testthat/print-4/logicalpath-7c0dc4-DELETE.R | 2 tests/testthat/print-4/metadata-2c8f29-POST.R | 2 tests/testthat/remove-objects/list-381167.R | 2 tests/testthat/remove-objects/list-d8627f.R | 2 tests/testthat/remove-objects/list-f91c86.R | 2 tests/testthat/remove-objects/logicalpath-745fc8-DELETE.R | 2 tests/testthat/remove-objects/logicalpath-a7251e-DELETE.R | 2 tests/testthat/remove-objects/stream-07e6a3-PUT.R | 2 tests/testthat/remove-objects/stream-24b999-PUT.R | 2 tests/testthat/remove-objects/stream-2bdbf2-PUT.R | 2 tests/testthat/remove-objects/stream-bfee42-PUT.R | 2 tests/testthat/small-data-objects/list-0de89c.R | 6 tests/testthat/small-data-objects/list-275f2a.R | 2 tests/testthat/small-data-objects/list-3210f2.R | 2 tests/testthat/small-data-objects/list-a6bb6d.R | 6 tests/testthat/small-data-objects/logicalpath-ce4883-DELETE.R | 2 tests/testthat/small-data-objects/logicalpath-cffe2c-DELETE.R | 2 tests/testthat/small-data-objects/stream-027865-PUT.R | 2 tests/testthat/small-data-objects/stream-0291fa-PUT.R | 2 tests/testthat/small-data-objects/stream-6ca07e-PUT.R | 2 tests/testthat/small-data-objects/stream-6ca07e.R | 4 tests/testthat/small-data-objects/stream-8457e5-PUT.R | 2 tests/testthat/small-data-objects/stream-8457e5.R | 2 tests/testthat/test-metadata.R | 23 vignettes/demo |only vignettes/demo.Rmd |only vignettes/icommands.Rmd |only vignettes/local-irods.Rmd |only vignettes/metadata.Rmd |only 160 files changed, 472 insertions(+), 325 deletions(-)
Title: Phase Error Correction and Baseline Correction for One
Dimensional ('1D') 'NMR' Data
Description: There are three distinct approaches for phase error correction, they are: a single linear model with a choice of optimization functions, multiple linear models with optimization function choices and a shrinkage-based method. The methodology is based on our new algorithms and various references (Binczyk et al. (2015) <doi:10.1186/1475-925X-14-S2-S5>,Chen et al. (2002) <doi:10.1016/S1090-7807(02)00069-1>, de Brouwer (2009) <doi:10.1016/j.jmr.2009.09.017>, Džakula (2000) <doi:10.1006/jmre.2000.2123>, Ernst (1969) <doi:10.1016/0022-2364(69)90003-1>, Liland et al. (2010) <doi:10.1366/000370210792434350>).
Author: Aixiang Jiang [aut, cre, cph]
Maintainer: Aixiang Jiang <aijiang@bccrc.ca>
Diff between NMRphasing versions 1.0.1 dated 2023-10-23 and 1.0.2 dated 2023-11-02
DESCRIPTION | 8 - MD5 | 56 ++++++----- NAMESPACE | 2 R/AAM.R |only R/DANM.R | 2 R/DSM.R |only R/EMP.R | 2 R/MPC_AAM.R |only R/MPC_DANM.R | 4 R/MPC_DSM.R |only R/MPC_EMP.R | 2 R/NMRphasing.R | 12 +- R/SPC_AAM.R | 8 - R/SPC_DANM.R | 4 R/SPC_DSM.R | 6 - R/SPC_EMP.R | 2 R/absArea.r | 2 R/areaDiff.R | 2 R/entropyP.r | 3 build/vignette.rds |binary inst/doc/NMRphasing_vignette.R | 99 ++++++++++++++------ inst/doc/NMRphasing_vignette.html | 187 +++++++++++++++++++++++--------------- inst/doc/NMRphasing_vignette.rmd | 136 +++++++++++++++++++-------- man/MPC_AAM.Rd |only man/MPC_DANM.Rd | 4 man/MPC_DSM.Rd |only man/MPC_EMP.Rd | 2 man/NMRphasing.Rd | 6 - man/SPC_AAM.Rd | 4 man/SPC_DANM.Rd | 2 man/SPC_DSM.Rd | 4 vignettes/NMRphasing_vignette.rmd | 136 +++++++++++++++++++-------- 32 files changed, 455 insertions(+), 240 deletions(-)
Title: Behavioral Economic Easy Discounting
Description: Facilitates some of the analyses performed in studies of
behavioral economic discounting. The package supports scoring of the 27-Item Monetary Choice
Questionnaire (see Kaplan et al., 2016; <doi:10.1007/s40614-016-0070-9>) and scoring of the
minute discounting task (see Koffarnus & Bickel, 2014; <doi:10.1037/a0035973>) using the
Qualtrics 5-trial discounting template (see the Qualtrics Minute Discounting User Guide;
<doi:10.13140/RG.2.2.26495.79527>), which is also available as a .qsf file in this package.
Author: Brent Kaplan [aut, cre, cph]
Maintainer: Brent Kaplan <bkaplan.ku@gmail.com>
Diff between beezdiscounting versions 0.1.0 dated 2023-10-26 and 0.2.0 dated 2023-11-02
beezdiscounting-0.1.0/beezdiscounting/man/gmean.Rd |only beezdiscounting-0.2.0/beezdiscounting/DESCRIPTION | 10 beezdiscounting-0.2.0/beezdiscounting/MD5 | 24 beezdiscounting-0.2.0/beezdiscounting/NAMESPACE | 7 beezdiscounting-0.2.0/beezdiscounting/NEWS.md | 19 beezdiscounting-0.2.0/beezdiscounting/R/beezdiscounting-package.R | 10 beezdiscounting-0.2.0/beezdiscounting/R/mcq.R | 266 ++-- beezdiscounting-0.2.0/beezdiscounting/R/utils.R | 98 + beezdiscounting-0.2.0/beezdiscounting/README.md | 664 +++++++++- beezdiscounting-0.2.0/beezdiscounting/man/generate_data_mcq.Rd |only beezdiscounting-0.2.0/beezdiscounting/man/inn.Rd |only beezdiscounting-0.2.0/beezdiscounting/man/long_to_wide_mcq.Rd |only beezdiscounting-0.2.0/beezdiscounting/man/long_to_wide_mcq_excel.Rd |only beezdiscounting-0.2.0/beezdiscounting/man/score_mcq27.Rd | 23 beezdiscounting-0.2.0/beezdiscounting/man/score_one_mcq27.Rd |only beezdiscounting-0.2.0/beezdiscounting/man/wide_to_long_mcq.Rd |only beezdiscounting-0.2.0/beezdiscounting/man/wide_to_long_mcq_excel.Rd |only 17 files changed, 1001 insertions(+), 120 deletions(-)
More information about beezdiscounting at CRAN
Permanent link
Title: Group Dates
Description: Tooling to group dates by a variety of periods including:
yearly, monthly, by second, by week of the month, and more. The
groups are defined in such a way that they also represent the distance
between dates in terms of the period. This extracts valuable
information that can be used in further calculations that rely on a
specific temporal spacing between observations.
Author: Davis Vaughan [aut, cre],
Posit Software, PBC [cph, fnd]
Maintainer: Davis Vaughan <davis@posit.co>
Diff between warp versions 0.2.0 dated 2020-10-21 and 0.2.1 dated 2023-11-02
DESCRIPTION | 40 +-- LICENSE | 4 MD5 | 22 - NEWS.md | 4 README.md | 13 - build/vignette.rds |binary inst/doc/hour.R | 2 inst/doc/hour.html | 506 +++++++++++++++++++++-------------------- man/warp-package.Rd | 12 man/warp_distance.Rd | 6 tests/testthat.R | 8 tests/testthat/test-distance.R | 22 - 12 files changed, 332 insertions(+), 307 deletions(-)
Title: Messages, Warnings, Strings with Ascii Animals
Description: Allows printing of character strings as messages/warnings/etc.
with ASCII animals, including cats, cows, frogs, chickens, ghosts,
and more.
Author: Scott Chamberlain [aut, cre],
Amanda Dobbyn [aut],
Tyler Rinker [ctb],
Thomas Leeper [ctb],
Noam Ross [ctb],
Rich FitzJohn [ctb],
Carson Sievert [ctb],
Kiyoko Gotanda [ctb],
Andy Teucher [ctb],
Karl Broman [ctb],
Franz-Sebastian Krah [ctb],
Lucy D'Ag [...truncated...]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between cowsay versions 0.8.2 dated 2023-03-08 and 0.9.0 dated 2023-11-02
cowsay-0.8.2/cowsay/man/cowsay.Rd |only cowsay-0.9.0/cowsay/DESCRIPTION | 8 - cowsay-0.9.0/cowsay/MD5 | 28 +-- cowsay-0.9.0/cowsay/NEWS.md | 8 + cowsay-0.9.0/cowsay/R/cowsay-package.r | 38 ----- cowsay-0.9.0/cowsay/R/say.r | 20 -- cowsay-0.9.0/cowsay/R/utils.R | 18 ++ cowsay-0.9.0/cowsay/README.md | 64 +++++--- cowsay-0.9.0/cowsay/build/vignette.rds |binary cowsay-0.9.0/cowsay/inst/doc/cowsay.R | 46 ------ cowsay-0.9.0/cowsay/inst/doc/cowsay.Rmd | 67 --------- cowsay-0.9.0/cowsay/inst/doc/cowsay.html | 187 +------------------------- cowsay-0.9.0/cowsay/man/cowsay-package.Rd |only cowsay-0.9.0/cowsay/man/say.Rd | 15 -- cowsay-0.9.0/cowsay/tests/testthat/test-say.R | 49 +++--- cowsay-0.9.0/cowsay/vignettes/cowsay.Rmd | 67 --------- 16 files changed, 129 insertions(+), 486 deletions(-)
Title: Using CF-Compliant Calendars with Climate Projection Data
Description: Support for all calendars as specified in the Climate and Forecast
(CF) Metadata Conventions for climate and forecasting data. The CF Metadata
Conventions is widely used for distributing files with climate observations
or projections, including the Coupled Model Intercomparison Project (CMIP)
data used by climate change scientists and the Intergovernmental Panel on
Climate Change (IPCC). This package specifically allows the user to work
with any of the CF-compliant calendars (many of which are not compliant with
POSIXt). The CF time coordinate is formally defined in the CF Metadata
Conventions document available at <https://cfconventions.org/Data/cf-conventions/cf-conventions-1.10/cf-conventions.html#time-coordinate>.
Author: Patrick Van Laake [aut, cre, cph]
Maintainer: Patrick Van Laake <patrick@vanlaake.net>
Diff between CFtime versions 1.1.0 dated 2023-10-09 and 1.2.0 dated 2023-11-02
DESCRIPTION | 6 - MD5 | 57 +++++------ NAMESPACE | 2 NEWS.md | 26 +++++ R/CFformat.R | 50 ++++++--- R/CFparse.R | 7 - R/CFtime-package.R | 37 +++++++ R/CFtime.R | 181 ++++++++++++++++++++++++++++-------- R/CFutils.R | 4 R/zzz.R | 10 - README.md | 2 TODO | 5 inst/doc/CFtime.R | 7 - inst/doc/CFtime.Rmd | 13 -- inst/doc/CFtime.html | 50 ++++----- inst/doc/Processing.R | 6 - inst/doc/Processing.Rmd | 14 +- inst/doc/Processing.html | 15 +- man/CFcomplete.Rd |only man/CFmonth_days.Rd | 6 + man/CFproperties.Rd | 6 + man/CFtime-package.Rd | 42 +++++++- man/CFtimestamp.Rd | 25 +++- man/equals-CFtime-CFtime-method.Rd | 1 man/plus-CFtime-CFtime-method.Rd | 1 man/plus-CFtime-numeric-method.Rd | 1 tests/testthat/test-CFtime.R | 12 ++ tests/testthat/test-parse_deparse.R | 15 ++ vignettes/CFtime.Rmd | 13 -- vignettes/Processing.Rmd | 14 +- 30 files changed, 447 insertions(+), 181 deletions(-)
Title: D-Vine Quantile Regression
Description: Implements D-vine quantile regression models with
parametric or nonparametric pair-copulas. See
Kraus and Czado (2017) <doi:10.1016/j.csda.2016.12.009> and
Schallhorn et al. (2017) <arXiv:1705.08310>.
Author: Thomas Nagler [aut, cre],
Dani Kraus [ctb]
Maintainer: Thomas Nagler <mail@tnagler.com>
Diff between vinereg versions 0.9.1 dated 2023-10-23 and 0.9.2 dated 2023-11-02
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NEWS.md | 7 +++++++ R/tools.R | 1 + inst/doc/abalone-example.html | 8 ++++---- inst/doc/bike-rental.html | 38 +++++++++++++++++++------------------- src/Makevars | 2 +- src/Makevars.win | 3 ++- tests/testthat/test-test-cpit.R | 12 ++++++------ 9 files changed, 51 insertions(+), 42 deletions(-)
Title: Satellite Image Time Series Analysis for Earth Observation Data
Cubes
Description: An end-to-end toolkit for land use and land cover classification
using big Earth observation data, based on machine learning methods
applied to satellite image data cubes, as described in Simoes et al (2021) <doi:10.3390/rs13132428>.
Builds regular data cubes from collections in AWS, Microsoft Planetary Computer,
Brazil Data Cube, and Digital Earth Africa using the Spatio-temporal Asset Catalog (STAC)
protocol (<https://stacspec.org/> and the 'gdalcubes' R package
developed by Appel and Pebesma (2019) <doi:10.3390/data4030092>.
Supports visualization methods for images and time series and
smoothing filters for dealing with noisy time series.
Includes functions for quality assessment of training samples using self-organized maps
as presented by Santos et al (2021) <doi:10.1016/j.isprsjprs.2021.04.014>.
Provides machine learning methods including support vector machines,
random forests, extreme gradient boosting, multi-layer perceptrons,
temporal convolutional neu [...truncated...]
Author: Rolf Simoes [aut],
Gilberto Camara [aut, cre],
Felipe Souza [aut],
Lorena Santos [aut],
Pedro Andrade [aut],
Karine Ferreira [aut],
Alber Sanchez [aut],
Gilberto Queiroz [aut]
Maintainer: Gilberto Camara <gilberto.camara.inpe@gmail.com>
Diff between sits versions 1.4.2 dated 2023-10-28 and 1.4.2-1 dated 2023-11-02
DESCRIPTION | 8 ++++---- MD5 | 32 ++++++++++++++++---------------- R/api_clean.R | 22 ++++------------------ R/api_file.R | 16 ---------------- R/api_file_info.R | 5 ++++- R/api_label_class.R | 13 ------------- R/api_segments.R | 19 +++++++++++++------ R/api_tile.R | 2 +- R/sits_apply.R | 8 ++++++++ R/sits_classify.R | 6 ++++-- R/sits_label_classification.R | 21 ++++++++++++++++++--- R/sits_plot.R | 2 -- R/sits_sample_functions.R | 4 +++- R/sits_segmentation.R | 9 ++++++--- man/plot.xgb_model.Rd | 2 -- man/sits_classify.Rd | 6 ++++-- man/sits_slic.Rd | 9 ++++++--- 17 files changed, 91 insertions(+), 93 deletions(-)
Title: Various Plotting Functions
Description: Lots of plots, various labeling, axis and color scaling functions. The author/maintainer died in September 2023.
Author: Jim Lemon, Ben Bolker, Sander Oom,
Eduardo Klein, Barry Rowlingson,
Hadley Wickham, Anupam Tyagi,
Olivier Eterradossi, Gabor Grothendieck,
Michael Toews, John Kane, Rolf Turner,
Carl Witthoft, Julian Stander, Thomas Petzoldt,
Remko Duursma, Elisa Bia [...truncated...]
Maintainer: ORPHANED
Diff between plotrix versions 3.8-2 dated 2021-09-08 and 3.8-3 dated 2023-11-02
DESCRIPTION | 18 ++-- MD5 | 22 ++-- NEWS | 204 +++++++++++++++++++++++++--------------------- inst/CITATION | 4 man/barlabels.Rd | 2 man/draw.radial.line.Rd | 5 - man/find_max_cell.Rd | 2 man/panes.Rd | 6 + man/plotrix-package.Rd | 16 +-- man/soil.texture.Rd | 6 - man/textbox.Rd | 2 man/thigmophobe.labels.Rd | 2 12 files changed, 162 insertions(+), 127 deletions(-)
Title: Validation of Estimates of Treatment Effects in Observational
Data
Description: Validates estimates of (conditional) average treatment effects obtained using observational data by a) making it easy to obtain and visualize estimates derived using a large variety of methods (G-computation, inverse propensity score weighting, etc.), and b) ensuring that estimates are easily compared to a gold standard (i.e., estimates derived from randomized controlled trials). 'RCTrep' offers a generic protocol for treatment effect validation based on four simple steps, namely, set-selection, estimation, diagnosis, and validation. 'RCTrep' provides a simple dashboard to review the obtained results. The validation approach is introduced by Shen, L., Geleijnse, G. and Kaptein, M. (2023) <doi:10.21203/rs.3.rs-2559287/v2>.
Author: Lingjie Shen [aut, cre, cph],
Gijs Geleijnse [aut],
Maurits Kaptein [aut]
Maintainer: Lingjie Shen <lingjieshen66@gmail.com>
Diff between RCTrep versions 1.1.0 dated 2023-08-09 and 1.2.0 dated 2023-11-02
DESCRIPTION | 8 MD5 | 20 R/Fusion.R | 486 ++++++------- R/data.R | 180 ++--- build/vignette.rds |binary inst/CITATION | 24 inst/doc/vignette.R | 716 ++++++++++---------- inst/doc/vignette.html | 1630 +++++++++++++++++++++------------------------- man/source.binary.data.Rd | 4 man/source.data.Rd | 2 man/target.binary.data.Rd | 4 11 files changed, 1485 insertions(+), 1589 deletions(-)
Title: Manipulate Time Series of Palaeoclimate Reconstructions
Description: Methods to easily extract and manipulate palaeoclimate
reconstructions for ecological and anthropological analyses, as described
in Leonardi et al. (2023) <doi:10.1111/ecog.06481>.
Author: Michela Leonardi [aut],
Emily Y. Hallet [ctb],
Robert Beyer [ctb],
Mario Krapp [ctb],
Andrea Manica [aut, cre]
Maintainer: Andrea Manica <am315@cam.ac.uk>
Diff between pastclim versions 1.2.4 dated 2023-04-25 and 2.0.0 dated 2023-11-02
pastclim-1.2.4/pastclim/inst/extdata/dataset_list_included.csv |only pastclim-1.2.4/pastclim/man/get_time_steps.Rd |only pastclim-1.2.4/pastclim/man/set_data_path_for_CRAN.Rd |only pastclim-2.0.0/pastclim/DESCRIPTION | 12 pastclim-2.0.0/pastclim/MD5 | 269 +- pastclim-2.0.0/pastclim/NAMESPACE | 10 pastclim-2.0.0/pastclim/NEWS.md | 35 pastclim-2.0.0/pastclim/R/bioclim_vars.R |only pastclim-2.0.0/pastclim/R/check_available_datasets.R | 2 pastclim-2.0.0/pastclim/R/check_coords_names.R |only pastclim-2.0.0/pastclim/R/check_times.R |only pastclim-2.0.0/pastclim/R/clean_data_path.R | 36 pastclim-2.0.0/pastclim/R/datasets_docs.R | 169 + pastclim-2.0.0/pastclim/R/df_from_region_series.R | 18 pastclim-2.0.0/pastclim/R/df_from_region_slice.R | 12 pastclim-2.0.0/pastclim/R/distance_from_sea.R | 62 pastclim-2.0.0/pastclim/R/download_chelsa.R |only pastclim-2.0.0/pastclim/R/download_dataset.R | 48 pastclim-2.0.0/pastclim/R/download_etopo.R |only pastclim-2.0.0/pastclim/R/download_worldclim_future.R |only pastclim-2.0.0/pastclim/R/download_worldclim_present.R |only pastclim-2.0.0/pastclim/R/get_available_datasets.R | 14 pastclim-2.0.0/pastclim/R/get_biome_classes.R | 2 pastclim-2.0.0/pastclim/R/get_data_path.R | 24 pastclim-2.0.0/pastclim/R/get_dataset_info.R | 40 pastclim-2.0.0/pastclim/R/get_file_for_dataset.R | 2 pastclim-2.0.0/pastclim/R/get_ice_mask.R | 44 pastclim-2.0.0/pastclim/R/get_land_mask.R | 63 pastclim-2.0.0/pastclim/R/get_mis_time_steps.R | 4 pastclim-2.0.0/pastclim/R/get_sea_level.R |only pastclim-2.0.0/pastclim/R/get_time_steps.R | 32 pastclim-2.0.0/pastclim/R/get_vars_for_dataset.R | 60 pastclim-2.0.0/pastclim/R/is_region_series.R | 28 pastclim-2.0.0/pastclim/R/list_available_datasets.R |only pastclim-2.0.0/pastclim/R/load_dataset_list.R | 14 pastclim-2.0.0/pastclim/R/load_etopo.R |only pastclim-2.0.0/pastclim/R/location_series.R | 77 pastclim-2.0.0/pastclim/R/location_slice.R | 154 - pastclim-2.0.0/pastclim/R/location_slice_from_region_series.R |only pastclim-2.0.0/pastclim/R/make_binary_mask.R |only pastclim-2.0.0/pastclim/R/make_ice_mask.R |only pastclim-2.0.0/pastclim/R/make_land_mask.R |only pastclim-2.0.0/pastclim/R/pastclim.R | 13 pastclim-2.0.0/pastclim/R/region_series.R | 70 pastclim-2.0.0/pastclim/R/region_slice.R | 18 pastclim-2.0.0/pastclim/R/sample_region_series.R | 102 - pastclim-2.0.0/pastclim/R/sample_region_slice.R | 22 pastclim-2.0.0/pastclim/R/set_data_path.R | 110 - pastclim-2.0.0/pastclim/R/slice_region_series.R | 14 pastclim-2.0.0/pastclim/R/sysdata.rda |binary pastclim-2.0.0/pastclim/R/time_bp.R | 90 pastclim-2.0.0/pastclim/R/time_bp_to_i_series.R | 20 pastclim-2.0.0/pastclim/R/update_dataset_list.R | 25 pastclim-2.0.0/pastclim/R/validate_nc.R | 50 pastclim-2.0.0/pastclim/R/var_labels.R | 66 pastclim-2.0.0/pastclim/R/ybp2date.R |only pastclim-2.0.0/pastclim/R/zzz.R | 16 pastclim-2.0.0/pastclim/README.md | 179 - pastclim-2.0.0/pastclim/build/partial.rdb |binary pastclim-2.0.0/pastclim/build/vignette.rds |binary pastclim-2.0.0/pastclim/inst/WORDLIST | 69 pastclim-2.0.0/pastclim/inst/doc/a0_pastclim_overview.R | 193 +- pastclim-2.0.0/pastclim/inst/doc/a0_pastclim_overview.Rmd | 276 +-- pastclim-2.0.0/pastclim/inst/doc/a0_pastclim_overview.html | 901 +++++----- pastclim-2.0.0/pastclim/inst/doc/a1_available_datasets.R | 25 pastclim-2.0.0/pastclim/inst/doc/a1_available_datasets.Rmd | 26 pastclim-2.0.0/pastclim/inst/doc/a1_available_datasets.html | 300 +++ pastclim-2.0.0/pastclim/inst/doc/a2_custom_datasets.R | 47 pastclim-2.0.0/pastclim/inst/doc/a2_custom_datasets.Rmd | 54 pastclim-2.0.0/pastclim/inst/doc/a2_custom_datasets.html | 112 - pastclim-2.0.0/pastclim/inst/doc/a3_pastclim_present_and_future.R |only pastclim-2.0.0/pastclim/inst/doc/a3_pastclim_present_and_future.Rmd |only pastclim-2.0.0/pastclim/inst/doc/a3_pastclim_present_and_future.html |only pastclim-2.0.0/pastclim/inst/extdata/delta |only pastclim-2.0.0/pastclim/inst/extdata/internal_seas.RDS |only pastclim-2.0.0/pastclim/man/Barreto2023.Rd |only pastclim-2.0.0/pastclim/man/Beyer2020.Rd | 4 pastclim-2.0.0/pastclim/man/HYDE_3.3_baseline.Rd |only pastclim-2.0.0/pastclim/man/Krapp2021.Rd | 10 pastclim-2.0.0/pastclim/man/WorldClim_2.1.Rd |only pastclim-2.0.0/pastclim/man/bioclim_vars-methods.Rd |only pastclim-2.0.0/pastclim/man/check_coords_names.Rd |only pastclim-2.0.0/pastclim/man/check_time_vars.Rd |only pastclim-2.0.0/pastclim/man/climate_for_locations.Rd | 9 pastclim-2.0.0/pastclim/man/distance_from_sea.Rd | 9 pastclim-2.0.0/pastclim/man/dot-cv.Rd |only pastclim-2.0.0/pastclim/man/download_chelsa.Rd |only pastclim-2.0.0/pastclim/man/download_dataset.Rd | 11 pastclim-2.0.0/pastclim/man/download_etopo.Rd |only pastclim-2.0.0/pastclim/man/download_worldclim_future.Rd |only pastclim-2.0.0/pastclim/man/download_worldclim_present.Rd |only pastclim-2.0.0/pastclim/man/get_available_datasets.Rd | 8 pastclim-2.0.0/pastclim/man/get_biome_classes.Rd | 2 pastclim-2.0.0/pastclim/man/get_dataset_info.Rd | 2 pastclim-2.0.0/pastclim/man/get_file_for_dataset.Rd | 2 pastclim-2.0.0/pastclim/man/get_ice_mask.Rd | 15 pastclim-2.0.0/pastclim/man/get_land_mask.Rd | 19 pastclim-2.0.0/pastclim/man/get_mis_time_steps.Rd | 2 pastclim-2.0.0/pastclim/man/get_sea_level.Rd |only pastclim-2.0.0/pastclim/man/get_time_bp_steps.Rd |only pastclim-2.0.0/pastclim/man/get_vars_for_dataset.Rd | 19 pastclim-2.0.0/pastclim/man/help_console.Rd | 4 pastclim-2.0.0/pastclim/man/is_region_series.Rd | 9 pastclim-2.0.0/pastclim/man/list_available_datasets.Rd |only pastclim-2.0.0/pastclim/man/load_dataset_list.Rd | 2 pastclim-2.0.0/pastclim/man/load_etopo.Rd |only pastclim-2.0.0/pastclim/man/location_series.Rd | 19 pastclim-2.0.0/pastclim/man/location_slice.Rd | 18 pastclim-2.0.0/pastclim/man/location_slice_from_region_series.Rd |only pastclim-2.0.0/pastclim/man/make_binary_mask.Rd |only pastclim-2.0.0/pastclim/man/make_ice_mask.Rd |only pastclim-2.0.0/pastclim/man/make_land_mask.Rd |only pastclim-2.0.0/pastclim/man/mode.Rd |only pastclim-2.0.0/pastclim/man/pastclim.Rd | 1 pastclim-2.0.0/pastclim/man/region_series.Rd | 7 pastclim-2.0.0/pastclim/man/region_slice.Rd | 9 pastclim-2.0.0/pastclim/man/set_data_path.Rd | 7 pastclim-2.0.0/pastclim/man/slice_region_series.Rd | 12 pastclim-2.0.0/pastclim/man/time_bp.Rd | 10 pastclim-2.0.0/pastclim/man/validate_nc.Rd | 2 pastclim-2.0.0/pastclim/man/var_labels.Rd | 16 pastclim-2.0.0/pastclim/man/ybp2date.Rd |only pastclim-2.0.0/pastclim/tests/testthat/test_check_dataset_path.R | 15 pastclim-2.0.0/pastclim/tests/testthat/test_check_time_vars.R |only pastclim-2.0.0/pastclim/tests/testthat/test_clean_data_path.R | 24 pastclim-2.0.0/pastclim/tests/testthat/test_df_from_region_series.R | 20 pastclim-2.0.0/pastclim/tests/testthat/test_df_from_region_slice.R | 29 pastclim-2.0.0/pastclim/tests/testthat/test_distance_from_sea.R | 35 pastclim-2.0.0/pastclim/tests/testthat/test_download_dataset.R | 17 pastclim-2.0.0/pastclim/tests/testthat/test_get_available_dataset.R | 20 pastclim-2.0.0/pastclim/tests/testthat/test_get_biome_classes.R | 12 pastclim-2.0.0/pastclim/tests/testthat/test_get_downloaded_datasets.R | 12 pastclim-2.0.0/pastclim/tests/testthat/test_get_file_for_dataset.R | 12 pastclim-2.0.0/pastclim/tests/testthat/test_get_ice_mask.R |only pastclim-2.0.0/pastclim/tests/testthat/test_get_land_mask.R |only pastclim-2.0.0/pastclim/tests/testthat/test_get_mis_time_steps.R | 27 pastclim-2.0.0/pastclim/tests/testthat/test_get_set_data_path.R | 46 pastclim-2.0.0/pastclim/tests/testthat/test_get_time_steps.R | 56 pastclim-2.0.0/pastclim/tests/testthat/test_get_vars_for_dataset.R | 36 pastclim-2.0.0/pastclim/tests/testthat/test_is_region_series.R | 35 pastclim-2.0.0/pastclim/tests/testthat/test_load_dataset_list.R | 32 pastclim-2.0.0/pastclim/tests/testthat/test_location_series.R | 59 pastclim-2.0.0/pastclim/tests/testthat/test_location_slice.R | 111 - pastclim-2.0.0/pastclim/tests/testthat/test_location_slice_from_region_series.R |only pastclim-2.0.0/pastclim/tests/testthat/test_region_series.R | 141 - pastclim-2.0.0/pastclim/tests/testthat/test_region_slice.R | 36 pastclim-2.0.0/pastclim/tests/testthat/test_remote_files.R |only pastclim-2.0.0/pastclim/tests/testthat/test_sample_region_series.R | 32 pastclim-2.0.0/pastclim/tests/testthat/test_sample_region_slice.R | 30 pastclim-2.0.0/pastclim/tests/testthat/test_slice_region_series.R | 29 pastclim-2.0.0/pastclim/tests/testthat/test_time_bp.R | 49 pastclim-2.0.0/pastclim/tests/testthat/test_time_bp_series.R | 51 pastclim-2.0.0/pastclim/tests/testthat/test_validate_nc.R | 108 - pastclim-2.0.0/pastclim/tests/testthat/test_var_labels.R | 67 pastclim-2.0.0/pastclim/tests/testthat/test_ybp2date.R |only pastclim-2.0.0/pastclim/vignettes/a0_pastclim_overview.Rmd | 276 +-- pastclim-2.0.0/pastclim/vignettes/a1_available_datasets.Rmd | 26 pastclim-2.0.0/pastclim/vignettes/a2_custom_datasets.Rmd | 54 pastclim-2.0.0/pastclim/vignettes/a3_pastclim_present_and_future.Rmd |only 159 files changed, 3514 insertions(+), 2240 deletions(-)
Title: Processing of Model Parameters
Description: Utilities for processing the parameters of various
statistical models. Beyond computing p values, CIs, and other indices
for a wide variety of models (see list of supported models using the
function 'insight::supported_models()'), this package implements
features like bootstrapping or simulating of parameters and models,
feature reduction (feature extraction and variable selection) as well
as functions to describe data and variable characteristics (e.g.
skewness, kurtosis, smoothness or distribution).
Author: Daniel Luedecke [aut, cre] ,
Dominique Makowski [aut] ,
Mattan S. Ben-Shachar [aut] ,
Indrajeet Patil [aut] ,
Soeren Hoejsgaard [aut],
Brenton M. Wiernik [aut] ,
Zen J. Lau [ctb],
Vincent Arel-Bundock [ctb] ,
Jeffrey Girard [ctb] ,
Christina Maimone [re [...truncated...]
Maintainer: Daniel Luedecke <d.luedecke@uke.de>
Diff between parameters versions 0.21.2 dated 2023-09-16 and 0.21.3 dated 2023-11-02
DESCRIPTION | 24 MD5 | 312 +++---- NAMESPACE | 3 NEWS.md | 28 R/1_model_parameters.R | 4 R/bootstrap_model.R | 2 R/bootstrap_parameters.R | 46 - R/ci_generic.R | 2 R/ci_profile_boot.R | 11 R/cluster_analysis.R | 4 R/cluster_meta.R | 4 R/compare_parameters.R | 6 R/display.R | 14 R/dof.R | 2 R/equivalence_test.R | 13 R/format.R | 88 +- R/format_parameters.R | 2 R/methods_BayesFactor.R | 2 R/methods_FactoMineR.R | 6 R/methods_PMCMRplus.R | 1 R/methods_aov.R | 13 R/methods_bamlss.R | 1 R/methods_bayesQR.R | 1 R/methods_bbmle.R | 1 R/methods_betareg.R | 8 R/methods_bfsl.R | 1 R/methods_brglm2.R | 63 + R/methods_car.R | 1 R/methods_cgam.R | 2 R/methods_coda.R | 1 R/methods_cplm.R | 1 R/methods_emmeans.R | 1 R/methods_epi2x2.R | 1 R/methods_fitdistr.R | 1 R/methods_gam.R | 1 R/methods_gamlss.R | 10 R/methods_ggeffects.R | 4 R/methods_gjrm.R | 1 R/methods_glmm.R | 1 R/methods_glmmTMB.R | 4 R/methods_hglm.R | 2 R/methods_htest.R | 1 R/methods_ivfixed.R | 1 R/methods_ivprobit.R | 1 R/methods_kmeans.R | 4 R/methods_lmodel2.R | 1 R/methods_logistf.R | 1 R/methods_lqmm.R | 1 R/methods_lrm.R | 1 R/methods_marginaleffects.R | 5 R/methods_margins.R | 8 R/methods_mass.R | 4 R/methods_maxLik.R | 2 R/methods_mediate.R | 3 R/methods_merTools.R | 1 R/methods_metafor.R | 2 R/methods_metaplus.R | 1 R/methods_mfx.R | 7 R/methods_mice.R | 4 R/methods_mixor.R | 1 R/methods_model_fit.R | 1 R/methods_multcomp.R | 1 R/methods_pam.R | 2 R/methods_plm.R | 44 - R/methods_pscl.R | 12 R/methods_psych.R | 3 R/methods_quantreg.R | 2 R/methods_robustlmm.R | 1 R/methods_rstan.R | 1 R/methods_rstanarm.R | 2 R/methods_sem.R | 1 R/methods_spaMM.R | 5 R/methods_stats4.R | 1 R/methods_systemfit.R | 1 R/methods_varest.R | 1 R/methods_vgam.R | 1 R/methods_wrs2.R | 137 +-- R/n_clusters.R | 2 R/n_factors.R | 51 - R/pool_parameters.R | 2 R/principal_components.R | 27 R/print.parameters_model.R | 28 R/print_html.R | 8 R/print_md.R | 19 R/random_parameters.R | 2 R/reexports.R | 8 R/simulate_parameters.R | 2 R/standardize_info.R | 4 R/standardize_parameters.R | 2 R/standardize_posteriors.R | 2 R/utils.R | 21 R/utils_format.R | 8 R/utils_model_parameters.R | 21 build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 1 man/bootstrap_model.Rd | 2 man/bootstrap_parameters.Rd | 11 man/cluster_meta.Rd | 2 man/compare_parameters.Rd | 6 man/degrees_of_freedom.Rd | 2 man/display.parameters_model.Rd | 4 man/equivalence_test.lm.Rd | 11 man/model_parameters.BFBayesFactor.Rd | 2 man/model_parameters.aov.Rd | 108 -- man/model_parameters.averaging.Rd | 584 ------------- man/model_parameters.cgam.Rd | 53 - man/model_parameters.default.Rd | 38 man/model_parameters.glht.Rd |only man/model_parameters.htest.Rd | 3 man/model_parameters.kmeans.Rd | 6 man/model_parameters.merMod.Rd | 73 - man/model_parameters.mira.Rd | 2 man/model_parameters.principal.Rd | 98 -- man/model_parameters.rma.Rd | 2 man/model_parameters.stanreg.Rd | 124 -- man/model_parameters.t1way.Rd |only man/model_parameters.zcpglm.Rd | 54 - man/n_clusters.Rd | 2 man/n_factors.Rd | 45 - man/principal_components.Rd | 15 man/print.parameters_model.Rd | 28 man/reduce_parameters.Rd | 15 man/reexports.Rd | 8 man/simulate_parameters.Rd | 2 tests/testthat/_snaps/bootstrap_parameters.md |only tests/testthat/_snaps/compare_parameters.md | 92 +- tests/testthat/_snaps/complete_separation.md |only tests/testthat/_snaps/emmGrid-df_colname.md | 44 - tests/testthat/_snaps/equivalence_test.md | 34 tests/testthat/_snaps/gam.md | 40 tests/testthat/_snaps/glmer.md | 6 tests/testthat/_snaps/glmmTMB-profile_CI.md | 4 tests/testthat/_snaps/glmmTMB.md | 676 ++++++++-------- tests/testthat/_snaps/ivreg.md | 2 tests/testthat/_snaps/mipo.md | 4 tests/testthat/_snaps/model_parameters.anova.md | 56 - tests/testthat/_snaps/model_parameters.fixest.md |only tests/testthat/_snaps/model_parameters.fixest_multi.md | 6 tests/testthat/_snaps/model_parameters.ggeffects.md |only tests/testthat/_snaps/model_parameters.glm.md | 2 tests/testthat/_snaps/model_parameters.mclogit.md | 4 tests/testthat/_snaps/model_parameters.mixed.md | 6 tests/testthat/_snaps/model_parameters_ordinal.md | 4 tests/testthat/_snaps/plm.md |only tests/testthat/_snaps/pool_parameters.md | 2 tests/testthat/_snaps/printing-stan.md | 14 tests/testthat/_snaps/printing.md | 716 ++++++++--------- tests/testthat/_snaps/printing2.md | 354 ++++---- tests/testthat/test-bootstrap_parameters.R |only tests/testthat/test-complete_separation.R |only tests/testthat/test-model_parameters.bracl.R |only tests/testthat/test-model_parameters.cgam.R | 2 tests/testthat/test-model_parameters.gam.R | 6 tests/testthat/test-model_parameters.ggeffects.R |only tests/testthat/test-model_parameters.mclogit.R | 8 tests/testthat/test-model_parameters.mixed.R | 54 - tests/testthat/test-model_parameters.nnet.R |only tests/testthat/test-model_parameters_df.R | 16 tests/testthat/test-n_factors.R | 70 + tests/testthat/test-pca.R | 21 tests/testthat/test-plm.R | 39 tests/testthat/test-printing.R | 15 163 files changed, 1981 insertions(+), 2782 deletions(-)
Title: Processing Hemispherical Canopy Images
Description: Import and classify canopy fish-eye images, estimate angular gap fraction and derive canopy attributes like leaf area index and openness. Additional information is provided in the study by Chianucci F., Macek M. (2023) <doi:10.1016/j.agrformet.2023.109470>.
Author: Francesco Chianucci [aut, cre]
,
Martin Macek [aut]
Maintainer: Francesco Chianucci <fchianucci@gmail.com>
Diff between hemispheR versions 1.0.0 dated 2023-10-24 and 1.0.1 dated 2023-11-02
DESCRIPTION | 6 ++-- MD5 | 14 +++++------ NEWS.md | 7 ++++- R/canopy_fisheye.R | 11 ++++---- R/gapfrac_fisheye.R | 29 +++++++++++++++++------ inst/extdata/fullframe_D90_Nikkor-10.5_beech.jpg |binary man/canopy_fisheye.Rd | 9 +++---- man/gapfrac_fisheye.Rd | 5 +-- 8 files changed, 51 insertions(+), 30 deletions(-)
Title: Relational Data Models
Description: Provides tools for working with multiple related
tables, stored as data frames or in a relational database. Multiple
tables (data and metadata) are stored in a compound object, which can
then be manipulated with a pipe-friendly syntax.
Author: Tobias Schieferdecker [aut],
Kirill Mueller [aut, cre] ,
Antoine Fabri [ctb],
Darko Bergant [aut],
Katharina Brunner [ctb],
James Wondrasek [ctb],
Indrajeet Patil [ctb] ,
Maelle Salmon [ctb] ,
energie360° AG [fnd],
cynkra GmbH [fnd, cph]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between dm versions 1.0.7 dated 2023-10-24 and 1.0.8 dated 2023-11-02
DESCRIPTION | 8 - MD5 | 88 +++++++++---------- NEWS.md | 43 ++++++++- R/build_copy_queries.R | 28 +++--- R/db-interface.R | 7 + R/dm.R | 85 ++++++++---------- R/dm_sql.R | 24 ++++- R/globals.R | 3 R/standalone-check_suggested.R | 9 + R/validate.R | 5 - inst/doc/dm.html | 4 inst/doc/howto-dm-copy.Rmd | 4 inst/doc/howto-dm-copy.html | 14 +-- inst/doc/howto-dm-db.html | 4 inst/doc/howto-dm-df.html | 4 inst/doc/howto-dm-rows.html | 4 inst/doc/howto-dm-theory.html | 4 inst/doc/tech-dm-cdm.html | 4 inst/doc/tech-dm-class.html | 4 inst/doc/tech-dm-draw.html | 4 inst/doc/tech-dm-filter.html | 4 inst/doc/tech-dm-join.html | 4 inst/doc/tech-dm-low-level.html | 4 man/materialize.Rd | 9 + tests/testthat/_snaps/df/build_copy_queries.md | 2 tests/testthat/_snaps/dm.md | 8 + tests/testthat/_snaps/dm_sql.md | 63 +++++-------- tests/testthat/_snaps/duckdb.md | 83 +++++++---------- tests/testthat/_snaps/duckdb/build_copy_queries.md | 2 tests/testthat/_snaps/maria.md | 84 +++++++----------- tests/testthat/_snaps/maria/build_copy_queries.md | 2 tests/testthat/_snaps/mssql/build_copy_queries.md | 2 tests/testthat/_snaps/mssql/json_nest.md | 4 tests/testthat/_snaps/postgres/build_copy_queries.md | 2 tests/testthat/_snaps/sqlite.md | 16 +++ tests/testthat/_snaps/sqlite/build_copy_queries.md | 2 tests/testthat/test-build_copy_queries.R | 1 tests/testthat/test-db-interface.R | 28 ++++++ tests/testthat/test-dm.R | 11 +- tests/testthat/test-duckdb.R | 19 +++- tests/testthat/test-maria.R | 19 +++- tests/testthat/test-mssql.R | 19 +++- tests/testthat/test-postgres.R | 19 +++- tests/testthat/test-sqlite.R | 19 +++- vignettes/howto-dm-copy.Rmd | 4 45 files changed, 478 insertions(+), 302 deletions(-)
Title: Find Differences Between R Objects
Description: Compare complex R objects and reveal the key differences.
Designed particularly for use in testing packages where being able to
quickly isolate key differences makes understanding test failures much
easier.
Author: Hadley Wickham [aut, cre],
Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between waldo versions 0.5.1 dated 2023-05-08 and 0.5.2 dated 2023-11-02
DESCRIPTION | 17 +++++++++-------- LICENSE | 4 ++-- MD5 | 12 ++++++------ NEWS.md | 4 ++++ R/compare.R | 4 ++-- README.md | 3 +-- man/waldo-package.Rd | 4 ++-- 7 files changed, 26 insertions(+), 22 deletions(-)
Title: Tools for qPCR
Description: PKG_DESC.
Author: Xiang LI [cre, aut]
Maintainer: Xiang LI <lixiang117423@gmail.com>
Diff between qPCRtools versions 0.2.1 dated 2022-08-15 and 1.0.1 dated 2023-11-02
qPCRtools-0.2.1/qPCRtools/build |only qPCRtools-0.2.1/qPCRtools/inst/doc |only qPCRtools-0.2.1/qPCRtools/vignettes |only qPCRtools-1.0.1/qPCRtools/DESCRIPTION | 22 - qPCRtools-1.0.1/qPCRtools/LICENSE | 4 qPCRtools-1.0.1/qPCRtools/MD5 | 44 +- qPCRtools-1.0.1/qPCRtools/NAMESPACE | 1 qPCRtools-1.0.1/qPCRtools/R/CalCurve.R | 10 qPCRtools-1.0.1/qPCRtools/R/CalExp2dCt.R |only qPCRtools-1.0.1/qPCRtools/R/CalExp2ddCt.R | 38 + qPCRtools-1.0.1/qPCRtools/R/CalExpCurve.R | 6 qPCRtools-1.0.1/qPCRtools/R/CalExpRqPCR.R | 4 qPCRtools-1.0.1/qPCRtools/R/CalRTable.R | 4 qPCRtools-1.0.1/qPCRtools/inst/calsc.info.txt |only qPCRtools-1.0.1/qPCRtools/inst/examples/cal.exp.curve.cq.csv | 194 +++++----- qPCRtools-1.0.1/qPCRtools/inst/examples/cal.expre.curve.sdc.csv | 3 qPCRtools-1.0.1/qPCRtools/inst/examples/cat.expre.curve.sdc.csv |only qPCRtools-1.0.1/qPCRtools/inst/examples/dct.cq.txt |only qPCRtools-1.0.1/qPCRtools/inst/examples/dct.design.txt |only qPCRtools-1.0.1/qPCRtools/inst/golem-config.yml |only qPCRtools-1.0.1/qPCRtools/man/CalCurve.Rd | 94 ++-- qPCRtools-1.0.1/qPCRtools/man/CalExp2dCt.Rd |only qPCRtools-1.0.1/qPCRtools/man/CalExp2ddCt.Rd | 103 ++--- qPCRtools-1.0.1/qPCRtools/man/CalExpCurve.Rd | 110 ++--- qPCRtools-1.0.1/qPCRtools/man/CalExpRqPCR.Rd | 102 ++--- qPCRtools-1.0.1/qPCRtools/man/CalRTable.Rd | 62 +-- 26 files changed, 417 insertions(+), 384 deletions(-)
Title: Gliding Box Lacunarity and Other Metrics for 2D Random Closed
Sets
Description: Functions for estimating the gliding box lacunarity (GBL),
covariance, and pair-correlation of a random closed set (RACS) in 2D
from a binary coverage map (e.g. presence-absence land cover maps).
Contains a number of newly-developed covariance-based estimators of
GBL (Hingee et al., 2019) <doi:10.1007/s13253-019-00351-9> and
balanced estimators, proposed by Picka (2000)
<http://www.jstor.org/stable/1428408>, for covariance, centred
covariance, and pair-correlation. Also contains methods for
estimating contagion-like properties of RACS and simulating 2D Boolean
models. Binary coverage maps are usually represented as raster images
with pixel values of TRUE, FALSE or NA, with NA representing
unobserved pixels. A demo for extracting such a binary map from a
geospatial data format is provided. Binary maps may also be
represented using polygonal sets as the foreground, however for most
computations such maps are converted into raster images. The package
is based on research [...truncated...]
Author: Kassel Liam Hingee
Maintainer: Kassel Liam Hingee <kassel.hingee@gmail.com>
Diff between lacunaritycovariance versions 1.1-6 dated 2023-11-01 and 1.1-7 dated 2023-11-02
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS | 3 +++ inst/doc/estimate_RACS_properties.pdf |binary tests/testthat/test-rbpto.R | 1 + 5 files changed, 12 insertions(+), 8 deletions(-)
More information about lacunaritycovariance at CRAN
Permanent link
Title: Shiny Application for 'FossilSim'
Description: A shiny application based on 'FossilSim'. Used for simulating
tree, taxonomic and fossil data under mechanistic models of speciation,
preservation and sampling.
Author: Titouan Chambe [aut],
Joelle Barido-Sottani [aut, cre, cph],
Rachel Warnock [aut, cph]
Maintainer: Joelle Barido-Sottani <joelle.barido-sottani@m4x.org>
Diff between FossilSimShiny versions 1.0.0 dated 2022-05-31 and 1.1.0 dated 2023-11-02
FossilSimShiny-1.0.0/FossilSimShiny/inst/shinyApp/www/saveas.js |only FossilSimShiny-1.1.0/FossilSimShiny/DESCRIPTION | 6 FossilSimShiny-1.1.0/FossilSimShiny/MD5 | 36 FossilSimShiny-1.1.0/FossilSimShiny/NEWS.md | 26 FossilSimShiny-1.1.0/FossilSimShiny/TODO |only FossilSimShiny-1.1.0/FossilSimShiny/build/vignette.rds |binary FossilSimShiny-1.1.0/FossilSimShiny/inst/doc/fossilSimShiny.R | 110 FossilSimShiny-1.1.0/FossilSimShiny/inst/doc/fossilSimShiny.Rmd | 8 FossilSimShiny-1.1.0/FossilSimShiny/inst/doc/fossilSimShiny.html | 1165 +++++---- FossilSimShiny-1.1.0/FossilSimShiny/inst/doc/hosting.R | 14 FossilSimShiny-1.1.0/FossilSimShiny/inst/doc/hosting.Rmd | 476 ++-- FossilSimShiny-1.1.0/FossilSimShiny/inst/doc/hosting.html | 1179 +++++----- FossilSimShiny-1.1.0/FossilSimShiny/inst/shinyApp/R/inputSidebar.R | 739 +++--- FossilSimShiny-1.1.0/FossilSimShiny/inst/shinyApp/R/outputSidebar.R | 494 ++-- FossilSimShiny-1.1.0/FossilSimShiny/inst/shinyApp/R/tooltip.R | 31 FossilSimShiny-1.1.0/FossilSimShiny/inst/shinyApp/app.R | 166 - FossilSimShiny-1.1.0/FossilSimShiny/inst/shinyApp/www/loading.js | 2 FossilSimShiny-1.1.0/FossilSimShiny/inst/shinyApp/www/tooltip.js | 67 FossilSimShiny-1.1.0/FossilSimShiny/vignettes/fossilSimShiny.Rmd | 8 FossilSimShiny-1.1.0/FossilSimShiny/vignettes/hosting.Rmd | 476 ++-- 20 files changed, 2538 insertions(+), 2465 deletions(-)
More information about FossilSimShiny at CRAN
Permanent link
Title: Planning and Analyzing Dose Finding Experiments
Description: The DoseFinding package provides functions for the design and analysis
of dose-finding experiments (with focus on pharmaceutical Phase
II clinical trials). It provides functions for: multiple contrast
tests, fitting non-linear dose-response models (using Bayesian and
non-Bayesian estimation), calculating optimal designs and an
implementation of the MCPMod methodology (Pinheiro et al. (2014)
<doi:10.1002/sim.6052>).
Author: Bjoern Bornkamp [aut, cre] ,
Jose Pinheiro [aut],
Frank Bretz [aut],
Ludger Sandig [aut],
Marius Thomas [aut]
Maintainer: Bjoern Bornkamp <bjoern.bornkamp@novartis.com>
Diff between DoseFinding versions 1.0-5 dated 2023-06-27 and 1.1-1 dated 2023-11-02
ChangeLog | 7 +++++++ DESCRIPTION | 20 +++++++++++--------- MD5 | 39 ++++++++++++++++++++++----------------- NAMESPACE | 5 +++-- R/bMCTtest.R |only build/vignette.rds |binary inst/doc/analysis_normal.R | 30 +++++++++++++++--------------- inst/doc/analysis_normal.html | 13 ++++++++++--- inst/doc/binary_data.R | 18 +++++++++--------- inst/doc/binary_data.html | 17 ++++++++++++++--- inst/doc/faq.R | 7 ------- inst/doc/mult_regimen.R | 16 ++++++++-------- inst/doc/mult_regimen.html | 13 ++++++++++--- inst/doc/overview.R | 8 ++++---- inst/doc/overview.html | 13 ++++++++++--- inst/doc/sample_size.R | 18 +++++++++--------- inst/doc/sample_size.html | 13 ++++++++++--- man/DoseFinding-package.Rd | 7 ------- man/bMCTtest.Rd |only man/critVal.Rd |only man/mvpostmix.Rd |only man/optContr.Rd | 12 +++++++----- tests/testthat/test-bMCTtest.R |only 23 files changed, 149 insertions(+), 107 deletions(-)
Title: Test, Document, Containerise, and Deploy R Packages
Description: Reproducibility is essential to the progress of research,
yet achieving it remains elusive even in computational fields.
Continuous Integration (CI) platforms offer a powerful way to launch automated workflows
to check and document code, but often require considerable time, effort,
and technical expertise to setup. We therefore developed the rworkflows suite
to make robust CI workflows easy and freely accessible to all R package developers.
rworkflows consists of 1) a CRAN/Bioconductor-compatible R package template,
2) an R package to quickly implement a standardised workflow, and
3) a centrally maintained GitHub Action.
Author: Brian Schilder [aut, cre] ,
Alan Murphy [aut, ctb] ,
Nathan Skene [aut]
Maintainer: Brian Schilder <brian_schilder@alumni.brown.edu>
Diff between rworkflows versions 0.99.13 dated 2023-09-14 and 1.0.0 dated 2023-11-02
rworkflows-0.99.13/rworkflows/inst/rworkflows_0.99.13.pdf |only rworkflows-1.0.0/rworkflows/DESCRIPTION | 13 rworkflows-1.0.0/rworkflows/MD5 | 149 ++--- rworkflows-1.0.0/rworkflows/NAMESPACE | 4 rworkflows-1.0.0/rworkflows/NEWS.md | 92 +++ rworkflows-1.0.0/rworkflows/R/bioc_r_versions.R | 8 rworkflows-1.0.0/rworkflows/R/check_cont.R | 55 - rworkflows-1.0.0/rworkflows/R/check_cont_dockerhub.R |only rworkflows-1.0.0/rworkflows/R/check_cont_general.R |only rworkflows-1.0.0/rworkflows/R/check_cont_ghcr.R |only rworkflows-1.0.0/rworkflows/R/check_registry.R |only rworkflows-1.0.0/rworkflows/R/check_tags.R |only rworkflows-1.0.0/rworkflows/R/conda_export.R |only rworkflows-1.0.0/rworkflows/R/conda_installed.R |only rworkflows-1.0.0/rworkflows/R/conda_path.R |only rworkflows-1.0.0/rworkflows/R/condaenv_exists.R |only rworkflows-1.0.0/rworkflows/R/construct_conda_yml.R |only rworkflows-1.0.0/rworkflows/R/construct_cont.R | 26 rworkflows-1.0.0/rworkflows/R/construct_runners.R | 50 + rworkflows-1.0.0/rworkflows/R/construct_runners_check_args.R | 4 rworkflows-1.0.0/rworkflows/R/fill_description.R | 8 rworkflows-1.0.0/rworkflows/R/fill_yaml.R | 92 ++- rworkflows-1.0.0/rworkflows/R/get_description.R | 7 rworkflows-1.0.0/rworkflows/R/get_github_url_desc.R | 42 - rworkflows-1.0.0/rworkflows/R/get_yaml.R | 6 rworkflows-1.0.0/rworkflows/R/gha_python_versions.R |only rworkflows-1.0.0/rworkflows/R/infer_deps.R | 9 rworkflows-1.0.0/rworkflows/R/infer_docker_org.R |only rworkflows-1.0.0/rworkflows/R/is_default.R |only rworkflows-1.0.0/rworkflows/R/omit_if_default.R | 6 rworkflows-1.0.0/rworkflows/R/preview_yaml.R |only rworkflows-1.0.0/rworkflows/R/return_yaml.R |only rworkflows-1.0.0/rworkflows/R/save_yaml.R | 16 rworkflows-1.0.0/rworkflows/R/use_codespace.R |only rworkflows-1.0.0/rworkflows/R/use_dockerfile.R | 6 rworkflows-1.0.0/rworkflows/R/use_vignette_docker.R | 49 + rworkflows-1.0.0/rworkflows/R/use_vignette_getstarted.R | 2 rworkflows-1.0.0/rworkflows/R/use_workflow.R | 139 +++- rworkflows-1.0.0/rworkflows/README.md | 118 ++- rworkflows-1.0.0/rworkflows/build/vignette.rds |binary rworkflows-1.0.0/rworkflows/inst/doc/bioconductor.html | 80 +- rworkflows-1.0.0/rworkflows/inst/doc/depgraph.Rmd | 9 rworkflows-1.0.0/rworkflows/inst/doc/depgraph.html | 71 +- rworkflows-1.0.0/rworkflows/inst/doc/docker.R | 17 rworkflows-1.0.0/rworkflows/inst/doc/docker.Rmd | 36 - rworkflows-1.0.0/rworkflows/inst/doc/docker.html | 110 +-- rworkflows-1.0.0/rworkflows/inst/doc/repos.html | 50 - rworkflows-1.0.0/rworkflows/inst/doc/rworkflows.R | 37 + rworkflows-1.0.0/rworkflows/inst/doc/rworkflows.Rmd | 90 ++- rworkflows-1.0.0/rworkflows/inst/doc/rworkflows.html | 296 ++++++++-- rworkflows-1.0.0/rworkflows/inst/example/rworkflows.yml | 2 rworkflows-1.0.0/rworkflows/inst/rworkflows_1.0.0.pdf |only rworkflows-1.0.0/rworkflows/inst/templates/Dockerfile | 36 - rworkflows-1.0.0/rworkflows/inst/templates/devcontainer.json |only rworkflows-1.0.0/rworkflows/inst/templates/docker.Rmd | 37 - rworkflows-1.0.0/rworkflows/inst/templates/rworkflows_template.yml | 5 rworkflows-1.0.0/rworkflows/inst/templates/rworkflows_template_static.yml | 5 rworkflows-1.0.0/rworkflows/man/bioc_r_versions.Rd | 4 rworkflows-1.0.0/rworkflows/man/check_cont.Rd | 10 rworkflows-1.0.0/rworkflows/man/check_registry.Rd |only rworkflows-1.0.0/rworkflows/man/conda_export.Rd |only rworkflows-1.0.0/rworkflows/man/construct_conda_yml.Rd |only rworkflows-1.0.0/rworkflows/man/construct_cont.Rd | 9 rworkflows-1.0.0/rworkflows/man/construct_runners.Rd | 20 rworkflows-1.0.0/rworkflows/man/fill_description.Rd | 6 rworkflows-1.0.0/rworkflows/man/get_description.Rd | 7 rworkflows-1.0.0/rworkflows/man/gha_python_versions.Rd |only rworkflows-1.0.0/rworkflows/man/infer_deps.Rd | 38 - 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rworkflows-1.0.0/rworkflows/vignettes/rworkflows.Rmd | 90 ++- 90 files changed, 1702 insertions(+), 604 deletions(-)
Title: Strength Training Manual R-Language Functions
Description: Strength training prescription using percent-based approach requires
numerous computations and assumptions. 'STMr' package allow users to estimate
individual reps-max relationships, implement various progression tables, and
create numerous set and rep schemes. The 'STMr' package is originally created as
a tool to help writing Jovanović M. (2020) Strength Training Manual
<ISBN:979-8604459898>.
Author: Mladen Jovanovic [aut, cre]
Maintainer: Mladen Jovanovic <coach.mladen.jovanovic@gmail.com>
Diff between STMr versions 0.1.5 dated 2022-09-17 and 0.1.6 dated 2023-11-02
DESCRIPTION | 12 +- LICENSE | 2 MD5 | 86 ++++++++++----------- NAMESPACE | 4 NEWS.md | 7 + R/estimate-functions.R | 121 ++++++++++++++++++++++++++---- R/estimate-mixed-functions.R | 52 ++++++++++++ R/estimate-quantile-functions.R | 50 ++++++++++++ README.md | 73 ++++++++---------- inst/CITATION | 30 +++---- man/estimate_functions.Rd | 49 +++++++++++- man/estimate_functions_mixed.Rd | 26 ++++++ man/estimate_functions_quantile.Rd | 25 ++++++ man/estimate_rolling_1RM.Rd | 3 man/figures/README-unnamed-chunk-22-1.png |binary man/figures/README-unnamed-chunk-24-1.png |binary man/figures/README-unnamed-chunk-25-1.png |binary man/figures/README-unnamed-chunk-28-1.png |binary man/figures/README-unnamed-chunk-29-1.png |binary man/figures/README-unnamed-chunk-34-1.png |binary man/figures/README-unnamed-chunk-35-1.png |binary man/figures/README-unnamed-chunk-36-1.png |binary man/figures/README-unnamed-chunk-37-1.png |binary man/figures/README-unnamed-chunk-38-1.png |binary man/figures/README-unnamed-chunk-39-1.png |binary man/figures/README-unnamed-chunk-40-1.png |binary man/figures/README-unnamed-chunk-41-1.png |binary man/figures/README-unnamed-chunk-42-1.png |binary man/figures/README-unnamed-chunk-42-2.png |binary man/figures/README-unnamed-chunk-42-3.png |binary man/figures/README-unnamed-chunk-43-1.png |binary man/figures/README-unnamed-chunk-44-1.png |binary man/figures/README-unnamed-chunk-45-1.png |binary man/figures/README-unnamed-chunk-46-1.png |binary man/figures/README-unnamed-chunk-52-1.png |binary man/figures/README-unnamed-chunk-54-1.png |binary man/figures/README-unnamed-chunk-63-1.png |binary man/figures/README-unnamed-chunk-64-1.png |binary man/figures/README-unnamed-chunk-67-1.png |binary man/figures/README-unnamed-chunk-68-1.png |binary man/figures/README-unnamed-chunk-69-1.png |binary man/figures/README-unnamed-chunk-70-1.png |binary man/figures/README-unnamed-chunk-71-1.png |binary man/figures/README-unnamed-chunk-72-1.png |binary 44 files changed, 420 insertions(+), 120 deletions(-)
Title: Siena - Simulation Investigation for Empirical Network Analysis
Description: The main purpose of this package is to perform simulation-based
estimation of stochastic actor-oriented models for longitudinal network
data collected as panel data. Dependent variables can be single or
multivariate networks, which can be directed, non-directed, or two-mode;
and associated actor variables.
There are also functions for testing parameters and checking goodness of fit.
An overview of these models is given in Snijders (2017),
<doi:10.1146/annurev-statistics-060116-054035>.
Author: Tom A.B. Snijders [cre, aut] ,
Ruth M. Ripley [aut],
Krists Boitmanis [aut, ctb],
Christian Steglich [aut, ctb] ,
Johan Koskinen [ctb] ,
Nynke M.D. Niezink [aut, ctb] ,
Viviana Amati [aut, ctb] ,
Christoph Stadtfeld [ctb] ,
James Hollway [ctb] ,
Per [...truncated...]
Maintainer: Tom A.B. Snijders <tom.snijders@nuffield.ox.ac.uk>
Diff between RSiena versions 1.3.14.4 dated 2023-07-18 and 1.4.1 dated 2023-11-02
RSiena-1.3.14.4/RSiena/inst/examples |only RSiena-1.3.14.4/RSiena/inst/scripts |only RSiena-1.3.14.4/RSiena/inst/sienascript |only RSiena-1.3.14.4/RSiena/inst/testdata |only RSiena-1.4.1/RSiena/DESCRIPTION | 53 RSiena-1.4.1/RSiena/MD5 | 571 ++++----- RSiena-1.4.1/RSiena/NEWS.md | 413 ++++++- RSiena-1.4.1/RSiena/R/RSienaRDocumentation.r | 6 RSiena-1.4.1/RSiena/R/Sienatest.r | 2 RSiena-1.4.1/RSiena/R/checkImpossibleChanges.r | 2 RSiena-1.4.1/RSiena/R/effects.r | 42 RSiena-1.4.1/RSiena/R/effectsDocumentation.r | 4 RSiena-1.4.1/RSiena/R/effectsMethods.r | 4 RSiena-1.4.1/RSiena/R/globals.r | 2 RSiena-1.4.1/RSiena/R/importanceSampling.r |only RSiena-1.4.1/RSiena/R/initializeFRAN.r | 66 - RSiena-1.4.1/RSiena/R/iwlsm.R | 4 RSiena-1.4.1/RSiena/R/maxlikec.r | 114 + RSiena-1.4.1/RSiena/R/observationErrors.r | 2 RSiena-1.4.1/RSiena/R/phase1.r | 130 +- RSiena-1.4.1/RSiena/R/phase2.r | 45 RSiena-1.4.1/RSiena/R/phase3.r | 53 RSiena-1.4.1/RSiena/R/print01Report.r | 42 RSiena-1.4.1/RSiena/R/print07Report.r | 8 RSiena-1.4.1/RSiena/R/printDataReport.r | 4 RSiena-1.4.1/RSiena/R/printInitialDescription.r | 4 RSiena-1.4.1/RSiena/R/robmon.r | 2 RSiena-1.4.1/RSiena/R/siena07.r | 16 RSiena-1.4.1/RSiena/R/siena07gui.r | 2 RSiena-1.4.1/RSiena/R/siena08.r | 49 RSiena-1.4.1/RSiena/R/sienaDataCreate.r | 50 RSiena-1.4.1/RSiena/R/sienaGOF.r | 214 ++- RSiena-1.4.1/RSiena/R/sienaModelCreate.r | 91 + RSiena-1.4.1/RSiena/R/sienaRI.r | 2 RSiena-1.4.1/RSiena/R/sienaRIDynamics.r | 2 RSiena-1.4.1/RSiena/R/sienaTimeTest.r | 49 RSiena-1.4.1/RSiena/R/sienaeffects.r | 5 RSiena-1.4.1/RSiena/R/sienaprint.r | 12 RSiena-1.4.1/RSiena/R/sienatable.r | 14 RSiena-1.4.1/RSiena/R/sienautils.r | 49 RSiena-1.4.1/RSiena/R/simstatsc.r | 2 RSiena-1.4.1/RSiena/R/zzz.R | 2 RSiena-1.4.1/RSiena/data/allEffects.R | 2 RSiena-1.4.1/RSiena/data/allEffects.csv | 54 RSiena-1.4.1/RSiena/inst/CITATION | 54 RSiena-1.4.1/RSiena/man/RSiena-package.Rd | 101 + RSiena-1.4.1/RSiena/man/Wald.Rd | 18 RSiena-1.4.1/RSiena/man/allEffects.Rd | 4 RSiena-1.4.1/RSiena/man/coCovar.Rd | 4 RSiena-1.4.1/RSiena/man/coDyadCovar.Rd | 2 RSiena-1.4.1/RSiena/man/edit.sienaEffects.Rd | 2 RSiena-1.4.1/RSiena/man/effectsDocumentation.Rd | 4 RSiena-1.4.1/RSiena/man/funnelPlot.Rd | 4 RSiena-1.4.1/RSiena/man/getEffects.Rd | 18 RSiena-1.4.1/RSiena/man/hn3401.Rd | 26 RSiena-1.4.1/RSiena/man/includeEffects.Rd | 9 RSiena-1.4.1/RSiena/man/includeGMoMStatistics.Rd | 4 RSiena-1.4.1/RSiena/man/includeInteraction.Rd | 38 RSiena-1.4.1/RSiena/man/includeTimeDummy.Rd | 6 RSiena-1.4.1/RSiena/man/iwlsm.Rd | 2 RSiena-1.4.1/RSiena/man/maxlikefn.Rd | 6 RSiena-1.4.1/RSiena/man/n3401.Rd | 26 RSiena-1.4.1/RSiena/man/plot.sienaTimeTest.Rd | 17 RSiena-1.4.1/RSiena/man/print.sienaEffects.Rd | 6 RSiena-1.4.1/RSiena/man/print.sienaMeta.Rd | 16 RSiena-1.4.1/RSiena/man/print.sienaTest.Rd | 4 RSiena-1.4.1/RSiena/man/print01Report.Rd | 2 RSiena-1.4.1/RSiena/man/s50.Rd | 18 RSiena-1.4.1/RSiena/man/s501.Rd | 17 RSiena-1.4.1/RSiena/man/s502.Rd | 17 RSiena-1.4.1/RSiena/man/s503.Rd | 17 RSiena-1.4.1/RSiena/man/s50a.Rd | 17 RSiena-1.4.1/RSiena/man/s50s.Rd | 17 RSiena-1.4.1/RSiena/man/setEffect.Rd | 13 RSiena-1.4.1/RSiena/man/siena07.Rd | 141 +- RSiena-1.4.1/RSiena/man/siena08.Rd | 10 RSiena-1.4.1/RSiena/man/sienaAlgorithmCreate.Rd | 102 + RSiena-1.4.1/RSiena/man/sienaCompositionChange.Rd | 18 RSiena-1.4.1/RSiena/man/sienaDataConstraint.Rd | 8 RSiena-1.4.1/RSiena/man/sienaDataCreate.Rd | 27 RSiena-1.4.1/RSiena/man/sienaDependent.Rd | 15 RSiena-1.4.1/RSiena/man/sienaFit.Rd | 4 RSiena-1.4.1/RSiena/man/sienaGOF-auxiliary.Rd | 73 - RSiena-1.4.1/RSiena/man/sienaGOF.Rd | 94 - RSiena-1.4.1/RSiena/man/sienaGroupCreate.Rd | 4 RSiena-1.4.1/RSiena/man/sienaNodeSet.Rd | 6 RSiena-1.4.1/RSiena/man/sienaRI.Rd | 52 RSiena-1.4.1/RSiena/man/sienaTimeTest.Rd | 33 RSiena-1.4.1/RSiena/man/simstats0c.Rd | 8 RSiena-1.4.1/RSiena/man/summary.iwlsm.Rd | 4 RSiena-1.4.1/RSiena/man/tmp3.Rd | 14 RSiena-1.4.1/RSiena/man/tmp4.Rd | 14 RSiena-1.4.1/RSiena/man/updateTheta.Rd | 10 RSiena-1.4.1/RSiena/man/varCovar.Rd | 2 RSiena-1.4.1/RSiena/man/varDyadCovar.Rd | 2 RSiena-1.4.1/RSiena/man/xtable.Rd | 2 RSiena-1.4.1/RSiena/src/Makevars.in | 2 RSiena-1.4.1/RSiena/src/data/NetworkLongitudinalData.cpp | 5 RSiena-1.4.1/RSiena/src/data/NetworkLongitudinalData.h | 200 +-- RSiena-1.4.1/RSiena/src/init.cpp | 9 RSiena-1.4.1/RSiena/src/model/EpochSimulation.cpp | 27 RSiena-1.4.1/RSiena/src/model/Model.cpp | 4 RSiena-1.4.1/RSiena/src/model/SdeSimulation.cpp | 4 RSiena-1.4.1/RSiena/src/model/SdeSimulation.h | 4 RSiena-1.4.1/RSiena/src/model/effects/AllEffects.h | 1 RSiena-1.4.1/RSiena/src/model/effects/AverageSimilarityInDist2Effect.cpp |only RSiena-1.4.1/RSiena/src/model/effects/AverageSimilarityInDist2Effect.h |only RSiena-1.4.1/RSiena/src/model/effects/DoubleMixedStarEffect.cpp |only RSiena-1.4.1/RSiena/src/model/effects/EffectFactory.cpp | 328 +++++ RSiena-1.4.1/RSiena/src/model/effects/MixedNetworkEffect.h | 2 RSiena-1.4.1/RSiena/src/model/effects/NetworkWithPrimaryEffect.h | 2 RSiena-1.4.1/RSiena/src/model/effects/PrimarySettingEffect.cpp | 5 RSiena-1.4.1/RSiena/src/model/effects/RecipdegreeActivityEffect.cpp | 22 RSiena-1.4.1/RSiena/src/model/effects/SameCovariateActivityEffect.cpp | 34 RSiena-1.4.1/RSiena/src/model/effects/SameCovariateActivityEffect.h | 17 RSiena-1.4.1/RSiena/src/model/effects/SameCovariateEffect.cpp | 38 RSiena-1.4.1/RSiena/src/model/effects/SameCovariateEffect.h | 4 RSiena-1.4.1/RSiena/src/model/effects/StarMixedStarEffect.cpp |only RSiena-1.4.1/RSiena/src/model/effects/ThresholdShapeEffect.cpp | 18 RSiena-1.4.1/RSiena/src/model/effects/generic/AbsDiffFunction.cpp | 11 RSiena-1.4.1/RSiena/src/model/effects/generic/AbsDiffFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/AlterFunction.h | 7 RSiena-1.4.1/RSiena/src/model/effects/generic/BetweennessFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/BetweennessFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/ConditionalFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/ConditionalFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/ConstantFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/ConstantFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/CovariateDegreeFunction.cpp | 4 RSiena-1.4.1/RSiena/src/model/effects/generic/CovariateDegreeFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/CovariateDistance2AlterNetworkFunction.cpp | 6 RSiena-1.4.1/RSiena/src/model/effects/generic/CovariateDistance2AlterNetworkFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/CovariateDistance2EgoAltSameNetworkFunction.cpp |only RSiena-1.4.1/RSiena/src/model/effects/generic/CovariateDistance2EgoAltSameNetworkFunction.h |only RSiena-1.4.1/RSiena/src/model/effects/generic/CovariateDistance2EgoAltSimNetworkFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/CovariateDistance2EgoAltSimNetworkFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/CovariateDistance2InAlterNetworkFunction.cpp | 33 RSiena-1.4.1/RSiena/src/model/effects/generic/CovariateDistance2InAlterNetworkFunction.h | 7 RSiena-1.4.1/RSiena/src/model/effects/generic/CovariateDistance2NetworkFunction.cpp | 60 - RSiena-1.4.1/RSiena/src/model/effects/generic/CovariateDistance2NetworkFunction.h | 6 RSiena-1.4.1/RSiena/src/model/effects/generic/CovariateDistance2SimilarityNetworkFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/CovariateDistance2SimilarityNetworkFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/CovariateMixedNetworkAlterFunction.cpp | 10 RSiena-1.4.1/RSiena/src/model/effects/generic/CovariateMixedNetworkAlterFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/CovariateNetworkAlterFunction.cpp | 10 RSiena-1.4.1/RSiena/src/model/effects/generic/CovariateNetworkAlterFunction.h | 3 RSiena-1.4.1/RSiena/src/model/effects/generic/DegreeFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/DegreeFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/DifferenceFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/DifferenceFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/DifferentCovariateInStarFunction.cpp | 10 RSiena-1.4.1/RSiena/src/model/effects/generic/DifferentCovariateInStarFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/DifferentCovariateOutStarFunction.cpp | 10 RSiena-1.4.1/RSiena/src/model/effects/generic/DifferentCovariateOutStarFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/DoubleOutActFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/DoubleOutActFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/EgoFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/EgoFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/EgoInDegreeFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/EgoInDegreeFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/EgoOutDegreeFunction.cpp | 4 RSiena-1.4.1/RSiena/src/model/effects/generic/EgoOutDegreeFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/EgoRecipDegreeFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/EgoRecipDegreeFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/EqualCovariatePredicate.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/GwespFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/GwespFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/HomCovariateMixedTwoPathFunction.cpp | 10 RSiena-1.4.1/RSiena/src/model/effects/generic/HomCovariateMixedTwoPathFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/InDegreeFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/InDegreeFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/InJaccardFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/InJaccardFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/InStarFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/InStarFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/InStarsTimesDegreesFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/InStarsTimesDegreesFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/InTieFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/InTieFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/IntAlterFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/IntSqrtFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/IntSqrtFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/MixedOnlyTwoPathFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/MixedOnlyTwoPathFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/MixedThreeCyclesFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/MixedThreeCyclesFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/MixedTwoStepFunction.cpp | 7 RSiena-1.4.1/RSiena/src/model/effects/generic/MixedTwoStepFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/NetworkAlterFunction.cpp | 4 RSiena-1.4.1/RSiena/src/model/effects/generic/NetworkAlterFunction.h | 1 RSiena-1.4.1/RSiena/src/model/effects/generic/OutActDistance2Function.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/OutActDistance2Function.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/OutDegreeFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/OutDegreeFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/OutJaccardFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/OutJaccardFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/OutStarFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/OutStarFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/OutTieFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/OutTieFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/ProductFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/ProductFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/ReciprocalFunction.cpp |only RSiena-1.4.1/RSiena/src/model/effects/generic/ReciprocalFunction.h |only RSiena-1.4.1/RSiena/src/model/effects/generic/ReciprocatedTwoPathFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/ReciprocatedTwoPathFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/ReverseTwoPathFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/ReverseTwoPathFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/SameCovariateInStarFunction.cpp | 6 RSiena-1.4.1/RSiena/src/model/effects/generic/SameCovariateInStarFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/SameCovariateInTiesFunction.cpp | 10 RSiena-1.4.1/RSiena/src/model/effects/generic/SameCovariateInTiesFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/SameCovariateMixedTwoPathFunction.cpp | 29 RSiena-1.4.1/RSiena/src/model/effects/generic/SameCovariateMixedTwoPathFunction.h | 6 RSiena-1.4.1/RSiena/src/model/effects/generic/SameCovariateOutStarFunction.cpp | 6 RSiena-1.4.1/RSiena/src/model/effects/generic/SameCovariateOutStarFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/SameCovariateOutTiesFunction.cpp | 10 RSiena-1.4.1/RSiena/src/model/effects/generic/SameCovariateOutTiesFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/SameCovariateTwoPathFunction.cpp | 35 RSiena-1.4.1/RSiena/src/model/effects/generic/SameCovariateTwoPathFunction.h | 5 RSiena-1.4.1/RSiena/src/model/effects/generic/SumFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/SumFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/TwoPathFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/TwoPathFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/TwoStepFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/TwoStepFunction.h | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/WeightedMixedTwoPathFunction.cpp | 2 RSiena-1.4.1/RSiena/src/model/effects/generic/WeightedMixedTwoPathFunction.h | 2 RSiena-1.4.1/RSiena/src/model/ml/Chain.cpp | 14 RSiena-1.4.1/RSiena/src/model/ml/MLSimulation.cpp | 572 +++++++++- RSiena-1.4.1/RSiena/src/model/ml/MLSimulation.h | 35 RSiena-1.4.1/RSiena/src/model/tables/TwoNetworkCache.cpp | 4 RSiena-1.4.1/RSiena/src/model/tables/TwoNetworkCache.h | 3 RSiena-1.4.1/RSiena/src/model/variables/BehaviorVariable.cpp | 8 RSiena-1.4.1/RSiena/src/model/variables/DependentVariable.cpp | 50 RSiena-1.4.1/RSiena/src/model/variables/DependentVariable.h | 9 RSiena-1.4.1/RSiena/src/model/variables/NetworkVariable.cpp | 122 +- RSiena-1.4.1/RSiena/src/model/variables/NetworkVariable.h | 16 RSiena-1.4.1/RSiena/src/network/layers/PrimaryLayer.cpp | 6 RSiena-1.4.1/RSiena/src/siena07internals.cpp | 373 +++--- RSiena-1.4.1/RSiena/src/siena07models.cpp | 331 ++++- RSiena-1.4.1/RSiena/src/siena07models.h | 4 RSiena-1.4.1/RSiena/src/siena07setup.cpp | 202 +-- RSiena-1.4.1/RSiena/src/siena07setup.h | 1 RSiena-1.4.1/RSiena/src/siena07utilities.cpp | 403 +++---- RSiena-1.4.1/RSiena/src/siena07utilities.h | 2 RSiena-1.4.1/RSiena/src/sources.list | 2 RSiena-1.4.1/RSiena/src/utils/Random.cpp | 9 RSiena-1.4.1/RSiena/tests/parallel.R | 10 RSiena-1.4.1/RSiena/tests/parallel.Rout.save | 164 ++ 250 files changed, 4563 insertions(+), 2291 deletions(-)
Title: Textual Statistics for the Quantitative Analysis of Textual Data
Description: Textual statistics functions formerly in the 'quanteda' package.
Textual statistics for characterizing and comparing textual data. Includes
functions for measuring term and document frequency, the co-occurrence of
words, similarity and distance between features and documents, feature entropy,
keyword occurrence, readability, and lexical diversity. These functions
extend the 'quanteda' package and are specially designed for sparse textual data.
Author: Kenneth Benoit [cre, aut, cph]
,
Kohei Watanabe [aut] ,
Haiyan Wang [aut] ,
Jiong Wei Lua [aut],
Jouni Kuha [aut] ,
European Research Council [fnd]
Maintainer: Kenneth Benoit <kbenoit@lse.ac.uk>
Diff between quanteda.textstats versions 0.96.3 dated 2023-08-09 and 0.96.4 dated 2023-11-02
quanteda.textstats-0.96.3/quanteda.textstats/src/collocations_mt_.cpp |only quanteda.textstats-0.96.3/quanteda.textstats/src/dist_mt.cpp |only quanteda.textstats-0.96.3/quanteda.textstats/src/keyness_mt.cpp |only quanteda.textstats-0.96.3/quanteda.textstats/src/utility.cpp |only quanteda.textstats-0.96.4/quanteda.textstats/DESCRIPTION | 6 quanteda.textstats-0.96.4/quanteda.textstats/MD5 | 24 - quanteda.textstats-0.96.4/quanteda.textstats/R/RcppExports.R | 36 -- quanteda.textstats-0.96.4/quanteda.textstats/R/textstat_lexdiv.R | 4 quanteda.textstats-0.96.4/quanteda.textstats/R/textstat_readability.R | 2 quanteda.textstats-0.96.4/quanteda.textstats/README.md | 2 quanteda.textstats-0.96.4/quanteda.textstats/src/RcppExports.cpp | 122 ---------- quanteda.textstats-0.96.4/quanteda.textstats/src/collocations.cpp |only quanteda.textstats-0.96.4/quanteda.textstats/src/keyness.cpp |only quanteda.textstats-0.96.4/quanteda.textstats/tests/testthat/test-textstat_keyness.R | 6 quanteda.textstats-0.96.4/quanteda.textstats/tests/testthat/test-textstat_readability.R | 31 +- quanteda.textstats-0.96.4/quanteda.textstats/tests/testthat/test-textstat_summary.R | 15 - 16 files changed, 49 insertions(+), 199 deletions(-)
More information about quanteda.textstats at CRAN
Permanent link
Title: Multimodal Network Analysis and More
Description: A set of tools for analysing multimodal networks.
It includes functions for measuring
centrality, centralization, cohesion, closure, constraint and diversity,
as well as for network block-modelling, regression, and diffusion models.
The package is released as a complement to
'Multimodal Political Networks' (2021, ISBN:9781108985000),
and includes various datasets used in the book.
Built on the 'manynet' package, all functions operate with matrices, edge lists,
and 'igraph', 'network', and 'tidygraph' objects,
and on one-mode, two-mode (bipartite), and sometimes three-mode networks.
Author: James Hollway [cre, aut, ctb] ,
Henrique Sposito [ctb] ,
Jael Tan [ctb] ,
Bernhard Bieri [ctb]
Maintainer: James Hollway <james.hollway@graduateinstitute.ch>
Diff between migraph versions 1.1.0 dated 2023-10-04 and 1.1.5 dated 2023-11-02
migraph-1.1.0/migraph/inst/tutorials/tutorial5/equivalence.Rmd |only migraph-1.1.0/migraph/inst/tutorials/tutorial5/equivalence.html |only migraph-1.1.0/migraph/inst/tutorials/tutorial5/equivalence_data |only migraph-1.1.0/migraph/man/core-periphery.Rd |only migraph-1.1.5/migraph/DESCRIPTION | 10 migraph-1.1.5/migraph/MD5 | 97 migraph-1.1.5/migraph/NAMESPACE | 16 migraph-1.1.5/migraph/NEWS.md | 91 migraph-1.1.5/migraph/R/class_marks.R | 16 migraph-1.1.5/migraph/R/class_measures.R | 98 migraph-1.1.5/migraph/R/class_members.R | 51 migraph-1.1.5/migraph/R/measure_features.R | 44 migraph-1.1.5/migraph/R/measure_hierarchy.R |only migraph-1.1.5/migraph/R/measure_holes.R | 46 migraph-1.1.5/migraph/R/member_community.R | 219 + migraph-1.1.5/migraph/R/member_components.R | 11 migraph-1.1.5/migraph/R/member_core.R | 31 migraph-1.1.5/migraph/R/motif_census.R | 62 migraph-1.1.5/migraph/README.md | 4 migraph-1.1.5/migraph/inst/tutorials/tutorial3/centrality.Rmd | 71 migraph-1.1.5/migraph/inst/tutorials/tutorial3/centrality.html | 481 +- migraph-1.1.5/migraph/inst/tutorials/tutorial4/community.Rmd | 308 + migraph-1.1.5/migraph/inst/tutorials/tutorial4/community.html | 1070 +++--- migraph-1.1.5/migraph/inst/tutorials/tutorial5/position.Rmd |only migraph-1.1.5/migraph/inst/tutorials/tutorial5/position.html |only migraph-1.1.5/migraph/inst/tutorials/tutorial6/topology.Rmd | 377 +- migraph-1.1.5/migraph/inst/tutorials/tutorial6/topology.html | 1739 ++++++++-- migraph-1.1.5/migraph/inst/tutorials/tutorial7/diffusion.Rmd | 96 migraph-1.1.5/migraph/inst/tutorials/tutorial7/diffusion.html | 435 +- migraph-1.1.5/migraph/inst/tutorials/tutorial8/regression.Rmd | 60 migraph-1.1.5/migraph/inst/tutorials/tutorial8/regression.html | 277 - migraph-1.1.5/migraph/man/between_centrality.Rd | 1 migraph-1.1.5/migraph/man/close_centrality.Rd | 1 migraph-1.1.5/migraph/man/closure.Rd | 1 migraph-1.1.5/migraph/man/cohesion.Rd | 1 migraph-1.1.5/migraph/man/community.Rd | 188 - migraph-1.1.5/migraph/man/components.Rd | 8 migraph-1.1.5/migraph/man/core.Rd |only migraph-1.1.5/migraph/man/degree_centrality.Rd | 1 migraph-1.1.5/migraph/man/eigenv_centrality.Rd | 1 migraph-1.1.5/migraph/man/equivalence.Rd | 2 migraph-1.1.5/migraph/man/features.Rd | 7 migraph-1.1.5/migraph/man/heterogeneity.Rd | 1 migraph-1.1.5/migraph/man/hierarchy.Rd |only migraph-1.1.5/migraph/man/holes.Rd | 28 migraph-1.1.5/migraph/man/migraph-package.Rd | 2 migraph-1.1.5/migraph/man/mpn_bristol.Rd | 2 migraph-1.1.5/migraph/man/mpn_cow.Rd | 4 migraph-1.1.5/migraph/man/mpn_elite_mex.Rd | 2 migraph-1.1.5/migraph/man/mpn_elite_usa.Rd | 4 migraph-1.1.5/migraph/man/mpn_ryanair.Rd | 2 migraph-1.1.5/migraph/man/mpn_senate112.Rd | 6 migraph-1.1.5/migraph/man/node_census.Rd | 19 migraph-1.1.5/migraph/man/reexports.Rd | 2 54 files changed, 4305 insertions(+), 1688 deletions(-)
Title: Many Ways to Make, Manipulate, and Map Myriad Networks
Description: A set of tools for making, manipulating, and mapping many different types of networks.
All functions operate with matrices, edge lists, and 'igraph', 'network', and 'tidygraph' objects,
and on one-mode, two-mode (bipartite), and sometimes three-mode networks.
The package includes functions for importing and exporting, creating and generating networks,
molding and manipulating networks and node and tie attributes,
and describing and visualizing networks with sensible defaults.
Author: James Hollway [cre, aut, ctb] ,
Henrique Sposito [ctb]
Maintainer: James Hollway <james.hollway@graduateinstitute.ch>
Diff between manynet versions 0.2.3 dated 2023-09-17 and 0.2.8 dated 2023-11-02
DESCRIPTION | 12 MD5 | 95 ++-- NAMESPACE | 24 + NEWS.md | 102 ++++ R/data_ison.R | 63 ++ R/make_as.R | 10 R/make_generate.R | 35 - R/manip_reformat.R | 8 R/manip_transform.R | 80 +++ R/map_autographr.R | 599 ++++++++++++++++++---------- R/map_layout_configurations.R |only R/map_layout_partition.R | 75 ++- R/map_palettes.R | 99 +--- R/map_theme.R | 183 ++++++++ R/pkg_tutorials.R |only R/print_classes.R | 4 README.md | 77 +-- data/ison_algebra.rda |binary data/ison_friends.rda |only data/ison_networkers.rda |binary data/ison_starwars.rda |only inst/tutorials/tutorial0 |only inst/tutorials/tutorial1/data.Rmd | 66 +-- inst/tutorials/tutorial1/data.html | 412 ++++++++++--------- inst/tutorials/tutorial2/visualisation.Rmd | 35 + inst/tutorials/tutorial2/visualisation.html | 210 ++++++--- man/attributes.Rd | 1 man/autographing.Rd | 109 +++-- man/configuration_layouts.Rd |only man/figures/README-coercion-graph-1.png |binary man/generate.Rd | 31 - man/iheid_palette.Rd |only man/is.Rd | 1 man/ison_adolescents.Rd | 2 man/ison_algebra.Rd | 12 man/ison_brandes.Rd | 2 man/ison_friends.Rd |only man/ison_karateka.Rd | 2 man/ison_konigsberg.Rd | 2 man/ison_laterals.Rd | 8 man/ison_lawfirm.Rd | 2 man/ison_lotr.Rd | 2 man/ison_marvel.Rd | 4 man/ison_networkers.Rd | 14 man/ison_southern_women.Rd | 2 man/ison_starwars.Rd |only man/partition_layouts.Rd | 10 man/properties.Rd | 1 man/reexports.Rd | 2 man/scales.Rd |only man/themes.Rd | 16 man/transform.Rd | 30 + man/tutorials.Rd |only tests/testthat/test-map_autographr.R | 54 +- 54 files changed, 1646 insertions(+), 850 deletions(-)
Title: Compute and Illustrate the Multiple Facets of Functional
Diversity
Description: Computing functional traits-based distances between pairs of
species for species gathered in assemblages allowing to build several
functional spaces. The package allows to compute functional diversity
indices assessing the distribution of species (and of their dominance) in a
given functional space for each assemblage and the overlap between
assemblages in a given functional space, see: Chao et al. (2018)
<doi:10.1002/ecm.1343>, Maire et al. (2015) <doi:10.1111/geb.12299>,
Mouillot et al. (2013) <doi:10.1016/j.tree.2012.10.004>, Mouillot et al.
(2014) <doi:10.1073/pnas.1317625111>, Ricotta and Szeidl (2009)
<doi:10.1016/j.tpb.2009.10.001>. Graphical outputs are included.
Visit the 'mFD' website for more information, documentation and examples.
Author: Camille Magneville [aut, cre, cph]
,
Nicolas Loiseau [aut] ,
Camille Albouy [aut] ,
Nicolas Casajus [aut] ,
Thomas Claverie [aut] ,
Arthur Escalas [aut] ,
Fabien Leprieur [aut] ,
Eva Maire [aut] ,
David Mouillot [aut] ,
Sebastien Villeger [aut]
Maintainer: Camille Magneville <camille.magneville@gmail.com>
Diff between mFD versions 1.0.5 dated 2023-09-07 and 1.0.6 dated 2023-11-02
DESCRIPTION | 6 - MD5 | 34 +++--- NEWS.md | 5 + R/plot_multidim_layers.R | 38 ++++++- inst/doc/Compute_and_interpret_quality_of_functional_spaces.R | 20 ++-- inst/doc/Compute_and_interpret_quality_of_functional_spaces.html | 4 inst/doc/Compute_functional_hill_indices.R | 2 inst/doc/Compute_functional_hill_indices.html | 4 inst/doc/Continuous_traits_framework.R | 8 - inst/doc/Continuous_traits_framework.html | 4 inst/doc/Customised_plots.R | 24 ++-- inst/doc/Customised_plots.html | 16 +-- inst/doc/How_to_deal_with_Functional_Entities.R | 8 - inst/doc/How_to_deal_with_Functional_Entities.html | 4 inst/doc/mFD_general_workflow.R | 50 +++++----- inst/doc/mFD_general_workflow.Rmd | 2 inst/doc/mFD_general_workflow.html | 12 +- vignettes/mFD_general_workflow.Rmd | 2 18 files changed, 137 insertions(+), 106 deletions(-)
Title: Production Function Output Gap Estimation
Description: The output gap indicates the percentage difference between the actual output of an economy and its potential. Since potential output is a latent process, the estimation of the output gap poses a challenge and numerous filtering techniques have been proposed. 'RGAP' facilitates the estimation of a Cobb-Douglas production function type output gap, as suggested by the European Commission (Havik et al. 2014) <https://ideas.repec.org/p/euf/ecopap/0535.html>. To that end, the non-accelerating wage rate of unemployment (NAWRU) and the trend of total factor productivity (TFP) can be estimated in two bivariate unobserved component models by means of Kalman filtering and smoothing. 'RGAP' features a flexible modeling framework for the appropriate state-space models and offers frequentist as well as Bayesian estimation techniques. Additional functionalities include direct access to the 'AMECO' <https://economy-finance.ec.europa.eu/economic-research-and-databases/economic-databases/ameco- [...truncated...]
Author: Sina Streicher [aut, cre]
Maintainer: Sina Streicher <streicher@kof.ethz.ch>
Diff between RGAP versions 0.1.0 dated 2023-06-01 and 0.1.1 dated 2023-11-02
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/data_input.R | 4 ++-- R/gibbs_steps.R | 2 +- R/model_selection.R | 38 ++++++++++++++++++-------------------- man/autoGapProd.Rd | 2 -- man/dot-gibbsStepDT.Rd | 2 +- man/obs2Optim.Rd | 2 -- 8 files changed, 33 insertions(+), 39 deletions(-)
Title: Package for Sequence Analysis by Local Score
Description: Functionalities for calculating the local score and calculating statistical relevance (p-value) to find a local Score in a sequence of given distribution (S. Mercier and J.-J. Daudin (2001) <https://hal.science/hal-00714174/>) ; S. Karlin and S. Altschul (1990) <https://www.ncbi.nlm.nih.gov/pmc/articles/PMC53667/> ; S. Mercier, D. Cellier and F. Charlot (2003) <https://hal.science/hal-00937529v1/> ; A. Lagnoux, S. Mercier and P. Valois (2017) <doi:10.1093/bioinformatics/btw699> ).
Author: Sebastian Simon [aut],
David Robelin [aut, cre],
Sabine Mercier [aut],
Sebastien Dejean [aut],
The authors of Eigen the library for the included version of Eigen
[cph]
Maintainer: David Robelin <david.robelin@inrae.fr>
Diff between localScore versions 1.0.8 dated 2022-05-17 and 1.0.10 dated 2023-11-02
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Title: Estimates the Intraclass Correlation Coefficient for Trajectory
Data
Description: Estimates the intraclass correlation coefficient for trajectory data using a matrix of distances between trajectories. The distances implemented are the extended Hausdorff distances (Min et al. 2007) <doi:10.1080/13658810601073315> and the discrete Fréchet distance (Magdy et al. 2015) <doi:10.1109/IntelCIS.2015.7397286>.
Author: Josep L. Carrasco [aut, cre]
Maintainer: Josep L. Carrasco <jlcarrasco@ub.edu>
Diff between iccTraj versions 1.0.3 dated 2023-09-18 and 1.0.4 dated 2023-11-02
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/functions.R | 9 +++++---- man/iccTraj.Rd | 2 +- 4 files changed, 12 insertions(+), 11 deletions(-)
More information about BayesianFactorZoo at CRAN
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Title: Consistency in the Analytic Hierarchy Process
Description: A Swiss Army knife of utility functions for users of the Analytic
Hierarchy Process (AHP) which will help you to assess the consistency of a
PCM as well as to improve its consistency ratio, to compute the sensitivity
of a PCM, create a logical, not a random PCM, from the preferences you
provide for the alternatives, and a function that helps evaluate the actual
consistency of a PCM based on objective, fair bench marking. The various
functions in the toolkit additionally provide the flexibility to users to
specify only the upper triangular comparison ratios of the PCM in order to
performs its assigned task.
Author: Amarnath Bose [aut, cre]
Maintainer: Amarnath Bose <amarnath.bose@gmail.com>
Diff between AHPtools versions 0.2.0 dated 2023-08-08 and 0.2.1 dated 2023-11-02
DESCRIPTION | 23 +++++----- MD5 | 14 +++--- NEWS.md | 15 +------ R/AHPtools.R | 87 +++++++++++++++++++++++++---------------- build/partial.rdb |binary man/createLogicalPCM.Rd | 6 ++ man/sensitivity.Rd | 6 ++ tests/testthat/test-AHPtools.R | 7 +++ 8 files changed, 94 insertions(+), 64 deletions(-)
Title: General P-Splines
Description: General P-splines are non-uniform B-splines penalized by a general difference penalty, proposed by Li and Cao (2022) <arXiv:2201.06808>. Constructible on arbitrary knots, they extend the standard P-splines of Eilers and Marx (1996) <doi:10.1214/ss/1038425655>. They are also related to the O-splines of O'Sullivan (1986) <doi:10.1214/ss/1177013525> via a sandwich formula that links a general difference penalty to a derivative penalty. The package includes routines for setting up and handling difference and derivative penalties. It also fits P-splines and O-splines to (x, y) data (optionally weighted) for a grid of smoothing parameter values in the automatic search intervals of Li and Cao (2023) <doi:10.1007/s11222-022-10178-z>. It aims to facilitate other packages to implement P-splines or O-splines as a smoothing tool in their model estimation framework.
Author: Zheyuan Li [aut, cre]
Maintainer: Zheyuan Li <zheyuan.li@bath.edu>
Diff between gps versions 1.1 dated 2023-04-30 and 1.2 dated 2023-11-02
DESCRIPTION | 8 - MD5 | 17 +- NAMESPACE | 11 + R/gps.R | 365 +++++++++++++++++++++++++++++++++++++++++++++++++++--- build/partial.rdb |binary man/DemoSpl.Rd | 2 man/gps2GS.Rd | 4 man/penalty.Rd | 14 +- man/rspl.Rd |only src/gps2.c | 2 10 files changed, 382 insertions(+), 41 deletions(-)
Title: Provides Some Useful Functions for Making Statistical Tables
Description: You can use the functions provided by the package to make various statistical tables,
such as baseline data tables. Creates 'Table 1', i.e., a description of the baseline patient
characteristics, which is essential in every medical research.
Supports both continuous and categorical variables, as well as
p-values and standardized mean differences.
This method was described by Mary L McHugh (2013) <doi:10.11613/bm.2013.018>.
Author: Qiang Liu [aut, cre]
Maintainer: Qiang Liu <dege857@163.com>
Diff between scitb versions 0.1.0 dated 2023-10-26 and 0.1.2 dated 2023-11-02
DESCRIPTION | 7 ++++--- MD5 | 14 ++++++++------ NAMESPACE | 1 + R/code.R |only R/sci1mean.R | 15 +++++++-------- R/scitb1.R | 9 +++++---- README.md |only man/sci1mean.Rd | 2 ++ man/scitb1.Rd | 2 ++ 9 files changed, 29 insertions(+), 21 deletions(-)
Title: Clinical Trial Registry History
Description: Retrieves historical versions of clinical trial registry
entries from <https://ClinicalTrials.gov>. Package functionality
and implementation is documented in Carlisle (2022)
<DOI:10.1371/journal.pone.0270909>.
Author: Benjamin Gregory Carlisle [aut, cre]
Maintainer: Benjamin Gregory Carlisle <murph@bgcarlisle.com>
Diff between cthist versions 2.1.0 dated 2023-07-10 and 2.1.3 dated 2023-11-02
DESCRIPTION | 6 - MD5 | 15 ++- NEWS.md | 22 +++++ R/clinicaltrials_gov_dates.R | 9 +- R/clinicaltrials_gov_version.R | 40 ++++++---- man/clinicaltrials_gov_dates.Rd | 11 +- man/clinicaltrials_gov_version.Rd | 3 tests/testthat/test-clinicaltrials_gov_version_latest.R |only tests/testthat/test-clinicaltrials_gov_version_pcdate_none.R |only tests/testthat/test-clinicaltrials_gov_version_startdate_none.R |only 10 files changed, 72 insertions(+), 34 deletions(-)
Title: Analyzing the Orientation of Maximum Horizontal Stress
Description: Models the direction of the maximum horizontal stress using
relative plate motion parameters. Statistical algorithms to evaluate
the modeling results compared with the observed data. Provides plots
to visualize the results. Methods described in Stephan et al. (2023)
<doi:10.1038/s41598-023-42433-2> and Wdowinski (1998)
<doi:10.1016/S0079-1946(98)00091-3>.
Author: Tobias Stephan [aut, cre]
Maintainer: Tobias Stephan <tobias.stephan1@yahoo.com>
Diff between tectonicr versions 0.2.93 dated 2023-09-22 and 0.2.95 dated 2023-11-02
tectonicr-0.2.93/tectonicr/man/get_distance_mod.Rd |only tectonicr-0.2.95/tectonicr/DESCRIPTION | 16 tectonicr-0.2.95/tectonicr/MD5 | 126 tectonicr-0.2.95/tectonicr/NAMESPACE | 23 tectonicr-0.2.95/tectonicr/NEWS.md | 116 tectonicr-0.2.95/tectonicr/R/coordinates.R | 878 +++--- tectonicr-0.2.95/tectonicr/R/data_models.R | 222 - tectonicr-0.2.95/tectonicr/R/draw_eulerpole.R | 540 ++-- tectonicr-0.2.95/tectonicr/R/interpolation.R | 28 tectonicr-0.2.95/tectonicr/R/model_shmax.R | 692 ++--- tectonicr-0.2.95/tectonicr/R/nuvel1_plates.R | 42 tectonicr-0.2.95/tectonicr/R/pb_distance.R | 17 tectonicr-0.2.95/tectonicr/R/plates.R | 65 tectonicr-0.2.95/tectonicr/R/plotting.R | 639 +++- tectonicr-0.2.95/tectonicr/R/roll_statistics.R | 264 + tectonicr-0.2.95/tectonicr/R/rotation.R | 20 tectonicr-0.2.95/tectonicr/R/san_andreas.R | 160 - tectonicr-0.2.95/tectonicr/R/stat_tests.R | 45 tectonicr-0.2.95/tectonicr/R/statistics.R | 1334 +++++----- tectonicr-0.2.95/tectonicr/R/tectonicr-package.R | 62 tectonicr-0.2.95/tectonicr/R/trigonometry_degrees.R | 690 ++--- tectonicr-0.2.95/tectonicr/R/various.R | 294 +- tectonicr-0.2.95/tectonicr/README.md | 47 tectonicr-0.2.95/tectonicr/build/partial.rdb |binary tectonicr-0.2.95/tectonicr/build/vignette.rds |binary tectonicr-0.2.95/tectonicr/inst/CITATION | 40 tectonicr-0.2.95/tectonicr/inst/doc/A_tectonicr.R | 5 tectonicr-0.2.95/tectonicr/inst/doc/A_tectonicr.Rmd | 447 +-- tectonicr-0.2.95/tectonicr/inst/doc/A_tectonicr.html | 15 tectonicr-0.2.95/tectonicr/inst/doc/B_datasets.Rmd | 766 ++--- tectonicr-0.2.95/tectonicr/inst/doc/C_stress_trajectories.Rmd | 506 +-- tectonicr-0.2.95/tectonicr/inst/doc/C_stress_trajectories.html | 2 tectonicr-0.2.95/tectonicr/inst/doc/D_statistics.R | 43 tectonicr-0.2.95/tectonicr/inst/doc/D_statistics.Rmd | 329 +- tectonicr-0.2.95/tectonicr/inst/doc/D_statistics.html | 67 tectonicr-0.2.95/tectonicr/inst/doc/E_interpolation.R |only tectonicr-0.2.95/tectonicr/inst/doc/E_interpolation.Rmd |only tectonicr-0.2.95/tectonicr/inst/doc/E_interpolation.html |only tectonicr-0.2.95/tectonicr/man/PoR_map.Rd | 97 tectonicr-0.2.95/tectonicr/man/PositionCenterSpoke.Rd | 2 tectonicr-0.2.95/tectonicr/man/axes.Rd | 86 tectonicr-0.2.95/tectonicr/man/circular_dispersion_boot.Rd | 108 tectonicr-0.2.95/tectonicr/man/compact_grid.Rd | 5 tectonicr-0.2.95/tectonicr/man/dispersion.Rd | 134 - tectonicr-0.2.95/tectonicr/man/dispersion_grid.Rd | 164 - tectonicr-0.2.95/tectonicr/man/distance_from_pb.Rd | 2 tectonicr-0.2.95/tectonicr/man/est.kappa.Rd |only tectonicr-0.2.95/tectonicr/man/kuiper_test.Rd | 88 tectonicr-0.2.95/tectonicr/man/line_azimuth.Rd |only tectonicr-0.2.95/tectonicr/man/quick_plot.Rd | 13 tectonicr-0.2.95/tectonicr/man/rolling_test.Rd | 15 tectonicr-0.2.95/tectonicr/man/rolling_test_dist.Rd |only tectonicr-0.2.95/tectonicr/man/rose.Rd | 28 tectonicr-0.2.95/tectonicr/man/rose_baseplot.Rd |only tectonicr-0.2.95/tectonicr/man/rose_bw.Rd | 6 tectonicr-0.2.95/tectonicr/man/rose_geom.Rd |only tectonicr-0.2.95/tectonicr/man/rose_stats.Rd |only tectonicr-0.2.95/tectonicr/man/stress_colors.Rd | 34 tectonicr-0.2.95/tectonicr/man/superimposed_shmax.Rd |only tectonicr-0.2.95/tectonicr/man/tectonicr.colors.Rd | 90 tectonicr-0.2.95/tectonicr/man/vonmises.Rd | 70 tectonicr-0.2.95/tectonicr/man/watson_test.Rd | 10 tectonicr-0.2.95/tectonicr/man/weighted_rayleigh.Rd | 116 tectonicr-0.2.95/tectonicr/tests/testthat/test_that.R | 319 +- tectonicr-0.2.95/tectonicr/vignettes/A_tectonicr.Rmd | 447 +-- tectonicr-0.2.95/tectonicr/vignettes/B_datasets.Rmd | 766 ++--- tectonicr-0.2.95/tectonicr/vignettes/C_stress_trajectories.Rmd | 506 +-- tectonicr-0.2.95/tectonicr/vignettes/D_statistics.Rmd | 329 +- tectonicr-0.2.95/tectonicr/vignettes/E_interpolation.Rmd |only tectonicr-0.2.95/tectonicr/vignettes/interpolation_voronoi.png |only tectonicr-0.2.95/tectonicr/vignettes/tectonicr_references.bib.sav.tmp |only 71 files changed, 6344 insertions(+), 5631 deletions(-)