Title: Lab for Developing and Testing Recommender Algorithms
Description: Provides a research infrastructure to test and develop
recommender algorithms including UBCF, IBCF, FunkSVD and association
rule-based algorithms.
Author: Michael Hahsler [aut, cre, cph],
Bregt Vereet [ctb, cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between recommenderlab versions 0.2-6 dated 2020-06-17 and 0.2-7 dated 2021-02-26
DESCRIPTION | 10 +++--- MD5 | 44 +++++++++++++-------------- NAMESPACE | 1 NEWS.md | 16 ++++++++++ R/AllGenerics.R | 3 + R/RECOM_UBCF.R | 42 +++++++++++--------------- R/calcPredictionAccuracy.R | 21 +++++++++---- R/evaluate.R | 8 +++-- R/evaluationResultList.R | 10 +++--- R/evaluationResults.R | 11 +++++- R/plot.R | 43 ++++++++++++++------------- README.md | 9 ++--- build/vignette.rds |binary data/MovieLense.rda |binary inst/doc/recommenderlab.R | 62 +++++++++++++++++++-------------------- inst/doc/recommenderlab.Rnw | 29 ++++++++---------- inst/doc/recommenderlab.pdf |binary man/MovieLense.Rd | 9 ++++- man/calcPredictionAccuracy.Rd | 19 ++++++----- man/evaluate.Rd | 54 ++++++++++++++++++++++++--------- man/evaluationResults-class.Rd | 9 +++-- tests/testthat/test-RECOM_UBCF.R | 2 - vignettes/recommenderlab.Rnw | 29 ++++++++---------- 23 files changed, 248 insertions(+), 183 deletions(-)
More information about recommenderlab at CRAN
Permanent link
Title: Helpers for Model Coefficients Tibbles
Description: Provides suite of functions to work with regression
model 'broom::tidy()' tibbles. The suite includes functions to group
regression model terms by variable, insert reference and header rows
for categorical variables, add variable labels, and more.
Author: Joseph Larmarange [aut, cre] (<https://orcid.org/0000-0001-7097-700X>),
Daniel D. Sjoberg [aut] (<https://orcid.org/0000-0003-0862-2018>)
Maintainer: Joseph Larmarange <joseph@larmarange.net>
Diff between broom.helpers versions 1.2.0 dated 2021-02-22 and 1.2.1 dated 2021-02-26
DESCRIPTION | 8 MD5 | 42 +-- NEWS.md | 10 R/model_get_n.R | 1 R/model_list_terms_levels.R | 8 R/select_utilities.R | 2 R/tidy_add_term_labels.R | 33 ++ R/tidy_plus_plus.R | 2 inst/doc/tidy.html | 216 +++++++++---------- man/model_list_terms_levels.Rd | 1 man/tidy_plus_plus.Rd | 2 tests/testthat/test-add_coefficients_type.R | 2 tests/testthat/test-add_contrasts.R | 2 tests/testthat/test-add_estimate_to_reference_rows.R | 3 tests/testthat/test-add_n.R | 10 tests/testthat/test-add_term_labels.R | 45 +++ tests/testthat/test-add_variable_labels.R | 2 tests/testthat/test-disambiguate_terms.R | 2 tests/testthat/test-identify_variables.R | 2 tests/testthat/test-model_get_n.R | 6 tests/testthat/test-select_helpers.R | 3 tests/testthat/test-tidy_plus_plus.R | 26 ++ 22 files changed, 284 insertions(+), 144 deletions(-)
Title: Tabulate Descriptive Statistics in Multiple Formats
Description: Creates a table of descriptive statistics
for factor and numeric columns in a data frame. Displays
these by groups, if any. Highly customizable, with support
for 'html' and 'pdf' provided by 'kableExtra'. Respects
original column order, column labels, and factor level order.
See ?tablet.data.frame and vignettes.
Author: Tim Bergsma
Maintainer: Tim Bergsma <bergsmat@gmail.com>
Diff between tablet versions 0.2.6 dated 2021-02-21 and 0.2.7 dated 2021-02-26
DESCRIPTION | 6 - MD5 | 8 - R/tablet.R | 2 inst/doc/tablet-introduction-html.html | 188 +++++++++++---------------------- inst/doc/tablet-introduction-pdf.pdf |binary 5 files changed, 71 insertions(+), 133 deletions(-)
Title: Synthetic Control Methods with Micro- And Meso-Level Data
Description: A generalization of the 'Synth' package that is
designed for data at a more granular level (e.g., micro-level).
Provides functions to construct weights (including propensity
score-type weights) and run analyses for synthetic control methods
with micro- and meso-level data; see Robbins, Saunders, and Kilmer
(2017) <doi:10.1080/01621459.2016.1213634> and Robbins and Davenport
(2021) <doi:10.18637/jss.v097.i02>.
Author: Michael Robbins [aut, cre],
Steven Davenport [aut]
Maintainer: Michael Robbins <mrobbins@rand.org>
Diff between microsynth versions 2.0.17 dated 2021-01-12 and 2.0.31 dated 2021-02-26
DESCRIPTION | 8 +- MD5 | 28 ++++----- NEWS.md | 11 +++ R/microsynth-class.R | 8 +- R/microsynth.R | 60 +++++++++++++------- R/plot_microsynth.R | 76 +++++++++++++------------- R/results.r | 34 ++++++----- R/weights.R | 29 +++++---- inst/doc/aggregating_variables_over_time.html | 4 - inst/doc/ensuring_model_feasibility.Rmd | 2 inst/doc/ensuring_model_feasibility.html | 6 +- inst/doc/introduction.html | 4 - man/microsynth.Rd | 14 ++-- man/plot_microsynth.Rd | 2 vignettes/ensuring_model_feasibility.Rmd | 2 15 files changed, 161 insertions(+), 127 deletions(-)
Title: Missing Data Imputation Using Gaussian Copulas
Description: Provides functions to impute missing values using Gaussian
copulas for mixed data types as described by Christoffersen et al.
(2021) <arXiv:2102.02642>. The method is related to Hoff (2007)
<doi:10.1214/07-AOAS107> and Zhao and Udell (2019) <arXiv:1910.12845>
but differs by making a direct approximation of the log marginal likelihood
using an extended version of the Fortran code created by Genz and Bretz
(2002) <doi:10.1198/106186002394> in addition to also support multinomial
variables.
Author: Benjamin Christoffersen [cre, aut]
(<https://orcid.org/0000-0002-7182-1346>),
Alan Genz [cph],
Frank Bretz [cph],
Torsten Hothorn [cph],
R-core [cph],
Ross Ihaka [cph]
Maintainer: Benjamin Christoffersen <boennecd@gmail.com>
Diff between mdgc versions 0.1.1 dated 2021-02-17 and 0.1.2 dated 2021-02-26
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- R/mdgc.R | 4 ++-- man/mdgc.Rd | 2 +- man/mdgc_fit.Rd | 2 +- src/RcppExports.cpp | 4 ++-- src/cpp-to-R.cpp | 5 ++++- src/mvt.f | 16 ++++++++++++---- src/openmp-exception_ptr.h | 24 +++++++++++++++++------- 9 files changed, 50 insertions(+), 29 deletions(-)
Title: Historical and Ahistorical Population Projection Matrix Analysis
Description: Creates matrix population models for use in population ecological
analyses. Specializes on the construction of historical matrices,
which are 2d matrices comprising 3 consecutive times of demographic
information. Estimates both raw and function-based forms of
historical and standard ahistorical matrices. It also estimates
function-based age-by-stage matrices. Methodology based on
Ehrlen (2000) <doi:10.1890/0012-9658(2000)081[1675:TDOPPD]2.0.CO;2>.
Author: Richard P. Shefferson [aut, cre]
(<https://orcid.org/0000-0002-5234-3131>),
Johan Ehrlen [aut] (<https://orcid.org/0000-0001-8539-8967>)
Maintainer: Richard P. Shefferson <cdorm@g.ecc.u-tokyo.ac.jp>
Diff between lefko3 versions 3.3.1 dated 2021-02-23 and 3.3.2 dated 2021-02-26
DESCRIPTION | 12 +- MD5 | 38 +++--- NEWS | 10 + R/matrixcreation.R | 12 +- R/modelselection.R | 254 ++++++++++++++++++++++---------------------- R/popchar.R | 38 ++++++ inst/doc/Chapter1.html | 2 inst/doc/Chapter2.Rmd | 10 - inst/doc/Chapter2.html | 10 - inst/doc/Chapter5.Rmd | 12 +- inst/doc/Chapter5.html | 12 +- inst/doc/Chapter6.Rmd | 10 - inst/doc/Chapter6.html | 10 - man/aflefko2.Rd | 4 src/DataManagement.cpp | 165 +++++++++++++++++----------- vignettes/Chapter2.Rmd | 10 - vignettes/Chapter5.Rmd | 12 +- vignettes/Chapter5.Rmd.orig | 2 vignettes/Chapter6.Rmd | 10 - vignettes/Chapter6.Rmd.orig | 2 20 files changed, 358 insertions(+), 277 deletions(-)
Title: Datasets that Support the EDGE Server DIY Logic
Description: Datasets from most recent CCIIO DIY entry
in a tidy format. These support the Centers for Medicare and Medicaid
Services' (CMS) risk adjustment Do-It-Yourself (DIY) process, which allows
health insurance issuers to calculate member risk profiles under the Health
and Human Services-Hierarchical Condition Categories (HHS-HCC) regression
model. This regression model is used to calculate risk adjustment transfers.
Risk adjustment is a selection mitigation program implemented under the
Patient Protection and Affordable Care Act (ACA or Obamacare) in the USA.
Under the ACA, health insurance issuers submit claims data to CMS in order
for CMS to calculate a risk score under the HHS-HCC regression model.
However, CMS does not inform issuers of their average risk score until after
the data submission deadline. These data sets can be used by issuers to
calculate their average risk score mid-year. More information about risk
adjustment and the HHS-HCC model can be found here:
<https://www.cms.gov/mmrr/Articles/A2014/MMRR2014_004_03_a03.html>.
Author: Ethan Brockmann [aut, cre, cph]
Maintainer: Ethan Brockmann <ethanbrockmann@gmail.com>
Diff between edgedata versions 0.1.0 dated 2020-04-24 and 0.2.0 dated 2021-02-26
DESCRIPTION | 15 +--- MD5 | 97 ++++++++++++++++--------------- NAMESPACE | 4 - NEWS.md | 7 +- R/adult_coefs.R | 28 ++------- R/cc_int.R |only R/child_coefs.R | 12 --- R/hcc.R | 12 --- R/infant_coefs.R | 8 -- R/rxc.R | 12 --- README.md | 18 +++++ data/adult_demo.rda |binary data/adult_enroll_dur.rda |binary data/adult_group.rda |binary data/adult_hcc.rda |binary data/adult_interaction.rda |binary data/adult_rxc.rda |binary data/adult_rxc_hcc_inter.rda |binary data/cc_hier.rda |binary data/cc_int_h.rda |only data/cc_int_m.rda |only data/cc_severe.rda |only data/child_demo.rda |binary data/child_group.rda |binary data/child_hcc.rda |binary data/cpt_hcpcs.rda |binary data/hcpcs_rxc.rda |binary data/icd_cc.rda |binary data/infant_demo.rda |binary data/infant_mat_sev.rda |binary data/ndc_rxc.rda |binary data/rxc_hier.rda |binary man/adult_demo.Rd | 88 ++++++++++++++-------------- man/adult_enroll_dur.Rd | 90 ++++++++++++++--------------- man/adult_group.Rd | 112 ++++++++++++++++++------------------ man/adult_hcc.Rd | 112 ++++++++++++++++++------------------ man/adult_interaction.Rd | 112 ++++++++++++++++++------------------ man/adult_rxc.Rd | 106 +++++++++++++++++----------------- man/adult_rxc_hcc_inter.Rd | 132 +++++++++++++++++++++---------------------- man/cc_hier.Rd | 84 +++++++++++++-------------- man/cc_int_h.Rd |only man/cc_int_m.Rd |only man/cc_severe.Rd |only man/child_demo.Rd | 88 ++++++++++++++-------------- man/child_group.Rd | 112 ++++++++++++++++++------------------ man/child_hcc.Rd | 112 ++++++++++++++++++------------------ man/cpt_hcpcs.Rd | 94 +++++++++++++++--------------- man/hcpcs_rxc.Rd | 88 ++++++++++++++-------------- man/icd_cc.Rd | 120 +++++++++++++++++++-------------------- man/infant_demo.Rd | 88 ++++++++++++++-------------- man/infant_mat_sev.Rd | 98 +++++++++++++++---------------- man/ndc_rxc.Rd | 88 ++++++++++++++-------------- man/rxc_hier.Rd | 76 ++++++++++++------------ 53 files changed, 1000 insertions(+), 1013 deletions(-)
Title: Bayesian Inference of Non-Linear and Non-Gaussian State Space
Models
Description: Efficient methods for Bayesian inference of state space models
via particle Markov chain Monte Carlo (MCMC) and MCMC based on parallel
importance sampling type weighted estimators
(Vihola, Helske, and Franks, 2020, <doi:10.1111/sjos.12492>).
Gaussian, Poisson, binomial, negative binomial, and Gamma
observation densities and basic stochastic volatility models
with linear-Gaussian state dynamics,
as well as general non-linear Gaussian models and discretised
diffusion models are supported.
Author: Jouni Helske [aut, cre] (<https://orcid.org/0000-0001-7130-793X>),
Matti Vihola [aut] (<https://orcid.org/0000-0002-8041-7222>)
Maintainer: Jouni Helske <jouni.helske@iki.fi>
Diff between bssm versions 1.1.3-1 dated 2021-02-22 and 1.1.3-2 dated 2021-02-26
DESCRIPTION | 10 MD5 | 142 ++--- NEWS | 6 R/RcppExports.R | 76 +- R/approx.R | 2 R/bootstrap_filter.R | 3 R/ekpf_filter.R | 2 R/kfilter.R | 5 R/loglik.R | 3 R/models.R | 12 R/particle_smoother.R | 6 R/post_correction.R | 6 R/run_mcmc.R | 15 R/smoother.R | 6 build/vignette.rds |binary inst/doc/bssm.R | 7 inst/doc/bssm.Rmd | 12 inst/doc/bssm.html | 2 inst/doc/growth_model.R | 8 inst/doc/growth_model.Rmd | 14 inst/doc/growth_model.html | 6 inst/doc/psi_pf.R | 9 inst/doc/psi_pf.Rmd | 11 inst/doc/sde_model.R | 7 inst/doc/sde_model.Rmd | 15 inst/doc/sde_model.html | 2 src/R_approx.cpp | 5 src/R_bootstrap_filter.cpp | 10 src/R_ekf.cpp | 18 src/R_ekpf.cpp | 10 src/R_loglik.cpp | 5 src/R_mcmc.cpp | 183 ++----- src/R_postcorrection.cpp | 36 - src/R_predict.cpp | 15 src/R_predict_past.cpp | 15 src/R_psi.cpp | 5 src/R_sde.cpp | 2 src/R_ukf.cpp | 5 src/RcppExports.cpp | 190 ++----- src/approx_mcmc.cpp | 1148 ++++++++++++++++++++------------------------- src/approx_mcmc.h | 40 - src/conditional_dist.cpp | 4 src/mcmc.cpp | 174 +++--- src/mcmc.h | 26 - src/model_ar1_lg.cpp | 26 - src/model_ar1_lg.h | 5 src/model_ar1_ng.cpp | 26 - src/model_ar1_ng.h | 6 src/model_bsm_lg.cpp | 30 + src/model_bsm_lg.h | 5 src/model_bsm_ng.cpp | 40 + src/model_bsm_ng.h | 6 src/model_ssm_mlg.cpp | 23 src/model_ssm_mlg.h | 19 src/model_ssm_mng.cpp | 16 src/model_ssm_mng.h | 15 src/model_ssm_nlg.cpp | 22 src/model_ssm_nlg.h | 6 src/model_ssm_ulg.cpp | 20 src/model_ssm_ulg.h | 21 src/model_ssm_ung.cpp | 17 src/model_ssm_ung.h | 19 src/model_svm.cpp | 20 src/model_svm.h | 6 src/parset_lg.cpp | 16 src/parset_lg.h | 4 src/parset_ng.cpp | 16 src/parset_ng.h | 4 vignettes/bssm.Rmd | 12 vignettes/growth_model.Rmd | 14 vignettes/psi_pf.Rmd | 11 vignettes/sde_model.Rmd | 15 72 files changed, 1375 insertions(+), 1343 deletions(-)
Title: Multivariate Multiscale Spatial Analysis
Description: Tools for the multiscale spatial analysis of multivariate data.
Several methods are based on the use of a spatial weighting matrix and its
eigenvector decomposition (Moran's Eigenvectors Maps, MEM).
Several approaches are described in the review Dray et al (2012)
<doi:10.1890/11-1183.1>.
Author: Stéphane Dray, David Bauman, Guillaume Blanchet, Daniel Borcard,
Sylvie Clappe, Guillaume Guenard, Thibaut Jombart, Guillaume Larocque,
Pierre Legendre, Naima Madi, Helene H Wagner
Maintainer: Stéphane Dray <stephane.dray@univ-lyon1.fr>
Diff between adespatial versions 0.3-10 dated 2021-02-09 and 0.3-13 dated 2021-02-26
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ build/vignette.rds |binary inst/doc/tutorial.html | 4 ++-- src/constr.hclust.c | 6 +++--- src/constr.hclust.h | 6 +++--- src/init.c | 2 +- 7 files changed, 19 insertions(+), 19 deletions(-)
Title: Spatial Analysis of Field Trials with Splines
Description: Analysis of field trial experiments by modelling spatial trends using two-dimensional Penalised spline (P-spline) models.
Author: Maria Xose Rodriguez-Alvarez [aut, cre],
Martin Boer [aut],
Paul Eilers [aut],
Fred van Eeuwijk [ctb]
Maintainer: Maria Xose Rodriguez-Alvarez <mxrodriguez@bcamath.org>
Diff between SpATS versions 1.0-11 dated 2020-02-02 and 1.0-12 dated 2021-02-26
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NEWS | 8 ++++++-- R/SpATS.R | 2 +- R/construct.henderson.matrix.R | 8 ++++---- R/controlSpATS.R | 5 +++-- R/predict.SpATS.R | 6 +++++- man/SpATS-package.Rd | 4 ++-- man/SpATS.Rd | 2 +- man/controlSpATS.Rd | 6 ++++-- 10 files changed, 39 insertions(+), 28 deletions(-)
Title: Decision Analysis Modelling Package with Parameters Estimation
Ability from Individual Patient Level Data
Description: A collection of functions to construct Markov model for model-based
cost-effectiveness analysis. This includes creating Markov model (both time
homogenous and time dependent models), decision analysis, sensitivity
analysis (deterministic and probabilistic). The package allows estimation
of parameters for the Markov model from a given individual patient level
data, provided the data file follows some standard data entry rules.
Author: Sheeja Manchira Krishnan [aut, cre]
Maintainer: Sheeja Manchira Krishnan <sheejamk@gmail.com>
Diff between packDAMipd versions 0.2.0 dated 2021-02-19 and 0.2.1 dated 2021-02-26
DESCRIPTION | 17 +-- MD5 | 38 ++++---- R/3a_trialdata_analysis_input_functions.R | 28 ++++-- R/3b_outcome_analysis_functions.R | 34 +++---- R/3c_costing_medication_functions.R | 2 R/3d_decision_analysis_functions.R | 2 R/help_cost_analysis_functions.R | 16 +-- R/help_parameter_estimation_functions.R | 4 R/help_parameter_estimation_survival.R | 4 README.md | 2 inst/doc/Deterministic_sensitivity_analysis.html | 4 inst/doc/Probabilstic_sensitivity_analysis.html | 40 ++++---- inst/doc/Sick_sicker_age_dependent.html | 4 inst/doc/Simple_sick_sicker.html | 4 inst/doc/cycle_dependent.html | 4 man/get_eq5d_details.Rd | 2 tests/testthat/test-3a_trialdata_analysis_input_functions.R | 8 + tests/testthat/test-3b_outcome_analysis_functions.R | 14 +-- tests/testthat/test-3c_costing_medication_functions.R | 55 ++++++------ tests/testthat/test-help_parameter_estimation_functions.R | 20 ++-- 20 files changed, 161 insertions(+), 141 deletions(-)
Title: Retrieving Information of Proteins from Uniprot
Description: Connect to Uniprot <https://www.uniprot.org/> to retrieve information about proteins using their accession number such information could be name or taxonomy information, For detailed information kindly read the publication <https://www.sciencedirect.com/science/article/pii/S1874391919303859>.
Author: Mohamed Soudy [aut, cre],
Ali Mostafa [aut]
Maintainer: Mohamed Soudy <MohmedSoudy2009@gmail.com>
Diff between UniprotR versions 2.0.3 dated 2021-01-23 and 2.0.4 dated 2021-02-26
DESCRIPTION | 6 ++--- MD5 | 4 +-- R/PathwayAnalysis.R | 54 ++++++++++++++++++++++++++++------------------------ 3 files changed, 35 insertions(+), 29 deletions(-)
Title: Data Quality in Epidemiological Research
Description: A set of functions to assess data quality issues in
studies. See 'TMF' <https://www.tmf-ev.de/EnglishSite/Home.aspx>
guideline and 'DFG' <https://www.dfg.de/en/index.jsp> project at
<https://dfg-qa.ship-med.uni-greifswald.de>.
Author: University Medicine Greifswald [cph],
Adrian Richter [aut],
Carsten Oliver Schmidt [aut],
Stephan Struckmann [aut, cre]
Maintainer: Stephan Struckmann <stephan.struckmann@uni-greifswald.de>
Diff between dataquieR versions 1.0.4 dated 2021-02-02 and 1.0.5 dated 2021-02-26
DESCRIPTION | 27 +++++---- LICENSE |only MD5 | 21 +++---- NEWS.md | 7 ++ R/com_item_missingness.R | 10 +-- R/con_contradictions.R | 3 - R/con_inadmissible_categorical.R | 3 - README.md | 59 +++++++++++++++++++-- inst/doc/DQ-report-example.html | 53 +++++++++--------- man/com_item_missingness.Rd | 10 +-- man/con_contradictions.Rd | 3 - tests/testthat/test-con_inadmissible_categorical.R | 15 +++++ 12 files changed, 147 insertions(+), 64 deletions(-)
Title: Set Operation
Description: More easy to get intersection, union or complementary set and
combinations.
Author: Zhi Jin, Jing Zhang
Maintainer: Zhi Jin <nalanchongxuan@163.com>
Diff between set versions 1.1 dated 2020-02-22 and 1.2 dated 2021-02-26
set-1.1/set/R/a_and.R |only set-1.1/set/R/a_not.R |only set-1.1/set/R/a_or.R |only set-1.1/set/R/grepes_and.R |only set-1.1/set/R/grepes_not.R |only set-1.1/set/R/grepes_or.R |only set-1.1/set/R/is.sub.R |only set-1.1/set/R/toVector.R |only set-1.1/set/man/and2.Rd |only set-1.1/set/man/is.sub.Rd |only set-1.1/set/man/not2.Rd |only set-1.1/set/man/or2.Rd |only set-1.1/set/man/toVector.Rd |only set-1.2/set/DESCRIPTION | 11 ++++++----- set-1.2/set/MD5 | 30 ++++++++++++------------------ set-1.2/set/NAMESPACE | 37 +++++++++++++++++-------------------- set-1.2/set/R/and.R |only set-1.2/set/R/grep.R |only set-1.2/set/R/grepl_not_and_or.R |only set-1.2/set/R/not.R |only set-1.2/set/R/or.R |only set-1.2/set/man/and.Rd | 16 ++++++++++++++-- set-1.2/set/man/grep.Rd |only set-1.2/set/man/grepl.Rd |only set-1.2/set/man/not.Rd | 19 ++++++++++++++++--- set-1.2/set/man/or.Rd | 16 ++++++++++++++-- 26 files changed, 79 insertions(+), 50 deletions(-)
Title: Fast Wild Cluster Bootstrap Inference for Linear Regression
Models
Description: Implementation of the fast algorithm for wild cluster bootstrap
inference developed in Roodman et al (2019, STATA Journal) for
linear regression models
<https://journals.sagepub.com/doi/full/10.1177/1536867X19830877>,
which makes it feasible to quickly calculate bootstrap test
statistics based on a large number of bootstrap draws even for
large samples - as long as the number of bootstrapping clusters
is not too large. Multiway clustering, regression weights,
bootstrap weights, fixed effects and subcluster bootstrapping
are supported. Further, both restricted (WCR) and unrestricted
(WCU) bootstrap are supported. Methods are provided for a variety
of fitted models, including 'lm()', 'feols()'
(from package 'fixest') and 'felm()' (from package 'lfe').
Author: Alexander Fischer [aut, cre],
David Roodman [aut],
Achim Zeileis [ctb] (Author of included sandwich fragments),
Nathaniel Graham [ctb] (Contributor to included sandwich fragments),
Susanne Koell [ctb] (Contributor to included sandwich fragments),
Laurent Berge [ctb] (Author of included fixest fragments),
Sebastian Krantz [ctb]
Maintainer: Alexander Fischer <alexander-fischer1801@t-online.de>
Diff between fwildclusterboot versions 0.3.1 dated 2021-02-16 and 0.3.2 dated 2021-02-26
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 8 +++++++- README.md | 10 +++++++--- build/vignette.rds |binary inst/doc/fwildclusterboot.html | 30 +++++++++++++++--------------- inst/tinytest/test_nthreads.R | 31 +++++++++++++++++++++++++++---- 7 files changed, 66 insertions(+), 33 deletions(-)
More information about fwildclusterboot at CRAN
Permanent link
Title: Nested and Crossed Block Designs for Factorial and Unstructured
Treatment Sets
Description: Constructs treatment and block designs for linear treatment models
with crossed or nested block factors. The treatment design can be any feasible
linear model and the block design can be any feasible combination of crossed or
nested block factors. The block design is a sum of one or more block factors
and the block design is optimized sequentially with the levels of each successive
block factor optimized conditional on all previously optimized block factors.
D-optimality is used throughout except for square or rectangular lattice block designs
which are constructed algebraically using mutually orthogonal Latin squares.
Crossed block designs with interaction effects are optimized using a weighting scheme
which allows for differential weighting of first and second-order block effects.
Outputs include a table showing the allocation of treatments to blocks and tables showing
the achieved D-efficiency factors for each block and treatment design.
Edmondson, R.N. Multi-level Block Designs for Comparative Experiments.
JABES 25, 500–522 (2020) <doi:10.1007/s13253-020-00416-0>.
Author: R. N. Edmondson.
Maintainer: Rodney Edmondson <rodney.edmondson@gmail.com>
Diff between blocksdesign versions 4.7 dated 2021-01-12 and 4.8 dated 2021-02-26
DESCRIPTION | 12 MD5 | 18 NAMESPACE | 2 R/blocks.R | 3 R/blocksdesign-package.R | 118 ++-- R/design.R | 1119 ++++++++++++++++++++++++++-------------------- R/nestedBlocks.R | 3 build/vignette.rds |binary inst/doc/blocksdesign.pdf |binary man/design.Rd | 148 ++---- 10 files changed, 797 insertions(+), 626 deletions(-)
Title: Mixed-Effect Models, Particularly Spatial Models
Description: Inference based on mixed-effect models, including generalized linear mixed models with spatial correlations, multivariate responses, and models with non-Gaussian random effects (e.g., Beta). Various approximations of likelihood or restricted likelihood are implemented, in particular Laplace approximation and h-likelihood (Lee and Nelder 2001 <doi:10.1093/biomet/88.4.987>). Both classical geostatistical models, and Markov random field models on irregular grids (as considered in the 'INLA' package, <https://www.r-inla.org>), can be fitted. Variation in residual variance (heteroscedasticity) can itself be represented by a mixed-effect model.
Author: François Rousset [aut, cre, cph]
(<https://orcid.org/0000-0003-4670-0371>),
Jean-Baptiste Ferdy [aut, cph],
Alexandre Courtiol [aut] (<https://orcid.org/0000-0003-0637-2959>),
GSL authors [ctb] (src/gsl_bessel.*)
Maintainer: François Rousset <francois.rousset@umontpellier.fr>
Diff between spaMM versions 3.6.0 dated 2021-01-15 and 3.7.2 dated 2021-02-26
spaMM-3.6.0/spaMM/tests/testthat/test-IsoriX.R |only spaMM-3.7.2/spaMM/DESCRIPTION | 15 spaMM-3.7.2/spaMM/MD5 | 190 ++- spaMM-3.7.2/spaMM/NAMESPACE | 2 spaMM-3.7.2/spaMM/R/CanonizeRanPars.R | 3 spaMM-3.7.2/spaMM/R/HLCor_body.R | 9 spaMM-3.7.2/spaMM/R/HLFactorList.R | 40 spaMM-3.7.2/spaMM/R/HLfit.R | 65 - spaMM-3.7.2/spaMM/R/HLfit_Internals.R | 459 +++++---- spaMM-3.7.2/spaMM/R/HLfit_body.R | 255 ++--- spaMM-3.7.2/spaMM/R/HLfit_body_augZXy.R | 48 spaMM-3.7.2/spaMM/R/HLframes.R | 181 +-- spaMM-3.7.2/spaMM/R/IRLS_internals.R | 16 spaMM-3.7.2/spaMM/R/LR.R | 49 - spaMM-3.7.2/spaMM/R/LevM_v_h.R | 12 spaMM-3.7.2/spaMM/R/LevM_v_h_spprec.R | 10 spaMM-3.7.2/spaMM/R/LevenbergMstep.R | 2 spaMM-3.7.2/spaMM/R/MakeCovEst.R | 35 spaMM-3.7.2/spaMM/R/RcppExports.R | 52 - spaMM-3.7.2/spaMM/R/augZXy_obj.R |only spaMM-3.7.2/spaMM/R/calc_LRT.R | 20 spaMM-3.7.2/spaMM/R/confint.R | 7 spaMM-3.7.2/spaMM/R/corrHLfit-internals.R | 84 - spaMM-3.7.2/spaMM/R/corrHLfit.R | 2 spaMM-3.7.2/spaMM/R/corrHLfit_body.R | 1 spaMM-3.7.2/spaMM/R/corrPars.R | 2 spaMM-3.7.2/spaMM/R/cov_new_fix.R | 135 ++ spaMM-3.7.2/spaMM/R/determine_spprec.R | 2 spaMM-3.7.2/spaMM/R/extractors.R | 54 - spaMM-3.7.2/spaMM/R/fit_as_ZX.R | 167 +-- spaMM-3.7.2/spaMM/R/fit_as_sparsePrecision.R | 111 +- spaMM-3.7.2/spaMM/R/fitme_body.R | 5 spaMM-3.7.2/spaMM/R/fitme_fitmv_internals.R | 2 spaMM-3.7.2/spaMM/R/fitmecorrHLfit_body_internals.R | 189 ++- spaMM-3.7.2/spaMM/R/fitmv_body.R | 1 spaMM-3.7.2/spaMM/R/geo_info.R | 237 ++-- spaMM-3.7.2/spaMM/R/get_cPredVar.R | 2 spaMM-3.7.2/spaMM/R/get_inits_by_glm.R | 4 spaMM-3.7.2/spaMM/R/hatvalues.R | 1 spaMM-3.7.2/spaMM/R/locoptim.R | 19 spaMM-3.7.2/spaMM/R/multiFRK.R | 4 spaMM-3.7.2/spaMM/R/newPLS.R | 84 - spaMM-3.7.2/spaMM/R/newframe.R |only spaMM-3.7.2/spaMM/R/postfit_internals.R | 35 spaMM-3.7.2/spaMM/R/predict.R | 4 spaMM-3.7.2/spaMM/R/predict_mv.R | 6 spaMM-3.7.2/spaMM/R/preprocess.R | 490 +++------- spaMM-3.7.2/spaMM/R/preprocess_MV.R | 104 +- spaMM-3.7.2/spaMM/R/preprocess_internals.R | 234 ++++ spaMM-3.7.2/spaMM/R/profile.R | 2 spaMM-3.7.2/spaMM/R/sXaug_EigenDense_QRP_Chol_scaled.R | 210 ++-- spaMM-3.7.2/spaMM/R/sXaug_Matrix_QRP_CHM.R | 191 ++- spaMM-3.7.2/spaMM/R/sXaug_sparsePrecisions.R | 207 ++-- spaMM-3.7.2/spaMM/R/safe_opt.R | 54 - spaMM-3.7.2/spaMM/R/separator.R | 1 spaMM-3.7.2/spaMM/R/simulate.HL.R | 11 spaMM-3.7.2/spaMM/R/spaMM.data.R | 22 spaMM-3.7.2/spaMM/R/sparseX.R | 2 spaMM-3.7.2/spaMM/R/step_HLfit.R | 6 spaMM-3.7.2/spaMM/R/summary.HL.R | 4 spaMM-3.7.2/spaMM/R/terms.R | 47 spaMM-3.7.2/spaMM/R/update.HL.R | 51 - spaMM-3.7.2/spaMM/build/partial.rdb |binary spaMM-3.7.2/spaMM/inst/NEWS.Rd | 19 spaMM-3.7.2/spaMM/man/GLM.fit.Rd | 2 spaMM-3.7.2/spaMM/man/Matern.corr.Rd | 9 spaMM-3.7.2/spaMM/man/arabidopsis.Rd | 2 spaMM-3.7.2/spaMM/man/convergence.Rd | 6 spaMM-3.7.2/spaMM/man/eval_replicate.Rd | 2 spaMM-3.7.2/spaMM/man/extractors.Rd | 2 spaMM-3.7.2/spaMM/man/libraries.Rd | 11 spaMM-3.7.2/spaMM/man/summary.HL.Rd | 2 spaMM-3.7.2/spaMM/src/PLS.cpp | 59 + spaMM-3.7.2/spaMM/src/RcppExports.cpp | 152 ++- spaMM-3.7.2/spaMM/src/internals.cpp |only spaMM-3.7.2/spaMM/src/internals.h |only spaMM-3.7.2/spaMM/src/spaMM_linear.cpp | 99 +- spaMM-3.7.2/spaMM/tests/test-all.R | 9 spaMM-3.7.2/spaMM/tests/testthat/nestedFiles/test-mv-nested.R |only spaMM-3.7.2/spaMM/tests/testthat/test-AR1.R | 21 spaMM-3.7.2/spaMM/tests/testthat/test-CAR.R | 6 spaMM-3.7.2/spaMM/tests/testthat/test-COMPoisson.R | 6 spaMM-3.7.2/spaMM/tests/testthat/test-Infusion.R | 4 spaMM-3.7.2/spaMM/tests/testthat/test-IsoriX-new.R |only spaMM-3.7.2/spaMM/tests/testthat/test-LRT-boot.R | 7 spaMM-3.7.2/spaMM/tests/testthat/test-Nugget.R | 5 spaMM-3.7.2/spaMM/tests/testthat/test-Rasch.R | 4 spaMM-3.7.2/spaMM/tests/testthat/test-adjacency-corrMatrix.R | 10 spaMM-3.7.2/spaMM/tests/testthat/test-adjacency-long.R | 5 spaMM-3.7.2/spaMM/tests/testthat/test-cloglog.R | 5 spaMM-3.7.2/spaMM/tests/testthat/test-more-predict.R | 7 spaMM-3.7.2/spaMM/tests/testthat/test-mv.R |only spaMM-3.7.2/spaMM/tests/testthat/test-pedigree.R | 4 spaMM-3.7.2/spaMM/tests/testthat/test-poly.R | 12 spaMM-3.7.2/spaMM/tests/testthat/test-predVar-Matern-corrMatrix.R | 5 spaMM-3.7.2/spaMM/tests/testthat/test-predVar.R | 21 spaMM-3.7.2/spaMM/tests/testthat/test-ranCoefs.R | 5 spaMM-3.7.2/spaMM/tests/testthat/test-random-slope.R | 24 spaMM-3.7.2/spaMM/tests/testthat/test-spaMM.R | 7 spaMM-3.7.2/spaMM/tests/testthat/test-truncated.R | 4 100 files changed, 2791 insertions(+), 2002 deletions(-)
Title: Fitting Discrete Distribution Models to Count Data
Description: Provides functions for fitting discrete distribution models to count data.
Included are the Poisson, the negative binomial, the Poisson-inverse gaussian and, most importantly,
a new implementation of the Poisson-beta distribution (density, distribution and quantile
functions, and random number generator) together with a needed new implementation of
Kummer's function (also: confluent hypergeometric function of the first kind). Three
different implementations of the Gillespie algorithm allow data simulation based on the
basic, switching or bursting mRNA generating processes. Moreover, likelihood functions for
four variants of each of the three aforementioned distributions are also available.
The variants include one population and two population mixtures, both with and without
zero-inflation. The package depends on the 'MPFR' libraries (<https://www.mpfr.org/>) which need to be installed separately
(see description at <https://github.com/fuchslab/scModels>).
This package is supplement to the paper "A mechanistic model for the negative binomial distribution of single-cell mRNA counts"
by Lisa Amrhein, Kumar Harsha and Christiane Fuchs (2019) <doi:10.1101/657619> available on bioRxiv.
Author: Lisa Amrhein [aut, cre],
Kumar Harsha [aut],
Christiane Fuchs [aut],
Pavel Holoborodko [ctb] (Author and copyright holder of 'mpreal.h')
Maintainer: Lisa Amrhein <amrheinlisa@gmail.com>
Diff between scModels versions 1.0.1 dated 2019-09-02 and 1.0.2 dated 2021-02-26
DESCRIPTION | 12 MD5 | 49 NAMESPACE | 84 + NEWS.md | 37 R/RcppExports.R | 105 +- R/gillespie.R | 187 ++- R/log_likelihood.R | 1286 +++++++++++++++---------- R/par_est_fns.R | 655 +++++++----- R/pb.R | 147 +- man/Inverse-Gaussian.Rd |only man/Poisson-beta.Rd | 114 +- man/chf_1F1.Rd | 47 man/fit_params.Rd | 64 - man/gmRNA.Rd | 109 +- man/nlogL.Rd | 303 +++-- src/RcppExports.cpp | 28 src/gillespie.cpp | 166 +++ src/pb.cpp | 7 src/scModels_init.c | 5 tests/testthat.R | 8 tests/testthat/test-NAs.R | 56 - tests/testthat/test-chf_1F1.R | 10 tests/testthat/test-discrete-sum.R | 14 tests/testthat/test-discrete.R | 28 tests/testthat/test-inappropriate-parameters.R | 54 - tests/testthat/test-likelihood.R | 64 - 26 files changed, 2236 insertions(+), 1403 deletions(-)
Title: Make Dealing with Dates a Little Easier
Description: Functions to work with date-times and time-spans:
fast and user friendly parsing of date-time data, extraction and
updating of components of a date-time (years, months, days, hours,
minutes, and seconds), algebraic manipulation on date-time and
time-span objects. The 'lubridate' package has a consistent and
memorable syntax that makes working with dates easy and fun. Parts of
the 'CCTZ' source code, released under the Apache 2.0 License, are
included in this package. See <https://github.com/google/cctz> for
more details.
Author: Vitalie Spinu [aut, cre],
Garrett Grolemund [aut],
Hadley Wickham [aut],
Ian Lyttle [ctb],
Imanuel Costigan [ctb],
Jason Law [ctb],
Doug Mitarotonda [ctb],
Joseph Larmarange [ctb],
Jonathan Boiser [ctb],
Chel Hee Lee [ctb],
Google Inc. [ctb, cph]
Maintainer: Vitalie Spinu <spinuvit@gmail.com>
Diff between lubridate versions 1.7.9.2 dated 2020-11-13 and 1.7.10 dated 2021-02-26
DESCRIPTION | 6 - MD5 | 28 ++--- NEWS.md | 12 ++ R/coercion.r | 20 ++-- R/ops-division.r | 8 - R/parse.r | 175 +++++++++++++++++++------------------ R/zzz.R | 6 - inst/doc/lubridate.html | 19 +++- man/as_date.Rd | 18 ++- man/parse_date_time.Rd | 121 ++++++++++++------------- src/cctz/src/time_zone_libc.cc | 8 + src/tparse.c | 2 src/utils.c | 4 tests/testthat/test-ops-division.R | 10 +- tests/testthat/test-parsers.R | 28 +++++ 15 files changed, 281 insertions(+), 184 deletions(-)
Title: Simulate Admixture of Genomes
Description: Individual-based simulations forward in time,
simulating how patterns in ancestry along the genome change after
admixture. Full description can be found in Janzen (2020)
<doi:10.1101/2020.10.19.343491>.
Author: Thijs Janzen [aut, cre],
Fernando Diaz G. [ctb],
Richèl J.C. Bilderbeek [ctb]
Maintainer: Thijs Janzen <thijsjanzen@gmail.com>
Diff between GenomeAdmixR versions 1.1.3 dated 2021-01-24 and 2.0.2 dated 2021-02-26
GenomeAdmixR-1.1.3/GenomeAdmixR/R/iso_female.R |only GenomeAdmixR-1.1.3/GenomeAdmixR/R/simulate_admixture_migration.R |only GenomeAdmixR-1.1.3/GenomeAdmixR/R/simulate_admixture_until.R |only GenomeAdmixR-1.1.3/GenomeAdmixR/man/simulate_admixture_migration.Rd |only GenomeAdmixR-1.1.3/GenomeAdmixR/src/random_functions.cpp |only GenomeAdmixR-1.1.3/GenomeAdmixR/tests/testthat/test.pop |only GenomeAdmixR-2.0.2/GenomeAdmixR/DESCRIPTION | 21 GenomeAdmixR-2.0.2/GenomeAdmixR/MD5 | 194 + GenomeAdmixR-2.0.2/GenomeAdmixR/NAMESPACE | 17 GenomeAdmixR-2.0.2/GenomeAdmixR/R/RcppExports.R | 28 GenomeAdmixR-2.0.2/GenomeAdmixR/R/ancestry_module.R |only GenomeAdmixR-2.0.2/GenomeAdmixR/R/calculate_allele_frequencies.R | 20 GenomeAdmixR-2.0.2/GenomeAdmixR/R/calculate_fst.R | 29 GenomeAdmixR-2.0.2/GenomeAdmixR/R/calculate_heterozygosity.R | 2 GenomeAdmixR-2.0.2/GenomeAdmixR/R/calculate_ld.R | 83 GenomeAdmixR-2.0.2/GenomeAdmixR/R/calculate_marker_frequency.R | 18 GenomeAdmixR-2.0.2/GenomeAdmixR/R/create_input_data.R |only GenomeAdmixR-2.0.2/GenomeAdmixR/R/create_iso_female.R |only GenomeAdmixR-2.0.2/GenomeAdmixR/R/create_iso_female_data.R |only GenomeAdmixR-2.0.2/GenomeAdmixR/R/data.R |only GenomeAdmixR-2.0.2/GenomeAdmixR/R/joyplot_frequencies.R | 25 GenomeAdmixR-2.0.2/GenomeAdmixR/R/junctions.R | 4 GenomeAdmixR-2.0.2/GenomeAdmixR/R/migration_settings.R |only GenomeAdmixR-2.0.2/GenomeAdmixR/R/plot_chromosome.R | 25 GenomeAdmixR-2.0.2/GenomeAdmixR/R/plot_difference_frequencies.R | 30 GenomeAdmixR-2.0.2/GenomeAdmixR/R/plot_frequencies.R | 18 GenomeAdmixR-2.0.2/GenomeAdmixR/R/plot_over_time.R | 12 GenomeAdmixR-2.0.2/GenomeAdmixR/R/plot_start_end.R | 40 GenomeAdmixR-2.0.2/GenomeAdmixR/R/sequence_module.R |only GenomeAdmixR-2.0.2/GenomeAdmixR/R/simulate_admixture.R | 283 +- GenomeAdmixR-2.0.2/GenomeAdmixR/R/simulate_ancestry.R |only GenomeAdmixR-2.0.2/GenomeAdmixR/R/simulate_ancestry_migration.R |only GenomeAdmixR-2.0.2/GenomeAdmixR/R/simulate_ancestry_until.R |only GenomeAdmixR-2.0.2/GenomeAdmixR/R/simulate_sequence.R |only GenomeAdmixR-2.0.2/GenomeAdmixR/R/simulate_sequence_migration.R |only GenomeAdmixR-2.0.2/GenomeAdmixR/R/simulate_sequence_until.R |only GenomeAdmixR-2.0.2/GenomeAdmixR/R/utilities.R | 281 ++ GenomeAdmixR-2.0.2/GenomeAdmixR/README.md | 7 GenomeAdmixR-2.0.2/GenomeAdmixR/build/vignette.rds |binary GenomeAdmixR-2.0.2/GenomeAdmixR/data |only GenomeAdmixR-2.0.2/GenomeAdmixR/inst/doc/Demonstrate_isofemales.R | 45 GenomeAdmixR-2.0.2/GenomeAdmixR/inst/doc/Demonstrate_isofemales.Rmd | 45 GenomeAdmixR-2.0.2/GenomeAdmixR/inst/doc/Demonstrate_isofemales.html | 669 +++--- GenomeAdmixR-2.0.2/GenomeAdmixR/inst/doc/Empirical_data.R |only GenomeAdmixR-2.0.2/GenomeAdmixR/inst/doc/Empirical_data.Rmd |only GenomeAdmixR-2.0.2/GenomeAdmixR/inst/doc/Empirical_data.html |only GenomeAdmixR-2.0.2/GenomeAdmixR/inst/doc/Joyplots.R | 13 GenomeAdmixR-2.0.2/GenomeAdmixR/inst/doc/Joyplots.Rmd | 16 GenomeAdmixR-2.0.2/GenomeAdmixR/inst/doc/Joyplots.html | 559 +++-- GenomeAdmixR-2.0.2/GenomeAdmixR/inst/doc/Visualization.R | 13 GenomeAdmixR-2.0.2/GenomeAdmixR/inst/doc/Visualization.Rmd | 47 GenomeAdmixR-2.0.2/GenomeAdmixR/inst/doc/Visualization.html | 604 ++++-- GenomeAdmixR-2.0.2/GenomeAdmixR/inst/doc/Walkthrough.R | 129 - GenomeAdmixR-2.0.2/GenomeAdmixR/inst/doc/Walkthrough.Rmd | 131 - GenomeAdmixR-2.0.2/GenomeAdmixR/inst/doc/Walkthrough.html | 976 +++++----- GenomeAdmixR-2.0.2/GenomeAdmixR/man/GenomeAdmixR-package.Rd | 5 GenomeAdmixR-2.0.2/GenomeAdmixR/man/ancestry_module.Rd |only GenomeAdmixR-2.0.2/GenomeAdmixR/man/calculate_allele_frequencies.Rd | 11 GenomeAdmixR-2.0.2/GenomeAdmixR/man/calculate_fst.Rd | 9 GenomeAdmixR-2.0.2/GenomeAdmixR/man/calculate_heterozygosity.Rd | 2 GenomeAdmixR-2.0.2/GenomeAdmixR/man/calculate_ld.Rd | 24 GenomeAdmixR-2.0.2/GenomeAdmixR/man/calculate_marker_frequency.Rd | 9 GenomeAdmixR-2.0.2/GenomeAdmixR/man/combine_input_data.Rd |only GenomeAdmixR-2.0.2/GenomeAdmixR/man/create_artificial_genomeadmixr_data.Rd |only GenomeAdmixR-2.0.2/GenomeAdmixR/man/create_iso_female.Rd | 38 GenomeAdmixR-2.0.2/GenomeAdmixR/man/dgrp2.3R.5k.data.Rd |only GenomeAdmixR-2.0.2/GenomeAdmixR/man/iso_female_ancestry.Rd |only GenomeAdmixR-2.0.2/GenomeAdmixR/man/iso_female_sequence.Rd |only GenomeAdmixR-2.0.2/GenomeAdmixR/man/migration_settings.Rd |only GenomeAdmixR-2.0.2/GenomeAdmixR/man/plink_to_genomeadmixr_data.Rd |only GenomeAdmixR-2.0.2/GenomeAdmixR/man/plot_chromosome.Rd | 19 GenomeAdmixR-2.0.2/GenomeAdmixR/man/plot_difference_frequencies.Rd | 17 GenomeAdmixR-2.0.2/GenomeAdmixR/man/plot_frequencies.Rd | 8 GenomeAdmixR-2.0.2/GenomeAdmixR/man/plot_joyplot_frequencies.Rd | 13 GenomeAdmixR-2.0.2/GenomeAdmixR/man/plot_over_time.Rd | 10 GenomeAdmixR-2.0.2/GenomeAdmixR/man/plot_start_end.Rd | 11 GenomeAdmixR-2.0.2/GenomeAdmixR/man/print.genomeadmixr_data.Rd |only GenomeAdmixR-2.0.2/GenomeAdmixR/man/read_input_data.Rd |only GenomeAdmixR-2.0.2/GenomeAdmixR/man/sequence_module.Rd |only GenomeAdmixR-2.0.2/GenomeAdmixR/man/simulate_admixture.Rd | 76 GenomeAdmixR-2.0.2/GenomeAdmixR/man/simulate_ancestry.Rd |only GenomeAdmixR-2.0.2/GenomeAdmixR/man/simulate_ancestry_migration.Rd |only GenomeAdmixR-2.0.2/GenomeAdmixR/man/simulate_sequence.Rd |only GenomeAdmixR-2.0.2/GenomeAdmixR/man/simulate_sequence_migration.Rd |only GenomeAdmixR-2.0.2/GenomeAdmixR/man/simulation_data_to_genomeadmixr_data.Rd |only GenomeAdmixR-2.0.2/GenomeAdmixR/man/vcfR_to_genomeadmixr_data.Rd |only GenomeAdmixR-2.0.2/GenomeAdmixR/man/write_as_plink.Rd |only GenomeAdmixR-2.0.2/GenomeAdmixR/src/Fish.cpp | 120 - GenomeAdmixR-2.0.2/GenomeAdmixR/src/Fish.h | 4 GenomeAdmixR-2.0.2/GenomeAdmixR/src/Fish_emp.h |only GenomeAdmixR-2.0.2/GenomeAdmixR/src/Makevars | 1 GenomeAdmixR-2.0.2/GenomeAdmixR/src/Makevars.win | 2 GenomeAdmixR-2.0.2/GenomeAdmixR/src/RcppExports.cpp | 113 + GenomeAdmixR-2.0.2/GenomeAdmixR/src/helper_functions.cpp | 750 ++++++- GenomeAdmixR-2.0.2/GenomeAdmixR/src/helper_functions.h | 68 GenomeAdmixR-2.0.2/GenomeAdmixR/src/random_functions.h | 107 + GenomeAdmixR-2.0.2/GenomeAdmixR/src/simulate.cpp | 181 + GenomeAdmixR-2.0.2/GenomeAdmixR/src/simulate_emp.cpp |only GenomeAdmixR-2.0.2/GenomeAdmixR/src/simulate_migration.cpp | 275 ++ GenomeAdmixR-2.0.2/GenomeAdmixR/src/simulate_migration_emp.cpp |only GenomeAdmixR-2.0.2/GenomeAdmixR/tests/testthat/Rplots.pdf |binary GenomeAdmixR-2.0.2/GenomeAdmixR/tests/testthat/test-LD.R | 85 GenomeAdmixR-2.0.2/GenomeAdmixR/tests/testthat/test-allele_frequencies.R | 63 GenomeAdmixR-2.0.2/GenomeAdmixR/tests/testthat/test-combined_input_data.R |only GenomeAdmixR-2.0.2/GenomeAdmixR/tests/testthat/test-fst.R | 43 GenomeAdmixR-2.0.2/GenomeAdmixR/tests/testthat/test-general_usage.R |only GenomeAdmixR-2.0.2/GenomeAdmixR/tests/testthat/test-isoFemales.R | 95 GenomeAdmixR-2.0.2/GenomeAdmixR/tests/testthat/test-joyplot.R | 14 GenomeAdmixR-2.0.2/GenomeAdmixR/tests/testthat/test-junctions.R | 23 GenomeAdmixR-2.0.2/GenomeAdmixR/tests/testthat/test-plink.R |only GenomeAdmixR-2.0.2/GenomeAdmixR/tests/testthat/test-save_load.R | 18 GenomeAdmixR-2.0.2/GenomeAdmixR/tests/testthat/test-selection.R | 135 - GenomeAdmixR-2.0.2/GenomeAdmixR/tests/testthat/test-simulate_admixture.R | 163 - GenomeAdmixR-2.0.2/GenomeAdmixR/tests/testthat/test-simulate_admixture_data.R |only GenomeAdmixR-2.0.2/GenomeAdmixR/tests/testthat/test-simulate_admixture_migration_data.R |only GenomeAdmixR-2.0.2/GenomeAdmixR/tests/testthat/test-simulate_admixture_until.R | 86 GenomeAdmixR-2.0.2/GenomeAdmixR/tests/testthat/test-simulate_migration.R | 151 - GenomeAdmixR-2.0.2/GenomeAdmixR/tests/testthat/test-utilities.R | 62 GenomeAdmixR-2.0.2/GenomeAdmixR/vignettes/Demonstrate_isofemales.Rmd | 45 GenomeAdmixR-2.0.2/GenomeAdmixR/vignettes/Empirical_data.Rmd |only GenomeAdmixR-2.0.2/GenomeAdmixR/vignettes/Joyplots.Rmd | 16 GenomeAdmixR-2.0.2/GenomeAdmixR/vignettes/Visualization.Rmd | 47 GenomeAdmixR-2.0.2/GenomeAdmixR/vignettes/Walkthrough.Rmd | 131 - 123 files changed, 4679 insertions(+), 2755 deletions(-)
Title: Reusable Assisting Functions for Child Mortality Estimation
Description: Provide helper functions for UNICEF child mortality estimation.
Author: Yang Liu [aut, cre] (<https://orcid.org/0000-0001-6557-6439>)
Maintainer: Yang Liu <lyhello@gmail.com>
Diff between CME.assistant versions 1.1.1 dated 2020-12-15 and 1.1.3 dated 2021-02-26
CME.assistant-1.1.1/CME.assistant/data/default_label_1.rda |only CME.assistant-1.1.1/CME.assistant/man/default_label_1.Rd |only CME.assistant-1.1.1/CME.assistant/man/fc.Rd |only CME.assistant-1.1.3/CME.assistant/DESCRIPTION | 9 CME.assistant-1.1.3/CME.assistant/MD5 | 77 +- CME.assistant-1.1.3/CME.assistant/NAMESPACE | 6 CME.assistant-1.1.3/CME.assistant/R/0.directories.R |only CME.assistant-1.1.3/CME.assistant/R/1.data_engineering.R | 121 +++ CME.assistant-1.1.3/CME.assistant/R/2.plots.R | 9 CME.assistant-1.1.3/CME.assistant/R/3.data_subset_dataset.R | 379 ---------- CME.assistant-1.1.3/CME.assistant/R/misc.R | 2 CME.assistant-1.1.3/CME.assistant/R/mydata.R | 8 CME.assistant-1.1.3/CME.assistant/README.md | 15 CME.assistant-1.1.3/CME.assistant/data/default_label.rda |only CME.assistant-1.1.3/CME.assistant/data/shortind_indicator.rda |only CME.assistant-1.1.3/CME.assistant/inst/doc/CMEvignette1.R | 10 CME.assistant-1.1.3/CME.assistant/inst/doc/CMEvignette1.Rmd | 13 CME.assistant-1.1.3/CME.assistant/inst/doc/CMEvignette1.html | 47 - CME.assistant-1.1.3/CME.assistant/man/add.new.series.imr.Rd | 2 CME.assistant-1.1.3/CME.assistant/man/add.new.series.nmr.Rd | 5 CME.assistant-1.1.3/CME.assistant/man/add.new.series.u5mr.Rd | 2 CME.assistant-1.1.3/CME.assistant/man/default_label.Rd |only CME.assistant-1.1.3/CME.assistant/man/find_latest_date.Rd | 32 CME.assistant-1.1.3/CME.assistant/man/get.IGME.dir.Rd | 36 CME.assistant-1.1.3/CME.assistant/man/get.IGMEfig.dir.Rd | 38 - CME.assistant-1.1.3/CME.assistant/man/get.IGMEinput.dir.Rd | 36 CME.assistant-1.1.3/CME.assistant/man/get.IGMEoutput.dir.Rd | 38 - CME.assistant-1.1.3/CME.assistant/man/get.country.info.Rd | 2 CME.assistant-1.1.3/CME.assistant/man/get.dir_IMR.Rd | 36 CME.assistant-1.1.3/CME.assistant/man/get.dir_NMR.Rd | 36 CME.assistant-1.1.3/CME.assistant/man/get.dir_U5MR.Rd | 38 - CME.assistant-1.1.3/CME.assistant/man/get.dir_gender.Rd | 40 - CME.assistant-1.1.3/CME.assistant/man/get.file.name.Rd | 48 - CME.assistant-1.1.3/CME.assistant/man/get.max.date.Rd | 38 - CME.assistant-1.1.3/CME.assistant/man/get.opt.dir.Rd | 52 - CME.assistant-1.1.3/CME.assistant/man/get.raw.dir.Rd | 52 - CME.assistant-1.1.3/CME.assistant/man/get.ref.date.Rd | 46 - CME.assistant-1.1.3/CME.assistant/man/leap_year.Rd |only CME.assistant-1.1.3/CME.assistant/man/load.IGMEinput.dir.Rd | 30 CME.assistant-1.1.3/CME.assistant/man/load.IGMEoutput.dir.Rd | 30 CME.assistant-1.1.3/CME.assistant/man/read.country.summary.Rd |only CME.assistant-1.1.3/CME.assistant/man/read.region.summary.Rd |only CME.assistant-1.1.3/CME.assistant/man/revise.path.Rd | 32 CME.assistant-1.1.3/CME.assistant/man/shortind_indicator.Rd |only CME.assistant-1.1.3/CME.assistant/vignettes/CMEvignette1.Rmd | 13 45 files changed, 608 insertions(+), 770 deletions(-)
Title: Within Outlying Mean Indexes: Refining the OMI Analysis
Description: Complementary indexes calculation to the Outlying Mean Index analysis to explore niche shift of a community and biological constraint within an Euclidean space, with graphical displays. For details see Karasiewicz et al. (2017) <doi:10.7717/Peerj.3364>.
Author: Stephane Karasiewicz [aut, cre]
(<https://orcid.org/0000-0003-1652-9921>)
Maintainer: Stephane Karasiewicz <skaraz.science@gmail.com>
Diff between subniche versions 1.3 dated 2020-06-23 and 1.4 dated 2021-02-26
subniche-1.3/subniche/R/margvect.R |only subniche-1.3/subniche/man/margvect.Rd |only subniche-1.4/subniche/DESCRIPTION | 18 +- subniche-1.4/subniche/MD5 | 49 +++--- subniche-1.4/subniche/NAMESPACE | 5 subniche-1.4/subniche/R/data.R | 8 - subniche-1.4/subniche/R/eigenbar.R |only subniche-1.4/subniche/R/plot.subniche.R | 223 +++++++++++++++-------------- subniche-1.4/subniche/R/plot_NR.R |only subniche-1.4/subniche/R/plot_NR_sp.R |only subniche-1.4/subniche/R/plot_dym.R | 23 ++ subniche-1.4/subniche/R/plot_dym_sp.R | 2 subniche-1.4/subniche/R/subarea.R | 12 + subniche-1.4/subniche/R/subniche.R | 9 - subniche-1.4/subniche/R/subplot.R | 22 +- subniche-1.4/subniche/R/subplot_K.R |only subniche-1.4/subniche/R/subplot_sp.R | 2 subniche-1.4/subniche/build |only subniche-1.4/subniche/man/ardecheinv.Rd | 4 subniche-1.4/subniche/man/drome.Rd | 4 subniche-1.4/subniche/man/eigenbar.Rd |only subniche-1.4/subniche/man/plot.subniche.Rd | 72 +++------ subniche-1.4/subniche/man/plot_NR.Rd |only subniche-1.4/subniche/man/plot_NR_sp.Rd |only subniche-1.4/subniche/man/plot_dym.Rd | 18 +- subniche-1.4/subniche/man/plot_dym_sp.Rd | 2 subniche-1.4/subniche/man/subarea.Rd | 7 subniche-1.4/subniche/man/subniche.Rd | 7 subniche-1.4/subniche/man/subplot.Rd | 13 + subniche-1.4/subniche/man/subplot_K.Rd |only subniche-1.4/subniche/man/subplot_sp.Rd | 2 31 files changed, 273 insertions(+), 229 deletions(-)
Title: Growth Charts via Smooth Regression Quantiles with Automatic
Smoothness Estimation and Additive Terms
Description: Fits non-crossing regression quantiles as a function of linear covariates and multiple smooth terms via B-splines with L1-norm difference penalties. The smoothing parameters are estimated as part of the model fitting. Monotonicity and concavity constraints on the fitted curves are allowed. See Muggeo, Sciandra, Tomasello and Calvo (2013) <doi:10.1007/s10651-012-0232-1> and <doi:10.13140/RG.2.2.12924.85122> for some code examples.
Smoothing parameter selection with additive terms is discussed in Muggeo and others (2020) <doi:10.1177/1471082X20929802>.
Author: Vito M. R. Muggeo [aut, cre] (<https://orcid.org/0000-0002-3386-4054>)
Maintainer: Vito M. R. Muggeo <vito.muggeo@unipa.it>
Diff between quantregGrowth versions 0.4-3 dated 2018-09-20 and 1.0-0 dated 2021-02-26
quantregGrowth-0.4-3/quantregGrowth/R/gcrq.R |only quantregGrowth-0.4-3/quantregGrowth/R/ncross.rq.fitXB.R |only quantregGrowth-1.0-0/quantregGrowth/DESCRIPTION | 14 quantregGrowth-1.0-0/quantregGrowth/MD5 | 46 - quantregGrowth-1.0-0/quantregGrowth/NAMESPACE | 7 quantregGrowth-1.0-0/quantregGrowth/NEWS | 30 quantregGrowth-1.0-0/quantregGrowth/R/gcrq.r |only quantregGrowth-1.0-0/quantregGrowth/R/gcrq.rq.cv.R | 42 - quantregGrowth-1.0-0/quantregGrowth/R/ncross.rq.fitX.R | 17 quantregGrowth-1.0-0/quantregGrowth/R/ncross.rq.fitXB.r |only quantregGrowth-1.0-0/quantregGrowth/R/plot.gcrq.R | 343 ++++++---- quantregGrowth-1.0-0/quantregGrowth/R/predict.gcrq.R | 49 + quantregGrowth-1.0-0/quantregGrowth/R/print.gcrq.R | 38 - quantregGrowth-1.0-0/quantregGrowth/R/ps.R | 70 +- quantregGrowth-1.0-0/quantregGrowth/R/summary.gcrq.R | 34 quantregGrowth-1.0-0/quantregGrowth/R/vcov.gcrq.r | 50 + quantregGrowth-1.0-0/quantregGrowth/inst/CITATION | 14 quantregGrowth-1.0-0/quantregGrowth/man/gcrq.Rd | 184 +++-- quantregGrowth-1.0-0/quantregGrowth/man/ncross.rq.fitXB.Rd | 70 +- quantregGrowth-1.0-0/quantregGrowth/man/plot.gcrq.Rd | 58 + quantregGrowth-1.0-0/quantregGrowth/man/predict.gcrq.Rd | 11 quantregGrowth-1.0-0/quantregGrowth/man/print.gcrq.Rd | 2 quantregGrowth-1.0-0/quantregGrowth/man/ps.Rd | 71 +- quantregGrowth-1.0-0/quantregGrowth/man/quantregGrowth-package.Rd | 14 quantregGrowth-1.0-0/quantregGrowth/man/summary.gcrq.Rd | 9 quantregGrowth-1.0-0/quantregGrowth/man/vcov.gcrq.Rd | 9 26 files changed, 808 insertions(+), 374 deletions(-)
More information about quantregGrowth at CRAN
Permanent link
Title: Nonnegative Integer Solutions of Linear Diophantine Equations
with Applications
Description: Routines for enumerating all existing nonnegative integer solutions of a linear Diophantine equation. The package provides routines for solving 0-1, bounded and unbounded knapsack problems; 0-1, bounded and unbounded subset sum problems; additive partitioning of natural numbers; and one-dimensional bin-packing problem.
Author: Natalya Pya Arnqvist[aut, cre],
Vassilly Voinov [aut],
Rashid Makarov [aut],
Yevgeniy Voinov [aut]
Maintainer: Natalya Pya Arnqvist <nat.pya@gmail.com>
Diff between nilde versions 1.1-3 dated 2019-09-02 and 1.1-4 dated 2021-02-26
ChangeLog |only DESCRIPTION | 9 +++++---- MD5 | 29 ++++++++++++++++------------- NAMESPACE | 3 +++ R/knap.r | 12 ++++++++---- R/nlde.R | 8 +++++--- R/subsetsum.r | 6 +++--- R/tsp_solving.r |only build/partial.rdb |binary man/bin.packing.Rd | 5 ++--- man/get.knapsack.Rd | 7 +++---- man/get.partitions.Rd | 2 +- man/get.subsetsum.Rd | 2 +- man/nilde-package.Rd | 10 ++++++---- man/nlde.Rd | 2 +- man/print.partitions.Rd | 4 +++- man/tsp_solver.Rd |only 17 files changed, 57 insertions(+), 42 deletions(-)
Title: Interface to the 'Microsoft 365' Suite of Cloud Services
Description: An interface to the 'Microsoft 365' (formerly known as 'Office 365') suite of cloud services, building on the framework supplied by the 'AzureGraph' package. Enables access from R to data stored in 'Teams', 'SharePoint Online' and 'OneDrive', including the ability to list drive folder contents, upload and download files, send messages, and retrieve data lists.
Author: Hong Ooi [aut, cre],
Microsoft [cph]
Maintainer: Hong Ooi <hongooi73@gmail.com>
Diff between Microsoft365R versions 1.0.0 dated 2021-01-27 and 2.0.0 dated 2021-02-26
Microsoft365R-1.0.0/Microsoft365R/R/ms_sharepoint_list.R |only Microsoft365R-1.0.0/Microsoft365R/inst/doc/Microsoft365R.Rmd |only Microsoft365R-1.0.0/Microsoft365R/inst/doc/Microsoft365R.html |only Microsoft365R-1.0.0/Microsoft365R/man/get_sharepoint_site.Rd |only Microsoft365R-1.0.0/Microsoft365R/vignettes/Microsoft365R.Rmd |only Microsoft365R-2.0.0/Microsoft365R/DESCRIPTION | 12 Microsoft365R-2.0.0/Microsoft365R/MD5 | 71 ++- Microsoft365R-2.0.0/Microsoft365R/NAMESPACE | 9 Microsoft365R-2.0.0/Microsoft365R/NEWS.md |only Microsoft365R-2.0.0/Microsoft365R/R/Microsoft365R.R | 13 Microsoft365R-2.0.0/Microsoft365R/R/add_methods.R | 86 +++- Microsoft365R-2.0.0/Microsoft365R/R/client.R | 180 +++++++-- Microsoft365R-2.0.0/Microsoft365R/R/client_deprecated.R |only Microsoft365R-2.0.0/Microsoft365R/R/ms_channel.R |only Microsoft365R-2.0.0/Microsoft365R/R/ms_chat_message.R |only Microsoft365R-2.0.0/Microsoft365R/R/ms_drive.R | 137 +----- Microsoft365R-2.0.0/Microsoft365R/R/ms_drive_item.R | 199 +++++++++- Microsoft365R-2.0.0/Microsoft365R/R/ms_list.R |only Microsoft365R-2.0.0/Microsoft365R/R/ms_list_item.R | 29 - Microsoft365R-2.0.0/Microsoft365R/R/ms_site.R | 23 - Microsoft365R-2.0.0/Microsoft365R/R/ms_team.R |only Microsoft365R-2.0.0/Microsoft365R/README.md | 110 ++--- Microsoft365R-2.0.0/Microsoft365R/build/vignette.rds |binary Microsoft365R-2.0.0/Microsoft365R/inst/app_registration.md |only Microsoft365R-2.0.0/Microsoft365R/inst/doc/auth.Rmd |only Microsoft365R-2.0.0/Microsoft365R/inst/doc/auth.html |only Microsoft365R-2.0.0/Microsoft365R/inst/doc/od_sp.Rmd |only Microsoft365R-2.0.0/Microsoft365R/inst/doc/od_sp.html |only Microsoft365R-2.0.0/Microsoft365R/inst/doc/teams.Rmd |only Microsoft365R-2.0.0/Microsoft365R/inst/doc/teams.html |only Microsoft365R-2.0.0/Microsoft365R/man/Microsoft365R-deprecated.Rd |only Microsoft365R-2.0.0/Microsoft365R/man/add_methods.Rd |only Microsoft365R-2.0.0/Microsoft365R/man/client.Rd | 122 ++++-- Microsoft365R-2.0.0/Microsoft365R/man/ms_channel.Rd |only Microsoft365R-2.0.0/Microsoft365R/man/ms_chat_message.Rd |only Microsoft365R-2.0.0/Microsoft365R/man/ms_drive.Rd | 44 -- Microsoft365R-2.0.0/Microsoft365R/man/ms_drive_item.Rd | 58 ++ Microsoft365R-2.0.0/Microsoft365R/man/ms_list.Rd | 18 Microsoft365R-2.0.0/Microsoft365R/man/ms_list_item.Rd | 6 Microsoft365R-2.0.0/Microsoft365R/man/ms_site.Rd | 7 Microsoft365R-2.0.0/Microsoft365R/man/ms_team.Rd |only Microsoft365R-2.0.0/Microsoft365R/tests/resources/logo_small.jpg |only Microsoft365R-2.0.0/Microsoft365R/tests/testthat/setup.R | 3 Microsoft365R-2.0.0/Microsoft365R/tests/testthat/test01_onedrive.R | 87 ++++ Microsoft365R-2.0.0/Microsoft365R/tests/testthat/test02_business_onedrive.R | 89 ++++ Microsoft365R-2.0.0/Microsoft365R/tests/testthat/test03_sharepoint.R | 49 +- Microsoft365R-2.0.0/Microsoft365R/tests/testthat/test04_teams.R |only Microsoft365R-2.0.0/Microsoft365R/tests/testthat/test04a_channel.R |only Microsoft365R-2.0.0/Microsoft365R/vignettes/auth.Rmd |only Microsoft365R-2.0.0/Microsoft365R/vignettes/od_sp.Rmd |only Microsoft365R-2.0.0/Microsoft365R/vignettes/teams.Rmd |only 51 files changed, 946 insertions(+), 406 deletions(-)
Title: Longitudinal Concordance Correlation
Description: Estimates the longitudinal concordance correlation to access the longitudinal agreement profile. The estimation approach implemented is variance components approach based on polynomial mixed effects regression model, as proposed by Oliveira, Hinde and Zocchi (2018) <doi:10.1007/s13253-018-0321-1>. In addition, non-parametric confidence intervals were implemented using percentile method or normal-approximation based on Fisher Z-transformation.
Author: Thiago de Paula Oliveira [aut, cre]
(<https://orcid.org/0000-0002-4555-2584>),
Rafael de Andrade Moral [aut] (<https://orcid.org/0000-0002-0875-3563>),
Silvio Sandoval Zocchi [ctb] (<https://orcid.org/0000-0003-2535-908X>),
Clarice Garcia Borges Demetrio [ctb]
(<https://orcid.org/0000-0002-3609-178X>),
John Hinde [aut] (<https://orcid.org/0000-0001-6507-5204>)
Maintainer: Thiago de Paula Oliveira <thiago.paula.oliveira@alumni.usp.br>
Diff between lcc versions 1.1.1 dated 2020-09-13 and 1.1.2 dated 2021-02-26
DESCRIPTION | 34 ++++++++++++++++++++++++---------- MD5 | 5 +++-- R/lcc.R | 4 ++++ inst |only 4 files changed, 31 insertions(+), 12 deletions(-)
Title: The Gaussian Covariate Method for Variable Selection
Description: Given the standard linear model the traditional way of deciding whether to include the jth covariate is to apply the F-test to decide whether the corresponding beta coefficient is zero. The Gaussian covariate method is completely different. The question as to whether the beta coefficient is or is not zero is replaced by the question as to whether the covariate is better or worse than i.i.d. Gaussian noise. The P-value for the covariate is the probability that Gaussian noise is better. Surprisingly this can be given exactly and it is the same a the P-value for the classical model based on the F-distribution. The Gaussian covariate P-value is model free, it is the same for any data set. Using the idea it is possible to do covariate selection for a small number of covariates 25 by considering all subsets. Post selection inference causes no problems as the P-values hold whatever the data. The idea extends to stepwise regression again with exact probabilities. In the simplest version the only parameter is a specified cut-off P-value which can be interpreted as the probability of a false positive being included in the final selection. For more information see the website below and the accompanying papers: L. Davies and L. Duembgen, "Covariate Selection Based on a Model-free Approach to Linear Regression with Exact Probabilities", 2020, <arXiv:1906.01990>. L. Davies, "Lasso, Knockoff and Gaussian covariates: A comparison", 2018, <arXiv:1807.09633>.
Author: Laurie Davies [aut, cre]
Maintainer: Laurie Davies <laurie.davies@uni-due.de>
Diff between gausscov versions 0.0.12 dated 2021-01-27 and 0.0.13 dated 2021-02-26
gausscov-0.0.12/gausscov/data/dentx.rda |only gausscov-0.0.12/gausscov/data/denty.rda |only gausscov-0.0.12/gausscov/man/dentx.Rd |only gausscov-0.0.12/gausscov/man/denty.Rd |only gausscov-0.0.13/gausscov/DESCRIPTION | 8 gausscov-0.0.13/gausscov/MD5 | 60 ++--- gausscov-0.0.13/gausscov/R/decode.R | 28 +- gausscov-0.0.13/gausscov/R/decomp.R | 8 gausscov-0.0.13/gausscov/R/f1st.R | 47 ++-- gausscov-0.0.13/gausscov/R/f2st.R | 38 +-- gausscov-0.0.13/gausscov/R/fgeninter.R | 12 - gausscov-0.0.13/gausscov/R/fgentrig.R | 4 gausscov-0.0.13/gausscov/R/fgr1st.R | 13 - gausscov-0.0.13/gausscov/R/fgr2st.R | 12 - gausscov-0.0.13/gausscov/R/fmch.R | 45 ++- gausscov-0.0.13/gausscov/R/fpval.R | 16 - gausscov-0.0.13/gausscov/R/frmch.R | 3 gausscov-0.0.13/gausscov/R/frobreg.R | 12 - gausscov-0.0.13/gausscov/R/frobregp.R | 23 + gausscov-0.0.13/gausscov/R/frst.R | 32 +- gausscov-0.0.13/gausscov/R/fselect.R | 10 gausscov-0.0.13/gausscov/R/fsimords.R | 12 - gausscov-0.0.13/gausscov/man/decode.Rd | 12 - gausscov-0.0.13/gausscov/man/decomp.Rd | 2 gausscov-0.0.13/gausscov/man/f1st.Rd | 7 gausscov-0.0.13/gausscov/man/f2st.Rd | 9 gausscov-0.0.13/gausscov/man/fgeninter.Rd | 4 gausscov-0.0.13/gausscov/man/fgr1st.Rd | 6 gausscov-0.0.13/gausscov/man/fgr2st.Rd | 6 gausscov-0.0.13/gausscov/man/fmch.Rd | 7 gausscov-0.0.13/gausscov/man/frst.Rd | 2 gausscov-0.0.13/gausscov/man/fselect.Rd | 8 gausscov-0.0.13/gausscov/src/gaucov.f | 349 ++++++++++++++++++++++++++---- 33 files changed, 550 insertions(+), 245 deletions(-)
Title: Ternary Plots for Trinomial Regression Models
Description: An implementation of the ternary plot for interpreting regression
coefficients of trinomial regression models, as proposed in Santi, Dickson
and Espa (2019) <doi:10.1080/00031305.2018.1442368>. Ternary plots can be
drawn using either 'ggtern' package (based on 'ggplot2') or 'Ternary'
package (based on standard graphics).
Author: Flavio Santi [cre, aut] (<https://orcid.org/0000-0002-2014-1981>),
Maria Michela Dickson [aut] (<https://orcid.org/0000-0002-4307-0469>),
Giuseppe Espa [aut] (<https://orcid.org/0000-0002-0331-3630>),
Diego Giuliani [aut] (<https://orcid.org/0000-0002-7198-6714>)
Maintainer: Flavio Santi <flavio.santi@univr.it>
Diff between plot3logit versions 3.0.0 dated 2020-09-12 and 3.1.0 dated 2021-02-26
plot3logit-3.0.0/plot3logit/man/autoplot.field3logit.Rd |only plot3logit-3.1.0/plot3logit/DESCRIPTION | 8 plot3logit-3.1.0/plot3logit/MD5 | 55 - plot3logit-3.1.0/plot3logit/NAMESPACE | 4 plot3logit-3.1.0/plot3logit/NEWS.md | 33 plot3logit-3.1.0/plot3logit/R/conf_region.R | 54 plot3logit-3.1.0/plot3logit/R/delta.R | 41 plot3logit-3.1.0/plot3logit/R/field3logit.R | 12 plot3logit-3.1.0/plot3logit/R/ggtern.R | 7 plot3logit-3.1.0/plot3logit/R/multifield3logit.R | 2 plot3logit-3.1.0/plot3logit/R/plot3logit-package.R | 7 plot3logit-3.1.0/plot3logit/R/test-aux.R | 9 plot3logit-3.1.0/plot3logit/README.md | 4 plot3logit-3.1.0/plot3logit/build/partial.rdb |binary plot3logit-3.1.0/plot3logit/build/vignette.rds |binary plot3logit-3.1.0/plot3logit/inst/CITATION | 7 plot3logit-3.1.0/plot3logit/inst/REFERENCES.bib | 50 plot3logit-3.1.0/plot3logit/inst/doc/plot3logit-overview.Rmd | 210 +++ plot3logit-3.1.0/plot3logit/inst/doc/plot3logit-overview.html | 550 ++++++---- plot3logit-3.1.0/plot3logit/man/add_confregions.Rd | 55 + plot3logit-3.1.0/plot3logit/man/autoplot.Hfield3logit.Rd |only plot3logit-3.1.0/plot3logit/man/gg3logit.Rd | 2 plot3logit-3.1.0/plot3logit/man/plot3logit-package.Rd | 2 plot3logit-3.1.0/plot3logit/man/reexports.Rd | 2 plot3logit-3.1.0/plot3logit/man/stat_3logit.Rd | 2 plot3logit-3.1.0/plot3logit/man/stat_conf3logit.Rd | 2 plot3logit-3.1.0/plot3logit/man/stat_field3logit.Rd | 2 plot3logit-3.1.0/plot3logit/tests/testthat/test-labels.R |only plot3logit-3.1.0/plot3logit/tests/testthat/test-read_delta.R | 65 + plot3logit-3.1.0/plot3logit/vignettes/plot3logit-overview.Rmd | 210 +++ 30 files changed, 1028 insertions(+), 367 deletions(-)
Title: XML Output Functions for Easy Creation of Moodle Questions
Description: Provides a set of basic functions for creating Moodle XML
output files suited for importing questions in Moodle (a learning
management system, see <https://moodle.org/> for more information).
Author: Emmanuel Curis [aut, cre, cph]
(<https://orcid.org/0000-0001-8382-1493>),
Virginie Lasserre [ctb]
Maintainer: Emmanuel Curis <emmanuel.curis@parisdescartes.fr>
Diff between SARP.moodle versions 0.8.6 dated 2021-01-06 and 0.8.7 dated 2021-02-26
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/affichages.R | 4 +++- R/images.R | 6 ++++-- R/sortie_R.R | 6 ++++-- man/libre.moodle.Rd | 4 ++-- 6 files changed, 22 insertions(+), 16 deletions(-)
Title: R Interface to 'MiniZinc'
Description: Constraint optimization, or constraint programming, is the name given to identifying
feasible solutions out of a very large set of candidates, where the problem can be modeled in terms
of arbitrary constraints. 'MiniZinc' is a free and open-source constraint modeling language.
Constraint satisfaction and discrete optimization problems can be formulated in a high-level
modeling language. Models are compiled into an intermediate representation that is understood by a
wide range of solvers. 'MiniZinc' itself provides several solvers, for instance 'GeCode'. R users
can use the package to solve constraint programming problems without using 'MiniZinc' directly,
modify existing 'MiniZinc' models and also create their own models.
Author: Akshit Achara, Lars Kotthoff, Hans W. Borchers, Guido Tack
Maintainer: Akshit Achara <acharaakshit@gmail.com>
Diff between rminizinc versions 0.0.5 dated 2021-01-27 and 0.0.6 dated 2021-02-26
DESCRIPTION | 8 MD5 | 80 +-- NAMESPACE | 4 NEWS.md | 18 R/CommonMZNProblems.R | 268 ++++++++++++ R/DeclFunctions.R | 35 + R/Expression.R | 64 +- R/SolveItem.R | 2 R/utils.R | 9 configure | 18 configure.ac | 2 configure.win | 18 data/proot.RData |binary inst/doc/R_MiniZinc.R | 301 +++++++++----- inst/doc/R_MiniZinc.Rmd | 449 ++++++++++++++------- inst/doc/R_MiniZinc.html | 875 +++++++++++++++++++++++++++-------------- man/BinOp.Rd | 5 man/BoolArrDecl.Rd | 2 man/BoolDecl.Rd | 2 man/BoolSetDecl.Rd | 2 man/FloatDecl.Rd | 4 man/FloatSetDecl.Rd | 2 man/IntArrDecl.Rd | 2 man/IntDecl.Rd | 4 man/IntSetDecl.Rd | 2 man/Let.Rd | 16 man/SolveItem.Rd | 2 man/StringArrDecl.Rd | 4 man/StringSetDecl.Rd | 2 man/TypeInst.Rd | 2 man/UnOp.Rd | 2 man/VarDecl.Rd | 2 man/assignment.Rd | 2 man/assignment_2.Rd |only man/magic_series.Rd |only man/magic_square.Rd |only man/production_planning.Rd |only man/rminizinc-package.Rd | 2 src/Makevars.in | 6 src/mzn_eval.cpp | 2 src/mzn_parse.cpp | 2 tests/testthat/test_problems.R | 12 vignettes/R_MiniZinc.Rmd | 449 ++++++++++++++------- 43 files changed, 1857 insertions(+), 824 deletions(-)
Title: Bayesian Estimation of Intervention Effects
Description: An implementation of intervention effect estimation for DAGs (directed acyclic graphs) learned from binary data. First, parameters are estimated or sampled for the DAG and then interventions on each node (variable) are propagated through the network (do-calculus). Both exact computation (up to around 20 variables) and Monte Carlo schemes (for larger networks) are implemented.
Author: Jack Kuipers [aut,cre] and Giusi Moffa [aut]
Maintainer: Jack Kuipers <jack.kuipers@bsse.ethz.ch>
Diff between Bestie versions 0.1.1 dated 2020-03-30 and 0.1.2 dated 2021-02-26
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- R/interventionest.R | 2 +- R/interventionestMC.R | 2 +- man/DAGintervention.Rd | 2 +- man/DAGinterventionMC.Rd | 2 +- 6 files changed, 14 insertions(+), 14 deletions(-)
Title: Crowd Sourced System Benchmarks
Description: Benchmark your CPU and compare against other CPUs.
Also provides functions for obtaining system specifications, such as
RAM, CPU type, and R version.
Author: Colin Gillespie [aut, cre] (<https://orcid.org/0000-0003-1787-0275>)
Maintainer: Colin Gillespie <csgillespie@gmail.com>
Diff between benchmarkme versions 1.0.5 dated 2021-02-09 and 1.0.6 dated 2021-02-26
DESCRIPTION | 6 +++--- MD5 | 11 ++++++----- NEWS.md | 3 +++ R/get_cpu.R | 4 ++-- R/get_ram.R | 4 ++-- R/utils-sysctl.R |only inst/doc/a_introduction.html | 9 ++++++++- 7 files changed, 24 insertions(+), 13 deletions(-)
More information about twangContinuous at CRAN
Permanent link
Title: Supervised Data Transformation by Means of Neural Network Hidden
Layer
Description: A supervised transformation of datasets is performed.
The aim is similar to that of Principal Component Analysis (PCA), that is, to carry out data transformation and dimensionality reduction, but in a supervised way.
This is achieved by first training a 3-layer Multi-Layer Perceptron and then using the activations of the hidden layer as a transformation of the input features.
In fact, it takes advantage of the change of representation provided by the hidden layer of a neural network.
This can be useful as data pre-processing for Machine Learning methods in general, specially for those that do not work well with many irrelevant or redundant features.
It uses the nnet package under the hood.
Valls, J.M., Aler, R., Galvan, I.M., and Camacho, D. (2021). "Supervised data transformation and dimensionality reduction with a 3-layer multi-layer perceptron for classification problems". <doi:10.1007/s12652-020-02841-y>
Rumelhart, D.E., Hinton, G.E. and Williams, R.J. (1986) "Learning representations by back-propagating errors" <doi:10.1038/323533a0>.
Author: Ricardo Aler [aut, cre],
Jose Valls [aut],
Ines Galvan [aut],
David Camacho [aut]
Maintainer: Ricardo Aler <ricardo.aler@uc3m.es>
Diff between nntrf versions 0.1.3 dated 2020-08-06 and 0.1.4 dated 2021-02-26
DESCRIPTION | 7 ++++--- MD5 | 18 +++++++++--------- inst/doc/nntrf.html | 4 ++-- inst/doc/nntrf_regresion.Rmd | 2 +- inst/doc/nntrf_regresion.html | 6 +++--- inst/doc/nntrf_tuning.R | 1 - inst/doc/nntrf_tuning.Rmd | 1 - inst/doc/nntrf_tuning.html | 5 ++--- vignettes/nntrf_regresion.Rmd | 2 +- vignettes/nntrf_tuning.Rmd | 1 - 10 files changed, 22 insertions(+), 25 deletions(-)
Title: Statistics for Matrix Distributions
Description: Tools for homogeneous and in-homogeneous phase-type distributions.
Methods for functional evaluation, simulation and estimation using the
expectation-maximization (EM) algorithm are provided.
The methods of this package are based on the following references.
Asmussen, S., Nerman, O., & Olsson, M. (1996) <https://www.jstor.org/stable/4616418>,
Olsson, M. (1996) <https://www.jstor.org/stable/4616419>.
Albrecher, H., & Bladt, M. (2019) <doi:10.1017/jpr.2019.60>
Albrecher, H., Bladt, M., & Yslas, J. (2020) <doi:10.1111/sjos.12505>
Bladt, M., & Yslas, J. (2020) <arXiv:2011.03219>.
Author: Martin Bladt [aut, cre],
Jorge Yslas [aut]
Maintainer: Martin Bladt <martinbladt@gmail.com>
Diff between matrixdist versions 1.0.1 dated 2021-02-15 and 1.0.2 dated 2021-02-26
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/1.ph.R | 12 ++++++------ man/moment-ph-method.Rd | 4 ++-- 4 files changed, 15 insertions(+), 15 deletions(-)
Title: Simulate Survival Data for Randomized Clinical Trials
Description: A system to simulate clinical trials with time to event endpoints. Event simulation is based on Cox models allowing for covariates in addition to the treatment or group factor. Specific drop-out rates (separate from administrative censoring) can be controlled in the simulation. Other features include stratified randomization, non-proportional hazards, different accrual patterns, and event projection (timing to reach the target event) based on interim data.
Author: Bo Zhang [cre, aut],
Yi Zhong [aut, ctb],
Ginny Peng [aut, ctb],
Bin Yao [aut, ctb]
Maintainer: Bo Zhang <bzhang@pumabiotechnology.com>
Diff between TwoArmSurvSim versions 0.1 dated 2020-12-16 and 0.2 dated 2021-02-26
DESCRIPTION | 8 - MD5 | 8 - NAMESPACE | 3 R/utility_functions.R | 305 ++++++++++++++++++++++++++++++++++++++++++ man/censor_surv.Rd |only man/run_simulation_simsurv.Rd |only 6 files changed, 317 insertions(+), 7 deletions(-)
Title: Create Complex UpSet Plots Using 'ggplot2' Components
Description: UpSet plots are an improvement over Venn Diagram for set overlap visualizations.
Striving to bring the best of the 'UpSetR' and 'ggplot2', this package offers a way to create
complex overlap visualisations, using simple and familiar tools, i.e. geoms of 'ggplot2'.
For introduction to UpSet concept, see Lex et al. (2014) <doi:10.1109/TVCG.2014.2346248>.
Author: Michał Krassowski [aut, cre] (<https://orcid.org/0000-0002-9638-7785>)
Maintainer: Michał Krassowski <krassowski.michal+r@gmail.com>
Diff between ComplexUpset versions 1.0.3 dated 2021-01-10 and 1.1.0 dated 2021-02-26
ComplexUpset-1.0.3/ComplexUpset/vignettes/Examples_R_files/Examples_R_153_0.png |only ComplexUpset-1.0.3/ComplexUpset/vignettes/Examples_R_files/Examples_R_156_0.png |only ComplexUpset-1.0.3/ComplexUpset/vignettes/Examples_R_files/Examples_R_160_0.png |only ComplexUpset-1.0.3/ComplexUpset/vignettes/Examples_R_files/Examples_R_165_1.png |only ComplexUpset-1.0.3/ComplexUpset/vignettes/Examples_R_files/Examples_R_172_0.png |only ComplexUpset-1.0.3/ComplexUpset/vignettes/Examples_R_files/Examples_R_174_1.png |only ComplexUpset-1.0.3/ComplexUpset/vignettes/Examples_R_files/Examples_R_181_0.png |only ComplexUpset-1.0.3/ComplexUpset/vignettes/Examples_R_files/Examples_R_188_0.png |only ComplexUpset-1.1.0/ComplexUpset/DESCRIPTION | 6 ComplexUpset-1.1.0/ComplexUpset/MD5 | 47 +++---- ComplexUpset-1.1.0/ComplexUpset/R/data.R | 64 +++++++--- ComplexUpset-1.1.0/ComplexUpset/R/upset.R | 7 - ComplexUpset-1.1.0/ComplexUpset/inst/doc/Examples_R.Rmd | 51 +++++-- ComplexUpset-1.1.0/ComplexUpset/inst/doc/Examples_R.html | 25 +++ ComplexUpset-1.1.0/ComplexUpset/man/upset.Rd | 2 ComplexUpset-1.1.0/ComplexUpset/man/upset_data.Rd | 4 ComplexUpset-1.1.0/ComplexUpset/vignettes/Examples_R.Rmd | 51 +++++-- ComplexUpset-1.1.0/ComplexUpset/vignettes/Examples_R_files/Examples_R_130_0.png |binary ComplexUpset-1.1.0/ComplexUpset/vignettes/Examples_R_files/Examples_R_152_0.png |only ComplexUpset-1.1.0/ComplexUpset/vignettes/Examples_R_files/Examples_R_155_0.png |only ComplexUpset-1.1.0/ComplexUpset/vignettes/Examples_R_files/Examples_R_158_0.png |only ComplexUpset-1.1.0/ComplexUpset/vignettes/Examples_R_files/Examples_R_162_0.png |only ComplexUpset-1.1.0/ComplexUpset/vignettes/Examples_R_files/Examples_R_167_1.png |binary ComplexUpset-1.1.0/ComplexUpset/vignettes/Examples_R_files/Examples_R_169_1.png |binary ComplexUpset-1.1.0/ComplexUpset/vignettes/Examples_R_files/Examples_R_171_1.png |only ComplexUpset-1.1.0/ComplexUpset/vignettes/Examples_R_files/Examples_R_174_0.png |only ComplexUpset-1.1.0/ComplexUpset/vignettes/Examples_R_files/Examples_R_176_1.png |binary ComplexUpset-1.1.0/ComplexUpset/vignettes/Examples_R_files/Examples_R_178_1.png |only ComplexUpset-1.1.0/ComplexUpset/vignettes/Examples_R_files/Examples_R_183_0.png |binary ComplexUpset-1.1.0/ComplexUpset/vignettes/Examples_R_files/Examples_R_185_0.png |binary ComplexUpset-1.1.0/ComplexUpset/vignettes/Examples_R_files/Examples_R_187_0.png |only ComplexUpset-1.1.0/ComplexUpset/vignettes/Examples_R_files/Examples_R_190_0.png |only ComplexUpset-1.1.0/ComplexUpset/vignettes/Examples_R_files/Examples_R_40_0.png |binary 33 files changed, 185 insertions(+), 72 deletions(-)
Title: Analyze Experimental High-Throughput (Omics) Data
Description: The efficient treatment and convenient analysis of experimental high-throughput (omics) data gets facilitated through this collection of diverse functions.
Several functions address advanced object-conversions, like manipulating lists of lists or lists of arrays, reorganizing lists to arrays or into separate vectors, merging of multiple entries, etc.
Another set of functions provides speed-optimized calculation of standard deviation (sd), coefficient of variance (CV) or standard error of the mean (SEM) for data in matrixes or means per line with respect to additional grouping (eg n groups of replicates).
Other functions facilitate dealing with non-redundant information, by indexing unique, adding counters to redundant or eliminating lines with respect redundancy in a given reference-column, etc.
Help is provided to identify very closely matching numeric values to generate (partial) distance matrixes for very big data in a memory efficient manner or to reduce the complexity of large data-sets by combining very close values.
Many times large experimental datasets need some additional filtering, adequate functions are provided.
Batch reading (or writing) of sets of files and combining data to arrays is supported, too.
Convenient data normalization is supported in various different modes, parameter estimation via permutations or boot-strap as well as flexible testing of multiple pair-wise combinations using the framework of 'limma' is provided, too.
Author: Wolfgang Raffelsberger [aut, cre]
Maintainer: Wolfgang Raffelsberger <w.raffelsberger@gmail.com>
Diff between wrMisc versions 1.5.2 dated 2021-02-09 and 1.5.3 dated 2021-02-26
DESCRIPTION | 6 ++-- MD5 | 8 +++--- R/matchSampToPairw.R | 52 +++++++++++++++++++++++++++++------------- inst/doc/wrMiscVignette1.html | 28 ++++++++++------------ man/matchSampToPairw.Rd | 21 +++++++++++----- 5 files changed, 70 insertions(+), 45 deletions(-)
Title: Training Run Tools for 'TensorFlow'
Description: Create and manage unique directories for each 'TensorFlow'
training run. Provides a unique, time stamped directory for each run
along with functions to retrieve the directory of the latest run or
latest several runs.
Author: Daniel Falbel [ctb, cre],
JJ Allaire [aut],
RStudio [cph, fnd],
Mike Bostock [cph] (D3 library - https://d3js.org/),
Masayuki Tanaka [cph] (C3 library - http://c3js.org/),
jQuery Foundation [cph] (jQuery library),
jQuery contributors [cph] (jQuery library; authors:
inst/views/components/jquery-AUTHORS.txt),
Shaun Bowe [cph] (jQuery visibilityChanged plugin),
Materialize [cph] (Materizlize library - https://materializecss.com/),
Yuxi You [cph] (Vue.js library - https://vuejs.org/),
Kevin Decker [cph] (jsdiff library -
https://github.com/kpdecker/jsdiff/),
Rodrigo Fernandes [cph] (diff2html library - https://diff2html.xyz/),
Ivan Sagalaev [cph] (highlight.js library - https://highlightjs.org/),
Yauheni Pakala [cph] (highlightjs-line-numbers library)
Maintainer: Daniel Falbel <daniel@rstudio.com>
Diff between tfruns versions 1.4 dated 2018-08-25 and 1.5.0 dated 2021-02-26
tfruns-1.4/tfruns/tests/testthat/utils.R |only tfruns-1.5.0/tfruns/DESCRIPTION | 18 + tfruns-1.5.0/tfruns/MD5 | 68 +++--- tfruns-1.5.0/tfruns/NEWS.md |only tfruns-1.5.0/tfruns/R/run_metadata.R | 4 tfruns-1.5.0/tfruns/R/training_run.R | 129 ++++++++----- tfruns-1.5.0/tfruns/R/utils.R | 15 + tfruns-1.5.0/tfruns/README.md | 8 tfruns-1.5.0/tfruns/build/vignette.rds |binary tfruns-1.5.0/tfruns/inst/doc/managing.R | 14 - tfruns-1.5.0/tfruns/inst/doc/managing.html | 122 +++++++++--- tfruns-1.5.0/tfruns/inst/doc/overview.R | 24 +- tfruns-1.5.0/tfruns/inst/doc/overview.Rmd | 4 tfruns-1.5.0/tfruns/inst/doc/overview.html | 140 ++++++++++---- tfruns-1.5.0/tfruns/inst/doc/tuning.R | 16 - tfruns-1.5.0/tfruns/inst/doc/tuning.Rmd | 4 tfruns-1.5.0/tfruns/inst/doc/tuning.html | 186 ++++++++++++------- tfruns-1.5.0/tfruns/man/clean_runs.Rd | 17 + tfruns-1.5.0/tfruns/man/compare_runs.Rd | 3 tfruns-1.5.0/tfruns/man/copy_run.Rd | 4 tfruns-1.5.0/tfruns/man/flags.Rd | 10 - tfruns-1.5.0/tfruns/man/ls_runs.Rd | 9 tfruns-1.5.0/tfruns/man/reexports.Rd | 2 tfruns-1.5.0/tfruns/man/training_run.Rd | 20 +- tfruns-1.5.0/tfruns/man/tuning_run.Rd | 57 ++++- tfruns-1.5.0/tfruns/man/unique_run_dir.Rd | 6 tfruns-1.5.0/tfruns/man/write_run_metadata.Rd | 6 tfruns-1.5.0/tfruns/tests/testthat/flags-precision.R |only tfruns-1.5.0/tfruns/tests/testthat/helper.R |only tfruns-1.5.0/tfruns/tests/testthat/test-copy.R | 58 ++++- tfruns-1.5.0/tfruns/tests/testthat/test-flags.R | 70 ++++--- tfruns-1.5.0/tfruns/tests/testthat/test-run-data.R | 28 ++ tfruns-1.5.0/tfruns/tests/testthat/test-runs.R | 52 +++-- tfruns-1.5.0/tfruns/tests/testthat/test-tuning.R | 91 ++++++++- tfruns-1.5.0/tfruns/tests/testthat/train.R | 2 tfruns-1.5.0/tfruns/vignettes/overview.Rmd | 4 tfruns-1.5.0/tfruns/vignettes/tuning.Rmd | 4 37 files changed, 834 insertions(+), 361 deletions(-)
Title: Paws Low-Level Amazon Web Services API
Description: Functions for making low-level API requests to Amazon Web Services
<https://aws.amazon.com>. The functions handle building, signing, and
sending requests, and receiving responses. They are designed to help build
higher-level interfaces to individual services, such as Simple Storage
Service (S3).
Author: David Kretch [aut, cre],
Adam Banker [aut],
Amazon.com, Inc. [cph]
Maintainer: David Kretch <david.kretch@gmail.com>
Diff between paws.common versions 0.3.8 dated 2021-01-25 and 0.3.9 dated 2021-02-26
DESCRIPTION | 26 ++-- MD5 | 16 +- NEWS.md | 10 + R/config.R | 123 +++++++++----------- R/credential_providers.R | 177 +++++++++++++++++++---------- R/credentials.R | 17 -- man/set_config.Rd | 102 +++++++++------- tests/testthat/test_credential_providers.R | 8 - tests/testthat/test_credentials.R | 112 +++++++++++++++++- 9 files changed, 382 insertions(+), 209 deletions(-)
Title: Density Based Clustering of Applications with Noise (DBSCAN) and
Related Algorithms
Description: A fast reimplementation of several density-based algorithms of
the DBSCAN family for spatial data. Includes the clustering algorithms
DBSCAN (density-based spatial clustering of applications with noise)
and HDBSCAN (hierarchical DBSCAN), the ordering algorithm
OPTICS (ordering points to identify the clustering structure),
and the outlier detection algorithm LOF (local outlier factor).
The implementations use the kd-tree data structure (from library ANN) for faster k-nearest neighbor search.
An R interface to fast kNN and fixed-radius NN search is also provided.
Hahsler, Piekenbrock and Doran (2019) <doi:10.18637/jss.v091.i01>.
Author: Michael Hahsler [aut, cre, cph],
Matthew Piekenbrock [aut, cph],
Sunil Arya [ctb, cph],
David Mount [ctb, cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between dbscan versions 1.1-5 dated 2019-10-23 and 1.1-6 dated 2021-02-26
DESCRIPTION | 29 - MD5 | 97 ++--- NAMESPACE | 1 NEWS.md | 14 R/GLOSH.R | 22 - R/LOF.R | 13 R/NN.R | 6 R/RcppExports.R | 4 R/dbscan.R | 8 R/extractFOSC.R | 45 +- R/frNN.R | 6 R/hdbscan.R | 28 - R/hullplot.R | 8 R/jpclust.R | 2 R/kNN.R | 12 R/optics.R | 6 R/predict.R | 11 R/sNN.R | 2 R/zzz.R |only README.md | 12 build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 2 inst/doc/dbscan.R | 1 inst/doc/dbscan.pdf |binary inst/doc/hdbscan.R | 36 - inst/doc/hdbscan.html | 774 ++++++++++++++++++++++++------------------ man/dbscan.Rd | 4 man/fosc.Rd | 6 man/glosh.Rd | 2 man/hdbscan.Rd | 13 man/jpclust.Rd | 2 man/kNN.Rd | 4 man/lof.Rd | 21 - man/optics.Rd | 4 man/sNN.Rd | 17 man/sNNclust.Rd | 2 src/R_cleanup.cpp |only src/R_dbscan.cpp | 8 src/R_density.cpp | 8 src/R_frNN.cpp | 5 src/R_kNN.cpp | 17 src/R_optics.cpp | 8 src/RcppExports.cpp | 10 src/buildHDBSCAN.cpp | 532 ++++++++++++++-------------- src/kd_tree.cpp | 14 src/mrd.cpp | 2 tests/testthat/test-fosc.R | 31 - tests/testthat/test-hdbscan.R | 11 tests/testthat/test-kNN.R | 22 - tests/testthat/test-predict.R |only 51 files changed, 1029 insertions(+), 853 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-04-15 0.5.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-01-08 1.3.6
2020-09-29 1.3.5
2020-08-27 1.3.4
2020-08-11 1.3.3
2020-06-14 1.3.2
2020-06-02 1.3.1
2020-04-17 1.3.0
2020-02-13 1.2.6
2020-02-11 1.2.5
2019-12-16 1.2.4
2019-11-12 1.2.3
2019-11-10 1.2.2
2019-08-20 1.2.1
2019-08-19 1.2.0
2019-05-10 0.1.0
Title: Versatile Curation of Table Metadata
Description: A YAML-based
mechanism for working with table metadata. It supports
compact syntax for creating, modifying, viewing, exporting,
importing, displaying, and plotting metadata coded as column
attributes. The 'yamlet' dialect is valid 'YAML' with
defaults and conventions chosen to improve readability.
See ?yamlet, ?decorate.data.frame and ?modify.default.
See ?read_yamlet ?write_yamlet, ?io_csv, and ?ggplot.decorated.
Author: Tim Bergsma
Maintainer: Tim Bergsma <bergsmat@gmail.com>
Diff between yamlet versions 0.6.10 dated 2021-02-20 and 0.7.0 dated 2021-02-25
yamlet-0.6.10/yamlet/tests/testthat/Rplots.pdf |only yamlet-0.7.0/yamlet/DESCRIPTION | 6 +++--- yamlet-0.7.0/yamlet/MD5 | 17 ++++++++--------- yamlet-0.7.0/yamlet/R/mimic.R | 8 +++++--- yamlet-0.7.0/yamlet/R/parseable.R | 4 ++-- yamlet-0.7.0/yamlet/inst/doc/yamlet-introduction.html | 4 ++-- yamlet-0.7.0/yamlet/man/is_parseable.default.Rd | 4 ++-- yamlet-0.7.0/yamlet/man/mimic.classified.Rd | 3 ++- yamlet-0.7.0/yamlet/man/mimic.default.Rd | 3 ++- yamlet-0.7.0/yamlet/tests/testthat/test-yamlet.R | 5 +++-- 10 files changed, 29 insertions(+), 25 deletions(-)
Title: Count and Continuous Generalized Variability Indexes
Description: Firstly, both functions of the univariate Poisson dispersion index (DI) for count data and the univariate exponential variation index (VI) for nonnegative continuous data are performed. Next, other functions of univariate indexes such the binomial dispersion index (DIb), the negative binomial dispersion index (DInb) and the inverse Gaussian variation index (VIiG) are given. Finally, we are computed some multivariate versions of these functions such that the generalized dispersion index (GDI) with its marginal one (MDI) and the generalized variation index (GVI) with its marginal one (MVI) too.
Author: Aboubacar Y. Touré and Célestin C. Kokonendji
Maintainer: Aboubacar Y. Touré <aboubacaryacoubatoure.ussgb@gmail.com>
Diff between GWI versions 1.0.1 dated 2021-01-27 and 1.0.2 dated 2021-02-25
DESCRIPTION | 10 +++++----- MD5 | 28 +++++++++++++++++----------- NAMESPACE | 4 ++++ R/di.R | 2 +- R/diB.R |only R/diNB.R |only R/gmdi.R | 5 +++-- R/gmvi.R | 6 ++++-- R/vi.R | 3 ++- R/viIG.R |only man/GWI-package.Rd | 21 +++++++++++++++++---- man/di.fun.Rd | 2 +- man/dib.fun.Rd |only man/dinb.fun.Rd |only man/gmdi.fun.Rd | 4 ++-- man/gmvi.fun.Rd | 4 ++-- man/vi.fun.Rd | 2 +- man/viiG.fun.Rd |only 18 files changed, 59 insertions(+), 32 deletions(-)
Title: Kernel Density Estimation for Demonstration Purposes
Description: Demonstration code showing how (univariate) kernel
density estimates are computed, at least conceptually,
and allowing users to experiment with different kernels,
should they so wish. The method used follows directly
the definition, but gains efficiency by replacing the
observations by frequencies in a very fine grid covering
the sample range. A canonical reference is
B. W. Silverman, (1998) <doi: 10.1201/9781315140919>.
NOTE: the density function in the
stats package uses a more sophisticated method based on the
fast Fourier transform and that function should be used if
computational efficiency is a prime consideration.
Author: Bill Venables
Maintainer: Bill Venables <Bill.Venables@gmail.com>
Diff between demoKde versions 0.9-4 dated 2017-02-01 and 1.0.0 dated 2021-02-25
DESCRIPTION | 19 +++++++++++++------ MD5 | 11 ++++++----- R/demoKde.R | 38 +++++++++++++++++++++----------------- build |only man/demoKde-package.Rd | 14 ++++++++++---- man/kde.Rd | 10 +++++++--- man/kernelBiweight.Rd | 4 ++-- 7 files changed, 59 insertions(+), 37 deletions(-)
Title: Cybersecurity MITRE Standards Data and Digraphs
Description: Extract, transform and load MITRE standards.
This package gives you an approach to cybersecurity data sets.
All data sets are build on runtime downloading raw data from MITRE public services.
MITRE <https://www.mitre.org/> is a government-funded research organization
based in Bedford and McLean. Current version includes most used standards as
data frames. It also provide a list of nodes and edges with all relationships.
Author: Humbert Costas [aut, cre]
Maintainer: Humbert Costas <humbert.costas@gmail.com>
Diff between mitre versions 0.1.1 dated 2020-11-26 and 0.5.0 dated 2021-02-25
mitre-0.1.1/mitre/inst/doc/Introduction.html |only mitre-0.5.0/mitre/DESCRIPTION | 17 - mitre-0.5.0/mitre/MD5 | 87 +++++++-- mitre-0.5.0/mitre/NAMESPACE | 14 - mitre-0.5.0/mitre/NEWS.md | 39 ++++ mitre-0.5.0/mitre/R/attck.R |only mitre-0.5.0/mitre/R/capec.R |only mitre-0.5.0/mitre/R/car.R |only mitre-0.5.0/mitre/R/cpe.R |only mitre-0.5.0/mitre/R/cti.R |only mitre-0.5.0/mitre/R/cve.R |only mitre-0.5.0/mitre/R/cwe.R |only mitre-0.5.0/mitre/R/mitre.R |only mitre-0.5.0/mitre/R/network.R |only mitre-0.5.0/mitre/R/shield.R | 170 ++++++++--------- mitre-0.5.0/mitre/README.md | 172 ++++++++++-------- mitre-0.5.0/mitre/build/vignette.rds |binary mitre-0.5.0/mitre/inst/doc/Introduction.R | 30 +-- mitre-0.5.0/mitre/inst/doc/Introduction.Rmd | 34 ++- mitre-0.5.0/mitre/inst/doc/Introduction.pdf |only mitre-0.5.0/mitre/inst/doc/Mitre.R |only mitre-0.5.0/mitre/inst/doc/Mitre.Rmd |only mitre-0.5.0/mitre/inst/doc/Mitre.html |only mitre-0.5.0/mitre/inst/scripts |only mitre-0.5.0/mitre/man/MapCommonproperties.Rd |only mitre-0.5.0/mitre/man/MapGroups.Rd |only mitre-0.5.0/mitre/man/MapMitigation.Rd |only mitre-0.5.0/mitre/man/MapRelations.Rd |only mitre-0.5.0/mitre/man/MapSoftware.Rd |only mitre-0.5.0/mitre/man/MapTactics.Rd |only mitre-0.5.0/mitre/man/MapTechniques.Rd |only mitre-0.5.0/mitre/man/buildAttckTactics.Rd |only mitre-0.5.0/mitre/man/createATTCKedges.Rd |only mitre-0.5.0/mitre/man/downloadRawData.Rd |only mitre-0.5.0/mitre/man/getAttckData.Rd |only mitre-0.5.0/mitre/man/getCAPECData.Rd |only mitre-0.5.0/mitre/man/getCARData.Rd |only mitre-0.5.0/mitre/man/getCPEData.Rd |only mitre-0.5.0/mitre/man/getCVEData.Rd |only mitre-0.5.0/mitre/man/getCWEData.Rd |only mitre-0.5.0/mitre/man/getLatestDataSet.Rd |only mitre-0.5.0/mitre/man/getNodeNeighbors.Rd |only mitre-0.5.0/mitre/man/getShieldData.Rd |only mitre-0.5.0/mitre/man/getShieldNetwork.Rd | 15 - mitre-0.5.0/mitre/man/getShieldNodes.Rd |only mitre-0.5.0/mitre/man/getShieldOpportunities.Rd | 12 - mitre-0.5.0/mitre/man/getShieldProcedures.Rd | 12 - mitre-0.5.0/mitre/man/getShieldRelations.Rd | 6 mitre-0.5.0/mitre/man/getShieldTactics.Rd | 12 - mitre-0.5.0/mitre/man/getShieldTactictDetail.Rd | 6 mitre-0.5.0/mitre/man/getShieldTechniques.Rd | 12 - mitre-0.5.0/mitre/man/getShieldTechniquesDetail.Rd | 6 mitre-0.5.0/mitre/man/getShieldUseCases.Rd | 12 - mitre-0.5.0/mitre/man/parseAttck.Groups.Rd |only mitre-0.5.0/mitre/man/parseAttck.Mitigation.Rd |only mitre-0.5.0/mitre/man/parseAttck.Relationships.Rd |only mitre-0.5.0/mitre/man/parseAttck.Software.Rd |only mitre-0.5.0/mitre/man/parseAttck.Tactics.Rd |only mitre-0.5.0/mitre/man/parseAttck.Techniques.Rd |only mitre-0.5.0/mitre/man/parseAttckmodel.group.Rd |only mitre-0.5.0/mitre/man/parseAttckmodel.miti.Rd |only mitre-0.5.0/mitre/man/parseAttckmodel.rels.Rd |only mitre-0.5.0/mitre/man/parseAttckmodel.soft.Rd |only mitre-0.5.0/mitre/man/parseAttckmodel.tact.Rd |only mitre-0.5.0/mitre/man/parseAttckmodel.tech.Rd |only mitre-0.5.0/mitre/man/parseRawData.Rd |only mitre-0.5.0/mitre/vignettes/Introduction.Rmd | 34 ++- mitre-0.5.0/mitre/vignettes/Introduction.html |only mitre-0.5.0/mitre/vignettes/Mitre.Rmd |only mitre-0.5.0/mitre/vignettes/images/readme_example.png |only 70 files changed, 393 insertions(+), 297 deletions(-)
Title: Basic Pipe and Open Channel Hydraulics
Description: Functions for basic hydraulic calculations related to
water flow in circular pipes both flowing full (under pressure), and
partially full (gravity flow), and trapezoidal open channels. For
pressure flow this includes friction loss calculations by solving
the Darcy-Weisbach equation for head loss, flow or diameter, and
plotting a Moody diagram. The Darcy-Weisbach friction factor is
calculated using the Colebrook (or Colebrook-White equation),
the basis of the Moody diagram, the original citation being
Colebrook (1939) <doi:10.1680/ijoti.1939.13150>. For gravity flow, the
Manning equation is used, again solving for missing parameters. The
derivation of and solutions using the Darcy-Weisbach equation and the
Manning equation are outlined in many fluid mechanics texts such as
Finnemore and Franzini (2002, ISBN:978-0072432022). For the Manning equation
solutions, this package uses modifications of original code from the 'iemisc'
package by Irucka Embry.
Author: Ed Maurer [aut, cre], Irucka Embry [aut, ctb] (iemisc code)
Maintainer: Ed Maurer <emaurer@scu.edu>
Diff between hydraulics versions 0.2.3 dated 2020-12-13 and 0.2.4 dated 2021-02-25
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/spec_energy_trap.R | 19 ++++++++++++------- inst/doc/hydraulics_vignette.html | 8 ++++---- man/figures/README-spec-energy-plot-1-1.png |binary 6 files changed, 28 insertions(+), 19 deletions(-)
Title: Reproducible Reports in Psychology
Description: Helper functions for producing reports in Psychology (Reproducible Research). Provides required formatted strings (APA style) for use in 'Knitr'/'Latex' integration within *.Rnw files.
Author: Ian G Mackenzie [cre, aut],
Carolin Dudschig [aut]
Maintainer: Ian G Mackenzie <ian.mackenzie@uni-tuebingen.de>
Diff between psychReport versions 2.0.0 dated 2020-12-17 and 3.0.0 dated 2021-02-25
DESCRIPTION | 15 - LICENSE | 2 MD5 | 97 ++++----- NAMESPACE | 1 R/anova.R | 120 ++++++----- R/globals.R |only R/psychReportData.R | 270 ++++++++++++++++++++------ R/ttest.R | 16 - R/utils.R | 40 ++- man/addDataDF.Rd | 62 +++-- man/aovDispMeans.Rd | 4 man/aovDispTable.Rd | 4 man/aovEffectSize.Rd | 12 - man/aovJackknifeAdjustment.Rd | 8 man/aovRoundDigits.Rd | 8 man/aovSphericityAdjustment.Rd | 6 man/aovTable.Rd | 8 man/aovTidyTable.Rd | 4 man/ciStrT.Rd | 4 man/createDF.Rd | 7 man/effectsizeValueString.Rd | 8 man/errDist.Rd | 1 man/fValueString.Rd | 8 man/meanStrAov.Rd | 8 man/meanStrT.Rd | 4 man/normData.Rd |only man/printAovMeans.Rd | 4 man/printTable.Rd | 17 - man/psychReport-package.Rd | 9 man/rtDist.Rd | 3 man/sphericityValueString.Rd | 6 man/statStrAov.Rd | 8 man/statStrT.Rd | 4 man/summaryMSDSE.Rd |only man/tValueString.Rd | 4 tests/testthat/test-addDataDF.R | 8 tests/testthat/test-aovDispMeans.R | 6 tests/testthat/test-aovDispTable.R | 6 tests/testthat/test-aovEffectSize.R | 4 tests/testthat/test-aovJackknifeAdjustment.R | 4 tests/testthat/test-aovRoundDigits.R | 6 tests/testthat/test-aovSphericityAdjustment.R | 6 tests/testthat/test-aovTable.R | 6 tests/testthat/test-aovTidyTable.R | 6 tests/testthat/test-effectsizeValueString.R | 4 tests/testthat/test-fValueString.R | 8 tests/testthat/test-meanStrAov.R | 4 tests/testthat/test-printAovMeans.R | 11 - tests/testthat/test-printTable.R | 5 tests/testthat/test-sphericityValueString.R | 6 tests/testthat/test-statStrAov.R | 8 51 files changed, 538 insertions(+), 332 deletions(-)
Title: Data Class and Tools for Handling Spatial-Temporal Data
Description: Data class for increased interoperability working with spatial-
temporal data together with corresponding functions and methods (conversions,
basic calculations and basic data manipulation). The class distinguishes
between spatial, temporal and other dimensions to facilitate the development
and interoperability of tools build for it. Additional features are name-based
addressing of data and internal consistency checks (e.g. checking for the right
data order in calculations).
Author: Jan Philipp Dietrich [aut, cre],
Benjamin Leon Bodirsky [aut],
Markus Bonsch [aut],
Florian Humpenoeder [aut],
Stephen Bi [aut],
Kristine Karstens [aut],
Debbora Leip [aut],
Lavinia Baumstark [ctb],
Christoph Bertram [ctb],
Anastasis Giannousakis [ctb],
David Klein [ctb],
Ina Neher [ctb],
Michaja Pehl [ctb],
Anselm Schultes [ctb],
Miodrag Stevanovic [ctb],
Xiaoxi Wang [ctb],
Felicitas Beier [ctb]
Maintainer: Jan Philipp Dietrich <dietrich@pik-potsdam.de>
Diff between magclass versions 5.15.6 dated 2020-12-14 and 5.24.7 dated 2021-02-25
magclass-5.15.6/magclass/R/coord.R |only magclass-5.15.6/magclass/man/coord.Rd |only magclass-5.15.6/magclass/tests/testthat/test-travisCI.R |only magclass-5.24.7/magclass/DESCRIPTION | 20 magclass-5.24.7/magclass/MD5 | 210 +- magclass-5.24.7/magclass/NAMESPACE | 13 magclass-5.24.7/magclass/R/add_columns.R | 4 magclass-5.24.7/magclass/R/add_dimension.R | 3 magclass-5.24.7/magclass/R/as.RasterBrick.R |only magclass-5.24.7/magclass/R/as.data.frame.R | 6 magclass-5.24.7/magclass/R/as.magpie.R | 52 magclass-5.24.7/magclass/R/calibrate_it.R | 16 magclass-5.24.7/magclass/R/clean_magpie.R | 4 magclass-5.24.7/magclass/R/collapseDim.R |only magclass-5.24.7/magclass/R/collapseNames.R | 5 magclass-5.24.7/magclass/R/complete_magpie.R | 4 magclass-5.24.7/magclass/R/convergence.R | 4 magclass-5.24.7/magclass/R/dimCode.R | 6 magclass-5.24.7/magclass/R/dimExists.R |only magclass-5.24.7/magclass/R/dimOrder.R | 4 magclass-5.24.7/magclass/R/dimReduce.R | 2 magclass-5.24.7/magclass/R/getCoords.R |only magclass-5.24.7/magclass/R/getDim.R | 8 magclass-5.24.7/magclass/R/getItems.R | 112 + magclass-5.24.7/magclass/R/getMetadata.R | 32 magclass-5.24.7/magclass/R/hasCoords.R |only magclass-5.24.7/magclass/R/hasSets.R |only magclass-5.24.7/magclass/R/head.magpie.R | 6 magclass-5.24.7/magclass/R/install_magpie_units.R | 72 magclass-5.24.7/magclass/R/lin.convergence.R | 4 magclass-5.24.7/magclass/R/magpie-class.R | 233 +- magclass-5.24.7/magclass/R/magpieResolution.R | 5 magclass-5.24.7/magclass/R/magpie_expand.R | 180 -- magclass-5.24.7/magclass/R/magpie_expand_dim.R | 6 magclass-5.24.7/magclass/R/magpiesort.R | 4 magclass-5.24.7/magclass/R/magpply.R | 11 magclass-5.24.7/magclass/R/maxample.R |only magclass-5.24.7/magclass/R/mbind.R | 6 magclass-5.24.7/magclass/R/mcalc.R | 10 magclass-5.24.7/magclass/R/mselect.R | 5 magclass-5.24.7/magclass/R/new.magpie.R | 30 magclass-5.24.7/magclass/R/place_x_in_y.R | 6 magclass-5.24.7/magclass/R/print.magpie.R | 8 magclass-5.24.7/magclass/R/read.report.R | 2 magclass-5.24.7/magclass/R/setItems.R |only magclass-5.24.7/magclass/R/sizeCheck.R | 3 magclass-5.24.7/magclass/R/time_interpolate.R | 6 magclass-5.24.7/magclass/R/where.R | 3 magclass-5.24.7/magclass/R/withMetadata.R | 12 magclass-5.24.7/magclass/R/write.report.R | 4 magclass-5.24.7/magclass/R/write.report2.R | 3 magclass-5.24.7/magclass/README.md | 16 magclass-5.24.7/magclass/inst/doc/magclass-concept.html | 53 magclass-5.24.7/magclass/inst/doc/magclass-expansion.R | 19 magclass-5.24.7/magclass/inst/doc/magclass-expansion.Rmd | 21 magclass-5.24.7/magclass/inst/doc/magclass-expansion.html | 178 -- magclass-5.24.7/magclass/inst/doc/magclass.R | 6 magclass-5.24.7/magclass/inst/doc/magclass.Rmd | 10 magclass-5.24.7/magclass/inst/doc/magclass.html | 837 ++++------ magclass-5.24.7/magclass/inst/extdata |only magclass-5.24.7/magclass/man/add_columns.Rd | 4 magclass-5.24.7/magclass/man/add_dimension.Rd | 3 magclass-5.24.7/magclass/man/as.RasterBrick.Rd |only magclass-5.24.7/magclass/man/as.data.frame-methods.Rd | 6 magclass-5.24.7/magclass/man/calibrate_it.Rd | 10 magclass-5.24.7/magclass/man/clean_magpie.Rd | 4 magclass-5.24.7/magclass/man/collapseDim.Rd |only magclass-5.24.7/magclass/man/collapseNames.Rd | 6 magclass-5.24.7/magclass/man/complete_magpie.Rd | 4 magclass-5.24.7/magclass/man/convergence.Rd | 4 magclass-5.24.7/magclass/man/dimCode.Rd | 4 magclass-5.24.7/magclass/man/dimExists.Rd |only magclass-5.24.7/magclass/man/dimOrder.Rd | 4 magclass-5.24.7/magclass/man/dimReduce.Rd | 2 magclass-5.24.7/magclass/man/getCoords.Rd |only magclass-5.24.7/magclass/man/getDim.Rd | 8 magclass-5.24.7/magclass/man/getItems.Rd | 28 magclass-5.24.7/magclass/man/getMetadata.Rd | 32 magclass-5.24.7/magclass/man/hasCoords.Rd |only magclass-5.24.7/magclass/man/hasSets.Rd |only magclass-5.24.7/magclass/man/head.magpie.Rd | 6 magclass-5.24.7/magclass/man/lin.convergence.Rd | 4 magclass-5.24.7/magclass/man/magpie-class.Rd | 31 magclass-5.24.7/magclass/man/magpieResolution.Rd | 5 magclass-5.24.7/magclass/man/magpie_expand.Rd | 2 magclass-5.24.7/magclass/man/magpiesort.Rd | 4 magclass-5.24.7/magclass/man/magpply.Rd | 11 magclass-5.24.7/magclass/man/maxample.Rd |only magclass-5.24.7/magclass/man/mbind.Rd | 6 magclass-5.24.7/magclass/man/mcalc.Rd | 10 magclass-5.24.7/magclass/man/mselect.Rd | 5 magclass-5.24.7/magclass/man/place_x_in_y.Rd | 6 magclass-5.24.7/magclass/man/print.magpie.Rd | 8 magclass-5.24.7/magclass/man/setItems.Rd |only magclass-5.24.7/magclass/man/sizeCheck.Rd | 3 magclass-5.24.7/magclass/man/time_interpolate.Rd | 6 magclass-5.24.7/magclass/man/where.Rd | 3 magclass-5.24.7/magclass/man/withMetadata.Rd | 12 magclass-5.24.7/magclass/man/write.report.Rd | 4 magclass-5.24.7/magclass/man/write.report2.Rd | 3 magclass-5.24.7/magclass/tests/testthat/test-as.magpie.R | 6 magclass-5.24.7/magclass/tests/testthat/test-collapseDim.R |only magclass-5.24.7/magclass/tests/testthat/test-collapseNames.R | 2 magclass-5.24.7/magclass/tests/testthat/test-dimCode.R |only magclass-5.24.7/magclass/tests/testthat/test-dimExists.R |only magclass-5.24.7/magclass/tests/testthat/test-getCoords.R |only magclass-5.24.7/magclass/tests/testthat/test-getDim.R | 13 magclass-5.24.7/magclass/tests/testthat/test-getItems.R | 40 magclass-5.24.7/magclass/tests/testthat/test-lowpass.R | 4 magclass-5.24.7/magclass/tests/testthat/test-magpie.R | 175 +- magclass-5.24.7/magclass/tests/testthat/test-magpie_expand.R | 14 magclass-5.24.7/magclass/tests/testthat/test-metadata.R | 28 magclass-5.24.7/magclass/tests/testthat/test-new.magpie.R |only magclass-5.24.7/magclass/tests/testthat/test-printmagpie.R | 14 magclass-5.24.7/magclass/tests/testthat/test-raster.R |only magclass-5.24.7/magclass/tests/testthat/test-readwritemagpie.R | 10 magclass-5.24.7/magclass/vignettes/magclass-expansion.Rmd | 21 magclass-5.24.7/magclass/vignettes/magclass.Rmd | 10 118 files changed, 1514 insertions(+), 1335 deletions(-)
Title: Simple Data Frames
Description: Provides a 'tbl_df' class (the 'tibble') that
provides stricter checking and better formatting than the traditional
data frame.
Author: Kirill Müller [aut, cre],
Hadley Wickham [aut],
Romain Francois [ctb],
Jennifer Bryan [ctb],
RStudio [cph]
Maintainer: Kirill Müller <krlmlr+r@mailbox.org>
Diff between tibble versions 3.0.6 dated 2021-01-29 and 3.1.0 dated 2021-02-25
tibble-3.0.6/tibble/R/aaa-pillar.R |only tibble-3.0.6/tibble/man/glimpse.Rd |only tibble-3.0.6/tibble/man/tbl_sum.Rd |only tibble-3.1.0/tibble/DESCRIPTION | 24 - tibble-3.1.0/tibble/MD5 | 152 +++++----- tibble-3.1.0/tibble/NAMESPACE | 12 tibble-3.1.0/tibble/NEWS.md | 25 + tibble-3.1.0/tibble/R/add.R | 2 tibble-3.1.0/tibble/R/as_tibble.R | 11 tibble-3.1.0/tibble/R/class-tbl_df.R | 6 tibble-3.1.0/tibble/R/enframe.R | 2 tibble-3.1.0/tibble/R/error.R | 18 - tibble-3.1.0/tibble/R/glimpse.R | 142 --------- tibble-3.1.0/tibble/R/legacy-compat.R | 2 tibble-3.1.0/tibble/R/lst.R | 10 tibble-3.1.0/tibble/R/names.R | 26 - tibble-3.1.0/tibble/R/new.R | 2 tibble-3.1.0/tibble/R/print.R | 41 +- tibble-3.1.0/tibble/R/rownames.R | 6 tibble-3.1.0/tibble/R/subsetting.R | 20 - tibble-3.1.0/tibble/R/tbl_sum.R | 39 -- tibble-3.1.0/tibble/R/tibble.R | 12 tibble-3.1.0/tibble/R/tidy_names.R | 2 tibble-3.1.0/tibble/R/tribble.R | 4 tibble-3.1.0/tibble/R/zzz.R | 10 tibble-3.1.0/tibble/build/vignette.rds |binary tibble-3.1.0/tibble/inst/doc/formats.html | 18 - tibble-3.1.0/tibble/inst/doc/invariants.R | 2 tibble-3.1.0/tibble/inst/doc/invariants.Rmd | 2 tibble-3.1.0/tibble/inst/doc/invariants.html | 74 ++-- tibble-3.1.0/tibble/inst/doc/tibble.html | 18 - tibble-3.1.0/tibble/inst/doc/types.html | 6 tibble-3.1.0/tibble/man/as_tibble.Rd | 6 tibble-3.1.0/tibble/man/deprecated.Rd | 2 tibble-3.1.0/tibble/man/enframe.Rd | 2 tibble-3.1.0/tibble/man/formatting.Rd | 14 tibble-3.1.0/tibble/man/frame_matrix.Rd | 2 tibble-3.1.0/tibble/man/is.tibble.Rd | 2 tibble-3.1.0/tibble/man/lst.Rd | 12 tibble-3.1.0/tibble/man/name-repair-superseded.Rd | 2 tibble-3.1.0/tibble/man/new_tibble.Rd | 2 tibble-3.1.0/tibble/man/reexports.Rd | 7 tibble-3.1.0/tibble/man/subsetting.Rd | 5 tibble-3.1.0/tibble/man/tibble-package.Rd | 2 tibble-3.1.0/tibble/man/tibble.Rd | 10 tibble-3.1.0/tibble/man/tribble.Rd | 2 tibble-3.1.0/tibble/man/trunc_mat.Rd |only tibble-3.1.0/tibble/man/view.Rd | 2 tibble-3.1.0/tibble/tests/testthat/_snaps/add.md | 3 tibble-3.1.0/tibble/tests/testthat/_snaps/as_tibble.md | 27 + tibble-3.1.0/tibble/tests/testthat/_snaps/class-tbl_df.md | 14 tibble-3.1.0/tibble/tests/testthat/_snaps/invariants.md |only tibble-3.1.0/tibble/tests/testthat/_snaps/msg.md | 46 --- tibble-3.1.0/tibble/tests/testthat/_snaps/names.md | 20 - tibble-3.1.0/tibble/tests/testthat/_snaps/print.md | 6 tibble-3.1.0/tibble/tests/testthat/_snaps/str.md | 12 tibble-3.1.0/tibble/tests/testthat/_snaps/subsetting.md | 86 ----- tibble-3.1.0/tibble/tests/testthat/_snaps/tibble.md | 1 tibble-3.1.0/tibble/tests/testthat/_snaps/tidy_names.md | 1 tibble-3.1.0/tibble/tests/testthat/_snaps/utils-msg-format.md | 2 tibble-3.1.0/tibble/tests/testthat/helper-expectations.R | 2 tibble-3.1.0/tibble/tests/testthat/helper-zzz.R | 5 tibble-3.1.0/tibble/tests/testthat/test-add.R | 2 tibble-3.1.0/tibble/tests/testthat/test-as_tibble.R | 34 +- tibble-3.1.0/tibble/tests/testthat/test-class-tbl_df.R | 1 tibble-3.1.0/tibble/tests/testthat/test-error.R | 7 tibble-3.1.0/tibble/tests/testthat/test-invariants.R |only tibble-3.1.0/tibble/tests/testthat/test-msg.R | 30 - tibble-3.1.0/tibble/tests/testthat/test-names.R | 25 - tibble-3.1.0/tibble/tests/testthat/test-new.R | 2 tibble-3.1.0/tibble/tests/testthat/test-print.R | 1 tibble-3.1.0/tibble/tests/testthat/test-rownames.R | 12 tibble-3.1.0/tibble/tests/testthat/test-subsetting.R | 19 + tibble-3.1.0/tibble/tests/testthat/test-zzz-data-frame.R | 22 - tibble-3.1.0/tibble/tests/testthat/test-zzz-glimpse.R | 10 tibble-3.1.0/tibble/tests/testthat/test-zzz-msg.R | 24 - tibble-3.1.0/tibble/tests/testthat/test-zzz-name-repair.R | 16 - tibble-3.1.0/tibble/tests/testthat/test-zzz-syntactic-names.R | 4 tibble-3.1.0/tibble/tests/testthat/test-zzz-tbl-df.R | 2 tibble-3.1.0/tibble/vignettes/invariants.Rmd | 2 80 files changed, 488 insertions(+), 710 deletions(-)
Title: Quantile Regression Index Score
Description: The QRI_func() function performs quantile regression analysis using age and sex as predictors to calculate the Quantile Regression Index (QRI) score for each individual’s regional brain imaging metrics and then averages across the regional scores to generate an average tissue specific score for each subject. The QRI_plot() is used to plot QRI and generate the normative curves for individual measurements.
Author: Peter Kochunov [aut],
Si Gao [aut, cre],
Meghann Ryan [aut]
Maintainer: Si Gao <sgao@som.umaryland.edu>
Diff between QRIpkg versions 0.2.1 dated 2020-10-20 and 0.2.2 dated 2021-02-25
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/QRI_func.R | 13 ++++++++----- man/QRI_func.Rd | 16 +++++++++++++--- 4 files changed, 27 insertions(+), 14 deletions(-)
Title: Estimation of Order of Mixture Distributions
Description: Methods for estimating the order of a mixture model. The approaches considered are
based on the following papers (extensive list of references is available in the vignette):
1. Dacunha-Castelle, Didier, and Elisabeth Gassiat. The estimation of the order of a mixture model. Bernoulli 3, no. 3 (1997): 279-299. <https://projecteuclid.org/download/pdf_1/euclid.bj/1177334456>.
2. Woo, Mi-Ja, and T. N. Sriram. Robust estimation of mixture complexity. Journal of the American Statistical Association 101, no. 476 (2006): 1475-1486. <doi:10.1198/016214506000000555>.
3. Woo, Mi-Ja, and T. N. Sriram. Robust estimation of mixture complexity for count data. Computational statistics & data analysis 51, no. 9 (2007): 4379-4392. <doi:10.1016/j.csda.2006.06.006>.
4. Umashanger, T., and T. N. Sriram. L2E estimation of mixture complexity for count data. Computational statistics & data analysis 53, no. 12 (2009): 4243-4254. <doi:10.1016/j.csda.2009.05.013>.
5. Karlis, Dimitris, and Evdokia Xekalaki. On testing for the number of components in a mixed Poisson model. Annals of the Institute of Statistical Mathematics 51, no. 1 (1999): 149-162. <doi:10.1023/A:1003839420071>.
6. Cutler, Adele, and Olga I. Cordero-Brana. Minimum Hellinger Distance Estimation for Finite Mixture Models. Journal of the American Statistical Association 91, no. 436 (1996): 1716-1723. <doi:10.2307/2291601>.
A number of datasets are included.
1. accidents, from Karlis, Dimitris, and Evdokia Xekalaki. On testing for the number of components in a mixed Poisson model. Annals of the Institute of Statistical Mathematics 51, no. 1 (1999): 149-162. <doi:10.1023/A:1003839420071>.
2. acidity, from Sybil L. Crawford, Morris H. DeGroot, Joseph B. Kadane & Mitchell J. Small (1992) Modeling Lake-Chemistry Distributions: Approximate Bayesian Methods for Estimating a Finite-Mixture Model, Technometrics, 34:4, 441-453. <doi:10.1080/00401706.1992.10484955>.
3. children, from Thisted, R. A. (1988). Elements of statistical computing: Numerical computation (Vol. 1). CRC Press.
4. faithful, from R package "datasets"; Azzalini, A. and Bowman, A. W. (1990). A look at some data on the Old Faithful geyser. Applied Statistics, 39, 357--365. <https://www.jstor.org/stable/2347385>.
5. shakespeare, from Efron, Bradley, and Ronald Thisted. "Estimating the number of unseen species: How many words did Shakespeare know?." Biometrika 63.3 (1976): 435-447. <doi:10.1093/biomet/63.3.435>.
Author: Anja Weigel [aut],
Yulia Kulagina [aut, cre],
Fadoua Balabdaoui [aut, ths],
Lilian Mueller [ctb],
Martin Maechler [ctb] (package 'nor1mix' as model,
<https://orcid.org/0000-0002-8685-9910>)
Maintainer: Yulia Kulagina <yulia.kulagina@stat.math.ethz.ch>
Diff between mixComp versions 0.1-1 dated 2020-11-18 and 0.1-2 dated 2021-02-25
DESCRIPTION | 17 MD5 | 67 +- NAMESPACE | 4 R/0_Mix_utils.R | 1657 ++++++++++++++++++++++++-------------------------- R/1_hankel_np_utils.R | 73 +- R/2_hankel_p_utils.R | 34 - R/3_distances_disc.R | 115 +-- R/4_distances_cont.R | 100 +-- R/5_lrt_utils.R | 30 R/accidents.R |only R/acidity.R |only R/children.R |only R/faithful.R |only R/shakespeare.R |only build/vignette.rds |binary data |only inst/doc/mixComp.R | 190 ++++- inst/doc/mixComp.Rmd | 386 ++++++++--- inst/doc/mixComp.html | 791 +++++++++++++++++------ man/L2.disc.Rd | 20 man/Mix.Rd | 101 --- man/RtoDat.Rd | 31 man/accidents.Rd |only man/acidity.Rd |only man/children.Rd |only man/dMix.Rd | 11 man/datMix.Rd | 71 +- man/faithful.Rd |only man/hellinger.cont.Rd | 42 - man/hellinger.disc.Rd | 41 - man/mix.lrt.Rd | 24 man/nonparamHankel.Rd | 42 - man/paramHankel.Rd | 28 man/plot.Mix.Rd |only man/plot.rMix.Rd |only man/rMix.Rd | 71 -- man/shakespeare.Rd |only vignettes/mixComp.Rmd | 386 ++++++++--- vignettes/refs.bib | 189 +++++ 39 files changed, 2698 insertions(+), 1823 deletions(-)
Title: Utilities for 'Glmnet'
Description: Provides a formula interface for the 'glmnet' package for
elasticnet regression, a method for cross-validating the alpha parameter,
and other quality-of-life tools.
Author: Microsoft [cph],
Hong Ooi [aut, cre]
Maintainer: Hong Ooi <hongooi73@gmail.com>
Diff between glmnetUtils versions 1.1.7 dated 2021-02-23 and 1.1.8 dated 2021-02-25
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ inst/doc/intro.html | 4 ++-- tests/testthat/test7_family.R | 3 +++ 5 files changed, 16 insertions(+), 9 deletions(-)
Title: A Toolkit for Using Whole Building Simulation Program
'EnergyPlus'
Description: A rich toolkit of using the whole building
simulation program 'EnergyPlus'(<https://energyplus.net>), which
enables programmatic navigation, modification of 'EnergyPlus' models
and makes it less painful to do parametric simulations and analysis.
Author: Hongyuan Jia [aut, cre] (<https://orcid.org/0000-0002-0075-8183>)
Maintainer: Hongyuan Jia <hongyuan.jia@bears-berkeley.sg>
Diff between eplusr versions 0.14.0 dated 2021-01-07 and 0.14.1 dated 2021-02-25
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NAMESPACE | 2 -- NEWS.md | 7 +++++++ R/units.R | 19 +++++++++++++------ man/Epw.Rd | 2 +- man/Idf.Rd | 2 +- man/IdfObject.Rd | 4 ++-- man/get_idf_table.Rd | 2 +- 9 files changed, 36 insertions(+), 24 deletions(-)
Title: Tools for Choice Model Estimation and Application
Description: The Choice Modelling Centre (CMC) at the University of Leeds
has developed flexible code for the estimation and application
of choice models in R. Users are able to write their own
model functions or use a mix of already available ones. Random heterogeneity,
both continuous and discrete and at the level of individuals and
choices, can be incorporated for all models. There is support for both standalone
models and hybrid model structures. Both classical
and Bayesian estimation is available, and multiple discrete
continuous models are covered in addition to discrete choice.
Multi-threading processing is supported for estimation and a large
number of pre and post-estimation routines, including for computing posterior
(individual-level) distributions are available.
For examples, a manual, and a support forum, visit
<http://www.ApolloChoiceModelling.com>. For more information on choice
models see Train, K. (2009) <isbn:978-0-521-74738-7> and Hess,
S. & Daly, A.J. (2014) <isbn:978-1-781-00314-5> for an overview
of the field.
Author: Stephane Hess [aut],
David Palma [aut, cre]
Maintainer: David Palma <D.Palma@leeds.ac.uk>
Diff between apollo versions 0.2.3 dated 2021-01-20 and 0.2.4 dated 2021-02-25
apollo-0.2.3/apollo/tests/testthat/test-multicore.R |only apollo-0.2.4/apollo/DESCRIPTION | 8 apollo-0.2.4/apollo/MD5 | 57 apollo-0.2.4/apollo/R/apollo_conditionals.R | 7 apollo-0.2.4/apollo/R/apollo_deltaMethod.R | 1 apollo-0.2.4/apollo/R/apollo_dft.R | 1846 +++++++++---------- apollo-0.2.4/apollo/R/apollo_fitsTest.R | 2 apollo-0.2.4/apollo/R/apollo_insertFunc.R | 29 apollo-0.2.4/apollo/R/apollo_lcConditionals.R | 4 apollo-0.2.4/apollo/R/apollo_lcEM.R | 3 apollo-0.2.4/apollo/R/apollo_lcUnconditionals.r | 2 apollo-0.2.4/apollo/R/apollo_makeDraws.R | 2 apollo-0.2.4/apollo/R/apollo_makeGrad.R | 13 apollo-0.2.4/apollo/R/apollo_mdcev.R | 11 apollo-0.2.4/apollo/R/apollo_mdcnev.R | 10 apollo-0.2.4/apollo/R/apollo_mixEM.R | 9 apollo-0.2.4/apollo/R/apollo_prediction.R | 67 apollo-0.2.4/apollo/R/apollo_preprocess.R | 38 apollo-0.2.4/apollo/R/apollo_readBeta.R | 20 apollo-0.2.4/apollo/R/apollo_sharesTest.R | 96 apollo-0.2.4/apollo/R/apollo_validate.R | 33 apollo-0.2.4/apollo/R/apollo_validateControl.R | 7 apollo-0.2.4/apollo/R/apollo_validateInputs.R | 1 apollo-0.2.4/apollo/inst/doc/apollofirstexample.html | 18 apollo-0.2.4/apollo/man/apollo_deltaMethod.Rd | 1 apollo-0.2.4/apollo/man/apollo_fitsTest.Rd | 1 apollo-0.2.4/apollo/man/apollo_lcEM.Rd | 3 apollo-0.2.4/apollo/man/apollo_prediction.Rd | 1 apollo-0.2.4/apollo/tests/testthat/test-mmnl.R | 158 - apollo-0.2.4/apollo/tests/testthat/test-mnl.R | 126 - 30 files changed, 1337 insertions(+), 1237 deletions(-)
Title: Graphic Devices Based on AGG
Description: Anti-Grain Geometry (AGG) is a high-quality and high-performance
2D drawing library. The 'ragg' package provides a set of graphic devices
based on AGG to use as alternative to the raster devices provided through
the 'grDevices' package.
Author: Thomas Lin Pedersen [cre, aut]
(<https://orcid.org/0000-0002-5147-4711>),
Maxim Shemanarev [aut, cph] (Author of AGG),
Tony Juricic [ctb, cph] (Contributor to AGG),
Milan Marusinec [ctb, cph] (Contributor to AGG),
Spencer Garrett [ctb] (Contributor to AGG),
RStudio [cph]
Maintainer: Thomas Lin Pedersen <thomas.pedersen@rstudio.com>
Diff between ragg versions 1.1.0 dated 2021-02-15 and 1.1.1 dated 2021-02-25
DESCRIPTION | 6 +-- MD5 | 12 +++---- NEWS.md | 5 +++ src/AggDevice.h | 10 +++--- src/agg/include/agg_font_freetype.h | 3 + src/init_device.h | 5 ++- src/text_renderer.h | 59 +++++++++++++++++------------------- 7 files changed, 55 insertions(+), 45 deletions(-)
Title: Left-Censored Recurrent Events Survival Models
Description: Fitting recurrent events survival models for
left-censored data with multiple imputation of the number of previous episodes.
See Hernández-Herrera G, Moriña D, Navarro A. (2020) <arXiv:2007.15031>.
Author: David Moriña [aut, cre] (<https://orcid.org/0000-0001-5949-7443>),
Gilma Hernández-Herrera [aut],
Albert Navarro [aut]
Maintainer: David Moriña <dmorina@ub.edu>
Diff between miRecSurv versions 0.0.1 dated 2020-09-25 and 1.0.1 dated 2021-02-25
DESCRIPTION | 9 ++++--- MD5 | 16 +++++++------ NAMESPACE | 4 +++ R/print.summary.recEvFit.R |only R/recEvFit.R | 54 ++++++++++++++++++++------------------------- R/summary.recEvFit.R |only man/miRecSurv-internal.Rd | 4 +++ man/miRecSurv-package.Rd | 11 ++++----- man/recEvFit.Rd | 33 +++++++++++++++++++++++---- man/sim.data.Rd | 23 +++++++++++++++++-- 10 files changed, 100 insertions(+), 54 deletions(-)
Title: A High-Performance Local Taxonomic Database Interface
Description: Creates a local database of many commonly used taxonomic authorities
and provides functions that can quickly query this data.
Author: Carl Boettiger [aut, cre] (<https://orcid.org/0000-0002-1642-628X>),
Kari Norman [aut] (<https://orcid.org/0000-0002-2029-2325>),
Jorrit Poelen [aut] (<https://orcid.org/0000-0003-3138-4118>),
Scott Chamberlain [aut] (<https://orcid.org/0000-0003-1444-9135>),
Noam Ross [ctb] (<https://orcid.org/0000-0002-2136-0000>)
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between taxadb versions 0.1.0 dated 2020-02-19 and 0.1.1 dated 2021-02-25
taxadb-0.1.0/taxadb/man/available_versions.Rd |only taxadb-0.1.1/taxadb/DESCRIPTION | 23 taxadb-0.1.1/taxadb/MD5 | 92 ++- taxadb-0.1.1/taxadb/NAMESPACE | 6 taxadb-0.1.1/taxadb/NEWS.md |only taxadb-0.1.1/taxadb/R/filter_by.R | 11 taxadb-0.1.1/taxadb/R/filter_common.R | 9 taxadb-0.1.1/taxadb/R/filter_id.R | 1 taxadb-0.1.1/taxadb/R/filter_name.R | 1 taxadb-0.1.1/taxadb/R/filter_rank.R | 1 taxadb-0.1.1/taxadb/R/fuzzy_filter.R | 19 taxadb-0.1.1/taxadb/R/get_ids.R | 19 taxadb-0.1.1/taxadb/R/get_names.R | 20 taxadb-0.1.1/taxadb/R/handling-duplicates.R | 17 taxadb-0.1.1/taxadb/R/mutate_db.R | 21 taxadb-0.1.1/taxadb/R/taxa_tbl.R | 34 - taxadb-0.1.1/taxadb/R/td_connect.R | 104 ---- taxadb-0.1.1/taxadb/R/td_create.R | 115 ---- taxadb-0.1.1/taxadb/R/tl_import.R |only taxadb-0.1.1/taxadb/README.md | 168 +++---- taxadb-0.1.1/taxadb/build/vignette.rds |binary taxadb-0.1.1/taxadb/inst/WORDLIST | 6 taxadb-0.1.1/taxadb/inst/doc/backends.html | 232 +--------- taxadb-0.1.1/taxadb/inst/doc/data-sources.Rmd | 6 taxadb-0.1.1/taxadb/inst/doc/data-sources.html | 209 --------- taxadb-0.1.1/taxadb/inst/examples/taxadb_github_releases.R |only taxadb-0.1.1/taxadb/inst/extdata/prov.json |only taxadb-0.1.1/taxadb/man/common_contains.Rd | 5 taxadb-0.1.1/taxadb/man/common_starts_with.Rd | 5 taxadb-0.1.1/taxadb/man/filter_by.Rd | 3 taxadb-0.1.1/taxadb/man/filter_common.Rd | 10 taxadb-0.1.1/taxadb/man/filter_id.Rd | 3 taxadb-0.1.1/taxadb/man/filter_name.Rd | 3 taxadb-0.1.1/taxadb/man/filter_rank.Rd | 3 taxadb-0.1.1/taxadb/man/fuzzy_filter.Rd | 5 taxadb-0.1.1/taxadb/man/get_ids.Rd | 16 taxadb-0.1.1/taxadb/man/get_names.Rd | 13 taxadb-0.1.1/taxadb/man/mutate_db.Rd | 14 taxadb-0.1.1/taxadb/man/name_contains.Rd | 7 taxadb-0.1.1/taxadb/man/name_starts_with.Rd | 7 taxadb-0.1.1/taxadb/man/taxa_tbl.Rd | 18 taxadb-0.1.1/taxadb/man/td_connect.Rd | 11 taxadb-0.1.1/taxadb/man/td_create.Rd | 18 taxadb-0.1.1/taxadb/man/td_disconnect.Rd | 4 taxadb-0.1.1/taxadb/man/tl_import.Rd |only taxadb-0.1.1/taxadb/tests/testthat/test-get_ids.R | 9 taxadb-0.1.1/taxadb/tests/testthat/test-handling-duplicates.R |only taxadb-0.1.1/taxadb/tests/testthat/test-mutate-db.R | 4 taxadb-0.1.1/taxadb/tests/testthat/test-taxadb.R | 15 taxadb-0.1.1/taxadb/tests/testthat/test-tl_import.R |only taxadb-0.1.1/taxadb/vignettes/data-sources.Rmd | 6 51 files changed, 444 insertions(+), 849 deletions(-)
Title: Power Estimates for ANOVA Designs
Description: Functions for bootstrapping the power of ANOVA designs
based on estimated means and standard deviations of the conditions.
Please refer to the documentation of the boot.power.anova() function
for further details.
Author: Frank Papenmeier [aut, cre]
Maintainer: Frank Papenmeier <frank.papenmeier@uni-tuebingen.de>
Diff between powerbydesign versions 1.0.4 dated 2018-04-04 and 1.0.5 dated 2021-02-25
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NEWS | 8 ++++++++ R/boot.power.anova.R | 2 +- man/design.anova.Rd | 10 +++++++--- man/plot.power_by_samplesize.Rd | 3 +-- 6 files changed, 27 insertions(+), 16 deletions(-)
Title: Accompaniment to Population Genetics with R: An Introduction for
Life Scientists
Description: Provides several data sets and functions to accompany the book "Population Genetics with R: An Introduction for Life Scientists" (2021, ISBN:9780198829546).
Author: Aki Jarl Laruson; Floyd Reed
Maintainer: Aki Jarl Laruson <akijarl@gmail.com>
Diff between popgenr versions 0.1 dated 2020-07-02 and 0.2 dated 2021-02-25
.Rbuildignore |only DESCRIPTION | 14 +-- MD5 | 22 ++-- NAMESPACE | 5 - R/Dcalc.R | 246 +++++++++++++++++++++++++++---------------------------- R/coal.R |only man/Dcalc.Rd | 74 ++++++++-------- man/coal.Rd |only man/fly.Rd | 33 +++---- man/genotypes.Rd | 30 +++--- man/moth.Rd | 31 +++--- man/snp.Rd | 28 +++--- man/thirteen.Rd | 29 +++--- man/whale.Rd | 33 ++++--- 14 files changed, 277 insertions(+), 268 deletions(-)
Title: Reference on Constants, Units and Uncertainty
Description: CODATA internationally recommended values of the fundamental
physical constants, provided as symbols for direct use within the R language.
Optionally, the values with uncertainties and/or units are also provided if
the 'errors', 'units' and/or 'quantities' packages are installed.
The Committee on Data for Science and Technology (CODATA) is an
interdisciplinary committee of the International Council for Science which
periodically provides the internationally accepted set of values of the
fundamental physical constants. This package contains the "2018 CODATA"
version, published on May 2019:
Eite Tiesinga, Peter J. Mohr, David B. Newell, and Barry N. Taylor (2020)
<https://physics.nist.gov/cuu/Constants/>.
Author: Iñaki Ucar [aut, cph, cre] (<https://orcid.org/0000-0001-6403-5550>)
Maintainer: Iñaki Ucar <iucar@fedoraproject.org>
Diff between constants versions 1.0.0 dated 2020-11-11 and 1.0.1 dated 2021-02-25
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 4 ++++ R/constants.R | 13 +++++++++---- README.md | 12 +++++++----- man/codata.Rd | 2 +- man/constants-package.Rd | 2 +- 7 files changed, 32 insertions(+), 21 deletions(-)
Title: Exploring Election and Census Highly Informative Data Nationally
for Australia
Description: Data from the seven Australian Federal Elections (House of
Representatives) between 2001 and 2019, and from the four Australian
Censuses over the same period. Includes tools for visualizing and
analysing the data, as well as imputing Census data for years in
which a Census does not occur. This package incorporates
data that is copyright Commonwealth of Australia (Australian
Electoral Commission and Australian Bureau of Statistics) 2019.
Author: Jeremy Forbes [aut, cre],
Di Cook [aut],
Anthony Ebert [aut],
Heike Hofmann [aut],
Rob Hyndman [aut],
Thomas Lumley [aut],
Ben Marwick [aut],
Carson Sievert [aut],
Mingzhu Sun [aut],
Dilini Talagala [aut],
Nicholas Tierney [aut],
Nathaniel Tomasetti [aut],
Earo Wang [aut],
Fang Zhou [aut],
Commonwealth of Australia AEC [cph],
Australian Bureau of Statistics ABS [cph]
Maintainer: Jeremy Forbes <jeforbes14@gmail.com>
Diff between eechidna versions 1.4.0 dated 2019-11-08 and 1.4.1 dated 2021-02-25
eechidna-1.4.0/eechidna/man/abs2001.Rd |only eechidna-1.4.0/eechidna/man/abs2004.Rd |only eechidna-1.4.0/eechidna/man/abs2006.Rd |only eechidna-1.4.0/eechidna/man/abs2007.Rd |only eechidna-1.4.0/eechidna/man/abs2010.Rd |only eechidna-1.4.0/eechidna/man/abs2011.Rd |only eechidna-1.4.0/eechidna/man/abs2013.Rd |only eechidna-1.4.0/eechidna/man/abs2016.Rd |only eechidna-1.4.0/eechidna/man/abs2019.Rd |only eechidna-1.4.0/eechidna/man/eechidnaR-package.Rd |only eechidna-1.4.0/eechidna/man/fp01.Rd |only eechidna-1.4.0/eechidna/man/fp04.Rd |only eechidna-1.4.0/eechidna/man/fp07.Rd |only eechidna-1.4.0/eechidna/man/fp10.Rd |only eechidna-1.4.0/eechidna/man/fp13.Rd |only eechidna-1.4.0/eechidna/man/fp16.Rd |only eechidna-1.4.0/eechidna/man/fp19.Rd |only eechidna-1.4.0/eechidna/man/tcp01.Rd |only eechidna-1.4.0/eechidna/man/tcp04.Rd |only eechidna-1.4.0/eechidna/man/tcp07.Rd |only eechidna-1.4.0/eechidna/man/tcp10.Rd |only eechidna-1.4.0/eechidna/man/tcp13.Rd |only eechidna-1.4.0/eechidna/man/tcp16.Rd |only eechidna-1.4.0/eechidna/man/tcp19.Rd |only eechidna-1.4.0/eechidna/man/tpp01.Rd |only eechidna-1.4.0/eechidna/man/tpp04.Rd |only eechidna-1.4.0/eechidna/man/tpp07.Rd |only eechidna-1.4.0/eechidna/man/tpp10.Rd |only eechidna-1.4.0/eechidna/man/tpp13.Rd |only eechidna-1.4.0/eechidna/man/tpp16.Rd |only eechidna-1.4.0/eechidna/man/tpp19.Rd |only eechidna-1.4.1/eechidna/DESCRIPTION | 26 eechidna-1.4.1/eechidna/MD5 | 190 - 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eechidna-1.4.1/eechidna/man/aec_carto_f.Rd | 13 eechidna-1.4.1/eechidna/man/allocate_electorate.Rd | 8 eechidna-1.4.1/eechidna/man/census.Rd |only eechidna-1.4.1/eechidna/man/circle.Rd | 13 eechidna-1.4.1/eechidna/man/dorling.Rd | 24 eechidna-1.4.1/eechidna/man/first_preference.Rd |only eechidna-1.4.1/eechidna/man/firstpref_pollingbooth_download.Rd | 6 eechidna-1.4.1/eechidna/man/get_electorate_shapes.Rd | 11 eechidna-1.4.1/eechidna/man/launch_app.Rd | 20 eechidna-1.4.1/eechidna/man/nat_data01.Rd | 8 eechidna-1.4.1/eechidna/man/nat_data04.Rd | 10 eechidna-1.4.1/eechidna/man/nat_data07.Rd | 10 eechidna-1.4.1/eechidna/man/nat_data10.Rd | 10 eechidna-1.4.1/eechidna/man/nat_data13.Rd | 10 eechidna-1.4.1/eechidna/man/nat_data16.Rd | 37 eechidna-1.4.1/eechidna/man/nat_data19.Rd | 37 eechidna-1.4.1/eechidna/man/nat_data_download.Rd | 41 eechidna-1.4.1/eechidna/man/nat_map01.Rd | 8 eechidna-1.4.1/eechidna/man/nat_map04.Rd | 10 eechidna-1.4.1/eechidna/man/nat_map07.Rd | 10 eechidna-1.4.1/eechidna/man/nat_map10.Rd | 10 eechidna-1.4.1/eechidna/man/nat_map13.Rd | 10 eechidna-1.4.1/eechidna/man/nat_map16.Rd | 10 eechidna-1.4.1/eechidna/man/nat_map19.Rd | 10 eechidna-1.4.1/eechidna/man/nat_map_download.Rd | 43 eechidna-1.4.1/eechidna/man/tcp.Rd |only eechidna-1.4.1/eechidna/man/tpp.Rd |only eechidna-1.4.1/eechidna/man/twocand_pollingbooth_download.Rd | 6 eechidna-1.4.1/eechidna/man/twoparty_pollingbooth_download.Rd | 6 eechidna-1.4.1/eechidna/tests/testthat/test-maps.R |only eechidna-1.4.1/eechidna/vignettes/eechidna-intro.Rmd | 4 114 files changed, 822 insertions(+), 1724 deletions(-)
Title: Distance Sampling Survey Design
Description: Creates survey designs for distance sampling surveys. These
designs can be assessed for various effort and coverage statistics.
Once the user is satisfied with the design characteristics they can
generate a set of transects to use in their distance sampling survey.
Many of the designs implemented in this R package were first made
available in our 'Distance' for Windows software and are detailed in
Chapter 7 of Advanced Distance Sampling, Buckland et. al. (2008,
ISBN-13: 978-0199225873). Find out more about estimating animal/plant
abundance with distance sampling at <http://distancesampling.org/>.
Author: Laura Marshall <lhm@st-andrews.ac.uk>
Maintainer: Laura Marshall <lhm@st-andrews.ac.uk>
Diff between dssd versions 0.2.1 dated 2020-02-20 and 0.2.2 dated 2021-02-25
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NAMESPACE | 1 + NEWS | 5 +++++ R/Region.R | 1 + build/vignette.rds |binary inst/doc/GettingStarted.html | 28 ++++++++++++++++++---------- inst/doc/MultiStrataVignette.html | 34 +++++++++++++++++++++------------- 8 files changed, 57 insertions(+), 34 deletions(-)
Title: N-Factor Commodity Pricing Through Term Structure Estimation
Description: Commodity pricing models are (systems of) stochastic differential equations that are utilized for the valuation and hedging of commodity contingent claims (i.e. derivative products on the commodity) and other commodity related investments. Commodity pricing models that capture market dynamics are of great importance to commodity market participants in order to exercise sound investment and risk-management strategies. Parameters of commodity pricing models are estimated through maximum likelihood estimation, using available term structure futures data of a commodity. 'NFCP' (n-factor commodity pricing) provides a framework for the modeling, parameter estimation, probabilistic forecasting, option valuation and simulation of commodity prices through state space and Monte Carlo methods, risk-neutral valuation and Kalman filtering. 'NFCP' allows the commodity pricing model to consist of n correlated factors, with both random walk and mean-reverting elements. The n-factor commodity pricing model framework was first presented in the work of Cortazar and Naranjo (2006) <doi:10.1002/fut.20198>. Examples presented in 'NFCP' replicate the two-factor crude oil commodity pricing model presented in the prolific work of Schwartz and Smith (2000) <doi:10.1287/mnsc.46.7.893.12034> with the approximate term structure futures data applied within this study provided in the 'NFCP' package.
Author: Thomas Aspinall [aut, cre] (<https://orcid.org/0000-0002-6968-1989>),
Adrian Gepp [aut] (<https://orcid.org/0000-0003-1666-5501>),
Geoff Harris [aut] (<https://orcid.org/0000-0003-4284-8619>),
Simone Kelly [aut] (<https://orcid.org/0000-0002-6528-8557>),
Colette Southam [aut] (<https://orcid.org/0000-0001-7263-2347>),
Bruce Vanstone [aut] (<https://orcid.org/0000-0002-3977-2468>)
Maintainer: Thomas Aspinall <tomaspinall2512@gmail.com>
Diff between NFCP versions 0.1.0 dated 2021-01-13 and 0.2.0 dated 2021-02-25
NFCP-0.1.0/NFCP/R/KF-dependencies.R |only NFCP-0.1.0/NFCP/man/NFCP.bounds.Rd |only NFCP-0.2.0/NFCP/DESCRIPTION | 10 NFCP-0.2.0/NFCP/MD5 | 62 - NFCP-0.2.0/NFCP/NAMESPACE | 3 NFCP-0.2.0/NFCP/NEWS.md | 13 NFCP-0.2.0/NFCP/R/American-Options.R |only NFCP-0.2.0/NFCP/R/Analysis.R | 55 - NFCP-0.2.0/NFCP/R/Data-Descriptions.R | 103 +- NFCP-0.2.0/NFCP/R/Dependencies.R |only NFCP-0.2.0/NFCP/R/Kalman-Filter.R | 24 NFCP-0.2.0/NFCP/R/Simulations.R | 31 NFCP-0.2.0/NFCP/R/TS-PE.R | 90 + NFCP-0.2.0/NFCP/README.md | 2 NFCP-0.2.0/NFCP/build/NFCP.pdf |binary NFCP-0.2.0/NFCP/build/vignette.rds |binary NFCP-0.2.0/NFCP/inst/doc/NFCP.R | 194 ++- NFCP-0.2.0/NFCP/inst/doc/NFCP.Rmd | 1298 ++++++++++++++------------ NFCP-0.2.0/NFCP/inst/doc/NFCP.html | 1050 +++++++++------------ NFCP-0.2.0/NFCP/man/A_T.Rd | 2 NFCP-0.2.0/NFCP/man/American.Option.Value.Rd |only NFCP-0.2.0/NFCP/man/European.Option.Value.Rd | 12 NFCP-0.2.0/NFCP/man/Futures.Price.Forecast.Rd | 2 NFCP-0.2.0/NFCP/man/Futures.Price.Simulate.Rd | 13 NFCP-0.2.0/NFCP/man/NFCP.Domains.Rd |only NFCP-0.2.0/NFCP/man/NFCP.Kalman.filter.Rd | 618 ++++++------ NFCP-0.2.0/NFCP/man/NFCP.MLE.Rd | 424 ++++---- NFCP-0.2.0/NFCP/man/NFCP.Parameters.Rd | 238 ++-- NFCP-0.2.0/NFCP/man/SS.Oil.Rd | 5 NFCP-0.2.0/NFCP/man/Spot.Price.Forecast.Rd | 2 NFCP-0.2.0/NFCP/man/Spot.Price.Simulate.Rd | 10 NFCP-0.2.0/NFCP/man/Stitch.Contracts.Rd | 13 NFCP-0.2.0/NFCP/man/TSFit.Volatility.Rd | 8 NFCP-0.2.0/NFCP/man/cov_func.Rd | 4 NFCP-0.2.0/NFCP/vignettes/NFCP.Rmd | 1298 ++++++++++++++------------ 35 files changed, 2943 insertions(+), 2641 deletions(-)
Title: Interactive Statistical Data Visualization
Description: An extendable toolkit for interactive data visualization and exploration.
Author: Adrian Waddell [aut],
R. Wayne Oldford [aut, cre, ths],
Zehao Xu [ctb],
Martin Gauch [ctb]
Maintainer: R. Wayne Oldford <rwoldford@uwaterloo.ca>
Diff between loon versions 1.3.2 dated 2021-02-23 and 1.3.3 dated 2021-02-25
DESCRIPTION | 8 ++--- MD5 | 24 ++++++++-------- NEWS.md | 20 +++++++++++++ R/l_binCut.R | 3 ++ R/loonGrob_l_compound.R | 2 - R/loonGrob_l_pairs.R | 22 +++++++++++---- inst/doc/introduction.html | 4 +- inst/doc/teaching-example-smoothing.html | 4 +- man/l_binCut.Rd | 3 ++ man/l_plot_arguments.Rd | 8 +++++ tests/testthat/test_facets.R | 19 +++++++------ tests/testthat/test_linking.R | 45 +++++++++++++++---------------- tests/testthat/test_sync.R | 41 ++++++++++++---------------- 13 files changed, 124 insertions(+), 79 deletions(-)
Title: Linguistic Matching and Accommodation
Description: Measure similarity between texts. Offers a variety of processing
tools and similarity metrics to facilitate flexible representation of texts and matching.
Implements forms of Language Style Matching (Ireland & Pennebaker, 2010) <doi:10.1037/a0020386>
and Latent Semantic Analysis (Landauer & Dumais, 1997) <doi:10.1037/0033-295X.104.2.211>.
Author: Micah Iserman
Maintainer: Micah Iserman <micah.iserman@gmail.com>
Diff between lingmatch versions 1.0.0 dated 2021-02-17 and 1.0.1 dated 2021-02-25
DESCRIPTION | 6 +-- MD5 | 16 +++++---- NEWS.md |only R/RcppExports.R | 62 +++++++++++++++++++------------------- R/lingmatch.R | 37 +++++++++++++--------- R/utils.R | 59 +++++++++++++++++++++--------------- README.md |only src/utils.cpp | 5 +-- tests/testthat/test-lma_termcat.R | 6 +-- tests/testthat/test-utils.R | 9 +++-- 10 files changed, 111 insertions(+), 89 deletions(-)
Title: Propensity Score Weighting for Causal Inference with
Observational Studies and Randomized Trials
Description: Supports propensity score weighting analysis of observational studies and randomized trials. Enables the estimation and inference of average causal effects with binary and multiple treatments using overlap weights (ATO), inverse probability of treatment weights (ATE), average treatment effect among the treated weights (ATT), matching weights (ATM) and entropy weights (ATEN), with and without propensity score trimming. These weights are members of the family of balancing weights introduced in Li, Morgan and Zaslavsky (2018) <doi:10.1080/01621459.2016.1260466> and Li and Li (2019) <doi:10.1214/19-AOAS1282>.
Author: Tianhui Zhou [aut, cre],
Guangyu Tong [aut],
Fan Li [aut],
Laine Thomas [aut],
Fan Li [aut]
Maintainer: Tianhui Zhou <tianhui.zhou@duke.edu>
Diff between PSweight versions 1.1.2 dated 2020-10-05 and 1.1.3 dated 2021-02-25
PSweight-1.1.2/PSweight/R/ATENbin.R |only PSweight-1.1.2/PSweight/R/ATENbin_o.R |only PSweight-1.1.2/PSweight/R/ATENbin_p.R |only PSweight-1.1.2/PSweight/R/ATENmul.R |only PSweight-1.1.2/PSweight/R/ATENmul_o.R |only PSweight-1.1.2/PSweight/R/ATENmul_p.R |only PSweight-1.1.2/PSweight/R/ATEbin.R |only PSweight-1.1.2/PSweight/R/ATEbin_o.R |only PSweight-1.1.2/PSweight/R/ATEbin_p.R |only PSweight-1.1.2/PSweight/R/ATEmul.R |only PSweight-1.1.2/PSweight/R/ATEmul_o.R |only PSweight-1.1.2/PSweight/R/ATEmul_p.R |only PSweight-1.1.2/PSweight/R/ATMbin.R |only PSweight-1.1.2/PSweight/R/ATMbin_o.R |only PSweight-1.1.2/PSweight/R/ATMbin_p.R |only PSweight-1.1.2/PSweight/R/ATMmul.R |only PSweight-1.1.2/PSweight/R/ATMmul_o.R |only PSweight-1.1.2/PSweight/R/ATMmul_p.R |only PSweight-1.1.2/PSweight/R/ATObin.R |only PSweight-1.1.2/PSweight/R/ATObin_o.R |only PSweight-1.1.2/PSweight/R/ATObin_p.R |only PSweight-1.1.2/PSweight/R/ATOmul.R |only PSweight-1.1.2/PSweight/R/ATOmul_o.R |only PSweight-1.1.2/PSweight/R/ATOmul_p.R |only PSweight-1.1.2/PSweight/R/ATTbin.R |only PSweight-1.1.2/PSweight/R/ATTbin_o.R |only PSweight-1.1.2/PSweight/R/ATTbin_p.R |only PSweight-1.1.2/PSweight/R/ATTmul.R |only PSweight-1.1.2/PSweight/R/ATTmul_o.R |only PSweight-1.1.2/PSweight/R/ATTmul_p.R |only PSweight-1.1.2/PSweight/R/SumStat_f.R |only PSweight-1.1.2/PSweight/R/SumStat_p.R |only PSweight-1.1.3/PSweight/DESCRIPTION | 10 PSweight-1.1.3/PSweight/MD5 | 74 +--- PSweight-1.1.3/PSweight/NAMESPACE | 10 PSweight-1.1.3/PSweight/R/NCDS.R |only PSweight-1.1.3/PSweight/R/Outmethod.R |only PSweight-1.1.3/PSweight/R/PSmethod.R |only PSweight-1.1.3/PSweight/R/PStrim.R | 86 ++--- PSweight-1.1.3/PSweight/R/PSweight.R | 226 +------------ PSweight-1.1.3/PSweight/R/SumStat.R | 406 +++++++++++++++++++++++- PSweight-1.1.3/PSweight/R/bin_est.R |only PSweight-1.1.3/PSweight/R/coef_PSweight.R |only PSweight-1.1.3/PSweight/R/mul_est.R |only PSweight-1.1.3/PSweight/R/plot_SumStat.R | 28 + PSweight-1.1.3/PSweight/R/print_PStrim.R |only PSweight-1.1.3/PSweight/R/print_PSweightsum.R | 32 + PSweight-1.1.3/PSweight/R/pt_est.R |only PSweight-1.1.3/PSweight/R/sand_var.R |only PSweight-1.1.3/PSweight/R/summary_PSweight.R | 33 + PSweight-1.1.3/PSweight/R/summary_SumStat.R | 23 - PSweight-1.1.3/PSweight/R/tilt.R |only PSweight-1.1.3/PSweight/R/vcov_PSweight.R |only PSweight-1.1.3/PSweight/data/NCDS.rda |only PSweight-1.1.3/PSweight/man/NCDS.Rd |only PSweight-1.1.3/PSweight/man/PStrim.Rd | 34 +- PSweight-1.1.3/PSweight/man/PSweight.Rd | 31 + PSweight-1.1.3/PSweight/man/SumStat.Rd | 26 + PSweight-1.1.3/PSweight/man/coef.PSweight.Rd |only PSweight-1.1.3/PSweight/man/print.PStrim.Rd |only PSweight-1.1.3/PSweight/man/summary.PSweight.Rd | 13 PSweight-1.1.3/PSweight/man/vcov.PSweight.Rd |only 62 files changed, 679 insertions(+), 353 deletions(-)
Title: Power and Sample Size Calculation for eQTL Analysis
Description: Power and sample size calculation for eQTL analysis
based on ANOVA or simple linear regression. It can also calculate power/sample size
for testing the association of a SNP to a continuous type phenotype.
Author: Xianjun Dong [aut, ctb],
Xiaoqi Li [aut, ctb],
Tzuu-Wang Chang [aut, ctb],
Scott T. Weiss [aut, ctb],
Weiliang Qiu [aut, cre]
Maintainer: Weiliang Qiu <weiliang.qiu@gmail.com>
Diff between powerEQTL versions 0.2.2 dated 2020-11-01 and 0.2.7 dated 2021-02-25
powerEQTL-0.2.2/powerEQTL/README.md |only powerEQTL-0.2.7/powerEQTL/DESCRIPTION | 13 powerEQTL-0.2.7/powerEQTL/MD5 | 21 powerEQTL-0.2.7/powerEQTL/NAMESPACE | 18 powerEQTL-0.2.7/powerEQTL/NEWS | 22 powerEQTL-0.2.7/powerEQTL/R/powerEQTL.scRNAseq.sim.R |only powerEQTL-0.2.7/powerEQTL/R/simDat_scRNAseq_eQTL.R |only powerEQTL-0.2.7/powerEQTL/man/powerEQTL.ANOVA.Rd | 327 ++++++------- powerEQTL-0.2.7/powerEQTL/man/powerEQTL.sLR.Rd | 331 ++++++------- powerEQTL-0.2.7/powerEQTL/man/powerEQTL.scRNAseq.Rd | 397 ++++++++-------- powerEQTL-0.2.7/powerEQTL/man/powerEQTL.scRNAseq.sim.Rd |only powerEQTL-0.2.7/powerEQTL/man/powerLME.Rd | 371 +++++++------- powerEQTL-0.2.7/powerEQTL/man/powerLMEnoCov.Rd | 367 +++++++------- powerEQTL-0.2.7/powerEQTL/man/simDat.eQTL.scRNAseq.Rd |only 14 files changed, 959 insertions(+), 908 deletions(-)
Title: Multivariate Peaks-over-Threshold Modelling for Spatial Extreme
Events
Description: Tools for high-dimensional peaks-over-threshold inference and simulation
of spatial extremal processes. Key references include de Fondeville and Davison (2018) <doi:10.1093/biomet/asy026>, Thibaud and Opitz (2015) <doi:10.1093/biomet/asv045>, Wadsworth and Tawn <doi:10.1093/biomet/ast042>.
Author: Raphael de Fondeville [aut, cre],
Leo Belzile [aut] (<https://orcid.org/0000-0002-9135-014X>),
Emeric Thibaud [ctb]
Maintainer: Raphael de Fondeville <raphael.de-fondeville@epfl.ch>
Diff between mvPot versions 0.1.4 dated 2018-04-09 and 0.1.5 dated 2021-02-25
DESCRIPTION | 19 +- MD5 | 50 +++--- NAMESPACE | 1 NEWS.md | 10 + R/censored_likelihood.R | 162 +++++++++++++------- R/censored_likelihood_XS.R | 185 ++++++++++++++--------- R/generating_vector.R | 3 R/gradient_score.R | 26 +-- R/mvNormQMC.R | 39 +++-- R/mvTQMC.R | 45 ++++- R/rBrownResnick.R | 17 -- R/rExtremalStudentPar.R | 45 ++++- R/rMvtPar.R | 34 ++-- R/spectral_likelihood.R | 22 +- man/censoredLikelihoodBR.Rd | 55 +++++-- man/censoredLikelihoodXS.Rd | 38 +++- man/genVecQMC.Rd | 3 man/mvPot-package.Rd | 29 +-- man/mvTProbQuasiMonteCarlo.Rd | 20 +- man/mvtNormQuasiMonteCarlo.Rd | 15 + man/rExtremalStudentParetoProcess.Rd | 36 +++- man/scoreEstimation.Rd | 21 ++ man/simulBrownResnick.Rd | 3 man/simulPareto.Rd | 6 man/spectralLikelihood.Rd | 8 - src/mvnCppAdaptedSTL.cpp | 272 ++++++++++++++++++++++++++++++----- 26 files changed, 808 insertions(+), 356 deletions(-)
Title: Administrative Boundaries of Spain
Description: Administrative Boundaries of Spain at several levels (CCAA,
Provinces, Municipalities) based on the GISCO Eurostat database
<https://ec.europa.eu/eurostat/web/gisco> and 'CartoBase SIANE'
from 'Instituto Geografico Nacional' <https://www.ign.es/>.
It also provides a 'leaflet' plugin and the ability of
downloading and processing static tiles.
Author: Diego Hernangómez [aut, cre, cph]
(<https://orcid.org/0000-0001-8457-4658>),
EuroGeographics [cph] (for the administrative boundaries.),
Instituto Geográfico Nacional [cph] (for the administrative
boundaries.)
Maintainer: Diego Hernangómez <diego.hernangomezherrero@gmail.com>
Diff between mapSpain versions 0.1.2 dated 2021-01-05 and 0.2.0 dated 2021-02-25
DESCRIPTION | 19 + MD5 | 105 +++++---- NAMESPACE | 9 NEWS.md | 38 ++- R/addProviderEspTiles.R | 83 ++++--- R/data.R | 348 +++++++++++++++++--------------- R/esp_dict.R | 154 ++++++++------ R/esp_getTiles.R | 148 ++++++++----- R/esp_get_can_box.R | 102 +++++---- R/esp_get_capimun.R |only R/esp_get_ccaa.R | 267 +++++++++++++++++++++--- R/esp_get_country.R | 50 ++-- R/esp_get_gridmap.R | 176 ++++++++++------ R/esp_get_hydrobasin.R |only R/esp_get_hypsobath.R |only R/esp_get_munic.R | 333 ++++++++++++++++++++++++------ R/esp_get_nuts.R | 183 ++++++++-------- R/esp_get_prov.R | 318 +++++++++++++++++++++++------ R/esp_get_railway.R |only R/esp_get_rivers.R |only R/esp_get_roads.R |only R/mapSpain-package.R | 60 +++-- R/utils_names.R | 53 +++- R/utils_siane.R |only R/utils_tiles.R | 83 ++++--- README.md | 44 ++-- inst/CITATION | 5 inst/schemaorg.json | 10 inst/tinytest/test_esp_getTiles.R | 1 inst/tinytest/test_esp_get_can_box.R | 1 inst/tinytest/test_esp_get_capimun.R |only inst/tinytest/test_esp_get_ccaa.R | 50 ++++ inst/tinytest/test_esp_get_gridmap.R | 4 inst/tinytest/test_esp_get_hydrobasin.R |only inst/tinytest/test_esp_get_hypsobath.R |only inst/tinytest/test_esp_get_munic.R | 31 ++ inst/tinytest/test_esp_get_nuts.R | 3 inst/tinytest/test_esp_get_prov.R | 58 +++++ inst/tinytest/test_esp_get_railway.R |only inst/tinytest/test_esp_get_rivers.R |only inst/tinytest/test_esp_get_roads.R |only man/addProviderEspTiles.Rd | 67 ++++-- man/esp_codelist.Rd | 62 ++--- man/esp_dict.Rd | 51 ++-- man/esp_getTiles.Rd | 50 ++-- man/esp_get_can_box.Rd | 73 ++++-- man/esp_get_capimun.Rd |only man/esp_get_ccaa.Rd | 99 +++++++-- man/esp_get_country.Rd | 10 man/esp_get_gridmap.Rd | 71 +++--- man/esp_get_hydrobasin.Rd |only man/esp_get_hypsobath.Rd |only man/esp_get_munic.Rd | 75 ++++++ man/esp_get_nuts.Rd | 83 +++---- man/esp_get_prov.Rd | 103 +++++++-- man/esp_get_railway.Rd |only man/esp_get_rivers.Rd |only man/esp_get_roads.Rd |only man/esp_munic.sf.Rd | 40 +-- man/esp_nuts.sf.Rd | 36 +-- man/leaflet.providersESP.df.Rd | 130 +++++------ man/mapSpain-package.Rd | 40 +-- man/pobmun19.Rd | 7 63 files changed, 2499 insertions(+), 1234 deletions(-)
Title: Estimating Fixed Effects Individual Slope Models
Description: Provides the function feis() to estimate fixed effects individual
slope (FEIS) models. The FEIS model constitutes a more general version of
the often-used fixed effects (FE) panel model, as implemented in the
package 'plm' by Croissant and Millo (2008) <doi:10.18637/jss.v027.i02>.
In FEIS models, data are not only person demeaned like in conventional
FE models, but detrended by the predicted individual slope of each
person or group. Estimation is performed by applying least squares lm()
to the transformed data. For more details on FEIS models see Bruederl and
Ludwig (2015, ISBN:1446252442); Frees (2001) <doi:10.2307/3316008>;
Polachek and Kim (1994) <doi:10.1016/0304-4076(94)90075-2>;
Ruettenauer and Ludwig (2020) <doi:10.1177/0049124120926211>;
Wooldridge (2010, ISBN:0262294354). To test consistency of conventional FE
and random effects estimators against heterogeneous slopes, the package
also provides the functions feistest() for an artificial regression test
and bsfeistest() for a bootstrapped version of the Hausman test.
Author: Tobias Ruettenauer [aut, cre] (<https://orcid.org/0000-0001-5747-9735>),
Volker Ludwig [aut] (<https://orcid.org/0000-0003-3118-3172>)
Maintainer: Tobias Ruettenauer <ruettenauer@sowi.uni-kl.de>
Diff between feisr versions 1.1.4 dated 2021-01-15 and 1.2.0 dated 2021-02-25
DESCRIPTION | 6 MD5 | 39 ++-- NAMESPACE | 2 NEWS.md | 20 ++ R/feis.R | 235 +++++++++++++++++++---------- R/feistest.R | 100 ++++++++++-- R/methods.R | 12 + R/summary_functions.R | 4 R/utility_functions.R | 123 ++++++++++++--- build/partial.rdb |binary build/vignette.rds |binary inst/doc/feisr-vignette.Rmd | 2 inst/doc/feisr-vignette.html | 15 + man/bsfeistest.Rd | 4 man/detrend.Rd | 7 man/feis.Rd | 13 + man/predict.feis.Rd | 4 tests/testthat/test_CollinearityHandling.R | 46 +++++ tests/testthat/test_detrend.R | 15 + tests/testthat/test_weights.R |only vignettes/feisr-vignette.Rmd | 2 21 files changed, 486 insertions(+), 163 deletions(-)
More information about DiallelAnalysisR at CRAN
Permanent link
Title: Measurement Units for R Vectors
Description: Support for measurement units in R vectors, matrices
and arrays: automatic propagation, conversion, derivation
and simplification of units; raising errors in case of unit
incompatibility. Compatible with the POSIXct, Date and difftime
classes. Uses the UNIDATA udunits library and unit database for
unit compatibility checking and conversion.
Documentation about 'units' is provided in the paper by Pebesma, Mailund &
Hiebert (2016, <doi:10.32614/RJ-2016-061>), included in this package as a
vignette; see 'citation("units")' for details.
Author: Edzer Pebesma [aut, cre] (<https://orcid.org/0000-0001-8049-7069>),
Thomas Mailund [aut],
Tomasz Kalinowski [aut],
James Hiebert [ctb],
Iñaki Ucar [ctb] (<https://orcid.org/0000-0001-6403-5550>)
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between units versions 0.6-7 dated 2020-06-13 and 0.7-0 dated 2021-02-25
units-0.6-7/units/R/deprecated.R |only units-0.6-7/units/R/set_units.R |only units-0.6-7/units/R/sysdata.rda |only units-0.6-7/units/man/as_units.Rd |only units-0.6-7/units/man/deprecated.Rd |only units-0.6-7/units/man/set_units.Rd |only units-0.6-7/units/man/ud_units.Rd |only units-0.6-7/units/src/io.c |only units-0.6-7/units/src/io.h |only units-0.7-0/units/DESCRIPTION | 8 units-0.7-0/units/MD5 | 114 - units-0.7-0/units/NAMESPACE | 13 units-0.7-0/units/NEWS.md | 27 units-0.7-0/units/R/RcppExports.R | 30 units-0.7-0/units/R/arith.R | 107 - units-0.7-0/units/R/conversion.R | 243 +- units-0.7-0/units/R/database.R |only units-0.7-0/units/R/helpers.R |only units-0.7-0/units/R/init.R | 10 units-0.7-0/units/R/make_units.R | 294 +-- units-0.7-0/units/R/math.R | 34 units-0.7-0/units/R/misc.R | 16 units-0.7-0/units/R/mixed.R | 44 units-0.7-0/units/R/options.R | 10 units-0.7-0/units/R/plot.R | 46 units-0.7-0/units/R/udunits.R | 34 units-0.7-0/units/R/user_conversion.R | 199 +- units-0.7-0/units/R/valid_udunits.R | 318 --- units-0.7-0/units/build/vignette.rds |binary units-0.7-0/units/configure | 18 units-0.7-0/units/demo/cf.R | 6 units-0.7-0/units/demo/ggforce.R | 16 units-0.7-0/units/demo/year.R | 10 units-0.7-0/units/inst/doc/measurement_units_in_R.Rmd | 5 units-0.7-0/units/inst/doc/measurement_units_in_R.html | 1379 +++++++++++++++- units-0.7-0/units/inst/doc/units.R | 33 units-0.7-0/units/inst/doc/units.Rmd | 40 units-0.7-0/units/inst/doc/units.html | 384 +++- units-0.7-0/units/man/Ops.units.Rd | 17 units-0.7-0/units/man/as_difftime.Rd | 4 units-0.7-0/units/man/boxplot.units.Rd | 2 units-0.7-0/units/man/deparse_unit.Rd | 6 units-0.7-0/units/man/drop_units.Rd | 2 units-0.7-0/units/man/install_conversion_constant.Rd | 32 units-0.7-0/units/man/install_symbolic_unit.Rd | 17 units-0.7-0/units/man/install_unit.Rd |only units-0.7-0/units/man/keep_units.Rd |only units-0.7-0/units/man/load_units_xml.Rd |only units-0.7-0/units/man/plot.units.Rd | 12 units-0.7-0/units/man/ud_are_convertible.Rd |only units-0.7-0/units/man/units.Rd | 290 +++ units-0.7-0/units/man/valid_udunits.Rd | 10 units-0.7-0/units/src/RcppExports.cpp | 85 units-0.7-0/units/src/udunits.cpp | 119 - units-0.7-0/units/tests/plot.R | 12 units-0.7-0/units/tests/testthat/test_arith.R | 50 units-0.7-0/units/tests/testthat/test_conversion.R | 36 units-0.7-0/units/tests/testthat/test_helpers.R |only units-0.7-0/units/tests/testthat/test_math.R | 32 units-0.7-0/units/tests/testthat/test_misc.R | 28 units-0.7-0/units/tests/testthat/test_summaries.R | 14 units-0.7-0/units/tests/testthat/test_udunits.R | 17 units-0.7-0/units/tests/testthat/test_user_conversion.R | 69 units-0.7-0/units/vignettes/measurement_units_in_R.Rmd | 5 units-0.7-0/units/vignettes/measurement_units_in_R.bib | 12 units-0.7-0/units/vignettes/units.Rmd | 40 66 files changed, 3021 insertions(+), 1328 deletions(-)
More information about RespirAnalyzer at CRAN
Permanent link
More information about ClinSigMeasures at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-03-15 1.0.2
2020-03-14 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-02-10 0.0.0.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-02-17 0.1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-04-03 1.6.1
2020-03-28 1.6
Title: Operationalizing Social Determinants of Health Data for
Researchers
Description: Accesses raw data via API and calculates social
determinants of health measures for user-specified locations in the
US, returning them in tidyverse- and sf-compatible data frames.
Author: Nik Krieger [aut, cre],
Jarrod Dalton [aut],
Cindy Wang [aut],
Adam Perzynski [aut],
National Institutes of Health/National Institute on Aging [fnd] (The
development of this software package was supported by a research
grant from the National Institutes of Health/National Institute on
Aging, (Principal Investigators: Jarrod E. Dalton, PhD and Adam T.
Perzynski, PhD; Grant Number: 5R01AG055480-02). All of its contents
are solely the responsibility of the authors and do not necessarily
represent the official views of the NIH.)
Maintainer: Nik Krieger <nk@case.edu>
Diff between sociome versions 1.4.2 dated 2020-08-03 and 2.0.0 dated 2021-02-24
DESCRIPTION | 16 - MD5 | 30 - NEWS.md | 16 + R/calculate_adi.R | 300 ++++++++++++------- R/data_documentation.R | 40 +- R/get_adi.R | 347 +++++++++++----------- R/get_geoids.R | 23 + R/sysdata.rda |binary R/validation.R | 126 ++++++- inst/extdata/census_variables_dataset_creator.Rmd | 51 +-- man/acs_vars.Rd | 38 +- man/calculate_adi.Rd | 42 +- man/decennial_vars.Rd | 2 man/get_adi.Rd | 99 +++--- man/get_geoids.Rd | 6 tests/testthat/test_tidycensus_related.R | 166 ++-------- 16 files changed, 725 insertions(+), 577 deletions(-)
Title: Connect to 'AWS Athena' using 'Boto3' ('DBI' Interface)
Description: Designed to be compatible with the R package 'DBI' (Database Interface)
when connecting to Amazon Web Service ('AWS') Athena <https://aws.amazon.com/athena/>.
To do this 'Python' 'Boto3' Software Development Kit ('SDK')
<https://boto3.amazonaws.com/v1/documentation/api/latest/index.html> is used as a driver.
Author: Dyfan Jones [aut, cre]
Maintainer: Dyfan Jones <dyfan.r.jones@gmail.com>
Diff between RAthena versions 2.0.0 dated 2021-02-22 and 2.0.1 dated 2021-02-24
DESCRIPTION | 6 +-- MD5 | 16 +++++----- NAMESPACE | 1 NEWS.md | 4 ++ R/Connection.R | 48 +++++++++++++------------------ R/Result.R | 35 ++++++++++++++++++++++ R/util.R | 26 +++++++++------- man/dbGetStatement.Rd |only tests/testthat/test-keyboard-interrupt.R |only tests/testthat/test-metadata.R | 2 + 10 files changed, 90 insertions(+), 48 deletions(-)
Title: Connect to 'AWS Athena' using R 'AWS SDK' 'paws' ('DBI'
Interface)
Description: Designed to be compatible with the 'R' package 'DBI' (Database Interface)
when connecting to Amazon Web Service ('AWS') Athena <https://aws.amazon.com/athena/>.
To do this the 'R' 'AWS' Software Development Kit ('SDK') 'paws'
<https://github.com/paws-r/paws> is used as a driver.
Author: Dyfan Jones [aut, cre]
Maintainer: Dyfan Jones <dyfan.r.jones@gmail.com>
Diff between noctua versions 2.0.0 dated 2021-02-22 and 2.0.1 dated 2021-02-24
DESCRIPTION | 6 ++-- MD5 | 16 ++++++----- NAMESPACE | 1 NEWS.md | 4 ++ R/Connection.R | 45 +++++++++++++------------------ R/Result.R | 36 ++++++++++++++++++++++++ R/utils.R | 25 ++++++++++------- man/dbGetStatement.Rd |only tests/testthat/test-keyboard-interrupt.R |only tests/testthat/test-metadata.R | 2 + 10 files changed, 90 insertions(+), 45 deletions(-)
Title: Alt String Implementation
Description: Provides an extendable, performant and multithreaded 'alt-string' implementation backed by 'C++' vectors and strings.
Author: Travers Ching [aut, cre, cph],
Phillip Hazel [ctb] (Bundled PCRE2 code),
Zoltan Herczeg [ctb, cph] (Bundled PCRE2 code),
University of Cambridge [cph] (Bundled PCRE2 code),
Tilera Corporation [cph] (Stack-less Just-In-Time compiler bundled with
PCRE2),
Yann Collet [ctb, cph] (Yann Collet is the author of the bundled xxHash
code)
Maintainer: Travers Ching <traversc@gmail.com>
Diff between stringfish versions 0.14.2 dated 2020-09-05 and 0.15.0 dated 2021-02-24
ChangeLog | 4 DESCRIPTION | 12 MD5 | 33 R/RcppExports.R | 4 README.md | 8 build/vignette.rds |binary configure | 10 configure.ac | 10 inst/doc/vignette.R | 2 inst/doc/vignette.html | 148 - inst/doc/vignette.rmd | 2 inst/include/sf_internal.h | 51 src/RcppExports.cpp | 9 src/sf_altrep.h | 10 src/sf_disabled.h |only src/sf_functions.cpp | 192 - src/xxhash/xxhash.h | 6083 ++++++++++++++++++++++++++++++++------------- vignettes/vignette.rmd | 2 18 files changed, 4684 insertions(+), 1896 deletions(-)
Title: Implementation of BDAT Tree Taper Fortran Functions
Description: Implementing the BDAT tree taper Fortran routines, which were
developed for the German National Forest Inventory (NFI), to calculate
diameters, volume, assortments, double bark thickness and biomass for
different tree species based on tree characteristics and sorting information.
See Kublin (2003) <doi:10.1046/j.1439-0337.2003.00183.x> for details.
Author: Christian Vonderach [aut, cre],
Edgar Kublin [aut],
Bernhard Bösch [aut],
Gerald Kändler [aut],
Dominik Cullmann [ctb]
Maintainer: Christian Vonderach <christian.vonderach@forst.bwl.de>
Diff between rBDAT versions 0.9.6 dated 2021-02-18 and 0.9.7 dated 2021-02-24
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 19 ++++++++++++++++++- inst/NEWS.rd | 25 ++++++++++++++++++++++++- inst/doc/rbdat.html | 2 +- src/Koeff.f | 12 ++++++++---- src/rBDAT_init.c | 48 ++++++++++++++++++++++++------------------------ 7 files changed, 84 insertions(+), 40 deletions(-)
Title: R Interface to PXWEB APIs
Description: Generic interface for the PX-Web/PC-Axis API. The PX-Web/PC-Axis
API is used by organizations such as Statistics Sweden and Statistics
Finland to disseminate data. The R package can interact with all
PX-Web/PC-Axis APIs to fetch information about the data hierarchy, extract
metadata and extract and parse statistics to R data.frame format. PX-Web is
a solution to disseminate PC-Axis data files in dynamic tables on the web.
Since 2013 PX-Web contains an API to disseminate PC-Axis files.
Author: Mans Magnusson [aut, cre],
Markus Kainu [aut],
Janne Huovari [aut],
Leo Lahti [aut] (<https://orcid.org/0000-0001-5537-637X>),
Jan Bruusgaard [ctb],
Øyvind Langsrud [ctb],
Love Hansson [ctb],
Eydun Nielsen [ctb],
Bo Werth [ctb],
Thomas Runarsson [ctb],
Torbjörn Lindquist [ctb],
Palmar Thorsteinsson [ctb],
Pyry Kantanen [ctb]
Maintainer: Mans Magnusson <mons.magnusson@gmail.com>
Diff between pxweb versions 0.9.1 dated 2019-01-07 and 0.10.4 dated 2021-02-24
pxweb-0.10.4/pxweb/DESCRIPTION | 20 pxweb-0.10.4/pxweb/LICENSE | 2 pxweb-0.10.4/pxweb/MD5 | 181 +-- pxweb-0.10.4/pxweb/NAMESPACE | 10 pxweb-0.10.4/pxweb/NEWS.md | 9 pxweb-0.10.4/pxweb/R/defunct_functions.R |only pxweb-0.10.4/pxweb/R/onAttach.R | 2 pxweb-0.10.4/pxweb/R/pxweb-package.R | 4 pxweb-0.10.4/pxweb/R/pxweb.R | 5 pxweb-0.10.4/pxweb/R/pxweb_add_config.R | 2 pxweb-0.10.4/pxweb/R/pxweb_as_data_frame.R | 16 pxweb-0.10.4/pxweb/R/pxweb_cite.R | 2 pxweb-0.10.4/pxweb/R/pxweb_data_comments.R | 3 pxweb-0.10.4/pxweb/R/pxweb_get.R | 20 pxweb-0.10.4/pxweb/R/pxweb_interactive.R | 49 pxweb-0.10.4/pxweb/R/pxweb_levels.R | 20 pxweb-0.10.4/pxweb/R/pxweb_metadata.R | 14 pxweb-0.10.4/pxweb/R/pxweb_query.R | 11 pxweb-0.10.4/pxweb/R/pxweb_split_query.R | 34 pxweb-0.10.4/pxweb/R/pxweb_test_api_endpoint.R | 2 pxweb-0.10.4/pxweb/R/utils_tests.R |only pxweb-0.10.4/pxweb/build/vignette.rds |binary pxweb-0.10.4/pxweb/inst/CITATION | 4 pxweb-0.10.4/pxweb/inst/doc/pxweb.R | 56 - pxweb-0.10.4/pxweb/inst/doc/pxweb.Rmd | 23 pxweb-0.10.4/pxweb/inst/doc/pxweb.html | 545 +++++++--- pxweb-0.10.4/pxweb/inst/extdata/api.json | 132 +- pxweb-0.10.4/pxweb/inst/extras/build.cran.sh | 10 pxweb-0.10.4/pxweb/inst/extras/cheatsheet_pxweb.pptx |only pxweb-0.10.4/pxweb/man/api_catalogue.Rd | 127 ++ pxweb-0.10.4/pxweb/man/assert_query_can_be_split_to_batches.Rd |only pxweb-0.10.4/pxweb/man/http_was_redirected.Rd | 2 pxweb-0.10.4/pxweb/man/pxweb-package.Rd | 4 pxweb-0.10.4/pxweb/man/pxweb.Rd | 5 pxweb-0.10.4/pxweb/man/pxweb_advanced_get.Rd | 10 pxweb-0.10.4/pxweb/man/pxweb_api_catalogue_entry.Rd | 2 pxweb-0.10.4/pxweb/man/pxweb_api_name.Rd | 23 pxweb-0.10.4/pxweb/man/pxweb_as_data_frame.Rd | 108 + pxweb-0.10.4/pxweb/man/pxweb_data_comments.Rd | 3 pxweb-0.10.4/pxweb/man/pxweb_explorer.Rd | 17 pxweb-0.10.4/pxweb/man/pxweb_get.Rd | 3 pxweb-0.10.4/pxweb/man/pxweb_get_data.Rd | 11 pxweb-0.10.4/pxweb/man/pxweb_interactive.Rd | 28 pxweb-0.10.4/pxweb/man/pxweb_metadata_time.Rd |only pxweb-0.10.4/pxweb/man/pxweb_query_dim_splittable.Rd | 5 pxweb-0.10.4/pxweb/man/pxweb_test_api.Rd | 11 pxweb-0.10.4/pxweb/man/pxweb_validate_query_with_metadata.Rd | 2 pxweb-0.10.4/pxweb/tests/testthat/log_pxweb_api_http_calls.txt |only pxweb-0.10.4/pxweb/tests/testthat/test-README.R |only pxweb-0.10.4/pxweb/tests/testthat/test-defunct.R |only pxweb-0.10.4/pxweb/tests/testthat/test-pxweb_api_paths.R |only pxweb-0.10.4/pxweb/tests/testthat/test-pxweb_constructor.R | 2 pxweb-0.10.4/pxweb/tests/testthat/test-pxweb_get.R | 111 +- pxweb-0.10.4/pxweb/tests/testthat/test-pxweb_query.R | 27 pxweb-0.10.4/pxweb/tests/testthat/test-pxweb_test_api.R | 8 pxweb-0.10.4/pxweb/tests/testthat/test_data |only pxweb-0.10.4/pxweb/vignettes/pxweb.Rmd | 23 pxweb-0.9.1/pxweb/R/deprecated_ApiData.R |only pxweb-0.9.1/pxweb/R/deprecated_api_catalogue.R |only pxweb-0.9.1/pxweb/R/deprecated_api_parameters.R |only pxweb-0.9.1/pxweb/R/deprecated_api_timer.R |only pxweb-0.9.1/pxweb/R/deprecated_base_url.R |only pxweb-0.9.1/pxweb/R/deprecated_constants.R |only pxweb-0.9.1/pxweb/R/deprecated_get_pxweb_data.R |only pxweb-0.9.1/pxweb/R/deprecated_get_pxweb_data_internal.R |only pxweb-0.9.1/pxweb/R/deprecated_get_pxweb_dims.R |only pxweb-0.9.1/pxweb/R/deprecated_get_pxweb_levels.R |only pxweb-0.9.1/pxweb/R/deprecated_get_pxweb_metadata.R |only pxweb-0.9.1/pxweb/R/deprecated_interactive_pxweb.R |only pxweb-0.9.1/pxweb/R/deprecated_interactive_pxweb_internal.R |only pxweb-0.9.1/pxweb/R/deprecated_pxweb_api_class.R |only pxweb-0.9.1/pxweb/R/deprecated_test_pxweb_api.R |only pxweb-0.9.1/pxweb/R/deprecated_test_pxweb_api_internal.R |only pxweb-0.9.1/pxweb/R/deprecated_todo.R |only pxweb-0.9.1/pxweb/R/deprecated_utils_internal.R |only pxweb-0.9.1/pxweb/man/ApiData.Rd |only pxweb-0.9.1/pxweb/man/MakeUrl.Rd |only pxweb-0.9.1/pxweb/man/Number.Rd |only pxweb-0.9.1/pxweb/man/api_parameters.Rd |only pxweb-0.9.1/pxweb/man/api_timer.Rd |only pxweb-0.9.1/pxweb/man/base_url.Rd |only pxweb-0.9.1/pxweb/man/buildPath.Rd |only pxweb-0.9.1/pxweb/man/calc_dim_type.Rd |only pxweb-0.9.1/pxweb/man/calculate_data_dim.Rd |only pxweb-0.9.1/pxweb/man/checkForLevels.Rd |only pxweb-0.9.1/pxweb/man/check_new_pxweb_apis.Rd |only pxweb-0.9.1/pxweb/man/choose_pxweb_api.Rd |only pxweb-0.9.1/pxweb/man/choose_pxweb_database_url.Rd |only pxweb-0.9.1/pxweb/man/clean_pxweb.Rd |only pxweb-0.9.1/pxweb/man/create_batch_list.Rd |only pxweb-0.9.1/pxweb/man/deparseLevels.Rd |only pxweb-0.9.1/pxweb/man/download_pxweb.Rd |only pxweb-0.9.1/pxweb/man/findData.input.Rd |only pxweb-0.9.1/pxweb/man/getContent.Rd |only pxweb-0.9.1/pxweb/man/get_api_file_path.Rd |only pxweb-0.9.1/pxweb/man/get_api_index.Rd |only pxweb-0.9.1/pxweb/man/get_api_list.Rd |only pxweb-0.9.1/pxweb/man/get_api_list_remote.Rd |only pxweb-0.9.1/pxweb/man/get_dim_size.Rd |only pxweb-0.9.1/pxweb/man/get_github_api_urls.Rd |only pxweb-0.9.1/pxweb/man/get_pxweb_data.Rd |only pxweb-0.9.1/pxweb/man/get_pxweb_dims.Rd |only pxweb-0.9.1/pxweb/man/get_pxweb_levels.Rd |only pxweb-0.9.1/pxweb/man/get_pxweb_metadata.Rd |only pxweb-0.9.1/pxweb/man/interactive_pxweb.Rd |only pxweb-0.9.1/pxweb/man/print.api_parameters.Rd |only pxweb-0.9.1/pxweb/man/pxweb_api-class.Rd |only pxweb-0.9.1/pxweb/man/pxweb_levels_remove_headers.Rd |only pxweb-0.9.1/pxweb/man/reorder_and_check_dims.Rd |only pxweb-0.9.1/pxweb/man/temp_api_file_path.Rd |only pxweb-0.9.1/pxweb/man/temp_api_folder_path.Rd |only pxweb-0.9.1/pxweb/man/test_pxweb_api.Rd |only pxweb-0.9.1/pxweb/man/test_pxweb_api_get_data.Rd |only pxweb-0.9.1/pxweb/man/test_pxweb_api_get_node_metadata.Rd |only pxweb-0.9.1/pxweb/man/test_pxweb_api_get_nodes.Rd |only pxweb-0.9.1/pxweb/man/text_to_url.Rd |only pxweb-0.9.1/pxweb/man/update_pxweb_apis.Rd |only pxweb-0.9.1/pxweb/man/write_api_list.Rd |only pxweb-0.9.1/pxweb/tests/testthat/test-PxWebApiData_ApiData.R |only pxweb-0.9.1/pxweb/tests/testthat/test-api_catalogue.R |only pxweb-0.9.1/pxweb/tests/testthat/test-api_parameters.R |only pxweb-0.9.1/pxweb/tests/testthat/test-apis_in_catalogue.R |only pxweb-0.9.1/pxweb/tests/testthat/test-base_url.R |only pxweb-0.9.1/pxweb/tests/testthat/test-big_query.R |only pxweb-0.9.1/pxweb/tests/testthat/test-clean_pxweb.R |only pxweb-0.9.1/pxweb/tests/testthat/test-get_pxweb_data.R |only pxweb-0.9.1/pxweb/tests/testthat/test-get_pxweb_dims.R |only pxweb-0.9.1/pxweb/tests/testthat/test-get_pxweb_levels.R |only pxweb-0.9.1/pxweb/tests/testthat/test-get_pxweb_metadata.R |only pxweb-0.9.1/pxweb/tests/testthat/test-interactive_pxweb.R |only pxweb-0.9.1/pxweb/tests/testthat/test-multiple_queries_data.R |only pxweb-0.9.1/pxweb/tests/testthat/test-pxweb_api_class.R |only pxweb-0.9.1/pxweb/tests/testthat/test-pxweb_examples.R |only pxweb-0.9.1/pxweb/tests/testthat/test-test_pxweb_api.R |only pxweb-0.9.1/pxweb/tests/testthat/test-utils_internal.R |only pxweb-0.9.1/pxweb/tests/testthat/test-x_deprecated_get_pxweb_data.R |only 136 files changed, 1135 insertions(+), 573 deletions(-)
Title: Composable Preprocessing Operators and Pipelines for Machine
Learning
Description: Toolset that enriches 'mlr' with a diverse set of preprocessing
operators. Composable Preprocessing Operators ("CPO"s) are first-class
R objects that can be applied to data.frames and 'mlr' "Task"s to modify
data, can be attached to 'mlr' "Learner"s to add preprocessing to machine
learning algorithms, and can be composed to form preprocessing pipelines.
Author: Martin Binder [aut, cre],
Bernd Bischl [ctb],
Michel Lang [ctb],
Lars Kotthoff [ctb]
Maintainer: Martin Binder <developer.mb706@doublecaret.com>
Diff between mlrCPO versions 0.3.7-1 dated 2021-01-11 and 0.3.7-2 dated 2021-02-24
DESCRIPTION | 6 +-- MD5 | 24 ++++++------- NEWS | 3 + build/vignette.rds |binary inst/doc/a_1_getting_started.html | 53 ++++++------------------------ inst/doc/a_2_mlrCPO_core.html | 53 ++++++------------------------ inst/doc/a_3_all_CPOs.html | 53 ++++++------------------------ inst/doc/a_4_custom_CPOs.html | 55 ++++++-------------------------- inst/doc/z_1_getting_started_terse.html | 53 ++++++------------------------ inst/doc/z_2_mlrCPO_core_terse.html | 53 ++++++------------------------ inst/doc/z_3_all_CPOs_terse.html | 53 ++++++------------------------ inst/doc/z_4_custom_CPOs_terse.html | 53 ++++++------------------------ tests/testthat/test_cpo_filter.R | 7 ++++ 13 files changed, 114 insertions(+), 352 deletions(-)
Title: Simulate Evapotranspiration and Soil Moisture with the SVAT
Model LWF-Brook90
Description: Provides a flexible and easy-to use interface for the soil vegetation
atmosphere transport (SVAT) model LWF-BROOK90, written in Fortran.
The model simulates daily transpiration, interception, soil and snow evaporation,
streamflow and soil water fluxes through a soil profile covered with vegetation,
as described in Hammel & Kennel (2001, ISBN:978-3-933506-16-0) and Federer et al. (2003)
<doi:10.1175/1525-7541(2003)004%3C1276:SOAETS%3E2.0.CO;2>. A set of high-level functions
for model set up, execution and parallelization provides easy access to plot-level SVAT
simulations, as well as multi-run and large-scale applications.
Author: Paul Schmidt-Walter [aut, cre]
(<https://orcid.org/0000-0003-2699-0893>),
Volodymyr Trotsiuk [aut] (<https://orcid.org/0000-0002-8363-656X>),
Klaus Hammel [aut],
Martin Kennel [aut],
Anthony Federer [aut],
Robert Nuske [ctb] (<https://orcid.org/0000-0001-9773-2061>),
Bavarian State Institute of Forestry (LWF) [cph, fnd],
Northwest German Forest Research Institute (NW-FVA) [cph, fnd]
Maintainer: Paul Schmidt-Walter <paulsw@posteo.de>
Diff between LWFBrook90R versions 0.4.3 dated 2021-02-09 and 0.4.4 dated 2021-02-24
DESCRIPTION | 18 +++++----- MD5 | 24 ++++++------- NEWS.md | 4 ++ R/r_lwfbrook90.R | 4 +- README.md | 24 +++++++------ build/vignette.rds |binary man/figures/README-unnamed-chunk-5-1.png |binary src/PFILE.h | 2 - src/PREINCHK.h | 4 +- src/SWCHEK.h | 4 +- src/VARDCL.h | 2 - src/md_brook90.f95 | 54 ++++++++++++++++--------------- src/skeleton.c | 4 +- 13 files changed, 77 insertions(+), 67 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.archives-ouvertes.fr/hal-00714174> ; S. Karlin and S. Altschul (1990) <https://www.pnas.org/content/87/6/2264> ; S. Mercier, D. Cellier and F. Charlot (2003) <https://hal.archives-ouvertes.fr/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 1.0.4 dated 2021-02-23 and 1.0.6 dated 2021-02-24
localScore-1.0.4/localScore/inst/doc/localScorePackageDocumentation.pdf |only localScore-1.0.6/localScore/DESCRIPTION | 8 +++--- localScore-1.0.6/localScore/MD5 | 12 +++++----- localScore-1.0.6/localScore/build/vignette.rds |binary localScore-1.0.6/localScore/inst/doc/localScorePackageDocumentation.html |only localScore-1.0.6/localScore/src/function_wrapper.cpp | 3 -- localScore-1.0.6/localScore/src/pValueMethods.cpp | 12 +++++----- localScore-1.0.6/localScore/src/testsCpp/tests.cpp | 2 - 8 files changed, 18 insertions(+), 19 deletions(-)
Title: Animal Activity Statistics
Description: Provides functions to express clock time data relative to
anchor points (typically solar); fit kernel density functions to animal
activity time data; plot activity distributions; quantify overall
levels of activity; statistically compare activity metrics through
bootstrapping; evaluate variation in linear variables with time (or
other circular variables).
Author: Marcus Rowcliffe
Maintainer: Marcus Rowcliffe <marcus.rowcliffe@ioz.ac.uk>
Diff between activity versions 1.3 dated 2019-09-09 and 1.3.1 dated 2021-02-24
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- R/activity_code.r | 16 +++++++++------- man/BCIspeed.Rd | 4 +++- man/BCItime.Rd | 4 +++- man/activity.Rd | 1 - man/fitact.Rd | 28 +++++++++++++++++++--------- man/gettime.Rd | 7 +++++-- man/plot.actmod.Rd | 18 +++++++++++++----- man/plot.lincircmod.Rd | 12 ++++++++++-- man/transtime.Rd | 8 ++++++-- 11 files changed, 82 insertions(+), 44 deletions(-)
Title: Ensemble Methods for Survival Data with Time-Varying Covariates
Description: Implements the conditional inference forest and relative risk forest
algorithm to modeling left-truncated right-censored data with time-invariant
covariates, and (left-truncated) right-censored survival data with time-varying
covariates. It also provides functions to tune the parameters and evaluate the
model fit. See Yao et al. (2020) <arXiv:2006.00567>.
Author: Weichi Yao [aut, cre],
Halina Frydman [aut],
Denis Larocque [aut],
Jeffrey S. Simonoff [aut]
Maintainer: Weichi Yao <wy635@stern.nyu.edu>
Diff between LTRCforests versions 0.5.2 dated 2020-10-29 and 0.5.5 dated 2021-02-24
DESCRIPTION | 10 +- MD5 | 16 +-- R/LTRCforests-package.R | 4 R/ltrccif.R | 2 R/ltrcrrf.R | 2 R/predictProb.R | 193 +++++++++++++++++++++++---------------------- man/LTRCforests-package.Rd | 4 man/ltrccif.Rd | 2 man/ltrcrrf.Rd | 2 9 files changed, 123 insertions(+), 112 deletions(-)
Title: Project Environments
Description: A dependency management toolkit for R. Using 'renv', you can create
and manage project-local R libraries, save the state of these libraries to
a 'lockfile', and later restore your library as required. Together, these
tools can help make your projects more isolated, portable, and reproducible.
Author: Kevin Ushey [aut, cre],
RStudio [cph]
Maintainer: Kevin Ushey <kevin@rstudio.com>
Diff between renv versions 0.12.5 dated 2021-01-09 and 0.13.0 dated 2021-02-24
renv-0.12.5/renv/R/find-package.R |only renv-0.13.0/renv/DESCRIPTION | 6 renv-0.13.0/renv/MD5 | 207 ++++++----- renv-0.13.0/renv/NAMESPACE | 3 renv-0.13.0/renv/NEWS.md | 96 +++++ renv-0.13.0/renv/R/R.R | 29 + renv-0.13.0/renv/R/actions.R | 9 renv-0.13.0/renv/R/activate.R | 23 + renv-0.13.0/renv/R/available-packages.R | 8 renv-0.13.0/renv/R/bootstrap.R | 244 ++++++++++++- renv-0.13.0/renv/R/cache.R | 22 + renv-0.13.0/renv/R/ci.R | 2 renv-0.13.0/renv/R/cli.R | 16 renv-0.13.0/renv/R/config-defaults.R | 9 renv-0.13.0/renv/R/consent.R | 1 renv-0.13.0/renv/R/dependencies.R | 96 ++++- renv-0.13.0/renv/R/diagnostics.R | 21 - renv-0.13.0/renv/R/download.R | 170 +++++++-- renv-0.13.0/renv/R/embed.R | 158 ++++++-- renv-0.13.0/renv/R/files.R | 14 renv-0.13.0/renv/R/history.R | 7 renv-0.13.0/renv/R/hydrate.R | 75 +++- renv-0.13.0/renv/R/imbue.R | 8 renv-0.13.0/renv/R/infrastructure.R | 30 + renv-0.13.0/renv/R/init.R | 26 + renv-0.13.0/renv/R/install.R | 60 ++- renv-0.13.0/renv/R/json.R | 25 + renv-0.13.0/renv/R/libpaths.R | 4 renv-0.13.0/renv/R/load.R | 56 ++- renv-0.13.0/renv/R/local-packages.R | 7 renv-0.13.0/renv/R/lockfile-api.R | 17 renv-0.13.0/renv/R/lockfile.R | 21 + renv-0.13.0/renv/R/methods.R |only renv-0.13.0/renv/R/migrate.R | 2 renv-0.13.0/renv/R/package.R | 42 ++ renv-0.13.0/renv/R/parallel.R | 2 renv-0.13.0/renv/R/patch.R | 22 + renv-0.13.0/renv/R/path.R | 68 +++ renv-0.13.0/renv/R/paths.R | 55 ++- renv-0.13.0/renv/R/platform.R | 8 renv-0.13.0/renv/R/profile.R |only renv-0.13.0/renv/R/python.R | 3 renv-0.13.0/renv/R/rebuild.R | 9 renv-0.13.0/renv/R/record.R | 2 renv-0.13.0/renv/R/records.R | 10 renv-0.13.0/renv/R/remotes.R | 42 +- renv-0.13.0/renv/R/renvignore.R | 51 +- renv-0.13.0/renv/R/retrieve.R | 60 ++- renv-0.13.0/renv/R/roxygen.R | 4 renv-0.13.0/renv/R/settings.R | 2 renv-0.13.0/renv/R/snapshot-auto.R | 6 renv-0.13.0/renv/R/snapshot.R | 50 ++ renv-0.13.0/renv/R/status.R | 15 renv-0.13.0/renv/R/tests.R | 41 ++ renv-0.13.0/renv/R/update.R | 119 ++++++ renv-0.13.0/renv/R/use.R |only renv-0.13.0/renv/R/utils.R | 21 + renv-0.13.0/renv/R/zzz.R | 2 renv-0.13.0/renv/README.md | 2 renv-0.13.0/renv/build/vignette.rds |binary renv-0.13.0/renv/inst/config.yml | 9 renv-0.13.0/renv/inst/doc/docker.html | 13 renv-0.13.0/renv/inst/doc/faq.Rmd | 14 renv-0.13.0/renv/inst/doc/faq.html | 15 renv-0.13.0/renv/inst/doc/local-sources.html | 9 renv-0.13.0/renv/inst/doc/lockfile.html | 2 renv-0.13.0/renv/inst/doc/mran.html | 9 renv-0.13.0/renv/inst/doc/profiles.R |only renv-0.13.0/renv/inst/doc/profiles.Rmd |only renv-0.13.0/renv/inst/doc/profiles.html |only renv-0.13.0/renv/inst/doc/renv.Rmd | 55 ++- renv-0.13.0/renv/inst/doc/renv.html | 29 + renv-0.13.0/renv/inst/doc/use.R |only renv-0.13.0/renv/inst/doc/use.Rmd |only renv-0.13.0/renv/inst/doc/use.html |only renv-0.13.0/renv/inst/resources/activate.R | 249 ++++++++++++-- renv-0.13.0/renv/man/activate.Rd | 6 renv-0.13.0/renv/man/config.Rd | 2 renv-0.13.0/renv/man/embed.Rd | 18 - renv-0.13.0/renv/man/hydrate.Rd | 23 + renv-0.13.0/renv/man/init.Rd | 5 renv-0.13.0/renv/man/paths.Rd | 10 renv-0.13.0/renv/man/record.Rd | 2 renv-0.13.0/renv/man/snapshot.Rd | 18 - renv-0.13.0/renv/man/use.Rd |only renv-0.13.0/renv/tests/testthat/resources/box.R |only renv-0.13.0/renv/tests/testthat/test-available-packages.R | 20 + renv-0.13.0/renv/tests/testthat/test-cache.R | 66 +++ renv-0.13.0/renv/tests/testthat/test-dependencies.R | 20 + renv-0.13.0/renv/tests/testthat/test-download.R | 36 -- renv-0.13.0/renv/tests/testthat/test-hydrate.R | 29 + renv-0.13.0/renv/tests/testthat/test-init.R | 38 ++ renv-0.13.0/renv/tests/testthat/test-install.R | 11 renv-0.13.0/renv/tests/testthat/test-json.R | 12 renv-0.13.0/renv/tests/testthat/test-load.R | 2 renv-0.13.0/renv/tests/testthat/test-mran.R | 17 renv-0.13.0/renv/tests/testthat/test-packages.R | 5 renv-0.13.0/renv/tests/testthat/test-paths.R | 29 + renv-0.13.0/renv/tests/testthat/test-platform.R |only renv-0.13.0/renv/tests/testthat/test-profile.R |only renv-0.13.0/renv/tests/testthat/test-rebuild.R | 16 renv-0.13.0/renv/tests/testthat/test-remotes.R | 16 renv-0.13.0/renv/tests/testthat/test-renvignore.R | 22 - renv-0.13.0/renv/tests/testthat/test-restore.R | 19 + renv-0.13.0/renv/tests/testthat/test-retrieve.R | 4 renv-0.13.0/renv/tests/testthat/test-status.R | 11 renv-0.13.0/renv/tests/testthat/test-upgrade.R | 2 renv-0.13.0/renv/tests/testthat/test-use.R |only renv-0.13.0/renv/tests/testthat/test-utils.R | 23 + renv-0.13.0/renv/vignettes/faq.Rmd | 14 renv-0.13.0/renv/vignettes/profiles.Rmd |only renv-0.13.0/renv/vignettes/renv.Rmd | 55 ++- renv-0.13.0/renv/vignettes/use.Rmd |only 113 files changed, 2502 insertions(+), 561 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 0.7.2 dated 2020-11-17 and 0.7.3 dated 2021-02-24
DESCRIPTION | 10 MD5 | 32 - NEWS.md | 10 R/predict.vinereg.R | 3 R/tools.R | 5 R/vinereg.R | 5 build/vignette.rds |binary inst/doc/abalone-example.R | 11 inst/doc/abalone-example.Rmd | 25 - inst/doc/abalone-example.html | 766 ++++++++++++++++++----------------------- inst/doc/bike-rental.R | 10 inst/doc/bike-rental.Rmd | 11 inst/doc/bike-rental.html | 770 ++++++++++++++++-------------------------- src/vinereg.cpp | 70 +-- tests/testthat.R | 3 vignettes/abalone-example.Rmd | 25 - vignettes/bike-rental.Rmd | 11 17 files changed, 770 insertions(+), 997 deletions(-)
Title: Inference and Prediction in an Illness-Death Model
Description: Newly developed methods for the estimation of several probabilities
in an illness-death model. The package can be used to obtain nonparametric and
semiparametric estimates for: transition probabilities, occupation probabilities,
cumulative incidence function and the sojourn time distributions.
Additionally, it is possible to fit proportional hazards regression models
in each transition of the Illness-Death Model. Several auxiliary
functions are also provided which can be used for marginal
estimation of the survival functions.
Author: Luis Meira-Machado, Marta Sestelo and Gustavo Soutinho
Maintainer: Marta Sestelo <sestelo@uvigo.es>
Diff between survidm versions 1.3.0 dated 2021-02-16 and 1.3.1 dated 2021-02-24
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NAMESPACE | 2 +- R/autoplot.survIDM.R | 26 +++++++++++++------------- build/partial.rdb |binary man/autoplot.survIDM.Rd | 2 +- 6 files changed, 24 insertions(+), 24 deletions(-)
Title: Functions to Analyze Single System Data
Description: Functions to visually and statistically analyze single system data.
Author: Charles Auerbach [aut, cre],
Wendy Zeitlin [aut]
Maintainer: Charles Auerbach <auerbach@yu.edu>
Diff between SSDforR versions 1.5.20 dated 2020-11-15 and 1.5.21 dated 2021-02-24
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/ABdescrip.R | 7 +++++-- 3 files changed, 11 insertions(+), 8 deletions(-)
Title: Access and Search MedRxiv and BioRxiv Preprint Data
Description: An increasingly important source of health-related bibliographic
content are preprints - preliminary versions of research articles that have
yet to undergo peer review. The two preprint repositories most relevant to
health-related sciences are medRxiv <https://www.medrxiv.org/> and
bioRxiv <https://www.biorxiv.org/>, both of which are operated by the Cold
Spring Harbor Laboratory. 'medrxivr' provides programmatic access to the
'Cold Spring Harbour Laboratory (CSHL)' API <https://api.biorxiv.org/>,
allowing users to easily download medRxiv and bioRxiv preprint metadata
(e.g. title, abstract, publication date, author list, etc) into R.
'medrxivr' also provides functions to search the downloaded preprint records
using regular expressions and Boolean logic, as well as helper functions
that allow users to export their search results to a .BIB file for easy
import to a reference manager and to download the full-text PDFs of
preprints matching their search criteria.
Author: Luke McGuinness [aut, cre] (<https://orcid.org/0000-0001-8730-9761>),
Lena Schmidt [aut] (<https://orcid.org/0000-0003-0709-8226>),
Tuija Sonkkila [rev],
Najko Jahn [rev]
Maintainer: Luke McGuinness <luke.mcguinness@bristol.ac.uk>
Diff between medrxivr versions 0.0.4 dated 2020-12-11 and 0.0.5 dated 2021-02-24
medrxivr-0.0.4/medrxivr/inst/paper.html |only medrxivr-0.0.5/medrxivr/DESCRIPTION | 8 medrxivr-0.0.5/medrxivr/MD5 | 52 +- medrxivr-0.0.5/medrxivr/NAMESPACE | 1 medrxivr-0.0.5/medrxivr/NEWS.md | 11 medrxivr-0.0.5/medrxivr/R/helpers.R | 13 medrxivr-0.0.5/medrxivr/R/mx_api.R | 22 - medrxivr-0.0.5/medrxivr/R/mx_search.R | 227 ++++++++-- medrxivr-0.0.5/medrxivr/R/mx_snapshot.R | 5 medrxivr-0.0.5/medrxivr/R/mx_syntax.R |only medrxivr-0.0.5/medrxivr/README.md | 53 ++ medrxivr-0.0.5/medrxivr/build/vignette.rds |binary medrxivr-0.0.5/medrxivr/inst/WORDLIST | 12 medrxivr-0.0.5/medrxivr/inst/doc/medrxivr.html | 311 --------------- medrxivr-0.0.5/medrxivr/inst/paper.bib | 56 +- medrxivr-0.0.5/medrxivr/man/fix_caps.Rd |only medrxivr-0.0.5/medrxivr/man/fix_near.Rd |only medrxivr-0.0.5/medrxivr/man/fix_wildcard.Rd |only medrxivr-0.0.5/medrxivr/man/medrxivr.Rd | 26 - medrxivr-0.0.5/medrxivr/man/mx_api_content.Rd | 10 medrxivr-0.0.5/medrxivr/man/mx_api_doi.Rd | 2 medrxivr-0.0.5/medrxivr/man/mx_caps.Rd |only medrxivr-0.0.5/medrxivr/man/mx_info.Rd | 40 - medrxivr-0.0.5/medrxivr/man/mx_reporter.Rd |only medrxivr-0.0.5/medrxivr/man/mx_search.Rd | 23 + medrxivr-0.0.5/medrxivr/man/print_full_results.Rd |only medrxivr-0.0.5/medrxivr/man/run_search.Rd |only medrxivr-0.0.5/medrxivr/tests/testthat/test-api.R | 3 medrxivr-0.0.5/medrxivr/tests/testthat/test-crosscheck.R | 1 medrxivr-0.0.5/medrxivr/tests/testthat/test-helpers.R | 11 medrxivr-0.0.5/medrxivr/tests/testthat/test-search.R | 57 ++ medrxivr-0.0.5/medrxivr/tests/testthat/test-syntax.R |only 32 files changed, 473 insertions(+), 471 deletions(-)
Title: Compare Supervised Machine Learning Models Using Shiny App
Description: Implementation of a shiny app to easily compare supervised machine learning model performances.
You provide the data and configure each model parameter directly on the shiny app.
Different supervised learning algorithms can be tested either on Spark or H2O frameworks to suit your regression and classification tasks.
Implementation of available machine learning models on R has been done by Lantz (2013, ISBN:9781782162148).
Author: Jean Bertin
Maintainer: Jean Bertin <jean.bertin@mines-paris.org>
Diff between shinyML versions 1.0.0 dated 2020-10-03 and 1.0.1 dated 2021-02-24
shinyML-1.0.0/shinyML/build |only shinyML-1.0.0/shinyML/inst |only shinyML-1.0.0/shinyML/vignettes |only shinyML-1.0.1/shinyML/DESCRIPTION | 16 +-- shinyML-1.0.1/shinyML/LICENSE.note | 2 shinyML-1.0.1/shinyML/MD5 | 25 +----- shinyML-1.0.1/shinyML/NAMESPACE | 1 shinyML-1.0.1/shinyML/NEWS.md | 8 + shinyML-1.0.1/shinyML/R/shinyML_classification.R | 49 ++++++++--- shinyML-1.0.1/shinyML/R/shinyML_regression.R | 75 ++++++++++++------ shinyML-1.0.1/shinyML/README.md | 94 ++++++++++------------- 11 files changed, 156 insertions(+), 114 deletions(-)
Title: Quantile Regression
Description: Estimation and inference methods for models of conditional quantiles:
Linear and nonlinear parametric and non-parametric (total variation penalized) models
for conditional quantiles of a univariate response and several methods for handling
censored survival data. Portfolio selection methods based on expected shortfall
risk are also now included. See Koenker (2006) <doi:10.1017/CBO9780511754098> and
Koenker et al (2017) <doi:10.1201/9781315120256>.
Author: Roger Koenker [cre, aut],
Stephen Portnoy [ctb] (Contributions to Censored QR code),
Pin Tian Ng [ctb] (Contributions to Sparse QR code),
Blaise Melly [ctb] (Contributions to preprocessing code),
Achim Zeileis [ctb] (Contributions to dynrq code essentially identical
to his dynlm code),
Philip Grosjean [ctb] (Contributions to nlrq code),
Cleve Moler [ctb] (author of several linpack routines),
Yousef Saad [ctb] (author of sparskit2),
Victor Chernozhukov [ctb] (contributions to extreme value inference
code),
Ivan Fernandez-Val [ctb] (contributions to extreme value inference
code),
Brian D Ripley [trl, ctb] (Initial (2001) R port from S (to my
everlasting shame -- how could I have been so slow to adopt R!) and
for numerous other suggestions and useful advice)
Maintainer: Roger Koenker <rkoenker@illinois.edu>
Diff between quantreg versions 5.83 dated 2021-01-22 and 5.85 dated 2021-02-24
DESCRIPTION | 9 ++- MD5 | 12 ++--- R/rqss.R | 120 +++++++++++++++++++++++++---------------------------- build/vignette.rds |binary inst/ChangeLog | 11 ++++ man/barro.Rd | 2 man/rq.fit.sfnc.Rd | 6 -- 7 files changed, 82 insertions(+), 78 deletions(-)
Title: Symbolic Differentiation
Description: R-based solution for symbolic differentiation. It admits
user-defined function as well as function substitution
in arguments of functions to be differentiated. Some symbolic
simplification is part of the work.
Author: Andrew Clausen [aut],
Serguei Sokol [aut, cre] (<https://orcid.org/0000-0002-5674-3327>),
Andreas Rappold [ctb]
Maintainer: Serguei Sokol <sokol@insa-toulouse.fr>
Diff between Deriv versions 4.1.2 dated 2020-12-10 and 4.1.3 dated 2021-02-24
DESCRIPTION | 8 +++---- MD5 | 10 ++++----- NEWS | 6 +++++ R/Deriv.R | 56 ++++++++++++++++++++++++++++++--------------------- man/Deriv-package.Rd | 4 +-- man/Deriv.Rd | 11 ++++++---- 6 files changed, 57 insertions(+), 38 deletions(-)
Title: Statistical Toolbox for Sedimentary Provenance Analysis
Description: Bundles a number of established statistical methods to facilitate the visual interpretation of large datasets in sedimentary geology. Includes functionality for adaptive kernel density estimation, principal component analysis, correspondence analysis, multidimensional scaling, generalised procrustes analysis and individual differences scaling using a variety of dissimilarity measures. Univariate provenance proxies, such as single-grain ages or (isotopic) compositions are compared with the Kolmogorov-Smirnov, Kuiper or Sircombe-Hazelton L2 distances. Categorical provenance proxies such as chemical compositions are compared with the Aitchison and Bray-Curtis distances, and point-counting data with the chi-square distance. Also included are tools to plot compositional and point-counting data on ternary diagrams and point-counting data on radial plots, to calculate the sample size required for specified levels of statistical precision, and to assess the effects of hydraulic sorting on detrital compositions. Includes an intuitive query-based user interface for users who are not proficient in R.
Author: Pieter Vermeesch [aut, cre]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between provenance versions 2.4 dated 2020-03-19 and 3.0 dated 2021-02-24
DESCRIPTION | 12 ++--- MD5 | 56 ++++++++++++------------ R/gui.R | 18 +++---- R/indscal.R | 5 -- R/provenance.R | 4 - R/toolbox.R | 102 +++++++++++++++++++++------------------------ README.md | 11 ++-- man/KDE.Rd | 3 - man/KDEs.Rd | 14 +++++- man/MDS.Rd | 3 - man/as.compositional.Rd | 2 man/minsorting.Rd | 13 ++++- man/plot.GPA.Rd | 3 - man/plot.INDSCAL.Rd | 17 ++++++- man/plot.MDS.Rd | 17 ++++++- man/plot.PCA.Rd | 11 +++- man/plot.compositional.Rd | 3 - man/plot.distributional.Rd | 12 ++++- man/plot.minsorting.Rd | 3 - man/plot.ternary.Rd | 19 ++++++-- man/procrustes.Rd | 2 man/provenance.Rd | 22 ++++----- man/radialplot.Rd | 19 +++++++- man/read.compositional.Rd | 14 ++++-- man/read.counts.Rd | 14 ++++-- man/read.densities.Rd | 10 +++- man/read.distributional.Rd | 15 +++++- man/subset.Rd | 6 -- man/ternary.ellipse.Rd | 9 +-- 29 files changed, 268 insertions(+), 171 deletions(-)
Title: Permutation Tests for Time Series Data
Description: Helps you determine the analysis window to use when analyzing densely-sampled
time-series data, such as EEG data, using permutation testing (Maris & Oostenveld, 2007)
<doi:10.1016/j.jneumeth.2007.03.024>. These permutation tests can help identify the timepoints
where significance of an effect begins and ends, and the results can be plotted in various
types of heatmap for reporting. Mixed-effects models are supported using an implementation of
the approach by Lee & Braun (2012) <doi:10.1111/j.1541-0420.2011.01675.x>.
Author: Cesko C. Voeten [aut, cre]
Maintainer: Cesko C. Voeten <cvoeten@gmail.com>
Diff between permutes versions 2.0 dated 2021-02-22 and 2.0.1 dated 2021-02-24
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- R/buildmer.R | 4 ++-- build/vignette.rds |binary data/MMN.RData |binary inst/doc/buildmer.R | 2 +- inst/doc/buildmer.Rmd | 8 ++++---- inst/doc/buildmer.pdf |binary inst/doc/permutes.pdf |binary vignettes/buildmer.Rmd | 8 ++++---- 10 files changed, 23 insertions(+), 23 deletions(-)
Title: Creates Safety Results Summary in XML to Upload to EudraCT
Description: The remit of the European Clinical Trials Data Base (EudraCT <https://eudract.ema.europa.eu/> ) is to provide open access to summaries of all registered clinical trial results; thus aiming to prevent non-reporting of negative results and provide open-access to results to inform future research. The amount of information required and the format of the results, however, imposes a large extra workload at the end of studies on clinical trial units. In particular, the adverse-event-reporting component requires entering: each unique combination of treatment group and safety event; for every such event above, a further 4 pieces of information (body system, number of occurrences, number of subjects, number exposed) for non-serious events, plus an extra three pieces of data for serious adverse events (numbers of causally related events, deaths, causally related deaths). This package prepares the required statistics needed by EudraCT and formats them into the precise requirements to directly upload an XML file into the web portal, with no further data entry by hand.
Author: Simon Bond [cre],
Beatrice Pantaleo [aut]
Maintainer: Simon Bond <simon.bond@addenbrookes.nhs.uk>
Diff between eudract versions 0.9.2 dated 2020-04-06 and 0.9.3 dated 2021-02-24
DESCRIPTION | 10 ++++---- MD5 | 40 +++++++++++++++++--------------- NAMESPACE | 2 - NEWS.md | 5 ++++ R/safety_summary.R | 2 + build/vignette.rds |binary inst/doc/eudract.Rmd | 2 - inst/doc/eudract.html | 19 ++++++--------- man/append_xml.Rd | 22 ++++++++--------- man/create.safety_summary.Rd | 2 - man/df_to_char.Rd | 28 +++++++++++----------- man/eudract_convert.Rd | 2 - man/print.safety_summary.Rd | 32 ++++++++++++------------- man/safety.Rd | 8 ++++-- man/safety_summary.Rd | 2 - man/simple_safety_xml.Rd | 2 - man/soc_code.Rd | 8 ++++-- tests/testthat/data/fix_ucl.R |only tests/testthat/data/output_from_ucl.xml |only tests/testthat/data/simple_from_ucl.xml |only tests/testthat/data/socless.xml |only tests/testthat/test_errors.R | 11 ++++++++ vignettes/eudract.Rmd | 2 - 23 files changed, 111 insertions(+), 88 deletions(-)
Title: Continuous Time Structural Equation Modelling
Description: Hierarchical continuous time state space modelling, for linear
and nonlinear systems measured by continuous variables, with limited support for
binary data. The subject specific dynamic system is modelled as a stochastic
differential equation (SDE), measurement models are typically multivariate normal factor models.
Linear mixed effects SDE's estimated via maximum likelihood and optimization are the default.
Nonlinearities, (state dependent parameters) and random effects on all parameters
are possible, using either max likelihood / max a posteriori optimization
(with optional importance sampling) or
Stan's Hamiltonian Monte Carlo sampling. See <https://github.com/cdriveraus/ctsem/raw/master/vignettes/hierarchicalmanual.pdf>
for details. Priors may be used. For the conceptual
overview of the hierarchical Bayesian linear SDE approach, see <https://www.researchgate.net/publication/324093594_Hierarchical_Bayesian_Continuous_Time_Dynamic_Modeling>.
Exogenous inputs may also be included, for an overview of such possibilities see <https://www.researchgate.net/publication/328221807_Understanding_the_Time_Course_of_Interventions_with_Continuous_Time_Dynamic_Models> .
Stan based functions are not available on 32 bit Windows systems at present.
<https://cdriver.netlify.app/> contains some tutorial blog posts.
Author: Charles Driver [aut, cre, cph],
Manuel Voelkle [aut, cph],
Han Oud [aut, cph],
Trustees of Columbia University [cph]
Maintainer: Charles Driver <driver@mpib-berlin.mpg.de>
Diff between ctsem versions 3.4.1 dated 2020-12-18 and 3.4.2 dated 2021-02-24
DESCRIPTION | 12 MD5 | 88 ++-- NEWS | 7 R/JKalman.R |only R/covml.R | 92 ++-- R/ctCheckFit.R | 124 ++++-- R/ctDiscretePars.R | 74 ++- R/ctJacobian.R | 23 - R/ctKalman.R | 19 - R/ctModelHigherOrder.R | 2 R/ctModelLatex.R | 24 - R/ctStanContinuousPars.R | 10 R/ctStanData.R | 63 ++- R/ctStanFit.R | 11 R/ctStanKalman.R | 50 -- R/ctStanModelWriter.R | 217 ++++++----- R/ctSummarise.R | 588 ++++++++++++++++--------------- R/extract.ctStanFit.R | 19 - R/gdbfgs.R |only R/isdiag.R | 6 R/listOfMatrices.R | 2 R/sgd.R | 384 ++++++++++++-------- R/sgdmcmc.R | 47 +- R/stanoptimis.R | 450 ++++++----------------- R/summary.ctStanFit.R | 4 build/vignette.rds |binary data/ctstantestdat.rda |binary data/ctstantestfit.rda |binary inst/doc/hierarchicalmanual.pdf |binary man/ctAddSamples.Rd | 1 man/ctCheckFit.Rd | 12 man/ctExtract.Rd | 4 man/ctStanDiscretePars.Rd | 9 man/isdiag.Rd | 6 man/stanoptimis.Rd | 7 src/stan_files/ctsm.stan | 196 +++++----- src/stan_files/ctsmgen.stan | 194 +++++----- tests/testthat/test-ctLOO.R | 2 tests/testthat/test-ctRaschExampleTest.R | 16 tests/testthat/test-dtVct.R | 40 -- tests/testthat/test-knownFits.R | 7 tests/testthat/test-nonlinearVlinear.R | 10 tests/testthat/test-stantipred.R | 2 tests/testthat/test-sunspots.R | 4 tests/testthat/test-timevarying.R | 11 tests/testthat/test-ukfpoptest.R | 34 + 46 files changed, 1505 insertions(+), 1366 deletions(-)
Title: Statistical Methods for Composite Material Data
Description: An implementation of the statistical methods commonly
used for advanced composite materials in aerospace applications.
This package focuses on calculating basis values (lower tolerance
bounds) for material strength properties, as well as performing the
associated diagnostic tests. This package provides functions for
calculating basis values assuming several different distributions,
as well as providing functions for non-parametric methods of computing
basis values. Functions are also provided for testing the hypothesis
that there is no difference between strength and modulus data from an
alternate sample and that from a "qualification" or "baseline" sample.
For a discussion of these statistical methods and their use, see the
Composite Materials Handbook, Volume 1 (2012, ISBN: 978-0-7680-7811-4).
Additional details about this package are available in the paper by
Kloppenborg (2020, <doi:10.21105/joss.02265>).
Author: Stefan Kloppenborg [aut, cre],
Billy Cheng [ctb],
Ally Fraser [ctb]
Maintainer: Stefan Kloppenborg <stefan@kloppenborg.ca>
Diff between cmstatr versions 0.7.1 dated 2020-12-10 and 0.8.0 dated 2021-02-24
DESCRIPTION | 8 MD5 | 172 NAMESPACE | 168 NEWS.md | 172 R/adk.R | 419 - R/adtest.R | 612 +- R/basis.R | 3225 +++++----- R/checks.R | 170 R/cmstatr.R | 12 R/cv.R | 77 R/data.R | 30 R/equiv.R | 1884 +++--- R/generics.R | 28 R/levene.R | 457 - R/mnr.R | 609 +- R/norm.R | 791 +- R/plotting.R | 212 R/util.R | 78 R/verifytidy.R | 54 README.md | 270 build/vignette.rds |binary inst/CITATION | 34 inst/WORDLIST | 78 inst/doc/adktest.R | 12 inst/doc/adktest.Rmd | 160 inst/doc/adktest.html | 684 +- inst/doc/cmstatr_Graphing.R | 362 - inst/doc/cmstatr_Graphing.Rmd | 676 +- inst/doc/cmstatr_Graphing.html | 1232 ++-- inst/doc/cmstatr_Tutorial.R | 420 - inst/doc/cmstatr_Tutorial.Rmd | 902 +-- inst/doc/cmstatr_Tutorial.html | 1368 ++-- inst/extdata/k1.vangel.csv | 32 inst/extdata/k2.vangel.csv | 32 man/ad_ksample.Rd | 171 man/anderson_darling.Rd | 245 man/augment.mnr.Rd | 17 man/basis.Rd | 888 +-- man/calc_cv_star.Rd | 87 man/carbon.fabric.Rd | 48 man/cmstatr-package.Rd | 62 man/cv.Rd | 84 man/equiv_change_mean.Rd | 316 - man/equiv_mean_extremum.Rd | 343 - man/glance.adk.Rd | 101 man/glance.anderson_darling.Rd | 105 man/glance.basis.Rd | 163 man/glance.equiv_change_mean.Rd | 167 man/glance.equiv_mean_extremum.Rd | 137 man/glance.levene.Rd | 107 man/glance.mnr.Rd | 93 man/hk_ext.Rd | 198 man/k_equiv.Rd | 178 man/k_factor_normal.Rd | 182 man/levene_test.Rd | 159 man/maximum_normed_residual.Rd | 184 man/nonpara_binomial_rank.Rd | 154 man/normalize_group_mean.Rd | 102 man/normalize_ply_thickness.Rd | 141 man/reexports.Rd | 6 man/stat_esf.Rd | 94 man/stat_normal_surv_func.Rd | 96 man/transform_mod_cv.Rd | 254 tests/figs/deps.txt | 6 tests/figs/plotting/stat-esf.svg | 190 tests/figs/plotting/stat-normal-surv-func-and-stat-esf.svg | 2538 ++++---- tests/figs/plotting/stat-normal-surv-func.svg | 120 tests/spelling.R | 6 tests/testthat.R | 8 tests/testthat/test-adk.R | 430 - tests/testthat/test-adtest.R | 516 - tests/testthat/test-basis.R | 3824 ++++++------- tests/testthat/test-checks.R | 219 tests/testthat/test-cv.R | 49 tests/testthat/test-equiv.R | 918 +-- tests/testthat/test-levene.R | 426 - tests/testthat/test-lintr.R | 18 tests/testthat/test-mnr.R | 820 +- tests/testthat/test-normalize.R | 312 - tests/testthat/test-plotting.R | 88 tests/testthat/test-verifytidy.R | 98 tests/testthat/test-workflow.R | 1434 ++-- vignettes/adktest.Rmd | 160 vignettes/bibliography.json | 90 vignettes/cmstatr_Graphing.Rmd | 676 +- vignettes/cmstatr_Tutorial.Rmd | 902 +-- vignettes/ieee.csl | 706 +- 87 files changed, 17685 insertions(+), 17191 deletions(-)
Title: Random Projection Ensemble Classification
Description: Implements the methodology of "Cannings, T. I. and Samworth, R. J. (2017) Random-projection ensemble classification, J. Roy. Statist. Soc., Ser. B. (with discussion), 79, 959--1035". The random projection ensemble classifier is a general method for classification of high-dimensional data, based on careful combination of the results of applying an arbitrary base classifier to random projections of the feature vectors into a lower-dimensional space. The random projections are divided into non-overlapping blocks, and within each block the projection yielding the smallest estimate of the test error is selected. The random projection ensemble classifier then aggregates the results of applying the base classifier on the selected projections, with a data-driven voting threshold to determine the final assignment.
Author: Timothy I. Cannings and Richard J. Samworth
Maintainer: Timothy I. Cannings <timothy.cannings@ed.ac.uk>
Diff between RPEnsemble versions 0.4 dated 2017-10-07 and 0.5 dated 2021-02-24
DESCRIPTION | 17 +++++++++-------- MD5 | 22 +++++++++++----------- man/Other.classifier.Rd | 3 +-- man/R.Rd | 8 ++------ man/RPChoose.Rd | 5 ++--- man/RPChooseSS.Rd | 6 ++---- man/RPEnsemble-package.Rd | 11 +++++------ man/RPEnsembleClass.Rd | 3 +-- man/RPGenerate.Rd | 3 +-- man/RPModel.Rd | 5 ++--- man/RPParallel.Rd | 3 +-- man/RPalpha.Rd | 4 +--- 12 files changed, 38 insertions(+), 52 deletions(-)
Title: Bayesian Estimation of the Evolutionary Rate Matrix
Description: The Evolutionary Rate Matrix is a variance-covariance matrix which describes both the rates of trait evolution and the evolutionary correlation among multiple traits. This package has functions to estimate these parameters using Bayesian MCMC. It is possible to test if the pattern of evolutionary correlations among traits has changed between predictive regimes painted along the branches of the phylogenetic tree. Regimes can be created a priori or estimated as part of the MCMC under a joint estimation approach. The package has functions to run MCMC chains, plot results, evaluate convergence, and summarize posterior distributions.
Author: Daniel Caetano [aut, cre],
Luke Harmon [aut]
Maintainer: Daniel Caetano <caetanods1@gmail.com>
Diff between ratematrix versions 1.2.2 dated 2020-02-26 and 1.2.3 dated 2021-02-24
ratematrix-1.2.2/ratematrix/README.md |only ratematrix-1.2.3/ratematrix/DESCRIPTION | 14 - ratematrix-1.2.3/ratematrix/MD5 | 95 ++++----- ratematrix-1.2.3/ratematrix/NAMESPACE | 2 ratematrix-1.2.3/ratematrix/R/RcppExports.R | 4 ratematrix-1.2.3/ratematrix/R/check_phy_list.R |only ratematrix-1.2.3/ratematrix/R/computeESS.R | 30 -- ratematrix-1.2.3/ratematrix/R/estimateTimeMCMC.R | 8 ratematrix-1.2.3/ratematrix/R/extractCorrelation.R | 28 +- ratematrix-1.2.3/ratematrix/R/fastSimmap.R | 96 +++++++-- ratematrix-1.2.3/ratematrix/R/getStartPointFromPosterior.R |only ratematrix-1.2.3/ratematrix/R/likelihoodFunction.R | 3 ratematrix-1.2.3/ratematrix/R/logAnalyzer.R | 7 ratematrix-1.2.3/ratematrix/R/makePrior.R | 13 - ratematrix-1.2.3/ratematrix/R/mergePosterior.R | 16 - ratematrix-1.2.3/ratematrix/R/multRegimeJointMCMC.R | 6 ratematrix-1.2.3/ratematrix/R/multRegimeMCMC.R | 20 + ratematrix-1.2.3/ratematrix/R/plotPrior.R | 15 - ratematrix-1.2.3/ratematrix/R/plotRatematrix.R | 28 -- ratematrix-1.2.3/ratematrix/R/ratematrixJointMCMC.R | 33 --- ratematrix-1.2.3/ratematrix/R/ratematrixMCMC.R | 66 ++---- ratematrix-1.2.3/ratematrix/R/readMCMC.R | 101 +++++++++- ratematrix-1.2.3/ratematrix/R/samplePrior.R | 8 ratematrix-1.2.3/ratematrix/R/singleRegimeMCMC.R | 9 ratematrix-1.2.3/ratematrix/R/testRatematrix.R | 11 - ratematrix-1.2.3/ratematrix/build/vignette.rds |binary ratematrix-1.2.3/ratematrix/data/anoles.RData |binary ratematrix-1.2.3/ratematrix/data/centrarchidae.RData |binary ratematrix-1.2.3/ratematrix/inst/doc/Intro_on_the_package.html | 19 - ratematrix-1.2.3/ratematrix/inst/doc/Making_prior_on_ratematrix.html | 28 +- ratematrix-1.2.3/ratematrix/inst/doc/Set_custom_starting_point.html | 38 +-- ratematrix-1.2.3/ratematrix/inst/include/distributions_and_helpers.h | 47 ---- ratematrix-1.2.3/ratematrix/man/anoles.Rd | 4 ratematrix-1.2.3/ratematrix/man/centrarchidae.Rd | 4 ratematrix-1.2.3/ratematrix/man/computeESS.Rd | 30 -- ratematrix-1.2.3/ratematrix/man/estimateTimeMCMC.Rd | 6 ratematrix-1.2.3/ratematrix/man/extractCorrelation.Rd | 28 +- ratematrix-1.2.3/ratematrix/man/fastSimmap.Rd | 35 ++- ratematrix-1.2.3/ratematrix/man/getStartPointFromPosterior.Rd |only ratematrix-1.2.3/ratematrix/man/makePrior.Rd | 13 - ratematrix-1.2.3/ratematrix/man/mergePosterior.Rd | 16 - ratematrix-1.2.3/ratematrix/man/plotPrior.Rd | 16 - ratematrix-1.2.3/ratematrix/man/plotRatematrix.Rd | 29 -- ratematrix-1.2.3/ratematrix/man/ratematrixJointMCMC.Rd | 31 --- ratematrix-1.2.3/ratematrix/man/ratematrixMCMC.Rd | 36 +-- ratematrix-1.2.3/ratematrix/man/readMCMC.Rd | 10 ratematrix-1.2.3/ratematrix/man/readMCMC_Mk.Rd |only ratematrix-1.2.3/ratematrix/man/samplePrior.Rd | 8 ratematrix-1.2.3/ratematrix/man/testRatematrix.Rd | 11 - ratematrix-1.2.3/ratematrix/src/MultRegimeMCMC.cpp | 67 ++++++ ratematrix-1.2.3/ratematrix/src/RcppExports.cpp | 14 + 51 files changed, 526 insertions(+), 577 deletions(-)
Title: Analyzing Ecological Networks
Description: A collection of advanced tools, methods and models specifically designed for analyzing different types of ecological networks - especially antagonistic (food webs, host-parasite), mutualistic (plant-pollinator, plant-fungus, etc) and competitive networks, as well as their variability in time and space. Statistical models are developed to describe and understand the mechanisms that determine species interactions, and to decipher the organization of these ecological networks (Ohlmann et al. (2019) <doi:10.1111/ele.13221>, Gonzalez et al. (2020) <doi:10.1101/2020.04.02.021691>, Miele et al. (2021) submitted).
Author: Stephane Dray [ctb], Catherine Matias [ctb], Vincent Miele [aut, cre], Marc Ohlmann [aut], Giovanni Poggiato [ctb], Wilfried Thuiller [ctb]
Maintainer: Vincent Miele <vincent.miele@univ-lyon1.fr>
Diff between econetwork versions 0.4.1 dated 2020-09-02 and 0.5.0 dated 2021-02-24
econetwork-0.4.1/econetwork/README.md |only econetwork-0.5.0/econetwork/DESCRIPTION | 20 ++++++++------- econetwork-0.5.0/econetwork/MD5 | 20 ++++++++++++--- econetwork-0.5.0/econetwork/NAMESPACE | 5 +++ econetwork-0.5.0/econetwork/R/RcppExports.R |only econetwork-0.5.0/econetwork/R/elgrin.R |only econetwork-0.5.0/econetwork/data |only econetwork-0.5.0/econetwork/man/econetwork.Rd | 1 econetwork-0.5.0/econetwork/man/elgrin.Rd |only econetwork-0.5.0/econetwork/man/virtualComCompetition.Rd |only econetwork-0.5.0/econetwork/src |only 11 files changed, 31 insertions(+), 15 deletions(-)
Title: General Package for Meta-Analysis
Description: User-friendly general package providing standard methods for meta-analysis and supporting Schwarzer, Carpenter, and Rücker <DOI:10.1007/978-3-319-21416-0>, "Meta-Analysis with R" (2015):
- fixed effect and random effects meta-analysis;
- several plots (forest, funnel, Galbraith / radial, L'Abbe, Baujat, bubble);
- statistical tests and trim-and-fill method to evaluate bias in meta-analysis;
- import data from 'RevMan 5';
- prediction interval, Hartung-Knapp method for random effects model;
- cumulative meta-analysis and leave-one-out meta-analysis;
- meta-regression;
- generalised linear mixed models;
- produce forest plot summarising several (subgroup) meta-analyses.
Author: Guido Schwarzer [cre, aut] (<https://orcid.org/0000-0001-6214-9087>)
Maintainer: Guido Schwarzer <sc@imbi.uni-freiburg.de>
Diff between meta versions 4.16-2 dated 2021-01-27 and 4.17-0 dated 2021-02-24
DESCRIPTION | 10 MD5 | 70 ++-- NAMESPACE | 1 NEWS.md | 44 ++- R/Pagliaro1992.R |only R/crtitle.R | 31 +- R/linregcore.R | 92 ++---- R/meta-internal.R | 15 - R/meta-package.R | 8 R/metabias.R | 724 ++++++++++++++++++++++++++++++++++---------------- R/metabin.R | 14 R/metacont.R | 7 R/metacor.R | 7 R/metagen.R | 7 R/metainc.R | 10 R/metamean.R | 7 R/metaprop.R | 7 R/metarate.R | 7 R/print.meta.R | 40 ++ R/setmethodbias.R |only R/settings.meta.R | 4 R/summary.meta.R | 8 R/trimfill.R | 5 R/update.meta.R | 34 +- data/Pagliaro1992.rda |only man/Pagliaro1992.Rd |only man/metabias.Rd | 176 ++++++++---- man/metabin.Rd | 10 man/metacont.Rd | 5 man/metacor.Rd | 5 man/metagen.Rd | 5 man/metainc.Rd | 8 man/metamean.Rd | 5 man/metaprop.Rd | 5 man/metarate.Rd | 5 man/print.meta.Rd | 18 + man/trimfill.Rd | 2 man/update.meta.Rd | 6 38 files changed, 929 insertions(+), 473 deletions(-)
Title: Local Interpretable Model-Agnostic Explanations
Description: When building complex models, it is often difficult to explain why
the model should be trusted. While global measures such as accuracy are
useful, they cannot be used for explaining why a model made a specific
prediction. 'lime' (a port of the 'lime' 'Python' package) is a method for
explaining the outcome of black box models by fitting a local model around
the point in question an perturbations of this point. The approach is
described in more detail in the article by Ribeiro et al. (2016)
<arXiv:1602.04938>.
Author: Thomas Lin Pedersen [cre, aut]
(<https://orcid.org/0000-0002-5147-4711>),
Michaël Benesty [aut]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Diff between lime versions 0.5.1 dated 2019-11-12 and 0.5.2 dated 2021-02-24
DESCRIPTION | 14 MD5 | 52 - NAMESPACE | 24 NEWS.md | 5 R/lime.R | 2 R/plot_text.R | 8 R/shiny.R | 43 README.md | 41 build/vignette.rds |binary inst/doc/Understanding_lime.R | 22 inst/doc/Understanding_lime.Rmd | 16 inst/doc/Understanding_lime.html | 1406 +++++-------------------------- man/explain.Rd | 64 + man/figures/README-unnamed-chunk-2-1.png |binary man/figures/README-unnamed-chunk-3-1.png |binary man/interactive_text_explanations.Rd | 9 man/lime-package.Rd | 4 man/lime.Rd | 23 man/plot_explanations.Rd | 5 man/plot_features.Rd | 5 man/plot_image_explanation.Rd | 13 man/plot_superpixels.Rd | 11 man/stop_words_sentences.Rd | 4 man/test_sentences.Rd | 6 man/text_explanations.Rd | 7 man/train_sentences.Rd | 6 vignettes/Understanding_lime.Rmd | 16 27 files changed, 466 insertions(+), 1340 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-01-13 2021.1-7
Title: Parallel Programming Tools for 'Rcpp'
Description: High level functions for parallel programming with 'Rcpp'.
For example, the 'parallelFor()' function can be used to convert the work of
a standard serial "for" loop into a parallel one and the 'parallelReduce()'
function can be used for accumulating aggregate or other values.
Author: JJ Allaire [aut],
Romain Francois [aut, cph],
Kevin Ushey [aut, cre],
Gregory Vandenbrouck [aut],
Marcus Geelnard [aut, cph] (TinyThread library,
http://tinythreadpp.bitsnbites.eu/),
RStudio [cph],
Intel [aut, cph] (Intel TBB library,
https://www.threadingbuildingblocks.org/),
Microsoft [cph]
Maintainer: Kevin Ushey <kevin@rstudio.com>
Diff between RcppParallel versions 5.0.2 dated 2020-06-24 and 5.0.3 dated 2021-02-24
DESCRIPTION | 6 +++--- MD5 | 11 +++++++---- inst/NEWS | 4 ++++ inst/lib |only src/Makevars.in | 11 +++++++++++ src/tbb/build/macos.inc | 4 ++++ 6 files changed, 29 insertions(+), 7 deletions(-)
Title: Early Warning System
Description: The purpose of Early Warning Systems (EWS) is to detect accurately the occurrence of a crisis, which is represented by a binary variable which takes the value of one when the event occurs, and the value of zero otherwise. EWS are a toolbox for policymakers to prevent or attenuate the impact of economic downturns. Modern EWS are based on the econometric framework of Kauppi and Saikkonen (2008) <doi:10.1162/rest.90.4.777>. Specifically, this framework includes four dichotomous models, relying on a logit approach to model the relationship between yield spreads and future recessions, controlling for recession risk factors. These models can be estimated in a univariate or a balanced panel framework as in Candelon, Dumitrescu and Hurlin (2014) <doi:10.1016/j.ijforecast.2014.03.015>. This package provides both methods for estimating these models and a dataset covering 13 OECD countries over a period of 45 years. In addition, this package also provides methods for the analysis of the propagation mechanisms of an exogenous shock, as well as robust confidence intervals for these response functions using a block-bootstrap method as in Lajaunie (2021). This package constitutes a useful toolbox (data and functions) for scholars as well as policymakers.
Author: Jean-Baptiste Hasse [aut], Quentin Lajaunie [aut, cre]
Maintainer: Quentin Lajaunie <quentin_lajaunie@hotmail.fr>
Diff between EWS versions 0.1.0 dated 2020-04-07 and 0.2.0 dated 2021-02-24
EWS-0.1.0/EWS/R/Functions_EWS.R |only EWS-0.2.0/EWS/DESCRIPTION | 16 ++++------- EWS-0.2.0/EWS/MD5 | 29 ++++++++++++++------- EWS-0.2.0/EWS/NAMESPACE | 4 +- EWS-0.2.0/EWS/R/EWS_functions.R |only EWS-0.2.0/EWS/data/data_USA.rda |binary EWS-0.2.0/EWS/data/data_panel.rda |binary EWS-0.2.0/EWS/man/BlockBootstrapp.Rd |only EWS-0.2.0/EWS/man/EWS_AM_Criterion.Rd |only EWS-0.2.0/EWS/man/EWS_CSA_Criterion.Rd |only EWS-0.2.0/EWS/man/EWS_NSR_Criterion.Rd |only EWS-0.2.0/EWS/man/GIRF_Dichotomous_model.Rd |only EWS-0.2.0/EWS/man/GIRF_Index_CI.Rd |only EWS-0.2.0/EWS/man/GIRF_Proba_CI.Rd |only EWS-0.2.0/EWS/man/Logistic_Estimation.Rd | 38 +++++----------------------- EWS-0.2.0/EWS/man/Matrix_lag.Rd | 6 +++- EWS-0.2.0/EWS/man/Simulation_GIRF.Rd |only EWS-0.2.0/EWS/man/Vector_Error.Rd |only EWS-0.2.0/EWS/man/Vector_lag.Rd | 3 ++ EWS-0.2.0/EWS/man/data_USA.Rd | 16 ++++++++--- EWS-0.2.0/EWS/man/data_panel.Rd | 7 +++-- 21 files changed, 58 insertions(+), 61 deletions(-)
Title: PRO-CTCAE Data Management, Analysis, and Graphical Tools
Description: A collection of tools to facilitate standardized analysis
and graphical procedures when using the National Cancer Institute’s
Patient-Reported Outcomes version of the Common Terminology Criteria for
Adverse Events (PRO-CTCAE).
Author: Blake Langlais [aut, cre], Amylou Dueck [aut]
Maintainer: Blake Langlais <langlais.blake@mayo.edu>
Diff between ProAE versions 0.1.0 dated 2021-02-22 and 0.1.1 dated 2021-02-24
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- R/ProAE.R | 12 ++++++------ R/toxFigures.R | 8 ++++---- R/toxScores.R | 2 +- man/PROCTCAE_table.Rd | 4 ++-- man/tox_acute.Rd | 2 +- man/tox_chronic.Rd | 2 +- man/tox_cumulative.Rd | 2 +- man/tox_late.Rd | 2 +- 10 files changed, 29 insertions(+), 29 deletions(-)
Title: Hierarchical Model of Species Communities
Description: Hierarchical Modelling of Species Communities (HMSC) is
a model-based approach for analyzing community ecological data.
This package implements it in the Bayesian framework with Gibbs
Markov chain Monte Carlo (MCMC) sampling (Tikhonov et al. (2020)
<doi:10.1111/2041-210X.13345>).
Author: Gleb Tikhonov [aut],
Otso Ovaskainen [aut, cre] (<https://orcid.org/0000-0001-9750-4421>),
Jari Oksanen [aut],
Melinda de Jonge [aut],
Oystein Opedal [aut],
Tad Dallas [aut]
Maintainer: Otso Ovaskainen <otso.ovaskainen@helsinki.fi>
Diff between Hmsc versions 3.0-9 dated 2020-10-29 and 3.0-11 dated 2021-02-24
DESCRIPTION | 10 - MD5 | 97 +++++++-------- NAMESPACE | 7 + R/Hmsc.R | 158 +++++++++++++++---------- R/HmscRandomLevel.R | 76 ++++++++---- R/alignPosterior.R | 2 R/computeDataParameters.R | 17 +- R/computePredictedValues.R | 8 + R/constructGradient.R | 2 R/constructKnots.R | 8 - R/createPartition.R | 2 R/plotBeta.R | 2 R/plotGamma.R | 2 R/plotGradient.R | 25 +++- R/predict.R | 14 +- R/predictLatentFactor.R | 10 - R/prepareGradient.R | 19 ++- R/sampleMcmc.R | 54 ++++++-- R/setPriors.Hmsc.R | 12 - R/setPriors.HmscRandomLevel.R | 16 +- R/updateBetaLambda.R | 2 R/updateEta.R | 15 +- R/updateGamma2.R | 82 +++++++++---- R/updateGammaEta.R | 187 +++++++++++++++++++++++------- R/updateLambdaPriors.R | 7 - R/updateLatentLoadingOrder.R |only R/updateZ.R | 2 README.md | 2 build/partial.rdb |binary build/vignette.rds |binary data/TD.rda |binary inst/NEWS.md | 54 ++++++++ inst/doc/vignette_1_univariate.pdf |binary inst/doc/vignette_2_multivariate_low.pdf |binary inst/doc/vignette_3_multivariate_high.pdf |binary inst/doc/vignette_4_spatial.pdf |binary inst/doc/vignette_5_performance.pdf |binary man/Hmsc.Rd | 4 man/HmscRandomLevel.Rd | 55 +++++--- man/TD.Rd | 6 man/plotGradient.Rd | 8 + man/prepareGradient.Rd | 7 - tests/Examples/Hmsc-Ex.Rout.save | 38 +++--- tests/testthat/test-WAIC.R | 2 tests/testthat/test-initialParameters.R | 22 +-- tests/testthat/test-sampling.R | 40 +++--- tests/testthat/test-setHmsc.R | 68 +++++----- tests/testthat/test-setPriors.R | 13 -- vignettes/makedata.R | 27 +--- vignettes/vignette_5_performance.Rmd | 43 ++++-- 50 files changed, 802 insertions(+), 423 deletions(-)
More information about flightplanning at CRAN
Permanent link
Title: Count Transformation Models
Description: Count transformation models featuring
parameters interpretable as discrete hazard ratios, odds ratios,
reverse-time discrete hazard ratios, or transformed expectations.
An appropriate data transformation for a count outcome and
regression coefficients are simultaneously estimated by maximising
the exact discrete log-likelihood using the computational framework
provided in package 'mlt', technical details are given in
Siegfried & Hothorn (2020) <DOI:10.1111/2041-210X.13383>.
Author: Sandra Siegfried [aut] (<https://orcid.org/0000-0002-7312-1001>),
Torsten Hothorn [aut, cre] (<https://orcid.org/0000-0001-8301-0471>)
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between cotram versions 0.2-0 dated 2020-03-30 and 0.2-1 dated 2021-02-24
DESCRIPTION | 15 ++++++++------- MD5 | 30 +++++++++++++++--------------- NAMESPACE | 3 ++- R/models.R | 1 + R/predict.R | 17 ++++++++++++++++- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 16 ++++++++++------ inst/NEWS.Rd | 8 ++++++++ inst/doc/cotram.R | 21 +++++++++++++++++---- inst/doc/cotram.Rnw | 25 +++++++++++++++++++++---- inst/doc/cotram.pdf |binary man/cotram-methods.Rd | 5 +++-- tests/confband-Ex.R | 2 +- tests/predict-Ex.R | 40 ++++++++++++++++++++++++++++++++++++++++ vignettes/cotram.Rnw | 25 +++++++++++++++++++++---- 16 files changed, 163 insertions(+), 45 deletions(-)
Title: Most Likely Transformations
Description: Likelihood-based estimation of conditional transformation
models via the most likely transformation approach described in
Hothorn et al. (2018) <DOI:10.1111/sjos.12291>.
Author: Torsten Hothorn [aut, cre] (<https://orcid.org/0000-0001-8301-0471>)
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between mlt versions 1.2-2 dated 2021-02-12 and 1.2-3 dated 2021-02-24
mlt-1.2-2/mlt/tests/Examples |only mlt-1.2-3/mlt/DESCRIPTION | 8 +- mlt-1.2-3/mlt/MD5 | 15 ++-- mlt-1.2-3/mlt/R/dpq_etc.R | 4 - mlt-1.2-3/mlt/build/partial.rdb |binary mlt-1.2-3/mlt/inst/NEWS.Rd | 12 ++- mlt-1.2-3/mlt/man/R.Rd | 68 +++++++++++++++++++ mlt-1.2-3/mlt/man/mlt-package.Rd | 13 ++- mlt-1.2-3/mlt/man/predict.Rd | 135 ++++++++++++++++++++++++++++++++++++++- 9 files changed, 231 insertions(+), 24 deletions(-)
Title: Selected ISO Codes
Description: ISO language, territory, currency, script and character codes.
Provides ISO 639 language codes, ISO 3166 territory codes, ISO 4217
currency codes, ISO 15924 script codes, and the ISO 8859 character codes
as well as the UN M.49 area codes.
Author: Christian Buchta [aut],
Kurt Hornik [aut, cre] (<https://orcid.org/0000-0003-4198-9911>)
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between ISOcodes versions 2020.12.04 dated 2020-12-04 and 2021.02.24 dated 2021-02-24
DESCRIPTION | 6 +++--- MD5 | 26 +++++++++++++------------- data/ISO_15924.rda |binary data/ISO_3166_1.rda |binary data/ISO_3166_2.rda |binary data/ISO_3166_3.rda |binary data/ISO_4217.rda |binary data/ISO_4217_Historic.rda |binary data/ISO_639_2.rda |binary data/ISO_639_3.rda |binary data/ISO_639_3_Retirements.rda |binary data/ISO_639_5.rda |binary data/UN_M.49_Countries.rda |binary data/UN_M.49_Regions.rda |binary 14 files changed, 16 insertions(+), 16 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-02-22 0.2.0.1
2020-09-14 0.2.0
2020-05-16 0.1.3
Title: Group Animal Relocation Data by Spatial and Temporal
Relationship
Description: Detects spatial and temporal groups in GPS relocations
(Robitaille et al. (2020) <doi:10.1111/2041-210X.13215>).
It can be used to convert GPS relocations to
gambit-of-the-group format to build proximity-based social networks
In addition, the randomizations function provides data-stream
randomization methods suitable for GPS data.
Author: Alec L. Robitaille [aut, cre] (<https://orcid.org/0000-0002-4706-1762>),
Quinn Webber [aut] (<https://orcid.org/0000-0002-0434-9360>),
Eric Vander Wal [aut] (<https://orcid.org/0000-0002-8534-4317>)
Maintainer: Alec L. Robitaille <robit.alec@gmail.com>
Diff between spatsoc versions 0.1.15 dated 2020-10-21 and 0.1.16 dated 2021-02-24
DESCRIPTION | 6 MD5 | 76 ++--- NEWS.md | 9 R/build_lines.R | 47 ++- R/build_polys.R | 70 +++- R/edge_dist.R | 77 +++-- R/extdata.R | 2 R/get_gbi.R | 2 R/group_lines.R | 11 R/group_polys.R | 11 build/vignette.rds |binary inst/doc/faq.Rmd | 14 inst/doc/faq.html | 14 inst/doc/intro-spatsoc.R | 8 inst/doc/intro-spatsoc.Rmd | 8 inst/doc/intro-spatsoc.html | 70 ++-- inst/doc/using-edge-and-dyad.html | 564 ++++++++++---------------------------- inst/doc/using-in-sna.R | 4 inst/doc/using-in-sna.Rmd | 4 inst/doc/using-in-sna.html | 4 man/DT.Rd | 2 man/build_lines.Rd | 46 ++- man/build_polys.Rd | 64 +++- man/edge_dist.Rd | 6 man/get_gbi.Rd | 2 man/group_lines.Rd | 15 - man/group_polys.Rd | 15 - tests/testthat/test-build-lines.R | 2 tests/testthat/test-build-polys.R | 2 tests/testthat/test-edge-dist.R | 20 - tests/testthat/test-edge-nn.R | 15 - tests/testthat/test-gbi.R | 2 tests/testthat/test-group-lines.R | 14 tests/testthat/test-group-polys.R | 2 tests/testthat/test-pts.R | 19 - tests/testthat/test-random.R | 65 ++-- vignettes/faq.Rmd | 14 vignettes/intro-spatsoc.Rmd | 8 vignettes/using-in-sna.Rmd | 4 39 files changed, 630 insertions(+), 688 deletions(-)
Title: Robust Data-Driven Statistical Inference in
Regression-Discontinuity Designs
Description: Regression-discontinuity (RD) designs are quasi-experimental research designs popular in social, behavioral and natural sciences. The RD design is usually employed to study the (local) causal effect of a treatment, intervention or policy. This package provides tools for data-driven graphical and analytical statistical inference in RD designs: rdrobust() to construct local-polynomial point estimators and robust confidence intervals for average treatment effects at the cutoff in Sharp, Fuzzy and Kink RD settings, rdbwselect() to perform bandwidth selection for the different procedures implemented, and rdplot() to conduct exploratory data analysis (RD plots).
Author: Sebastian Calonico <sebastian.calonico@columbia.edu>, Matias D. Cattaneo <cattaneo@princeton.edu>, Max H. Farrell <max.farrell@chicagobooth.edu>, Rocio Titiunik <titiunik@princeton.edu>
Maintainer: Sebastian Calonico <sebastian.calonico@columbia.edu>
Diff between rdrobust versions 0.99.9 dated 2020-08-26 and 1.0.1 dated 2021-02-24
DESCRIPTION | 10 ++--- MD5 | 18 ++++----- NAMESPACE | 1 R/functions.R | 9 +++- R/rdbwselect.R | 71 ++++++++++++++++++++++++------------- R/rdplot.R | 91 +++++++++++++++++++++++++++++++----------------- R/rdrobust.R | 35 +++++++++++------- man/rdbwselect.Rd | 3 + man/rdplot.Rd | 14 ++++++- man/rdrobust-package.Rd | 4 +- 10 files changed, 166 insertions(+), 90 deletions(-)
Title: 'Rcpp' Bindings for the 'simdjson' Header-Only Library for
'JSON' Parsing
Description: The 'JSON' format is ubiquitous for data interchange, and the
'simdjson' library written by Daniel Lemire (and many contributors) provides
a high-performance parser for these files which by relying on parallel 'SIMD'
instruction manages to parse these files as faster than disk speed. See the
<arXiv:1902.08318> paper for more details about 'simdjson'. This package
parses 'JSON' from string, file, or remote URLs under a variety of settings.
Author: Dirk Eddelbuettel, Brendan Knapp
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppSimdJson versions 0.1.4 dated 2021-02-12 and 0.1.5 dated 2021-02-24
ChangeLog | 21 ++++++++++++++- DESCRIPTION | 8 ++--- MD5 | 20 +++++++------- R/utils.R | 11 ++++--- R/validateJSON.R | 2 - build/partial.rdb |binary inst/NEWS.Rd | 8 +++++ inst/include/RcppSimdJson/deserialize.hpp | 28 ++++++++++---------- inst/include/RcppSimdJson/deserialize/dataframe.hpp | 4 +- inst/include/RcppSimdJson/deserialize/vector.hpp | 4 +- inst/include/RcppSimdJson/utils.hpp | 2 - 11 files changed, 68 insertions(+), 40 deletions(-)
Title: Degrees of Freedom Adjustment for Robust Standard Errors
Description: Computes small-sample degrees of freedom adjustment for
heteroskedasticity robust standard errors, and for clustered standard errors
in linear regression. See Imbens and Kolesár (2016)
<doi:10.1162/REST_a_00552> for a discussion of these adjustments.
Author: Michal Kolesár [aut, cre] (<https://orcid.org/0000-0002-2482-7796>)
Maintainer: Michal Kolesár <kolesarmi@googlemail.com>
Diff between dfadjust versions 1.0.1 dated 2019-12-16 and 1.0.2 dated 2021-02-24
DESCRIPTION | 8 +-- MD5 | 24 +++++------ NEWS.md | 9 +++- R/ols.R | 24 +++++++---- build/partial.rdb |only build/vignette.rds |binary inst/doc/dfadjust.Rmd | 21 +++++---- inst/doc/dfadjust.pdf |binary man/dfadjustSE.Rd | 7 +-- tests/testthat/test-hc2-check.R | 6 +- tests/testthat/test_clustervar.R |only vignettes/auto/library.el | 2 vignettes/dfadjust.Rmd | 21 +++++---- vignettes/library.bib | 85 ++++++++++++++++++++------------------- 14 files changed, 121 insertions(+), 86 deletions(-)
Title: Aligned Rank Transform
Description: The Aligned Rank Transform for nonparametric
factorial ANOVAs as described by J. O. Wobbrock,
L. Findlater, D. Gergle, & J. J. Higgins, "The Aligned
Rank Transform for nonparametric factorial analyses
using only ANOVA procedures", CHI 2011 <DOI:10.1145/1978942.1978963>.
Author: Matthew Kay [aut, cre],
Lisa A. Elkin [aut],
James J. Higgins [aut],
Jacob O. Wobbrock [aut]
Maintainer: Matthew Kay <mjskay@northwestern.edu>
Diff between ARTool versions 0.10.8 dated 2020-10-31 and 0.11.0 dated 2021-02-24
DESCRIPTION | 22 - MD5 | 89 ++-- NAMESPACE | 7 NEWS.md | 179 ++++---- R/anova.art.R | 414 ++++++++++---------- R/art.R | 581 ++++++++++++++-------------- R/art.con.R |only R/art.con.internal.R |only R/artlm.R | 168 ++++---- R/artlm.con.R |only R/data.R | 504 +++++++++++++----------- R/flat.anova.R | 222 +++++----- R/global.variables.R | 18 R/internal.R | 367 +++++++++-------- R/release.questions.R | 20 README.md | 30 + build/vignette.rds |binary data/ElkinAB.RData |only data/ElkinABC.RData |only inst/CITATION | 81 ++- inst/doc/art-contrasts.R | 159 ++++--- inst/doc/art-contrasts.Rmd | 661 +++++++++++++++++--------------- inst/doc/art-contrasts.html | 611 ++++++++++------------------- inst/doc/art-effect-size.R | 2 inst/doc/art-effect-size.Rmd | 358 ++++++++--------- inst/doc/art-effect-size.html | 352 +++-------------- man/ElkinAB.Rd |only man/ElkinABC.Rd |only man/Higgins1990Table1.Rd | 86 ++-- man/Higgins1990Table1.art.Rd | 68 +-- man/Higgins1990Table5.Rd | 102 ++-- man/Higgins1990Table5.art.Rd | 68 +-- man/HigginsABC.Rd | 76 +-- man/HigginsABC.art.Rd | 86 ++-- man/InteractionTestData.Rd | 35 - man/anova.art.Rd | 206 ++++----- man/art.Rd | 318 ++++++++------- man/art.con.Rd |only man/artlm.Rd | 114 ++--- man/artlm.con.Rd |only man/summary.art.Rd | 82 +-- tests/testthat.R | 8 tests/testthat/test.anova.art.R | 180 ++++---- tests/testthat/test.art.R | 564 +++++++++++++-------------- tests/testthat/test.art.con.R |only tests/testthat/test.artlm.R | 96 ++-- tests/testthat/test.artlm.con.R |only tests/testthat/test.parse.art.formula.R | 192 ++++----- tests/testthat/test.summary.art.R | 38 - vignettes/art-contrasts.Rmd | 661 +++++++++++++++++--------------- vignettes/art-effect-size.Rmd | 358 ++++++++--------- 51 files changed, 4045 insertions(+), 4138 deletions(-)
Title: Accurate Estimation of Influenza Epidemics using Google Search
Data
Description: Augmented Regression with General Online data (ARGO) for accurate estimation of influenza epidemics in United States on national level, regional level and state level. It replicates the method introduced in paper Yang, S., Santillana, M. and Kou, S.C. (2015) <doi:10.1073/pnas.1515373112>; Ning, S., Yang, S. and Kou, S.C. (2019) <doi:10.1038/s41598-019-41559-6>; Yang, S., Ning, S. and Kou, S.C. (2021) <doi:10.1038/s41598-021-83084-5>.
Author: Shaoyang Ning, Shihao Yang, S. C. Kou
Maintainer: Shihao Yang <shihao.yang@isye.gatech.edu>
Diff between argo versions 2.0.2 dated 2020-04-25 and 3.0.1 dated 2021-02-24
DESCRIPTION | 12 - MD5 | 35 +-- NAMESPACE | 1 R/constructor.R | 2 R/dataparsing.R | 22 - R/main.R | 391 +++++++++++++++++++++++++++++++++++ R/plot.R | 3 R/summary.R | 6 README | 2 man/argo.Rd | 15 - man/argo2_main.Rd | 9 man/argox_main.Rd |only man/boot_re.Rd | 15 + man/bootstrap_relative_efficiency.Rd | 14 - man/load_data.Rd | 17 - man/load_reg_data.Rd | 9 man/parse_gt_weekly.Rd | 2 man/parse_unrevised_ili.Rd | 2 man/summary_argo.Rd | 11 19 files changed, 500 insertions(+), 68 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-04-18 1.0.2
2017-12-08 1.0.1
2017-11-29 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-02-07 3.1.14
2020-01-29 3.1.13
2018-02-15 3.1.7
2018-01-04 3.1.6
2017-11-07 3.1.5
2017-09-19 3.1.3
2017-09-16 3.1.2
2016-04-09 3.0.5
2016-04-06 3.0.4
2016-03-29 3.0.2
2016-02-26 2.0.4.1
2014-06-01 2.0.4
2014-05-27 2.0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-06-12 0.8.0
2019-02-19 0.7.1
2019-01-08 0.7.0
2018-10-08 0.6.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-10-14 1.0.2.1
2017-11-17 1.0.2
2017-03-31 1.0.1
2017-02-23 1.0.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-02-10 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-12-14 0.5.3
2017-02-21 0.5.2
2015-11-20 0.5
2015-02-11 0.4
2014-12-16 0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-11-16 0.1.18.4
2019-01-05 0.1.18.3.1
2017-02-13 0.1.18.3
2016-10-22 0.1.18.2
2015-01-03 0.1.17.45
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-05-12 0.2.5
Title: Moment-Free Estimation of Sharpe Ratios
Description: An efficient moment-free estimator of the Sharpe ratio, or signal-to-noise ratio, for heavy-tailed data (see <arXiv:1505.01333>).
Author: Damien Challet
Maintainer: Damien Challet <damien.challet@gmail.com>
Diff between sharpeRratio versions 1.4.1 dated 2020-05-15 and 1.4.2 dated 2021-02-24
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS | 9 +++++++++ src/num_records.cpp | 11 ++++++----- 4 files changed, 22 insertions(+), 12 deletions(-)
Title: Evolutionary Transcriptomics
Description: Investigate the evolution of biological processes by capturing evolutionary signatures in transcriptomes (Drost et al. (2017) <doi:10.1093/bioinformatics/btx835>). The aim of this tool is to provide a transcriptome analysis environment to quantify the average evolutionary age of genes contributing to a transcriptome of interest (Drost et al. (2016) <doi:10.1101/051565>).
Author: Hajk-Georg Drost [aut, cre] (<https://orcid.org/0000-0002-1567-306X>)
Maintainer: Hajk-Georg Drost <hajk-georg.drost@tuebingen.mpg.de>
Diff between myTAI versions 0.9.2 dated 2020-01-10 and 0.9.3 dated 2021-02-24
myTAI-0.9.2/myTAI/tests/testthat/test-taxid.R |only myTAI-0.9.3/myTAI/DESCRIPTION | 23 myTAI-0.9.3/myTAI/MD5 | 75 - myTAI-0.9.3/myTAI/NEWS.md | 17 myTAI-0.9.3/myTAI/R/MatchMap.R | 2 myTAI-0.9.3/myTAI/R/PlotSignature.R | 2 myTAI-0.9.3/myTAI/R/is.ExpressionSet.R | 2 myTAI-0.9.3/myTAI/R/myTAI-package.R |only myTAI-0.9.3/myTAI/R/pStrata.R | 2 myTAI-0.9.3/myTAI/R/tf.R | 4 myTAI-0.9.3/myTAI/README.md | 57 myTAI-0.9.3/myTAI/build/vignette.rds |binary myTAI-0.9.3/myTAI/inst/CITATION | 8 myTAI-0.9.3/myTAI/inst/doc/Advanced.html | 240 +-- myTAI-0.9.3/myTAI/inst/doc/Enrichment.Rmd | 2 myTAI-0.9.3/myTAI/inst/doc/Enrichment.html | 256 +-- myTAI-0.9.3/myTAI/inst/doc/Expression.Rmd | 4 myTAI-0.9.3/myTAI/inst/doc/Expression.html | 646 ++++----- myTAI-0.9.3/myTAI/inst/doc/Intermediate.R | 282 +-- myTAI-0.9.3/myTAI/inst/doc/Intermediate.Rmd | 62 myTAI-0.9.3/myTAI/inst/doc/Intermediate.html | 478 +++--- myTAI-0.9.3/myTAI/inst/doc/Introduction.R | 310 ++-- myTAI-0.9.3/myTAI/inst/doc/Introduction.Rmd | 46 myTAI-0.9.3/myTAI/inst/doc/Introduction.html | 711 +++++----- myTAI-0.9.3/myTAI/inst/doc/Taxonomy.R | 14 myTAI-0.9.3/myTAI/inst/doc/Taxonomy.Rmd | 33 myTAI-0.9.3/myTAI/inst/doc/Taxonomy.html | 128 + myTAI-0.9.3/myTAI/man/PlotSignature.Rd | 2 myTAI-0.9.3/myTAI/man/tf.Rd | 4 myTAI-0.9.3/myTAI/src/code.cpp |only myTAI-0.9.3/myTAI/src/myTAI_init.c | 5 myTAI-0.9.3/myTAI/src/rcpp_funcs.cpp | 9 myTAI-0.9.3/myTAI/tests/testthat/test-EarlyConservationTest.R | 56 myTAI-0.9.3/myTAI/tests/testthat/test-REMatrix.R | 4 myTAI-0.9.3/myTAI/tests/testthat/test-ReductiveHourglassTest.R | 79 - myTAI-0.9.3/myTAI/vignettes/Enrichment.Rmd | 2 myTAI-0.9.3/myTAI/vignettes/Expression.Rmd | 4 myTAI-0.9.3/myTAI/vignettes/Intermediate.Rmd | 62 myTAI-0.9.3/myTAI/vignettes/Introduction.Rmd | 46 myTAI-0.9.3/myTAI/vignettes/Taxonomy.Rmd | 33 40 files changed, 1924 insertions(+), 1786 deletions(-)
Title: Automated Boosted Regression Tree Modelling and Mapping Suite
Description: Automates delta log-normal boosted regression tree abundance
prediction. Loops through parameters provided (LR (learning rate), TC (tree
complexity), BF (bag fraction)), chooses best, simplifies, & generates line,
dot & bar plots, & outputs these & predictions & a report, makes predicted
abundance maps, and Unrepresentativeness surfaces.
Package core built around 'gbm' (gradient boosting machine) functions in
'dismo' (Hijmans, Phillips, Leathwick & Jane Elith, 2020 & ongoing), itself
built around 'gbm' (Greenwell, Boehmke, Cunningham & Metcalfe, 2020 &
ongoing, originally by Ridgeway). Indebted to Elith/Leathwick/Hastie 2008
'Working Guide' <doi:10.1111/j.1365-2656.2008.01390.x>; workflow follows
Appendix S3. See <http://www.simondedman.com/> for published guides and
papers using this package.
Author: Simon Dedman [aut, cre],
Hans Gerritsen [aut]
Maintainer: Simon Dedman <simondedman@gmail.com>
Diff between gbm.auto versions 1.4.0 dated 2021-02-15 and 1.4.1 dated 2021-02-24
DESCRIPTION | 6 MD5 | 24 +-- NEWS.md | 3 R/gbm.auto.R | 3 R/gbm.basemap.R | 3 R/gbm.bfcheck.R | 5 R/gbm.cons.R | 391 ++++++++++++++++++++++++++--------------------------- R/gbm.loop.R | 3 man/gbm.auto.Rd | 2 man/gbm.basemap.Rd | 2 man/gbm.bfcheck.Rd | 2 man/gbm.cons.Rd | 3 man/gbm.loop.Rd | 2 13 files changed, 223 insertions(+), 226 deletions(-)
Title: Calculate Ecological Information and Diatom Based Indices
Description: Calculates ecological information and biotic indices for diatoms in a sample.
It includes number/shape of chloroplasts diversity indices, size classes, ecological guilds, and multiple biotic indices.
It outputs both a dataframe with all the results and plots of all the obtained data in a defined output folder.
Sample data was taken from Nicolosi Gelis, Cochero & Gómez (2020, <doi:10.1016/j.ecolind.2019.105951>).
The package uses the 'Diat.Barcode' database to calculate morphological and ecological information by Rimet & Couchez (2012, <doi:10.1051/kmae/2012018>),
and calculates the DES index by Descy (1979, <http://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=PASCAL8060205402>),
the EPID index by Dell'Uomo (1996, ISBN: 3950009002),
the IDAP index by Prygiel & Coste (1993, <doi:10.1007/BF00028033>),
the ID-CH index by Hürlimann & Niederhauser (2007, <https://www.bafu.admin.ch/bafu/fr/home/themes/eaux/publications/publications-eaux/methodes-analyse-appreciation-cours-eau-diatomees.html>),
the IDP index by Gómez & Licursi (2001, <doi:10.1023/A:1011415209445>),
the ILM index by Leclercq & Maquet (1987, <http://www.vliz.be/imisdocs/publications/286641.pdf>),
the IPS index by Coste (1982, <https://www.oieau.org/eaudoc/notice/ETUDE-DES-METHODES-BIOLOGIQUES-DAPPRECIATION-QUANTITATIVE-DE-LA-QUALITE-DES-EAUX>),
the LOBO index by Lobo, Callegaro, & Bender (2002, ISBN:9788585869908),
the SLA by Sládeček (1986, <doi:10.1002/aheh.19860140519>),
the TDI index by Kelly, & Whitton (1995, <doi:10.1007/BF00003802>),
and the SPEAR(herbicide) index by Wood, Mitrovic, Lim, Warne, Dunlop, & Kefford (2019, <doi:10.1016/j.ecolind.2018.12.035>).
Author: María Mercedes Nicolosi Gelis [aut]
(<https://orcid.org/0000-0001-6324-7930>),
María Belén Sathicq [aut] (<https://orcid.org/0000-0002-3534-8950>),
Joaquín Cochero [cre] (<https://orcid.org/0000-0003-3957-6819>)
Maintainer: Joaquín Cochero <jcochero@ilpla.edu.ar>
Diff between diathor versions 0.0.1 dated 2020-11-26 and 0.0.4 dated 2021-02-24
DESCRIPTION | 9 - MD5 | 42 ++--- NAMESPACE | 4 R/data.R | 14 - R/diat_findAcronyms.R | 31 ++- R/diat_guilds.R | 121 +++++++-------- R/diat_loadData.R | 56 +++++-- R/diat_morpho.R | 155 +++++++------------ R/diat_size.R | 101 +++++-------- R/diat_spear.R | 31 ++- R/diat_vandam.R | 380 +++++++++++++++++++++---------------------------- R/diathorAll.R | 13 - README.md | 124 +++++++++++++++ data/acronyms.rda |binary data/spear.rda |binary man/dbc_offline.Rd | 2 man/diat_sampleData.Rd | 2 man/idap.Rd | 2 man/idp.Rd | 2 man/sla.Rd | 2 man/spear.Rd | 2 man/tdi.Rd | 2 22 files changed, 572 insertions(+), 523 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.archives-ouvertes.fr/hal-00714174> ; S. Karlin and S. Altschul (1990) <https://www.pnas.org/content/87/6/2264> ; S. Mercier, D. Cellier and F. Charlot (2003) <https://hal.archives-ouvertes.fr/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 1.0.4 dated 2021-02-23 and 1.0.5 dated 2021-02-23
DESCRIPTION | 6 +++--- MD5 | 6 +++--- inst/doc/localScorePackageDocumentation.pdf |binary src/pValueMethods.cpp | 12 ++++++------ 4 files changed, 12 insertions(+), 12 deletions(-)
Title: A Tool for Sensitivity Analysis in Structural Equation Modeling
Description: Perform sensitivity analysis in structural equation modeling using
meta-heuristic optimization methods (e.g., ant colony optimization and others).
The references for the proposed methods are:
(1) Leite, W., & Shen, Z., Marcoulides, K., Fish, C., & Harring, J. (in press).
Using ant colony optimization for sensitivity analysis in
structural equation modeling.
Structural Equation Modeling: A Multidisciplinary Journal.
(2) Harring, J. R., McNeish, D. M., & Hancock, G. R. (2017)
<doi:10.1080/10705511.2018.1506925>;
(3) Socha, K., & Dorigo, M. (2008) <doi:10.1016/j.ejor.2006.06.046>.
We also thank Dr. Krzysztof Socha for sharing his research on ant colony optimization
algorithm with continuous domains and associated R code,
which provided the base for the development of this package.
Author: Walter Leite [aut, cre],
Zuchao Shen [aut],
Gail Fish [ctb],
YongSeok Lee [ctb],
Sanaz Nazari [ctb],
Jia Quan [ctb],
Eric Wright [ctb],
Huibin Zhang [ctb]
Maintainer: Walter Leite <walter.leite@coe.ufl.edu>
Diff between SEMsens versions 0.2.6 dated 2020-07-18 and 1.0.1 dated 2021-02-23
SEMsens-0.2.6/SEMsens/inst/doc/SEMsens.html |only SEMsens-1.0.1/SEMsens/DESCRIPTION | 41 +- SEMsens-1.0.1/SEMsens/MD5 | 46 +- SEMsens-1.0.1/SEMsens/NEWS.md | 17 SEMsens-1.0.1/SEMsens/R/SEMsens-package.R | 10 SEMsens-1.0.1/SEMsens/R/gen.sens.pars.R | 12 SEMsens-1.0.1/SEMsens/R/sa.aco.R | 242 +++++++----- SEMsens-1.0.1/SEMsens/R/sens.tables.R | 90 +++- SEMsens-1.0.1/SEMsens/R/smith19.R |only SEMsens-1.0.1/SEMsens/build/vignette.rds |binary SEMsens-1.0.1/SEMsens/data |only SEMsens-1.0.1/SEMsens/inst/doc/Hom-vignette.R |only SEMsens-1.0.1/SEMsens/inst/doc/Hom-vignette.Rmd |only SEMsens-1.0.1/SEMsens/inst/doc/Hom-vignette.pdf |only SEMsens-1.0.1/SEMsens/inst/doc/SEMsens.R | 61 +-- SEMsens-1.0.1/SEMsens/inst/doc/SEMsens.Rmd | 88 ++-- SEMsens-1.0.1/SEMsens/inst/doc/SEMsens.pdf |only SEMsens-1.0.1/SEMsens/inst/doc/Smith12vignette.R |only SEMsens-1.0.1/SEMsens/inst/doc/Smith12vignette.Rmd |only SEMsens-1.0.1/SEMsens/inst/doc/Smith12vignette.pdf |only SEMsens-1.0.1/SEMsens/inst/doc/Smith19_6phantom3.R |only SEMsens-1.0.1/SEMsens/inst/doc/Smith19_6phantom3.Rmd |only SEMsens-1.0.1/SEMsens/inst/doc/Smith19_6phantom3.pdf |only SEMsens-1.0.1/SEMsens/man/SEMsens-package.Rd | 10 SEMsens-1.0.1/SEMsens/man/gen.sens.pars.Rd | 26 - SEMsens-1.0.1/SEMsens/man/sa.aco.Rd | 172 +++++--- SEMsens-1.0.1/SEMsens/man/sens.tables.Rd | 28 + SEMsens-1.0.1/SEMsens/man/smith19.use.Rd |only SEMsens-1.0.1/SEMsens/vignettes/Hom-vignette.Rmd |only SEMsens-1.0.1/SEMsens/vignettes/SEMsens.Rmd | 88 ++-- SEMsens-1.0.1/SEMsens/vignettes/Smith12vignette.Rmd |only SEMsens-1.0.1/SEMsens/vignettes/Smith19_6phantom3.Rmd |only SEMsens-1.0.1/SEMsens/vignettes/smith19_6_my.sa.table.rdata |only 33 files changed, 613 insertions(+), 318 deletions(-)
Title: Stochastic Approximation Expectation Maximization (SAEM)
Algorithm
Description: The SAEMIX package implements the Stochastic Approximation EM algorithm for parameter estimation in (non)linear mixed effects models. The SAEM algorithm: - computes the maximum likelihood estimator of the population parameters, without any approximation of the model (linearisation, quadrature approximation,...), using the Stochastic Approximation Expectation Maximization (SAEM) algorithm, - provides standard errors for the maximum likelihood estimator - estimates the conditional modes, the conditional means and the conditional standard deviations of the individual parameters, using the Hastings-Metropolis algorithm. Several applications of SAEM in agronomy, animal breeding and PKPD analysis have been published by members of the Monolix group. Documentation about 'saemix' is provided by a comprehensive user guide in the inst folder, and a reference concerning the methods is the paper by Comets, Lavenu and Lavielle (2017, <doi:10.18637/jss.v080.i03>). See 'citation("saemix")' for details.
Author: Emmanuelle Comets [aut, cre] (<https://orcid.org/0000-0002-9150-9886>),
Audrey Lavenu [ctb],
Marc Lavielle [ctb],
Maud Delattre [ctb]
Maintainer: Emmanuelle Comets <emmanuelle.comets@inserm.fr>
Diff between saemix versions 2.3 dated 2019-12-06 and 2.4 dated 2021-02-23
saemix-2.3/saemix/man/saemix-package.Rd |only saemix-2.3/saemix/man/z[-methods.Rd |only saemix-2.3/saemix/man/z[_--methods.Rd |only saemix-2.4/saemix/CHANGES | 16 + saemix-2.4/saemix/DESCRIPTION | 37 +- saemix-2.4/saemix/MD5 | 85 ++--- saemix-2.4/saemix/NAMESPACE | 14 saemix-2.4/saemix/R/SaemixData.R | 89 +++-- saemix-2.4/saemix/R/SaemixModel.R | 39 +- saemix-2.4/saemix/R/SaemixObject.R | 373 +++++++++++++++++++----- saemix-2.4/saemix/R/SaemixRes.R | 223 +++++++++++++- saemix-2.4/saemix/R/aaa_generics.R | 388 ++++++++++++++++++++++++- saemix-2.4/saemix/R/compute_LL.R | 22 + saemix-2.4/saemix/R/func_FIM.R | 102 +++++- saemix-2.4/saemix/R/func_aux.R | 338 +-------------------- saemix-2.4/saemix/R/func_diagnostics.R |only saemix-2.4/saemix/R/func_distcond.R | 287 +++++++++++------- saemix-2.4/saemix/R/func_estimParam.R |only saemix-2.4/saemix/R/func_plots.R | 122 +++++-- saemix-2.4/saemix/R/func_simulations.R | 3 saemix-2.4/saemix/R/main.R | 182 ++++++----- saemix-2.4/saemix/R/main_initialiseMainAlgo.R | 16 - saemix-2.4/saemix/R/main_mstep.R | 2 saemix-2.4/saemix/R/zzz.R | 2 saemix-2.4/saemix/man/PD1.saemix.Rd | 93 ++--- saemix-2.4/saemix/man/SaemixData-class.Rd | 2 saemix-2.4/saemix/man/SaemixRes-class.Rd | 18 - saemix-2.4/saemix/man/conddist.saemix.Rd | 47 +-- saemix-2.4/saemix/man/cow.saemix.Rd | 83 ++--- saemix-2.4/saemix/man/createSaemixObject.Rd |only saemix-2.4/saemix/man/initialize-methods.Rd | 2 saemix-2.4/saemix/man/kurtosis.Rd |only saemix-2.4/saemix/man/llis.saemix.Rd | 1 saemix-2.4/saemix/man/logLik.Rd | 12 saemix-2.4/saemix/man/map.saemix.Rd | 2 saemix-2.4/saemix/man/mydiag.Rd |only saemix-2.4/saemix/man/oxboys.saemix.Rd | 72 ++-- saemix-2.4/saemix/man/predict-methods.Rd | 2 saemix-2.4/saemix/man/replaceData.Rd |only saemix-2.4/saemix/man/saemix.Rd | 16 - saemix-2.4/saemix/man/saemix.internal.Rd | 24 + saemix-2.4/saemix/man/saemixControl.Rd | 2 saemix-2.4/saemix/man/saemixpredict.newdata.Rd |only saemix-2.4/saemix/man/skewness.Rd |only saemix-2.4/saemix/man/summary-methods.Rd | 5 saemix-2.4/saemix/man/testnpde.Rd | 18 - saemix-2.4/saemix/man/theo.saemix.Rd | 169 +++++----- saemix-2.4/saemix/man/vcov.Rd | 4 saemix-2.4/saemix/man/yield.saemix.Rd | 100 ++---- 49 files changed, 1913 insertions(+), 1099 deletions(-)
Title: UCA Rcmdr Plug-in
Description: Some extensions to Rcmdr (R Commander), randomness test,
variance test for one normal sample and predictions using active model,
made by R-UCA project and used in teaching statistics at University of Cadiz (UCA).
Author: Manuel Munoz-Marquez <manuel.munoz@uca.es>
Maintainer: Manuel Munoz-Marquez <manuel.munoz@uca.es>
Diff between RcmdrPlugin.UCA versions 4.2-6 dated 2018-12-30 and 4.3-3 dated 2021-02-23
ChangeLog | 3 DESCRIPTION | 18 MD5 | 34 - NAMESPACE | 4 R/RcmdrPlugin.UCA.R | 126 +++--- build/vignette.rds |binary inst/doc/additions.R |only inst/doc/additions.html | 541 +++++++++++++++++++-------- inst/doc/adiciones.R |only inst/doc/adiciones.html | 561 ++++++++++++++++++++-------- inst/etc/menus.txt | 8 inst/po/es/LC_MESSAGES/R-RcmdrPlugin.UCA.mo |binary man/RcmdrPlugin.UCA-package.Rd | 6 man/RcmdrPlugin.UCA.es-package.Rd | 6 man/paretochartMenu.Rd |only man/paretochartMenu.es.Rd |only man/sigmaMenu.es.Rd | 6 po/R-RcmdrPlugin.UCA-es.mo |binary po/R-RcmdrPlugin.UCA-es.po | 35 + po/R-RcmdrPlugin.UCA.pot | 31 + 20 files changed, 982 insertions(+), 397 deletions(-)
More information about RcmdrPlugin.UCA at CRAN
Permanent link
Title: Assessing Skill of Climate Forecasts on Seasonal-to-Decadal
Timescales
Description: Exploits dynamical seasonal forecasts in order to provide
information relevant to stakeholders at the seasonal timescale. The package
contains process-based methods for forecast calibration, bias correction,
statistical and stochastic downscaling, optimal forecast combination and
multivariate verification, as well as basic and advanced tools to obtain
tailored products. This package was developed in the context of the
ERA4CS project MEDSCOPE and the H2020 S2S4E project.
Doblas-Reyes et al. (2005) <doi:10.1111/j.1600-0870.2005.00104.x>.
Mishra et al. (2018) <doi:10.1007/s00382-018-4404-z>.
Sanchez-Garcia et al. (2019) <doi:10.5194/asr-16-165-2019>.
Straus et al. (2007) <doi:10.1175/JCLI4070.1>.
Terzago et al. (2018) <doi:10.5194/nhess-18-2825-2018>.
Torralba et al. (2017) <doi:10.1175/JAMC-D-16-0204.1>.
D'Onofrio et al. (2014) <doi:10.1175/JHM-D-13-096.1>.
Verfaillie et al. (2017) <doi:10.5194/gmd-10-4257-2017>.
Van Schaeybroeck et al. (2019) <doi:10.1016/B978-0-12-812372-0.00010-8>.
Yiou et al. (2013) <doi:10.1007/s00382-012-1626-3>.
Author: Nuria Perez-Zanon [aut, cre] (<https://orcid.org/0000-0001-8568-3071>),
Louis-Philippe Caron [aut] (<https://orcid.org/0000-0001-5221-0147>),
Carmen Alvarez-Castro [aut] (<https://orcid.org/0000-0002-9958-010X>),
Lauriane Batte [aut],
Jost von Hardenberg [aut] (<https://orcid.org/0000-0002-5312-8070>),
Llorenç LLedo [aut],
Nicolau Manubens [aut],
Eroteida Sanchez-Garcia [aut],
Bert van Schaeybroeck [aut],
Veronica Torralba [aut],
Deborah Verfaillie [aut],
Filippo Cali Quaglia [ctb],
Maria M. Chaves-Montero [ctb],
Chihchung Chou [ctb],
Nicola Cortesi [ctb],
Susanna Corti [ctb],
Paolo Davini [ctb],
Gildas Dayon [ctb],
Marta Dominguez [ctb],
Federico Fabiano [ctb],
Ignazio Giuntoli [ctb],
Raul Marcos [ctb],
Paola Marson [ctb],
Niti Mishra [ctb],
Jesus Peña [ctb],
Francesc Roura-Adserias [ctb],
Silvia Terzago [ctb],
Danila Volpi [ctb],
BSC-CNS [cph]
Maintainer: Nuria Perez-Zanon <nuria.perez@bsc.es>
Diff between CSTools versions 3.1.0 dated 2020-07-02 and 4.0.0 dated 2021-02-23
CSTools-3.1.0/CSTools/data/areave_data.RData |only CSTools-3.1.0/CSTools/man/areave_data.Rd |only CSTools-4.0.0/CSTools/DESCRIPTION | 27 CSTools-4.0.0/CSTools/MD5 | 220 + CSTools-4.0.0/CSTools/NAMESPACE | 28 CSTools-4.0.0/CSTools/NEWS.md | 33 CSTools-4.0.0/CSTools/R/AnalogsPred_train.R |only CSTools-4.0.0/CSTools/R/CST_AdamontAnalog.R |only CSTools-4.0.0/CSTools/R/CST_AdamontQQCorr.R |only CSTools-4.0.0/CSTools/R/CST_Analogs.R | 1107 ++++++---- CSTools-4.0.0/CSTools/R/CST_AnalogsPredictors.R |only CSTools-4.0.0/CSTools/R/CST_Anomaly.R | 3 CSTools-4.0.0/CSTools/R/CST_BiasCorrection.R | 1 CSTools-4.0.0/CSTools/R/CST_Calibration.R | 298 +- CSTools-4.0.0/CSTools/R/CST_CategoricalEnsCombination.R | 54 CSTools-4.0.0/CSTools/R/CST_Load.R | 2 CSTools-4.0.0/CSTools/R/CST_MergeDims.R | 4 CSTools-4.0.0/CSTools/R/CST_MultiMetric.R | 214 + CSTools-4.0.0/CSTools/R/CST_MultivarRMSE.R | 13 CSTools-4.0.0/CSTools/R/CST_QuantileMapping.R | 120 + CSTools-4.0.0/CSTools/R/CST_RFSlope.R | 28 CSTools-4.0.0/CSTools/R/CST_RFWeights.R | 110 CSTools-4.0.0/CSTools/R/CST_RainFARM.R | 138 - CSTools-4.0.0/CSTools/R/CST_RegimesAssign.R | 14 CSTools-4.0.0/CSTools/R/CST_SaveExp.R | 17 CSTools-4.0.0/CSTools/R/CST_SplitDim.R | 79 CSTools-4.0.0/CSTools/R/CST_WeatherRegimes.R | 4 CSTools-4.0.0/CSTools/R/PlotCombinedMap.R | 2 CSTools-4.0.0/CSTools/R/PlotForecastPDF.R | 194 + CSTools-4.0.0/CSTools/R/PlotMostLikelyQuantileMap.R | 1 CSTools-4.0.0/CSTools/R/PlotPDFsOLE.R | 41 CSTools-4.0.0/CSTools/R/PlotTriangles4Categories.R | 14 CSTools-4.0.0/CSTools/R/sample_data.R | 39 CSTools-4.0.0/CSTools/build/vignette.rds |binary CSTools-4.0.0/CSTools/inst/doc/Analogs_vignette.R |only CSTools-4.0.0/CSTools/inst/doc/Analogs_vignette.Rmd |only CSTools-4.0.0/CSTools/inst/doc/Analogs_vignette.html |only CSTools-4.0.0/CSTools/inst/doc/BestEstimateIndex_vignette.Rmd | 8 CSTools-4.0.0/CSTools/inst/doc/BestEstimateIndex_vignette.html | 8 CSTools-4.0.0/CSTools/inst/doc/Data_Considerations.Rmd |only CSTools-4.0.0/CSTools/inst/doc/Data_Considerations.html |only CSTools-4.0.0/CSTools/inst/doc/ENSclustering_vignette.Rmd | 4 CSTools-4.0.0/CSTools/inst/doc/ENSclustering_vignette.html | 4 CSTools-4.0.0/CSTools/inst/doc/MostLikelyTercile_vignette.Rmd |only CSTools-4.0.0/CSTools/inst/doc/MostLikelyTercile_vignette.html |only CSTools-4.0.0/CSTools/inst/doc/MultiModelSkill_vignette.Rmd | 56 CSTools-4.0.0/CSTools/inst/doc/MultiModelSkill_vignette.html | 59 CSTools-4.0.0/CSTools/inst/doc/MultivarRMSE_vignette.html | 2 CSTools-4.0.0/CSTools/inst/doc/PlotForecastPDF.R | 23 CSTools-4.0.0/CSTools/inst/doc/PlotForecastPDF.Rmd | 47 CSTools-4.0.0/CSTools/inst/doc/PlotForecastPDF.html | 51 CSTools-4.0.0/CSTools/inst/doc/RainFARM_vignette.Rmd | 6 CSTools-4.0.0/CSTools/inst/doc/RainFARM_vignette.html | 6 CSTools-4.0.0/CSTools/inst/doc/WeatherRegimes_vignette.Rmd | 2 CSTools-4.0.0/CSTools/inst/doc/WeatherRegimes_vignette.html | 8 CSTools-4.0.0/CSTools/man/AdamontQQCorr.Rd |only CSTools-4.0.0/CSTools/man/Analogs.Rd | 392 +-- CSTools-4.0.0/CSTools/man/CST_AdamontAnalog.Rd |only CSTools-4.0.0/CSTools/man/CST_AdamontQQCorr.Rd |only CSTools-4.0.0/CSTools/man/CST_Analogs.Rd | 115 - CSTools-4.0.0/CSTools/man/CST_AnalogsPredictors.Rd |only CSTools-4.0.0/CSTools/man/CST_Calibration.Rd | 17 CSTools-4.0.0/CSTools/man/CST_MultiMetric.Rd | 34 CSTools-4.0.0/CSTools/man/CST_MultivarRMSE.Rd | 2 CSTools-4.0.0/CSTools/man/CST_QuantileMapping.Rd | 30 CSTools-4.0.0/CSTools/man/CST_RFSlope.Rd | 4 CSTools-4.0.0/CSTools/man/CST_RFWeights.Rd | 23 CSTools-4.0.0/CSTools/man/CST_RainFARM.Rd | 25 CSTools-4.0.0/CSTools/man/CST_SaveExp.Rd | 2 CSTools-4.0.0/CSTools/man/CST_SplitDim.Rd | 16 CSTools-4.0.0/CSTools/man/Calibration.Rd | 24 CSTools-4.0.0/CSTools/man/CategoricalEnsCombination.Rd |only CSTools-4.0.0/CSTools/man/MultiMetric.Rd |only CSTools-4.0.0/CSTools/man/PlotPDFsOLE.Rd | 21 CSTools-4.0.0/CSTools/man/PlotTriangles4Categories.Rd | 6 CSTools-4.0.0/CSTools/man/QuantileMapping.Rd |only CSTools-4.0.0/CSTools/man/RFSlope.Rd | 11 CSTools-4.0.0/CSTools/man/RF_Weights.Rd |only CSTools-4.0.0/CSTools/man/RainFARM.Rd | 18 CSTools-4.0.0/CSTools/man/SplitDim.Rd | 12 CSTools-4.0.0/CSTools/man/training_analogs.Rd |only CSTools-4.0.0/CSTools/src |only CSTools-4.0.0/CSTools/vignettes/Analogs_vignette.Rmd |only CSTools-4.0.0/CSTools/vignettes/BestEstimateIndex_vignette.Rmd | 8 CSTools-4.0.0/CSTools/vignettes/Data_Considerations.Rmd |only CSTools-4.0.0/CSTools/vignettes/ENSclustering_vignette.Rmd | 4 CSTools-4.0.0/CSTools/vignettes/Figures/Analogs1.png |only CSTools-4.0.0/CSTools/vignettes/Figures/Analogs2.png |only CSTools-4.0.0/CSTools/vignettes/Figures/Analogs3.png |only CSTools-4.0.0/CSTools/vignettes/Figures/Analogs4.png |only CSTools-4.0.0/CSTools/vignettes/Figures/Analogs5.png |only CSTools-4.0.0/CSTools/vignettes/Figures/Analogs6.png |only CSTools-4.0.0/CSTools/vignettes/Figures/BestEstimateIndex_fig1.png |binary CSTools-4.0.0/CSTools/vignettes/Figures/BestEstimateIndex_fig2.png |binary CSTools-4.0.0/CSTools/vignettes/Figures/BestEstimateIndex_fig3.png |binary CSTools-4.0.0/CSTools/vignettes/Figures/BestEstimateIndex_fig4.png |binary CSTools-4.0.0/CSTools/vignettes/Figures/CSTvsNonCST.png |only CSTools-4.0.0/CSTools/vignettes/Figures/EnsClus_4clus_both_mem_std_Fig1.png |binary CSTools-4.0.0/CSTools/vignettes/Figures/EnsClus_4clus_both_mem_std_Fig2.png |binary CSTools-4.0.0/CSTools/vignettes/Figures/Meteofrance_r360x180.png |only CSTools-4.0.0/CSTools/vignettes/Figures/MostLikelyTercile_fig1.png |only CSTools-4.0.0/CSTools/vignettes/Figures/MostLikelyTercile_fig2.png |only CSTools-4.0.0/CSTools/vignettes/Figures/MostLikelyTercile_fig3.png |only CSTools-4.0.0/CSTools/vignettes/Figures/MultiModelSkill_cor_tas_1992-2012.png |binary CSTools-4.0.0/CSTools/vignettes/Figures/MultiModelSkill_rms_tas_1992-2012.png |binary CSTools-4.0.0/CSTools/vignettes/Figures/MultiModelSkill_rmsss_tas_1992-2012.png |binary CSTools-4.0.0/CSTools/vignettes/Figures/MultivarRMSE_gloseas5_tas_prlr_1992-2012.png |binary CSTools-4.0.0/CSTools/vignettes/Figures/Obs_Persistence.png |binary CSTools-4.0.0/CSTools/vignettes/Figures/PlotForecastPDF_ex1.png |binary CSTools-4.0.0/CSTools/vignettes/Figures/PlotForecastPDF_ex2.png |binary CSTools-4.0.0/CSTools/vignettes/Figures/PlotForecastPDF_ex3.png |binary CSTools-4.0.0/CSTools/vignettes/Figures/PlotForecastPDF_ex4.png |binary CSTools-4.0.0/CSTools/vignettes/Figures/RainFARM_fig1.png |binary CSTools-4.0.0/CSTools/vignettes/Figures/RainFARM_fig2.png |binary CSTools-4.0.0/CSTools/vignettes/Figures/observed_regimes.png |binary CSTools-4.0.0/CSTools/vignettes/Figures/predicted_regimes.png |binary CSTools-4.0.0/CSTools/vignettes/MostLikelyTercile_vignette.Rmd |only CSTools-4.0.0/CSTools/vignettes/MultiModelSkill_vignette.Rmd | 56 CSTools-4.0.0/CSTools/vignettes/PlotForecastPDF.Rmd | 47 CSTools-4.0.0/CSTools/vignettes/RainFARM_vignette.Rmd | 6 CSTools-4.0.0/CSTools/vignettes/WeatherRegimes_vignette.Rmd | 2 121 files changed, 2504 insertions(+), 1460 deletions(-)
Title: Tabular Data Backed by Partitioned 'fst' Files
Description: Intended for larger-than-memory tabular data, 'prt' objects provide an interface to read row and/or column subsets into memory as data.table objects. Data queries, constructed as 'R' expressions, are evaluated using the non-standard evaluation framework provided by 'rlang' and file-backing is powered by the fast and efficient 'fst' package.
Author: Nicolas Bennett [aut, cre],
Drago Plecko [ctb]
Maintainer: Nicolas Bennett <nicolas.bennett@stat.math.ethz.ch>
Diff between prt versions 0.1.2 dated 2020-09-29 and 0.1.3 dated 2021-02-23
DESCRIPTION | 6 MD5 | 36 ++-- NAMESPACE | 3 NEWS.md | 4 R/format.R | 79 +++++----- R/utils.R | 12 - README.md | 14 - build/vignette.rds |binary inst/doc/prt.R | 5 inst/doc/prt.Rmd | 6 inst/doc/prt.html | 185 +++++++++++++----------- tests/testthat/output/format/POSIXct-8-60.txt | 18 +- tests/testthat/output/format/iris--70.txt | 12 - tests/testthat/output/format/iris-5-30.txt | 12 - tests/testthat/output/format/iris-inf-30.txt | 198 +++++++++++++------------- tests/testthat/output/format/iris-neg-30.txt | 12 - tests/testthat/output/format/long-5-30.txt | 20 +- tests/testthat/output/format/mtcars-8-30.txt | 18 +- vignettes/prt.Rmd | 6 19 files changed, 336 insertions(+), 310 deletions(-)
Title: Statistical Methods for Analysing Multivariate Abundance Data
Description: A set of tools for displaying, modeling and analysing
multivariate abundance data in community ecology. See
'mvabund-package.Rd' for details of overall package organization.
The package is implemented with the Gnu Scientific Library
(<http://www.gnu.org/software/gsl/>) and 'Rcpp'
(<http://dirk.eddelbuettel.com/code/rcpp.html>) 'R' / 'C++' classes.
Author: Yi Wang [aut],
Ulrike Naumann [aut],
Dirk Eddelbuettel [aut],
John Wilshire [aut],
David Warton [aut, cre],
Julian Byrnes [ctb],
Ralph dos Santos Silva [ctb, cph],
Jenni Niku [ctb],
Ian Renner [ctb],
Stephen Wright [ctb]
Maintainer: David Warton <David.Warton@unsw.edu.au>
Diff between mvabund versions 4.1.6 dated 2020-12-18 and 4.1.9 dated 2021-02-23
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/best.r.sq.R | 6 ++++-- R/coefplot.manyglm.R | 4 ++-- R/default.plot.manyglm.R | 12 +++++++----- R/default.plot.manylm.R | 29 +++++++++++++++++++---------- R/residuals.manyglm.R | 1 + README.md | 4 ++-- 8 files changed, 46 insertions(+), 32 deletions(-)
Title: Interface to the Search API for 'PLoS' Journals
Description: A programmatic interface to the 'SOLR' based
search API (<http://api.plos.org/>) provided by the Public
Library of Science journals to search their articles.
Functions are included for searching for articles, retrieving
articles, making plots, doing 'faceted' searches,
'highlight' searches, and viewing results of 'highlighted'
searches in a browser.
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>),
Carl Boettiger [aut],
Karthik Ram [aut],
rOpenSci [fnd] (https://ropensci.org)
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between rplos versions 0.9.0 dated 2020-04-08 and 1.0.0 dated 2021-02-23
rplos-0.9.0/rplos/README.md |only rplos-1.0.0/rplos/DESCRIPTION | 19 rplos-1.0.0/rplos/LICENSE | 2 rplos-1.0.0/rplos/MD5 | 82 rplos-1.0.0/rplos/NEWS.md | 8 rplos-1.0.0/rplos/R/plossubject.R | 2 rplos-1.0.0/rplos/R/rplos-package.R | 2 rplos-1.0.0/rplos/build/vignette.rds |binary rplos-1.0.0/rplos/inst/doc/facethighlight.Rmd | 36 rplos-1.0.0/rplos/inst/doc/facethighlight.html | 73 rplos-1.0.0/rplos/inst/doc/fulltext.Rmd | 64 rplos-1.0.0/rplos/inst/doc/fulltext.html | 103 rplos-1.0.0/rplos/inst/doc/rplos.Rmd | 84 rplos-1.0.0/rplos/inst/doc/rplos.html | 125 rplos-1.0.0/rplos/man/figures/plosword1plot-1.png |binary rplos-1.0.0/rplos/man/figures/throughtime1-1.png |binary rplos-1.0.0/rplos/man/figures/unnamed-chunk-21-1.png |binary rplos-1.0.0/rplos/man/highplos.Rd | 2 rplos-1.0.0/rplos/man/plossubject.Rd | 2 rplos-1.0.0/rplos/man/rplos.Rd | 2 rplos-1.0.0/rplos/tests/fixtures/full_text_urls_all_journals.yml |12439 ---------- rplos-1.0.0/rplos/tests/fixtures/plosfigtabcaps_id.yml |only rplos-1.0.0/rplos/tests/testthat/test-facetplos.R | 4 rplos-1.0.0/rplos/tests/testthat/test-formatarticleurl.R | 4 rplos-1.0.0/rplos/tests/testthat/test-fulltext.R | 12 rplos-1.0.0/rplos/tests/testthat/test-highbrow.R | 4 rplos-1.0.0/rplos/tests/testthat/test-highplos.R | 4 rplos-1.0.0/rplos/tests/testthat/test-journalnamekey.R | 4 rplos-1.0.0/rplos/tests/testthat/test-plosabstract.R | 3 rplos-1.0.0/rplos/tests/testthat/test-plosauthor.R | 4 rplos-1.0.0/rplos/tests/testthat/test-plosfields.R | 7 rplos-1.0.0/rplos/tests/testthat/test-plosfigtabcaps.R | 8 rplos-1.0.0/rplos/tests/testthat/test-plossubject.R | 4 rplos-1.0.0/rplos/tests/testthat/test-plostitle.R | 4 rplos-1.0.0/rplos/tests/testthat/test-plosviews.R | 4 rplos-1.0.0/rplos/tests/testthat/test-plosword.R | 4 rplos-1.0.0/rplos/tests/testthat/test-plot_throughtime.R | 3 rplos-1.0.0/rplos/tests/testthat/test-searchplos.R | 6 rplos-1.0.0/rplos/vignettes/facethighlight.Rmd | 36 rplos-1.0.0/rplos/vignettes/fulltext.Rmd | 64 rplos-1.0.0/rplos/vignettes/fulltext.Rmd.og | 6 rplos-1.0.0/rplos/vignettes/rplos.Rmd | 84 rplos-1.0.0/rplos/vignettes/rplos.Rmd.og | 2 43 files changed, 602 insertions(+), 12714 deletions(-)
Title: Mosaic Plots in the 'ggplot2' Framework
Description: Mosaic plots in the 'ggplot2' framework. Mosaic
plot functionality is provided in a single 'ggplot2' layer by calling
the geom 'mosaic'.
Author: Haley Jeppson [aut, cre],
Heike Hofmann [aut],
Di Cook [aut],
Hadley Wickham [ctb]
Maintainer: Haley Jeppson <hjeppson@iastate.edu>
Diff between ggmosaic versions 0.2.0 dated 2018-09-12 and 0.3.3 dated 2021-02-23
ggmosaic-0.2.0/ggmosaic/man/scale_type.product.Rd |only ggmosaic-0.2.0/ggmosaic/man/scale_type.tbl_df.Rd |only ggmosaic-0.3.3/ggmosaic/DESCRIPTION | 18 ggmosaic-0.3.3/ggmosaic/MD5 | 65 - ggmosaic-0.3.3/ggmosaic/NAMESPACE | 21 ggmosaic-0.3.3/ggmosaic/NEWS.md | 16 ggmosaic-0.3.3/ggmosaic/R/calculate.R | 12 ggmosaic-0.3.3/ggmosaic/R/data.R | 88 + ggmosaic-0.3.3/ggmosaic/R/geom-mosaic-jitter.R |only ggmosaic-0.3.3/ggmosaic/R/geom-mosaic-text.R |only ggmosaic-0.3.3/ggmosaic/R/geom-mosaic.r | 91 + ggmosaic-0.3.3/ggmosaic/R/scale-product.R | 73 - ggmosaic-0.3.3/ggmosaic/R/stat-mosaic-jitter.r |only ggmosaic-0.3.3/ggmosaic/R/stat-mosaic-text.R |only ggmosaic-0.3.3/ggmosaic/R/stat-mosaic.r | 135 +- ggmosaic-0.3.3/ggmosaic/R/theme-mosaic.R |only ggmosaic-0.3.3/ggmosaic/README.md | 61 - ggmosaic-0.3.3/ggmosaic/build/vignette.rds |binary ggmosaic-0.3.3/ggmosaic/data/fly.rda |binary ggmosaic-0.3.3/ggmosaic/data/happy.rda |binary ggmosaic-0.3.3/ggmosaic/data/titanic.rda |only ggmosaic-0.3.3/ggmosaic/inst/doc/ggmosaic.R | 354 +++---- ggmosaic-0.3.3/ggmosaic/inst/doc/ggmosaic.Rmd | 445 ++++---- ggmosaic-0.3.3/ggmosaic/inst/doc/ggmosaic.html | 750 +++++++-------- ggmosaic-0.3.3/ggmosaic/inst/server.R | 2 ggmosaic-0.3.3/ggmosaic/man/GeomMosaic.Rd |only ggmosaic-0.3.3/ggmosaic/man/GeomMosaicJitter.Rd |only ggmosaic-0.3.3/ggmosaic/man/GeomMosaicText.Rd |only ggmosaic-0.3.3/ggmosaic/man/StatMosaicJitter.Rd |only ggmosaic-0.3.3/ggmosaic/man/StatMosaicText.Rd |only ggmosaic-0.3.3/ggmosaic/man/figures/README-example-1.png |binary ggmosaic-0.3.3/ggmosaic/man/fly.Rd | 60 - ggmosaic-0.3.3/ggmosaic/man/geom_mosaic.Rd | 108 +- ggmosaic-0.3.3/ggmosaic/man/geom_mosaic_jitter.Rd |only ggmosaic-0.3.3/ggmosaic/man/geom_mosaic_text.Rd |only ggmosaic-0.3.3/ggmosaic/man/happy.Rd | 30 ggmosaic-0.3.3/ggmosaic/man/prodcalc.Rd | 11 ggmosaic-0.3.3/ggmosaic/man/product.Rd | 17 ggmosaic-0.3.3/ggmosaic/man/scale_x_productlist.Rd | 98 + ggmosaic-0.3.3/ggmosaic/man/theme_mosaic.Rd |only ggmosaic-0.3.3/ggmosaic/man/titanic.Rd |only ggmosaic-0.3.3/ggmosaic/vignettes/ggmosaic.Rmd | 445 ++++---- 42 files changed, 1527 insertions(+), 1373 deletions(-)
Title: Data Management of Large Hierarchical Data
Description: Import 'SPSS' data, handle and change 'SPSS' meta data, store and access large hierarchical data in 'SQLite' data bases.
Author: Benjamin Becker [aut, cre]
Maintainer: Benjamin Becker <b.becker@iqb.hu-berlin.de>
Diff between eatGADS versions 0.15.2 dated 2020-11-25 and 0.16.0 dated 2021-02-23
eatGADS-0.15.2/eatGADS/tests/testthat/test_writeSPSS.R |only eatGADS-0.16.0/eatGADS/DESCRIPTION | 9 eatGADS-0.16.0/eatGADS/MD5 | 117 - eatGADS-0.16.0/eatGADS/NAMESPACE | 13 eatGADS-0.16.0/eatGADS/NEWS.md | 29 eatGADS-0.16.0/eatGADS/R/GADSdat_utilities.R | 9 eatGADS-0.16.0/eatGADS/R/applyChangeMeta.R | 157 + eatGADS-0.16.0/eatGADS/R/changeSPSSformat.R | 19 eatGADS-0.16.0/eatGADS/R/changeValLabels.R | 6 eatGADS-0.16.0/eatGADS/R/checkMissings.R | 2 eatGADS-0.16.0/eatGADS/R/checkValLabels.R |only eatGADS-0.16.0/eatGADS/R/checkValue.R | 38 eatGADS-0.16.0/eatGADS/R/collapseColumns.R | 12 eatGADS-0.16.0/eatGADS/R/compareGADS.R |only eatGADS-0.16.0/eatGADS/R/extract_labels.R | 3 eatGADS-0.16.0/eatGADS/R/getChangeMeta.R | 5 eatGADS-0.16.0/eatGADS/R/import_stata.R |only eatGADS-0.16.0/eatGADS/R/recode2NA.R |only eatGADS-0.16.0/eatGADS/R/recodeGADS.R | 67 eatGADS-0.16.0/eatGADS/R/recodeString2NA.R | 39 eatGADS-0.16.0/eatGADS/R/removeValLabels.R | 37 eatGADS-0.16.0/eatGADS/R/write_spss.R | 37 eatGADS-0.16.0/eatGADS/README.md | 16 eatGADS-0.16.0/eatGADS/build/partial.rdb |binary eatGADS-0.16.0/eatGADS/inst/doc/createGADS.html | 474 +---- eatGADS-0.16.0/eatGADS/inst/doc/getGADS.html | 498 +---- eatGADS-0.16.0/eatGADS/inst/doc/import_raw.html | 608 ++----- eatGADS-0.16.0/eatGADS/inst/doc/import_spss.html | 414 +--- eatGADS-0.16.0/eatGADS/inst/doc/recoding_forcedChoice.R | 6 eatGADS-0.16.0/eatGADS/inst/doc/recoding_forcedChoice.html | 592 ++---- eatGADS-0.16.0/eatGADS/inst/doc/recoding_forcedChoice.rmd | 8 eatGADS-0.16.0/eatGADS/inst/doc/recoding_multipleChoice.html | 857 +++------- eatGADS-0.16.0/eatGADS/man/applyChangeMeta.Rd | 23 eatGADS-0.16.0/eatGADS/man/changeValLabels.Rd | 6 eatGADS-0.16.0/eatGADS/man/checkEmptyValLabels.Rd |only eatGADS-0.16.0/eatGADS/man/checkMissings.Rd | 2 eatGADS-0.16.0/eatGADS/man/checkValue.Rd | 17 eatGADS-0.16.0/eatGADS/man/collapseColumns.Rd | 4 eatGADS-0.16.0/eatGADS/man/compareGADS.Rd |only eatGADS-0.16.0/eatGADS/man/import_stata.Rd |only eatGADS-0.16.0/eatGADS/man/recode2NA.Rd |only eatGADS-0.16.0/eatGADS/man/recodeGADS.Rd | 31 eatGADS-0.16.0/eatGADS/man/recodeString2NA.Rd | 21 eatGADS-0.16.0/eatGADS/man/removeValLabels.Rd | 25 eatGADS-0.16.0/eatGADS/man/write_spss.Rd | 25 eatGADS-0.16.0/eatGADS/tests/testthat/helper_spss_datetime.sav |only eatGADS-0.16.0/eatGADS/tests/testthat/test_GADSdat_utilities.R | 10 eatGADS-0.16.0/eatGADS/tests/testthat/test_applyChangeMeta.R | 106 + eatGADS-0.16.0/eatGADS/tests/testthat/test_changeMissings.R | 109 - eatGADS-0.16.0/eatGADS/tests/testthat/test_changeSPSSformat.R | 10 eatGADS-0.16.0/eatGADS/tests/testthat/test_changeValLabels.R | 5 eatGADS-0.16.0/eatGADS/tests/testthat/test_checkValLabels.R |only eatGADS-0.16.0/eatGADS/tests/testthat/test_checkValue.R | 65 eatGADS-0.16.0/eatGADS/tests/testthat/test_collapseColumns.R | 10 eatGADS-0.16.0/eatGADS/tests/testthat/test_collapseMC_Text.R | 8 eatGADS-0.16.0/eatGADS/tests/testthat/test_compareGADS.R |only eatGADS-0.16.0/eatGADS/tests/testthat/test_getChangeMeta.R | 12 eatGADS-0.16.0/eatGADS/tests/testthat/test_import_raw.R | 3 eatGADS-0.16.0/eatGADS/tests/testthat/test_recode2NA.R |only eatGADS-0.16.0/eatGADS/tests/testthat/test_recodeGADS.R | 27 eatGADS-0.16.0/eatGADS/tests/testthat/test_recodeString2NA.R | 32 eatGADS-0.16.0/eatGADS/tests/testthat/test_remove2NAchar.R | 3 eatGADS-0.16.0/eatGADS/tests/testthat/test_removeValLabels.R | 26 eatGADS-0.16.0/eatGADS/tests/testthat/test_times2character.R | 15 eatGADS-0.16.0/eatGADS/tests/testthat/test_write_spss.R |only eatGADS-0.16.0/eatGADS/tests/testthat/test_write_stata.R |only eatGADS-0.16.0/eatGADS/vignettes/recoding_forcedChoice.rmd | 8 67 files changed, 1943 insertions(+), 2732 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-11-07 0.1.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-11-03 1.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-12-08 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-06-09 2.3.2
2020-03-22 2.2.4.1
2019-03-25 2.2.4
2019-01-07 2.2.3
2018-08-01 2.2.2
2016-04-22 2.2.1.11
2015-12-22 2.2.1.7
2015-11-07 2.2.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-02-24 1.55
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-11-06 0.1.14
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-04-21 1.2
2016-07-19 1.0
2014-05-30 0.1-18
Title: Reproduce Statistical Analyses and Meta-Analyses
Description: Includes data analysis functions (e.g., to calculate effect sizes and 95% Confidence Intervals (CI) on Standardised Effect Sizes (d) for AB/BA cross-over repeated-measures experimental designs), data presentation functions (e.g., density curve overlaid on histogram), and the data sets analyzed in different research papers in software engineering (e.g., related to software defect prediction or multi-site experiment concerning the extent to which structured abstracts were clearer and more complete than conventional abstracts) to streamline reproducible research in software engineering.
Author: Lech Madeyski [cre, aut, ctb] (The main contributor and maintainer),
Barbara Kitchenham [ctb] (Data and code contributor),
Tomasz Lewowski [ctb] (Data and code contributor),
Marian Jureczko [ctb] (Data contributor),
David Budgen [ctb] (Data contributor),
Pearl Brereton [ctb] (Data contributor),
Jacky Keung [ctb] (Data contributor),
Stuart Charters [ctb] (Data contributor),
Shirley Gibbs [ctb] (Data contributor),
Amnart Pohthong [ctb] (Data contributor),
Giuseppe Scanniello [ctb] (Data contributor),
Carmine Gravino [ctb] (Data contributor)
Maintainer: Lech Madeyski <lech.madeyski@gmail.com>
Diff between reproducer versions 0.4.1 dated 2021-02-14 and 0.4.2 dated 2021-02-23
reproducer-0.4.1/reproducer/man/simulateRandomzedDesignEffectSizes.Rd |only reproducer-0.4.2/reproducer/DESCRIPTION | 8 ++--- reproducer-0.4.2/reproducer/MD5 | 12 ++++---- reproducer-0.4.2/reproducer/NAMESPACE | 2 - reproducer-0.4.2/reproducer/NEWS.md | 6 ++++ reproducer-0.4.2/reproducer/R/NPSimulation.R | 14 +++++----- reproducer-0.4.2/reproducer/man/RandomizedBlocksExperimentSimulations.Rd | 6 +--- reproducer-0.4.2/reproducer/man/simulateRandomizedDesignEffectSizes.Rd |only 8 files changed, 26 insertions(+), 22 deletions(-)
Title: Kriging Methods for Computer Experiments
Description: Estimation, validation and prediction of kriging models. Important functions : km, print.km, plot.km, predict.km.
Author: Olivier Roustant, David Ginsbourger, Yves Deville. Contributors: Clement Chevalier, Yann Richet.
Maintainer: Olivier Roustant <roustant@insa-toulouse.fr>
Diff between DiceKriging versions 1.5.8 dated 2020-11-05 and 1.6.0 dated 2021-02-23
CHANGELOG | 12 ++++++++++++ DESCRIPTION | 8 ++++---- MD5 | 13 ++++++++----- NAMESPACE | 1 + R/cv.R |only man/DiceKriging-package.Rd | 4 ++-- man/cv.Rd |only man/leaveOneOut.km.Rd | 7 +++++-- tests/testthat/tests-cv.R |only 9 files changed, 32 insertions(+), 13 deletions(-)
Title: Bayesian Object Oriented Modeling
Description: A C++ library for Bayesian modeling, with an emphasis on Markov
chain Monte Carlo. Although boom contains a few R utilities (mainly plotting
functions), its primary purpose is to install the BOOM C++ library on your
system so that other packages can link against it.
Author: Steven L. Scott is the sole author and creator of the BOOM project.
Some code in the BOOM libraries has been modified from other open source
projects. These include Cephes (obtained from Netlib, written by Stephen
L. Moshier), NEWUOA (M.J.D Powell, obtained from Powell's web site), and a
modified version of the R math libraries (R core development team). Original
copyright notices have been maintained in all source files. In these cases,
copyright claimed by Steven L. Scott is limited to modifications made to the
original code. Google claims copyright for code written while Steven
L. Scott was employed at Google from 2008 - 2018, but BOOM is not an
officially supported Google project.
Maintainer: Steven L. Scott <steve.the.bayesian@gmail.com>
Diff between Boom versions 0.9.6 dated 2020-04-30 and 0.9.7 dated 2021-02-23
DESCRIPTION | 8 MD5 | 462 +++--- inst/include/Bmath/Bmath.hpp | 1 inst/include/Bmath/bessel.hpp |only inst/include/Eigen/CMakeLists.txt |only inst/include/Eigen/Cholesky | 5 inst/include/Eigen/Core | 34 inst/include/Eigen/Eigenvalues | 8 inst/include/Eigen/Geometry | 4 inst/include/Eigen/LU | 4 inst/include/Eigen/QR | 8 inst/include/Eigen/QtAlignedMalloc | 2 inst/include/Eigen/SVD | 4 inst/include/Eigen/SparseQR | 1 inst/include/Eigen/src/Cholesky/LDLT.h | 14 inst/include/Eigen/src/Cholesky/LLT.h | 26 inst/include/Eigen/src/Core/Array.h | 2 inst/include/Eigen/src/Core/ArrayBase.h | 4 inst/include/Eigen/src/Core/AssignEvaluator.h | 66 inst/include/Eigen/src/Core/Assign_MKL.h | 6 inst/include/Eigen/src/Core/ConditionEstimator.h | 2 inst/include/Eigen/src/Core/CoreEvaluators.h | 39 inst/include/Eigen/src/Core/CwiseUnaryView.h | 2 inst/include/Eigen/src/Core/DenseBase.h | 7 inst/include/Eigen/src/Core/DenseStorage.h | 6 inst/include/Eigen/src/Core/Diagonal.h | 5 inst/include/Eigen/src/Core/Dot.h | 17 inst/include/Eigen/src/Core/GeneralProduct.h | 21 inst/include/Eigen/src/Core/GenericPacketMath.h | 9 inst/include/Eigen/src/Core/Map.h | 17 inst/include/Eigen/src/Core/MapBase.h | 11 inst/include/Eigen/src/Core/MathFunctions.h | 80 - inst/include/Eigen/src/Core/MathFunctionsImpl.h | 23 inst/include/Eigen/src/Core/Matrix.h | 2 inst/include/Eigen/src/Core/MatrixBase.h | 38 inst/include/Eigen/src/Core/PermutationMatrix.h | 28 inst/include/Eigen/src/Core/PlainObjectBase.h | 16 inst/include/Eigen/src/Core/Product.h | 10 inst/include/Eigen/src/Core/ProductEvaluators.h | 59 inst/include/Eigen/src/Core/Redux.h | 2 inst/include/Eigen/src/Core/Ref.h | 7 inst/include/Eigen/src/Core/SelfAdjointView.h | 6 inst/include/Eigen/src/Core/SelfCwiseBinaryOp.h | 4 inst/include/Eigen/src/Core/SolveTriangular.h | 9 inst/include/Eigen/src/Core/StableNorm.h | 2 inst/include/Eigen/src/Core/Transpose.h | 2 inst/include/Eigen/src/Core/Transpositions.h | 41 inst/include/Eigen/src/Core/TriangularMatrix.h | 8 inst/include/Eigen/src/Core/arch/AVX/Complex.h | 36 inst/include/Eigen/src/Core/arch/AVX/PacketMath.h | 24 inst/include/Eigen/src/Core/arch/AVX512/MathFunctions.h | 95 - inst/include/Eigen/src/Core/arch/AVX512/PacketMath.h | 729 ++++------ inst/include/Eigen/src/Core/arch/AltiVec/Complex.h | 35 inst/include/Eigen/src/Core/arch/AltiVec/PacketMath.h | 46 inst/include/Eigen/src/Core/arch/CUDA/Half.h | 254 ++- inst/include/Eigen/src/Core/arch/CUDA/PacketMathHalf.h | 9 inst/include/Eigen/src/Core/arch/Default/ConjHelper.h |only inst/include/Eigen/src/Core/arch/NEON/Complex.h | 12 inst/include/Eigen/src/Core/arch/NEON/PacketMath.h | 31 inst/include/Eigen/src/Core/arch/SSE/Complex.h | 40 inst/include/Eigen/src/Core/arch/SSE/PacketMath.h | 24 inst/include/Eigen/src/Core/arch/SSE/TypeCasting.h | 28 inst/include/Eigen/src/Core/arch/ZVector/Complex.h | 3 inst/include/Eigen/src/Core/functors/BinaryFunctors.h | 25 inst/include/Eigen/src/Core/functors/StlFunctors.h | 4 inst/include/Eigen/src/Core/functors/UnaryFunctors.h | 2 inst/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h | 22 inst/include/Eigen/src/Core/products/GeneralMatrixMatrix.h | 37 inst/include/Eigen/src/Core/products/GeneralMatrixMatrixTriangular.h | 68 inst/include/Eigen/src/Core/products/GeneralMatrixMatrixTriangular_BLAS.h | 20 inst/include/Eigen/src/Core/products/GeneralMatrixMatrix_BLAS.h | 25 inst/include/Eigen/src/Core/products/GeneralMatrixVector.h | 8 inst/include/Eigen/src/Core/products/GeneralMatrixVector_BLAS.h | 19 inst/include/Eigen/src/Core/products/Parallelizer.h | 9 inst/include/Eigen/src/Core/products/SelfadjointMatrixMatrix.h | 54 inst/include/Eigen/src/Core/products/SelfadjointMatrixMatrix_BLAS.h | 72 inst/include/Eigen/src/Core/products/SelfadjointMatrixVector_BLAS.h | 9 inst/include/Eigen/src/Core/products/SelfadjointProduct.h | 4 inst/include/Eigen/src/Core/products/TriangularMatrixMatrix.h | 89 - inst/include/Eigen/src/Core/products/TriangularMatrixMatrix_BLAS.h | 65 inst/include/Eigen/src/Core/products/TriangularMatrixVector.h | 22 inst/include/Eigen/src/Core/products/TriangularMatrixVector_BLAS.h | 46 inst/include/Eigen/src/Core/products/TriangularSolverMatrix.h | 62 inst/include/Eigen/src/Core/products/TriangularSolverMatrix_BLAS.h | 52 inst/include/Eigen/src/Core/util/BlasUtil.h | 115 + inst/include/Eigen/src/Core/util/DisableStupidWarnings.h | 27 inst/include/Eigen/src/Core/util/ForwardDeclarations.h | 6 inst/include/Eigen/src/Core/util/MKL_support.h | 10 inst/include/Eigen/src/Core/util/Macros.h | 75 - inst/include/Eigen/src/Core/util/Memory.h | 24 inst/include/Eigen/src/Core/util/Meta.h | 76 + inst/include/Eigen/src/Core/util/ReenableStupidWarnings.h | 8 inst/include/Eigen/src/Core/util/StaticAssert.h | 120 - inst/include/Eigen/src/Core/util/XprHelper.h | 17 inst/include/Eigen/src/Eigenvalues/ComplexSchur.h | 9 inst/include/Eigen/src/Eigenvalues/GeneralizedEigenSolver.h | 5 inst/include/Eigen/src/Eigenvalues/MatrixBaseEigenvalues.h | 2 inst/include/Eigen/src/Eigenvalues/RealSchur.h | 19 inst/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h | 7 inst/include/Eigen/src/Eigenvalues/SelfAdjointEigenSolver_LAPACKE.h | 25 inst/include/Eigen/src/Geometry/AngleAxis.h | 2 inst/include/Eigen/src/Geometry/Quaternion.h | 51 inst/include/Eigen/src/Geometry/Scaling.h | 2 inst/include/Eigen/src/Geometry/Transform.h | 4 inst/include/Eigen/src/Geometry/Translation.h | 6 inst/include/Eigen/src/Geometry/Umeyama.h | 2 inst/include/Eigen/src/IterativeLinearSolvers/BasicPreconditioners.h | 2 inst/include/Eigen/src/IterativeLinearSolvers/ConjugateGradient.h | 5 inst/include/Eigen/src/Jacobi/Jacobi.h | 253 +-- inst/include/Eigen/src/LU/InverseImpl.h | 2 inst/include/Eigen/src/LU/PartialPivLU.h | 5 inst/include/Eigen/src/LU/arch/Inverse_SSE.h | 4 inst/include/Eigen/src/PaStiXSupport/PaStiXSupport.h | 8 inst/include/Eigen/src/PardisoSupport/PardisoSupport.h | 3 inst/include/Eigen/src/SVD/BDCSVD.h | 94 - 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Title: Most Likely Transformations: Documentation and Regression Tests
Description: Additional documentation, a package vignette and
regression tests for package mlt.
Author: Torsten Hothorn [aut, cre] (<https://orcid.org/0000-0001-8301-0471>)
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between mlt.docreg versions 1.0-9 dated 2020-12-15 and 1.0-10 dated 2021-02-23
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Title: Basic Sensitivity Analysis of Epidemiological Results
Description: Basic sensitivity analysis of the observed relative risks adjusting
for unmeasured confounding and misclassification of the
exposure/outcome, or both. It follows the bias analysis methods and
examples from the book by Lash T.L, Fox M.P, and Fink A.K.
"Applying Quantitative Bias Analysis to Epidemiologic Data",
('Springer', 2009).
Author: Denis Haine [aut, cre] (<https://orcid.org/0000-0002-6691-7335>)
Maintainer: Denis Haine <denis.haine@gmail.com>
Diff between episensr versions 0.9.6 dated 2020-03-06 and 1.0.0 dated 2021-02-23
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Title: Explanatory Item Response Modeling for Dichotomous and
Polytomous Items
Description: Analysis of dichotomous and polytomous response data using the explanatory item response modeling framework, as described in Stanke & Bulut (2019) <doi:10.21449/ijate.515085> and De Boeck & Wilson (2004) <doi:10.1007/978-1-4757-3990-9>. Generalized linear mixed modeling is used for estimating the effects of item-related and person-related variables on dichotomous and polytomous item responses.
Author: Okan Bulut [aut, cre] (<https://orcid.org/0000-0001-5853-1267>)
Maintainer: Okan Bulut <bulut@ualberta.ca>
Diff between eirm versions 0.2.0 dated 2020-10-27 and 0.3 dated 2021-02-23
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