Title: Estimation of Optimal Number of Biomarkers for Two-Group
Microarray Based Classifications at a Given Error Tolerance
Level for Various Classification Rules
Description: Estimates optimal number of biomarkers for two-group
classification based on microarray data.
Author: Mizanur Khondoker <mizanur.khondoker@gmail.com>
Maintainer: Mizanur Khondoker <mizanur.khondoker@gmail.com>
Diff between optBiomarker versions 1.0-27 dated 2013-07-11 and 1.0-28 dated 2021-01-18
DESCRIPTION | 20 ++++++++++---------- MD5 | 10 +++++----- NAMESPACE | 2 +- man/classificationError.data.frame.Rd | 4 +++- man/optBiomarker-package.Rd | 2 +- man/optimiseBiomarker.Rd | 2 +- 6 files changed, 21 insertions(+), 19 deletions(-)
Title: Network Meta-Analysis using Frequentist Methods
Description: A comprehensive set of functions providing frequentist methods for network meta-analysis and supporting Schwarzer et al. (2015) <DOI:10.1007/978-3-319-21416-0>, Chapter 8 "Network Meta-Analysis":
- frequentist network meta-analysis following Rücker (2012) <DOI:10.1002/jrsm.1058>;
- net heat plot and design-based decomposition of Cochran's Q according to Krahn et al. (2013) <DOI:10.1186/1471-2288-13-35>;
- measures characterizing the flow of evidence between two treatments by König et al. (2013) <DOI:10.1002/sim.6001>;
- ranking of treatments (frequentist analogue of SUCRA) according to Rücker & Schwarzer (2015) <DOI:10.1186/s12874-015-0060-8>;
- partial order of treatment rankings ('poset') and Hasse diagram for 'poset' (Carlsen & Bruggemann, 2014) <DOI:10.1002/cem.2569>; (Rücker & Schwarzer, 2017) <DOI:10.1002/jrsm.1270>;
- split direct and indirect evidence to check consistency (Dias et al., 2010) <DOI:10.1002/sim.3767>, (Efthimiou et al., 2019) <DOI:10.1002/sim.8158>;
- league table with network meta-analysis results;
- additive network meta-analysis for combinations of treatments (Rücker et al., 2019) <DOI:10.1002/bimj.201800167>;
- network meta-analysis of binary data using the Mantel-Haenszel or non-central hypergeometric distribution method (Efthimiou et al., 2019) <DOI:10.1002/sim.8158>;
- 'comparison-adjusted' funnel plot (Chaimani & Salanti, 2012) <DOI:10.1002/jrsm.57>;
- automated drawing of network graphs described in Rücker & Schwarzer (2016) <DOI:10.1002/jrsm.1143>.
Author: Gerta Rücker [aut] (<https://orcid.org/0000-0002-2192-2560>),
Ulrike Krahn [aut],
Jochem König [aut] (<https://orcid.org/0000-0003-4683-0360>),
Orestis Efthimiou [aut] (<https://orcid.org/0000-0002-0955-7572>),
Guido Schwarzer [aut, cre] (<https://orcid.org/0000-0001-6214-9087>)
Maintainer: Guido Schwarzer <sc@imbi.uni-freiburg.de>
Diff between netmeta versions 1.2-1 dated 2020-04-16 and 1.3-0 dated 2021-01-18
netmeta-1.2-1/netmeta/R/parkinson.R |only netmeta-1.2-1/netmeta/man/parkinson.Rd |only netmeta-1.3-0/netmeta/DESCRIPTION | 17 netmeta-1.3-0/netmeta/MD5 | 145 +++--- netmeta-1.3-0/netmeta/NAMESPACE | 9 netmeta-1.3-0/netmeta/NEWS.md | 241 ++++++++--- netmeta-1.3-0/netmeta/R/Franchini2012.R |only netmeta-1.3-0/netmeta/R/as.data.frame.netmeta.R | 2 netmeta-1.3-0/netmeta/R/chkmultiarm.R | 16 netmeta-1.3-0/netmeta/R/decomp.design.R | 25 + netmeta-1.3-0/netmeta/R/designs.R |only netmeta-1.3-0/netmeta/R/discomb.R | 68 +-- netmeta-1.3-0/netmeta/R/forest.netbind.R | 34 + netmeta-1.3-0/netmeta/R/forest.netcomb.R | 19 netmeta-1.3-0/netmeta/R/forest.netmeta.R | 27 - netmeta-1.3-0/netmeta/R/forest.netsplit.R | 33 + netmeta-1.3-0/netmeta/R/formatCC.R | 17 netmeta-1.3-0/netmeta/R/formatComp.R | 12 netmeta-1.3-0/netmeta/R/funnel.netmeta.R | 9 netmeta-1.3-0/netmeta/R/hasse.R | 8 netmeta-1.3-0/netmeta/R/netbind.R | 67 ++- netmeta-1.3-0/netmeta/R/netcomb.R | 42 + netmeta-1.3-0/netmeta/R/netconnection.R | 104 ++-- netmeta-1.3-0/netmeta/R/netgraph.discomb.R |only netmeta-1.3-0/netmeta/R/netgraph.netcomb.R |only netmeta-1.3-0/netmeta/R/netgraph.netconnection.R |only netmeta-1.3-0/netmeta/R/netgraph.netimpact.R | 4 netmeta-1.3-0/netmeta/R/netgraph.netmeta.R | 99 +++- netmeta-1.3-0/netmeta/R/netheat-internal.R |only netmeta-1.3-0/netmeta/R/netheat.R | 200 ++------- netmeta-1.3-0/netmeta/R/netimpact.R | 9 netmeta-1.3-0/netmeta/R/netleague.R | 50 +- netmeta-1.3-0/netmeta/R/netmeasures.R | 221 ++++++---- netmeta-1.3-0/netmeta/R/netmeta-internal.R | 4 netmeta-1.3-0/netmeta/R/netmeta-package.R | 5 netmeta-1.3-0/netmeta/R/netmeta.R | 179 ++++---- netmeta-1.3-0/netmeta/R/netmetabin.R | 170 ++++++-- netmeta-1.3-0/netmeta/R/netposet.R | 48 +- netmeta-1.3-0/netmeta/R/netrank.R | 12 netmeta-1.3-0/netmeta/R/netsplit.R | 425 +++++++++++--------- netmeta-1.3-0/netmeta/R/nma.additive.R | 5 netmeta-1.3-0/netmeta/R/nma.ruecker.R | 17 netmeta-1.3-0/netmeta/R/pairwise.R | 2 netmeta-1.3-0/netmeta/R/plot.netposet.R | 41 - netmeta-1.3-0/netmeta/R/plot.netrank.R | 25 - netmeta-1.3-0/netmeta/R/print.decomp.design.R | 23 - netmeta-1.3-0/netmeta/R/print.netbind.R | 4 netmeta-1.3-0/netmeta/R/print.netcomb.R | 32 - netmeta-1.3-0/netmeta/R/print.netimpact.R | 2 netmeta-1.3-0/netmeta/R/print.netmeta.R | 115 ++++- netmeta-1.3-0/netmeta/R/setseq.R | 8 netmeta-1.3-0/netmeta/R/summary.netcomb.R | 94 ++-- netmeta-1.3-0/netmeta/R/summary.netmeta.R | 393 +++++++++++------- netmeta-1.3-0/netmeta/R/treats.R | 2 netmeta-1.3-0/netmeta/R/upgradenetmeta.R | 211 ++++++--- netmeta-1.3-0/netmeta/data/Franchini2012.rda |only netmeta-1.3-0/netmeta/man/Franchini2012.Rd |only netmeta-1.3-0/netmeta/man/discomb.Rd | 22 - netmeta-1.3-0/netmeta/man/forest.netcomb.Rd | 6 netmeta-1.3-0/netmeta/man/forest.netmeta.Rd | 2 netmeta-1.3-0/netmeta/man/hasse.Rd | 8 netmeta-1.3-0/netmeta/man/netbind.Rd | 3 netmeta-1.3-0/netmeta/man/netcomb.Rd | 13 netmeta-1.3-0/netmeta/man/netconnection.Rd | 13 netmeta-1.3-0/netmeta/man/netgraph.discomb.Rd |only netmeta-1.3-0/netmeta/man/netgraph.netcomb.Rd |only netmeta-1.3-0/netmeta/man/netgraph.netconnection.Rd |only netmeta-1.3-0/netmeta/man/netgraph.netimpact.Rd | 2 netmeta-1.3-0/netmeta/man/netgraph.netmeta.Rd | 24 + netmeta-1.3-0/netmeta/man/netleague.Rd | 48 +- netmeta-1.3-0/netmeta/man/netmeta.Rd | 46 +- netmeta-1.3-0/netmeta/man/netmetabin.Rd | 33 + netmeta-1.3-0/netmeta/man/netposet.Rd | 25 - netmeta-1.3-0/netmeta/man/netrank.Rd | 2 netmeta-1.3-0/netmeta/man/netsplit.Rd | 23 - netmeta-1.3-0/netmeta/man/plot.netposet.Rd | 14 netmeta-1.3-0/netmeta/man/print.netcomb.Rd | 4 netmeta-1.3-0/netmeta/man/print.netmeta.Rd | 28 + netmeta-1.3-0/netmeta/man/summary.netcomb.Rd | 8 netmeta-1.3-0/netmeta/man/summary.netmeta.Rd | 12 80 files changed, 2249 insertions(+), 1382 deletions(-)
Title: Lining Up Two Sets of Measurements
Description: Tools for detecting and correcting sample mix-ups between two sets
of measurements, such as between gene expression data on two
tissues. This is a revised version of the 'lineup' package, to be
more general and not tied to the 'qtl' package.
Author: Karl W Broman [aut, cre] (<https://orcid.org/0000-0002-4914-6671>)
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between lineup2 versions 0.2-5 dated 2020-11-06 and 0.4 dated 2021-01-18
DESCRIPTION | 8 - MD5 | 38 ++--- NAMESPACE | 4 NEWS.md | 13 + R/RcppExports.R | 4 R/dist_betw_arrays.R | 8 - R/dist_betw_matrices.R | 10 - R/plot_sample.R |only README.md | 18 -- inst/doc/lineup2.R | 2 inst/doc/lineup2.Rmd | 2 inst/doc/lineup2.html | 216 ++++++++++++++----------------- man/dist_betw_arrays.Rd | 8 - man/dist_betw_matrices.Rd | 6 man/plot_sample.Rd |only src/RcppExports.cpp | 13 + src/dist_betw_matrices.cpp | 36 +++++ src/dist_betw_matrices.h | 4 tests/testthat/test-dist_betw_arrays.R | 15 ++ tests/testthat/test-dist_betw_matrices.R | 7 + vignettes/lineup2.Rmd | 2 21 files changed, 242 insertions(+), 172 deletions(-)
Title: Spatial Coverage Sampling and Random Sampling from Compact
Geographical Strata
Description: Spatial coverage sampling and random sampling from compact
geographical strata created by k-means. See Walvoort et al. (2010)
<doi:10.1016/j.cageo.2010.04.005> for details.
Author: Dennis Walvoort [aut, cre, cph],
Dick Brus [aut, cph],
Jaap de Gruijter [aut, cph]
Maintainer: Dennis Walvoort <dennis.Walvoort@wur.nl>
Diff between spcosa versions 0.3-10 dated 2021-01-06 and 0.3-11 dated 2021-01-18
spcosa-0.3-10/spcosa/inst/maps/demoGrid.R |only spcosa-0.3-10/spcosa/inst/maps/demoGrid.asc |only spcosa-0.3-11/spcosa/DESCRIPTION | 14 spcosa-0.3-11/spcosa/MD5 | 27 - spcosa-0.3-11/spcosa/NAMESPACE | 6 spcosa-0.3-11/spcosa/build/partial.rdb |binary spcosa-0.3-11/spcosa/build/vignette.rds |binary spcosa-0.3-11/spcosa/demo/farmsumSCS.R | 27 - spcosa-0.3-11/spcosa/demo/sphere1.R | 2 spcosa-0.3-11/spcosa/demo/sphere2.R | 4 spcosa-0.3-11/spcosa/inst/NEWS.Rd | 8 spcosa-0.3-11/spcosa/inst/doc/spcosa.R | 215 +------------- spcosa-0.3-11/spcosa/inst/doc/spcosa.Rmd | 307 +++----------------- spcosa-0.3-11/spcosa/inst/doc/spcosa.html | 421 ++++++++++++---------------- spcosa-0.3-11/spcosa/vignettes/spcosa.Rmd | 307 +++----------------- spcosa-0.3-11/spcosa/vignettes/spheres.png |only 16 files changed, 353 insertions(+), 985 deletions(-)
Title: Query Random User Data from the Random User Generator API
Description: Generate random user data from the Random User Generator API.
For more information, see <https://randomuser.me/>.
Author: Mohamed El Fodil Ihaddaden
Maintainer: Mohamed El Fodil Ihaddaden <ihaddaden.fodeil@gmail.com>
Diff between radous versions 0.1.1 dated 2021-01-07 and 0.1.2 dated 2021-01-18
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/get_data.R | 26 +++++++++++++++++++++----- tests/testthat/test-test_get_data.R | 10 ++++++---- 4 files changed, 34 insertions(+), 16 deletions(-)
Title: Multivariate Profile Analysis
Description: R functions for criterion profile analysis, Davison and Davenport (2002) <doi:10.1037/1082-989X.7.4.468> and meta-analytic criterion profile analysis, Wiernik, Wilmot, Davison, and Ones (2020) <doi:10.1037/met0000305>. Sensitivity analyses to aid in interpreting criterion profile analysis results are also included.
Author: Brenton M. Wiernik [aut, cre]
Maintainer: Brenton M. Wiernik <brenton@wiernik.org>
Diff between configural versions 0.1.1 dated 2019-02-19 and 0.1.4 dated 2021-01-18
configural-0.1.1/configural/data/mindfulness.RData |only configural-0.1.4/configural/DESCRIPTION | 15 - configural-0.1.4/configural/MD5 | 71 ++--- configural-0.1.4/configural/NAMESPACE | 14 - configural-0.1.4/configural/NEWS | 12 configural-0.1.4/configural/R/configural.R | 2 configural-0.1.4/configural/R/cpa_mat.R | 217 +++++++++++++--- configural-0.1.4/configural/R/data_doc.R | 68 +++-- configural-0.1.4/configural/R/fungible.R | 45 ++- configural-0.1.4/configural/R/utility.R | 63 ++-- configural-0.1.4/configural/R/var_error_cpa.R | 204 ++++++++++----- configural-0.1.4/configural/R/zzz.R | 116 +------- configural-0.1.4/configural/build |only configural-0.1.4/configural/data/gre.rda |only configural-0.1.4/configural/data/mindfulness.rda |only configural-0.1.4/configural/inst/CITATION | 18 - configural-0.1.4/configural/man/adjust_Rsq.Rd | 2 configural-0.1.4/configural/man/configural-package.Rd | 2 configural-0.1.4/configural/man/cor_covariance.Rd | 2 configural-0.1.4/configural/man/cor_covariance_meta.Rd | 13 configural-0.1.4/configural/man/cpa_mat.Rd | 32 +- configural-0.1.4/configural/man/cpa_scores.Rd |only configural-0.1.4/configural/man/disorders.Rd | 10 configural-0.1.4/configural/man/dot-fungible_extrema.Rd | 12 configural-0.1.4/configural/man/fungible.Rd | 16 - configural-0.1.4/configural/man/fungible.cpa.Rd | 16 - configural-0.1.4/configural/man/fungible.lm.Rd | 12 configural-0.1.4/configural/man/gre.Rd |only configural-0.1.4/configural/man/harmonic_mean.Rd | 4 configural-0.1.4/configural/man/hrm.Rd | 10 configural-0.1.4/configural/man/jobchar.Rd | 8 configural-0.1.4/configural/man/mindfulness.Rd | 12 configural-0.1.4/configural/man/n_effective_R2.Rd |only configural-0.1.4/configural/man/prejudice.Rd | 8 configural-0.1.4/configural/man/team.Rd | 10 configural-0.1.4/configural/man/transition.Rd | 2 configural-0.1.4/configural/man/var_error_cpa.Rd | 20 - configural-0.1.4/configural/man/vech2full.Rd | 4 configural-0.1.4/configural/man/wt_cov.Rd | 12 configural-0.1.4/configural/man/wt_dist.Rd | 16 - 40 files changed, 680 insertions(+), 388 deletions(-)
Title: Geocoding Made Easy
Description: An intuitive interface for getting data from geocoder services.
Author: Jesse Cambon [aut, cre],
Christopher Belanger [aut]
Maintainer: Jesse Cambon <jesse.cambon@gmail.com>
Diff between tidygeocoder versions 1.0.1 dated 2020-08-12 and 1.0.2 dated 2021-01-18
DESCRIPTION | 18 - MD5 | 50 +- NAMESPACE | 1 NEWS.md | 9 R/address_handling.R | 8 R/batch_geocoding.R | 50 +- R/data.R | 1 R/geo.R | 247 ++++++++++---- R/geo_methods.R | 5 R/geocode.R | 13 R/query_factory.R | 26 + R/utils.R | 17 README.md | 111 ++++-- data/api_parameter_reference.rda |binary data/sample_addresses.rda |binary inst/CITATION |only inst/doc/tidygeocoder.R | 2 inst/doc/tidygeocoder.Rmd | 2 inst/doc/tidygeocoder.html | 688 +++++++++++++++++++++++---------------- man/api_parameter_reference.Rd | 1 man/figures/README-usamap-1.png |binary man/geo.Rd | 22 - man/geo_census.Rd | 3 man/tidygeocoder-package.Rd | 5 tests/testthat/test-geocode.R | 91 ++++- tests/testthat/test-utils.R |only vignettes/tidygeocoder.Rmd | 2 27 files changed, 904 insertions(+), 468 deletions(-)
Title: Fuzzy Logic Toolkit for R
Description: Design and simulate fuzzy logic systems using Type-1 and Interval Type-2 Fuzzy Logic.
This toolkit includes with graphical user interface (GUI) and an adaptive neuro-
fuzzy inference system (ANFIS). This toolkit is a continuation from the previous
package ('FuzzyToolkitUoN'). Produced by the Intelligent Modelling & Analysis Group (IMA)
and Lab for UnCertainty In Data and decision making (LUCID), University of Nottingham.
Author: Chao Chen, Jon Garibaldi, Tajul Razak
Maintainer: Chao Chen <fuzzyr@cs.nott.ac.uk>
Diff between FuzzyR versions 2.3 dated 2019-11-20 and 2.3.1 dated 2021-01-18
DESCRIPTION | 10 ++++---- MD5 | 31 +++++++++++++------------- NEWS.md | 11 +++++++++ R/ANFIS.R | 8 +++--- R/FuzzyInferenceSystem.R | 54 ++++++++++++++++++++++++++++++++++++++--------- R/FuzzyOperation.R | 4 +-- R/Utilities.R | 4 +-- build |only man/addrule.Rd | 4 +-- man/anfis.builder.Rd | 4 +-- man/anfis.optimise.Rd | 23 ++++++++++++++------ man/anfis.plotmf.Rd | 12 ++++++++-- man/fis.builder.Rd | 14 +++++++++--- man/fuzzyr.accuracy.Rd | 2 - man/km.da.Rd | 4 +-- man/newfis.Rd | 13 ++++++++--- man/plotmf.Rd | 12 ++++++++-- 17 files changed, 149 insertions(+), 61 deletions(-)
Title: A Tool Kit for Working with Time Series in R
Description: Easy visualization, wrangling, and feature engineering of time series data for
forecasting and machine learning prediction. Consolidates and extends time series functionality
from packages including 'dplyr', 'stats', 'xts', 'forecast', 'slider', 'padr', 'recipes', and 'rsample'.
Author: Matt Dancho [aut, cre],
Davis Vaughan [aut]
Maintainer: Matt Dancho <mdancho@business-science.io>
Diff between timetk versions 2.6.0 dated 2020-11-21 and 2.6.1 dated 2021-01-18
DESCRIPTION | 17 - MD5 | 38 +- NAMESPACE | 24 - NEWS.md | 17 + R/augment-tk_augment_differences.R | 16 R/augment-tk_augment_fourier.R | 5 R/augment-tk_augment_lags.R | 85 ++--- R/augment-tk_augment_slidify.R | 149 +++++---- R/coersion-tk_ts.R | 2 R/coersion-tk_xts.R | 9 R/coersion-tk_zoo.R | 4 R/coersion-tk_zooreg.R | 4 R/dplyr-future_frame.R | 14 inst/doc/TK04_Plotting_Time_Series.html | 420 +++++--------------------- inst/doc/TK07_Time_Series_Data_Wrangling.html | 394 ++++-------------------- man/future_frame.Rd | 13 man/required_pkgs.timetk.Rd | 24 - man/tk_augment_differences.Rd | 3 man/tk_augment_lags.Rd | 7 man/tk_augment_slidify.Rd | 21 + 20 files changed, 426 insertions(+), 840 deletions(-)
Title: R Interface to 'FishBase'
Description: A programmatic interface to 'FishBase', re-written
based on an accompanying 'RESTful' API. Access tables describing over 30,000
species of fish, their biology, ecology, morphology, and more. This package also
supports experimental access to 'SeaLifeBase' data, which contains
nearly 200,000 species records for all types of aquatic life not covered by
'FishBase.'
Author: Carl Boettiger [cre, aut] (<https://orcid.org/0000-0002-1642-628X>),
Scott Chamberlain [aut] (<https://orcid.org/0000-0003-1444-9135>),
Duncan Temple Lang [aut],
Peter Wainwright [aut],
Kevin Cazelles [ctb] (<https://orcid.org/0000-0001-6619-9874>)
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between rfishbase versions 3.1.4 dated 2021-01-13 and 3.1.5 dated 2021-01-18
DESCRIPTION | 11 +++++------ MD5 | 8 ++++---- NAMESPACE | 2 +- NEWS.md | 6 ++++++ R/local_db.R | 4 ++-- 5 files changed, 18 insertions(+), 13 deletions(-)
Title: Objective Bayesian Analysis for Spatial Regression Models
Description: It makes an objective Bayesian analysis of the spatial regression model using both the normal (NSR) and student-T (TSR) distributions. The functions provided give prior and posterior objective densities and allow default Bayesian estimation of the model regression parameters. Details can be found in Ordonez et al. (2020) <arXiv:2004.04341>.
Author: Alejandro Ordonez, Marcos O. Prates , Larissa A. Matos, Victor H. Lachos.
Maintainer: Alejandro Ordonez <ordonezjosealejandro@gmail.com>
Diff between OBASpatial versions 1.7 dated 2020-09-29 and 1.8 dated 2021-01-18
OBASpatial-1.7/OBASpatial/ChangeLog |only OBASpatial-1.8/OBASpatial/DESCRIPTION | 8 ++--- OBASpatial-1.8/OBASpatial/MD5 | 15 +++++------ OBASpatial-1.8/OBASpatial/NAMESPACE | 2 - OBASpatial-1.8/OBASpatial/R/auxfunctionsnorm.R | 12 +++++--- OBASpatial-1.8/OBASpatial/R/auxfunctionst.R | 34 +++++++++++++------------ OBASpatial-1.8/OBASpatial/R/prinfunctions.R | 2 - OBASpatial-1.8/OBASpatial/man/nsrobapred.Rd | 10 +++---- OBASpatial-1.8/OBASpatial/man/tsrobapred.Rd | 2 - 9 files changed, 44 insertions(+), 41 deletions(-)
Title: Airborne LiDAR Data Manipulation and Visualization for Forestry
Applications
Description: Airborne LiDAR (Light Detection and Ranging) interface for data
manipulation and visualization. Read/write 'las' and 'laz' files, computation
of metrics in area based approach, point filtering, artificial point reduction,
classification from geographic data, normalization, individual tree segmentation
and other manipulations.
Author: Jean-Romain Roussel [aut, cre, cph],
David Auty [aut, ctb] (Reviews the documentation),
Florian De Boissieu [ctb] (Fixed bugs and improved catalog features),
Andrew Sánchez Meador [ctb] (Implemented wing2015() for
segment_snags()),
Bourdon Jean-François [ctb] (Contributed to Roussel2020() for
track_sensor()),
Gatziolis Demetrios [ctb] (Implemented Gatziolis2019() for
track_sensor())
Maintainer: Jean-Romain Roussel <jean-romain.roussel.1@ulaval.ca>
Diff between lidR versions 3.0.4 dated 2020-10-10 and 3.1.0 dated 2021-01-18
lidR-3.0.4/lidR/R/io_readMSLAS.R |only lidR-3.0.4/lidR/man/las_rescale.Rd |only lidR-3.0.4/lidR/man/readMSLAS.Rd |only lidR-3.0.4/lidR/src/BoundingBox.cpp |only lidR-3.0.4/lidR/src/BoundingBox.h |only lidR-3.0.4/lidR/src/GridPartition.cpp |only lidR-3.0.4/lidR/src/GridPartition.h |only lidR-3.0.4/lidR/src/Point.h |only lidR-3.0.4/lidR/src/Shapes.cpp |only lidR-3.0.4/lidR/src/Shapes.h |only lidR-3.0.4/lidR/tests/testthat/test-catalog_apply-automerge.R |only lidR-3.0.4/lidR/tests/testthat/test-catalog_apply-discontinuous.R |only lidR-3.0.4/lidR/tests/testthat/test-catalog_apply-generic.R |only lidR-3.0.4/lidR/tests/testthat/test-catalog_apply-ondisk.R |only lidR-3.0.4/lidR/tests/testthat/test-catalog_apply_autoread.R |only lidR-3.0.4/lidR/tests/testthat/test-catalog_errors.R |only lidR-3.0.4/lidR/tests/testthat/test-internal_spatialindex.R |only lidR-3.0.4/lidR/tests/testthat/test-lasadddata.R |only lidR-3.0.4/lidR/tests/testthat/test-lascheck.R |only lidR-3.0.4/lidR/tests/testthat/test-lasclip.R |only lidR-3.0.4/lidR/tests/testthat/test-lasdetectedshape.R |only lidR-3.0.4/lidR/tests/testthat/test-lasfilter.R |only lidR-3.0.4/lidR/tests/testthat/test-lasfilterdecimate.R |only lidR-3.0.4/lidR/tests/testthat/test-lasfilterduplicates.R |only lidR-3.0.4/lidR/tests/testthat/test-lasfiltersurfacepoints.R |only lidR-3.0.4/lidR/tests/testthat/test-lasgrid.R |only lidR-3.0.4/lidR/tests/testthat/test-lasground.R |only lidR-3.0.4/lidR/tests/testthat/test-lasidentify.R |only lidR-3.0.4/lidR/tests/testthat/test-lasindex.R |only lidR-3.0.4/lidR/tests/testthat/test-lasmergespatial.R |only lidR-3.0.4/lidR/tests/testthat/test-lasnormalize.R |only lidR-3.0.4/lidR/tests/testthat/test-lasrangecorrection.R |only lidR-3.0.4/lidR/tests/testthat/test-lasrescale.R |only lidR-3.0.4/lidR/tests/testthat/test-lassmooth.R |only lidR-3.0.4/lidR/tests/testthat/test-lassnags.R |only lidR-3.0.4/lidR/tests/testthat/test-lastranform.R |only lidR-3.0.4/lidR/tests/testthat/test-lastrees.R |only lidR-3.0.4/lidR/tests/testthat/test-lasupdateheader.R |only lidR-3.0.4/lidR/tests/testthat/test-lasvoxelize.R |only lidR-3.0.4/lidR/tests/testthat/test-sensor_tracking.R |only lidR-3.0.4/lidR/tests/testthat/test-tree_detection.R |only lidR-3.0.4/lidR/tests/testthat/test-tree_hulls.R |only lidR-3.1.0/lidR/DESCRIPTION | 33 lidR-3.1.0/lidR/MD5 | 445 +++++----- lidR-3.1.0/lidR/NAMESPACE | 26 lidR-3.1.0/lidR/NEWS.md | 78 + lidR-3.1.0/lidR/R/Class-LAS.R | 34 lidR-3.1.0/lidR/R/Class-LAScatalog.R | 23 lidR-3.1.0/lidR/R/Class-LAScluster.R | 6 lidR-3.1.0/lidR/R/RcppExports.R | 32 lidR-3.1.0/lidR/R/add_attribute.R | 19 lidR-3.1.0/lidR/R/algorithm-dec.R | 4 lidR-3.1.0/lidR/R/algorithm-dsm.R | 5 lidR-3.1.0/lidR/R/algorithm-gnd.R | 17 lidR-3.1.0/lidR/R/algorithm-itd.R | 15 lidR-3.1.0/lidR/R/algorithm-its.R | 25 lidR-3.1.0/lidR/R/algorithm-noi.R | 7 lidR-3.1.0/lidR/R/algorithm-out.R |only lidR-3.1.0/lidR/R/algorithm-shp.R | 2 lidR-3.1.0/lidR/R/algorithm-snag.R | 8 lidR-3.1.0/lidR/R/algorithm-spi.R | 56 - lidR-3.1.0/lidR/R/catalog_apply.R | 36 lidR-3.1.0/lidR/R/catalog_index.R | 2 lidR-3.1.0/lidR/R/catalog_makecluster.R | 2 lidR-3.1.0/lidR/R/classify_ground.R | 14 lidR-3.1.0/lidR/R/classify_noise.R |only lidR-3.1.0/lidR/R/clip_roi.R | 59 - lidR-3.1.0/lidR/R/clusters_apply.R | 46 - lidR-3.1.0/lidR/R/decimate_points.R | 10 lidR-3.1.0/lidR/R/delineate_crowns.R | 23 lidR-3.1.0/lidR/R/deprecated.R | 10 lidR-3.1.0/lidR/R/filter_poi.R | 2 lidR-3.1.0/lidR/R/filter_surfacepoints.R | 7 lidR-3.1.0/lidR/R/find_localmaxima.R | 3 lidR-3.1.0/lidR/R/find_trees.R | 6 lidR-3.1.0/lidR/R/generate_las.R | 28 lidR-3.1.0/lidR/R/grid_canopy.R | 2 lidR-3.1.0/lidR/R/grid_density.R | 4 lidR-3.1.0/lidR/R/grid_metrics.R | 8 lidR-3.1.0/lidR/R/grid_terrain.R | 92 +- lidR-3.1.0/lidR/R/hexbin_metrics.R | 11 lidR-3.1.0/lidR/R/io_readLAS.R | 28 lidR-3.1.0/lidR/R/io_readLAScatalog.R | 81 + lidR-3.1.0/lidR/R/io_readXLAS.R |only lidR-3.1.0/lidR/R/las_check.R | 33 lidR-3.1.0/lidR/R/las_tools.R | 162 +++ lidR-3.1.0/lidR/R/merge_las.R | 28 lidR-3.1.0/lidR/R/merge_spatial.R | 10 lidR-3.1.0/lidR/R/methods-LAS.R | 95 ++ lidR-3.1.0/lidR/R/methods-LAScluster.R | 4 lidR-3.1.0/lidR/R/normalize_height.R | 33 lidR-3.1.0/lidR/R/normalize_intensity.R | 2 lidR-3.1.0/lidR/R/plot.R | 32 lidR-3.1.0/lidR/R/plot.s3.R | 13 lidR-3.1.0/lidR/R/point_metrics.R | 23 lidR-3.1.0/lidR/R/print.R | 25 lidR-3.1.0/lidR/R/projection.R | 18 lidR-3.1.0/lidR/R/retrieve_info.R | 2 lidR-3.1.0/lidR/R/segment_shapes.R | 4 lidR-3.1.0/lidR/R/segment_snags.R | 2 lidR-3.1.0/lidR/R/segment_trees.R | 11 lidR-3.1.0/lidR/R/sensor_tracking.R | 46 - lidR-3.1.0/lidR/R/smooth_height.R | 7 lidR-3.1.0/lidR/R/utils_assertive.R | 16 lidR-3.1.0/lidR/R/utils_catalog_options.R | 17 lidR-3.1.0/lidR/R/utils_define_constant.R | 5 lidR-3.1.0/lidR/R/utils_metrics.R | 315 +++---- lidR-3.1.0/lidR/R/utils_raster.R | 38 lidR-3.1.0/lidR/R/utils_spatial_index.R |only lidR-3.1.0/lidR/R/voxel_metrics.R | 41 lidR-3.1.0/lidR/R/voxelize_points.R | 4 lidR-3.1.0/lidR/README.md | 6 lidR-3.1.0/lidR/build/vignette.rds |binary lidR-3.1.0/lidR/inst/doc/lidR-LAS-class.R | 61 - lidR-3.1.0/lidR/inst/doc/lidR-LAS-class.Rmd | 46 - lidR-3.1.0/lidR/inst/doc/lidR-LAS-class.html | 109 +- lidR-3.1.0/lidR/inst/doc/lidR-LAScatalog-class.R | 3 lidR-3.1.0/lidR/inst/doc/lidR-LAScatalog-class.Rmd | 3 lidR-3.1.0/lidR/inst/doc/lidR-LAScatalog-class.html | 22 lidR-3.1.0/lidR/inst/doc/lidR-LAScatalog-engine.R | 410 ++++----- lidR-3.1.0/lidR/inst/doc/lidR-LAScatalog-engine.Rmd | 288 +++--- lidR-3.1.0/lidR/inst/doc/lidR-LAScatalog-engine.html | 115 +- lidR-3.1.0/lidR/inst/doc/lidR-catalog-apply-examples.html | 10 lidR-3.1.0/lidR/inst/doc/lidR-computation-speed-LAScatalog.R | 55 - lidR-3.1.0/lidR/inst/doc/lidR-computation-speed-LAScatalog.Rmd | 37 lidR-3.1.0/lidR/inst/doc/lidR-computation-speed-LAScatalog.html | 28 lidR-3.1.0/lidR/inst/include |only lidR-3.1.0/lidR/man/LAD.Rd | 6 lidR-3.1.0/lidR/man/LAS-class.Rd | 40 lidR-3.1.0/lidR/man/LAScatalog-class.Rd | 18 lidR-3.1.0/lidR/man/VCI.Rd | 4 lidR-3.1.0/lidR/man/add_attribute.Rd | 4 lidR-3.1.0/lidR/man/catalog_apply.Rd | 36 lidR-3.1.0/lidR/man/catalog_options_tools.Rd | 6 lidR-3.1.0/lidR/man/classify_ground.Rd | 16 lidR-3.1.0/lidR/man/classify_noise.Rd |only lidR-3.1.0/lidR/man/clip.Rd | 27 lidR-3.1.0/lidR/man/csf.Rd | 2 lidR-3.1.0/lidR/man/dalponte2016.Rd | 2 lidR-3.1.0/lidR/man/decimate_points.Rd | 8 lidR-3.1.0/lidR/man/delineate_crowns.Rd | 15 lidR-3.1.0/lidR/man/entropy.Rd | 6 lidR-3.1.0/lidR/man/filter_surfacepoints.Rd | 7 lidR-3.1.0/lidR/man/find_localmaxima.Rd | 3 lidR-3.1.0/lidR/man/find_trees.Rd | 6 lidR-3.1.0/lidR/man/gap_fraction_profile.Rd | 4 lidR-3.1.0/lidR/man/grid_canopy.Rd | 4 lidR-3.1.0/lidR/man/grid_density.Rd | 6 lidR-3.1.0/lidR/man/grid_metrics.Rd | 10 lidR-3.1.0/lidR/man/grid_terrain.Rd | 30 lidR-3.1.0/lidR/man/hexbin_metrics.Rd | 6 lidR-3.1.0/lidR/man/highest.Rd | 2 lidR-3.1.0/lidR/man/homogenize.Rd | 2 lidR-3.1.0/lidR/man/identify.Rd | 2 lidR-3.1.0/lidR/man/ivf.Rd |only lidR-3.1.0/lidR/man/knnidw.Rd | 6 lidR-3.1.0/lidR/man/kriging.Rd | 2 lidR-3.1.0/lidR/man/las_check.Rd | 5 lidR-3.1.0/lidR/man/las_utilities.Rd |only lidR-3.1.0/lidR/man/li2012.Rd | 2 lidR-3.1.0/lidR/man/lidR-spatial-index.Rd |only lidR-3.1.0/lidR/man/lmf.Rd | 14 lidR-3.1.0/lidR/man/merge_spatial.Rd | 7 lidR-3.1.0/lidR/man/normalize_height.Rd | 17 lidR-3.1.0/lidR/man/pitfree.Rd | 3 lidR-3.1.0/lidR/man/plot.Rd | 18 lidR-3.1.0/lidR/man/plot.lasmetrics3d.Rd | 4 lidR-3.1.0/lidR/man/plot_3d.Rd | 2 lidR-3.1.0/lidR/man/pmf.Rd | 4 lidR-3.1.0/lidR/man/point_metrics.Rd | 25 lidR-3.1.0/lidR/man/range_correction.Rd | 2 lidR-3.1.0/lidR/man/readLAS.Rd | 39 lidR-3.1.0/lidR/man/readLAScatalog.Rd | 81 + lidR-3.1.0/lidR/man/redefined_behaviors.Rd | 3 lidR-3.1.0/lidR/man/rumple_index.Rd | 25 lidR-3.1.0/lidR/man/segment_shapes.Rd | 4 lidR-3.1.0/lidR/man/shape_detection.Rd | 2 lidR-3.1.0/lidR/man/silva2016.Rd | 5 lidR-3.1.0/lidR/man/smooth_height.Rd | 6 lidR-3.1.0/lidR/man/sor.Rd |only lidR-3.1.0/lidR/man/stdmetrics.Rd | 41 lidR-3.1.0/lidR/man/tin.Rd | 6 lidR-3.1.0/lidR/man/track_sensor.Rd | 19 lidR-3.1.0/lidR/man/voxel_metrics.Rd | 22 lidR-3.1.0/lidR/man/voxelize_points.Rd | 2 lidR-3.1.0/lidR/man/watershed.Rd | 3 lidR-3.1.0/lidR/man/wing2015.Rd | 8 lidR-3.1.0/lidR/src/C_dalponte2016.cpp | 3 lidR-3.1.0/lidR/src/C_delaunay.cpp | 32 lidR-3.1.0/lidR/src/LAS.cpp | 267 ++++-- lidR-3.1.0/lidR/src/LAS.h | 9 lidR-3.1.0/lidR/src/Makevars | 2 lidR-3.1.0/lidR/src/Makevars.win | 2 lidR-3.1.0/lidR/src/RcppExports.cpp | 128 +- lidR-3.1.0/lidR/src/RcppFunction.cpp | 182 ---- lidR-3.1.0/lidR/src/UnitTests.cpp |only lidR-3.1.0/lidR/tests/testthat.R | 3 lidR-3.1.0/lidR/tests/testthat/Rplots.pdf |binary lidR-3.1.0/lidR/tests/testthat/setup-testthat.R |only lidR-3.1.0/lidR/tests/testthat/test-LAS.R | 79 + lidR-3.1.0/lidR/tests/testthat/test-LAScatalog.R | 3 lidR-3.1.0/lidR/tests/testthat/test-algorithm-dispatch.R | 26 lidR-3.1.0/lidR/tests/testthat/test-assertions.R | 2 lidR-3.1.0/lidR/tests/testthat/test-catalog-engine-automerge.R |only lidR-3.1.0/lidR/tests/testthat/test-catalog-engine-autoread.R |only lidR-3.1.0/lidR/tests/testthat/test-catalog-engine-discontinuous.R |only lidR-3.1.0/lidR/tests/testthat/test-catalog-engine-errors.R |only lidR-3.1.0/lidR/tests/testthat/test-catalog-engine-generic.R |only lidR-3.1.0/lidR/tests/testthat/test-catalog-engine-ondisk.R |only lidR-3.1.0/lidR/tests/testthat/test-catalog_laxindex.R | 7 lidR-3.1.0/lidR/tests/testthat/test-catalog_makeclusters.R | 3 lidR-3.1.0/lidR/tests/testthat/test-catalog_retile.R | 10 lidR-3.1.0/lidR/tests/testthat/test-classify_ground.R |only lidR-3.1.0/lidR/tests/testthat/test-classify_noise.R |only lidR-3.1.0/lidR/tests/testthat/test-clip.R |only lidR-3.1.0/lidR/tests/testthat/test-cloud_metrics.R | 3 lidR-3.1.0/lidR/tests/testthat/test-decimate_points.R |only lidR-3.1.0/lidR/tests/testthat/test-delaunay.R | 7 lidR-3.1.0/lidR/tests/testthat/test-delineate_crowns.R |only lidR-3.1.0/lidR/tests/testthat/test-filter_duplicates.R |only lidR-3.1.0/lidR/tests/testthat/test-filter_poi.R |only lidR-3.1.0/lidR/tests/testthat/test-filter_surfacepoints.R |only lidR-3.1.0/lidR/tests/testthat/test-find_trees.R |only lidR-3.1.0/lidR/tests/testthat/test-grid_canopy.R | 14 lidR-3.1.0/lidR/tests/testthat/test-grid_density.R | 8 lidR-3.1.0/lidR/tests/testthat/test-grid_generic.R |only lidR-3.1.0/lidR/tests/testthat/test-grid_metrics.R | 39 lidR-3.1.0/lidR/tests/testthat/test-grid_terrain.R | 22 lidR-3.1.0/lidR/tests/testthat/test-hexbin_metrics.R | 50 - lidR-3.1.0/lidR/tests/testthat/test-las_addattribute.R |only lidR-3.1.0/lidR/tests/testthat/test-las_check.R |only lidR-3.1.0/lidR/tests/testthat/test-las_merge.R |only lidR-3.1.0/lidR/tests/testthat/test-las_rescale.R |only lidR-3.1.0/lidR/tests/testthat/test-las_updateheader.R |only lidR-3.1.0/lidR/tests/testthat/test-local_maximum.R | 2 lidR-3.1.0/lidR/tests/testthat/test-merges_patial.R |only lidR-3.1.0/lidR/tests/testthat/test-normalize_height.R |only lidR-3.1.0/lidR/tests/testthat/test-normalize_intensity.R |only lidR-3.1.0/lidR/tests/testthat/test-plot.R | 24 lidR-3.1.0/lidR/tests/testthat/test-point_metrics.R | 5 lidR-3.1.0/lidR/tests/testthat/test-print.R | 5 lidR-3.1.0/lidR/tests/testthat/test-progress.R | 4 lidR-3.1.0/lidR/tests/testthat/test-projection.R | 2 lidR-3.1.0/lidR/tests/testthat/test-quantization.R | 24 lidR-3.1.0/lidR/tests/testthat/test-readLAS.R | 10 lidR-3.1.0/lidR/tests/testthat/test-retrieve.R |only lidR-3.1.0/lidR/tests/testthat/test-segment_shape.R |only lidR-3.1.0/lidR/tests/testthat/test-segment_snags.R |only lidR-3.1.0/lidR/tests/testthat/test-segment_trees.R |only lidR-3.1.0/lidR/tests/testthat/test-smooth_height.R |only lidR-3.1.0/lidR/tests/testthat/test-spTransform.R |only lidR-3.1.0/lidR/tests/testthat/test-spatialindex.R |only lidR-3.1.0/lidR/tests/testthat/test-stdmetric.R | 2 lidR-3.1.0/lidR/tests/testthat/test-track_sensor.R |only lidR-3.1.0/lidR/tests/testthat/test-tree_metrics.R | 25 lidR-3.1.0/lidR/tests/testthat/test-utils_geometry.R | 10 lidR-3.1.0/lidR/tests/testthat/test-voxel_metrics.R | 12 lidR-3.1.0/lidR/tests/testthat/test-voxelize_points.R |only lidR-3.1.0/lidR/tests/testthat/test-writeLAS.R | 5 lidR-3.1.0/lidR/vignettes/lidR-LAS-class.Rmd | 46 - lidR-3.1.0/lidR/vignettes/lidR-LAScatalog-class.Rmd | 3 lidR-3.1.0/lidR/vignettes/lidR-LAScatalog-engine.Rmd | 288 +++--- lidR-3.1.0/lidR/vignettes/lidR-computation-speed-LAScatalog.Rmd | 37 263 files changed, 3333 insertions(+), 2209 deletions(-)
Title: Indices of Effect Size and Standardized Parameters
Description: Provide utilities to work with indices of effect size and standardized parameters for a wide variety of models (see support list of insight; Lüdecke, Waggoner & Makowski (2019) <doi:10.21105/joss.01412>), allowing computation and conversion of indices such as Cohen's d, r, odds, etc.
Author: Mattan S. Ben-Shachar [aut, cre]
(<https://orcid.org/0000-0002-4287-4801>),
Dominique Makowski [aut] (<https://orcid.org/0000-0001-5375-9967>),
Daniel Lüdecke [aut] (<https://orcid.org/0000-0002-8895-3206>),
Indrajeet Patil [ctb] (<https://orcid.org/0000-0003-1995-6531>,
@patilindrajeets),
Ken Kelley [ctb],
David Stanley [ctb]
Maintainer: Mattan S. Ben-Shachar <matanshm@post.bgu.ac.il>
Diff between effectsize versions 0.4.1 dated 2020-12-07 and 0.4.3 dated 2021-01-18
effectsize-0.4.1/effectsize/R/convert_tF_to_pve.R |only effectsize-0.4.1/effectsize/R/print.effectsize_difference.R |only effectsize-0.4.1/effectsize/R/print.equivalence_test_effectsize.R |only effectsize-0.4.3/effectsize/DESCRIPTION | 19 effectsize-0.4.3/effectsize/MD5 | 206 +- effectsize-0.4.3/effectsize/NAMESPACE | 24 effectsize-0.4.3/effectsize/NEWS.md | 31 effectsize-0.4.3/effectsize/R/adjust.R | 120 - effectsize-0.4.3/effectsize/R/change_scale.R | 2 effectsize-0.4.3/effectsize/R/cohens_d.R | 166 + effectsize-0.4.3/effectsize/R/convert_OR_to_RR.R | 2 effectsize-0.4.3/effectsize/R/convert_between_anova.R |only effectsize-0.4.3/effectsize/R/convert_chisq.R | 9 effectsize-0.4.3/effectsize/R/convert_d_to_common_language.R | 4 effectsize-0.4.3/effectsize/R/convert_odds_to_probs.R | 2 effectsize-0.4.3/effectsize/R/convert_tF_to_anova.R |only effectsize-0.4.3/effectsize/R/convert_tFz_to_r.R | 21 effectsize-0.4.3/effectsize/R/docs_extra.R |only effectsize-0.4.3/effectsize/R/effectsize.R | 149 - 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effectsize-0.4.3/effectsize/man/change_scale.Rd | 4 effectsize-0.4.3/effectsize/man/chisq_to_phi.Rd | 32 effectsize-0.4.3/effectsize/man/cohens_d.Rd | 76 effectsize-0.4.3/effectsize/man/d_to_common_language.Rd | 6 effectsize-0.4.3/effectsize/man/d_to_r.Rd | 1 effectsize-0.4.3/effectsize/man/effectsize-CIs.Rd |only effectsize-0.4.3/effectsize/man/effectsize.Rd | 36 effectsize-0.4.3/effectsize/man/equivalence_test.effectsize_table.Rd | 180 - effectsize-0.4.3/effectsize/man/es_info.Rd | 2 effectsize-0.4.3/effectsize/man/eta2_to_f2.Rd |only effectsize-0.4.3/effectsize/man/eta_squared.Rd | 71 effectsize-0.4.3/effectsize/man/interpret_d.Rd | 2 effectsize-0.4.3/effectsize/man/interpret_gfi.Rd | 4 effectsize-0.4.3/effectsize/man/interpret_oddsratio.Rd | 2 effectsize-0.4.3/effectsize/man/interpret_parameters.Rd | 4 effectsize-0.4.3/effectsize/man/interpret_r.Rd | 2 effectsize-0.4.3/effectsize/man/interpret_r2.Rd | 2 effectsize-0.4.3/effectsize/man/is_effectsize_name.Rd | 9 effectsize-0.4.3/effectsize/man/normalize.Rd | 32 effectsize-0.4.3/effectsize/man/odds_to_probs.Rd | 4 effectsize-0.4.3/effectsize/man/oddsratio_to_riskratio.Rd | 4 effectsize-0.4.3/effectsize/man/phi.Rd | 74 effectsize-0.4.3/effectsize/man/print.effectsize_table.Rd |only effectsize-0.4.3/effectsize/man/rank_biserial.Rd |only effectsize-0.4.3/effectsize/man/ranktransform.Rd | 5 effectsize-0.4.3/effectsize/man/sd_pooled.Rd | 9 effectsize-0.4.3/effectsize/man/standardize.Rd | 6 effectsize-0.4.3/effectsize/man/standardize_info.Rd | 12 effectsize-0.4.3/effectsize/man/standardize_parameters.Rd | 25 effectsize-0.4.3/effectsize/man/t_to_r.Rd | 33 effectsize-0.4.3/effectsize/tests/testthat/test-adjust.R |only effectsize-0.4.3/effectsize/tests/testthat/test-cramers_v_etc.R | 40 effectsize-0.4.3/effectsize/tests/testthat/test-effectsize.R | 111 + effectsize-0.4.3/effectsize/tests/testthat/test-eta_squared_etc.R | 35 effectsize-0.4.3/effectsize/tests/testthat/test-eta_squared_posterior.R | 7 effectsize-0.4.3/effectsize/tests/testthat/test-interpret.R | 12 effectsize-0.4.3/effectsize/tests/testthat/test-printing.R | 20 effectsize-0.4.3/effectsize/tests/testthat/test-rankES.R |only effectsize-0.4.3/effectsize/tests/testthat/test-standardize-models.R | 12 effectsize-0.4.3/effectsize/tests/testthat/test-standardize_parameters.R | 6 effectsize-0.4.3/effectsize/tests/testthat/test-standardized_differences.R | 67 effectsize-0.4.3/effectsize/vignettes/bibliography.bib | 8 effectsize-0.4.3/effectsize/vignettes/convert.Rmd | 13 effectsize-0.4.3/effectsize/vignettes/from_test_statistics.Rmd | 16 effectsize-0.4.3/effectsize/vignettes/interpret.Rmd | 2 effectsize-0.4.3/effectsize/vignettes/simple_htests.Rmd |only effectsize-0.4.3/effectsize/vignettes/standardize_parameters.Rmd | 19 113 files changed, 2675 insertions(+), 5894 deletions(-)
Title: Bayesian Latent Variable Analysis
Description: Fit a variety of Bayesian latent variable models, including confirmatory
factor analysis, structural equation models, and latent growth curve models.
Author: Edgar Merkle [aut, cre] (<https://orcid.org/0000-0001-7158-0653>),
Yves Rosseel [aut],
Ben Goodrich [aut],
Mauricio Garnier-Villarreal [ctb]
(<https://orcid.org/0000-0002-2951-6647>, R/blav_compare.R,
R/ctr_bayes_fit.R),
Terrence D. Jorgensen [ctb] (<https://orcid.org/0000-0001-5111-6773>,
R/ctr_bayes_fit.R, R/ctr_ppmc.R),
Huub Hoofs [ctb] (R/ctr_bayes_fit.R),
Rens van de Schoot [ctb] (R/ctr_bayes_fit.R)
Maintainer: Edgar Merkle <merklee@missouri.edu>
Diff between blavaan versions 0.3-12 dated 2020-11-12 and 0.3-13 dated 2021-01-18
DESCRIPTION | 8 +- MD5 | 19 ++--- NAMESPACE | 3 NEWS | 5 + R/blav_cond_utils.R |only R/blav_object_methods.R | 9 +- R/blav_utils.R | 178 ------------------------------------------------ R/blavaan.R | 4 - R/lvgqs.R | 144 +++++++++++++++++++++++++++++++++----- R/stanmarg_data.R | 4 - inst/CITATION | 25 ++++++ 11 files changed, 182 insertions(+), 217 deletions(-)
Title: Add Gate Information to Your Tibble
Description: It interactively or programmatically label points within custom gates on two dimensions.
The information is added to your tibble. It is based on the package 'gatepoints' from Wajid Jawaid (who is also author of this package). The code of gatepoints was nto integrated in tidygate.
The benefits are (i) in interactive mode you can draw your gates on extensive 'ggplot'-like scatter plots;
(ii) you can draw multiple gates; and (iii) you can save your gates and apply the programmatically.
Author: Stefano Mangiola [aut, cre],
Wajid Jawaid [ctb]
Maintainer: Stefano Mangiola <mangiolastefano@gmail.com>
Diff between tidygate versions 0.3.2 dated 2020-12-03 and 0.4.0 dated 2021-01-18
DESCRIPTION | 14 +++++++------- MD5 | 14 ++++++++------ NAMESPACE | 4 ++++ R/fhs.R |only R/functions_OLD.R | 2 +- R/functions_chr_int.R | 2 +- R/gatepoints.R | 2 +- build/tidygate.pdf |binary man/fhs.Rd |only 9 files changed, 22 insertions(+), 16 deletions(-)
Title: Tools to Handle Taxonomic Lists
Description: Tools include matching and merging taxonomic lists, casting and
melting scientific names, managing taxonomic lists from GBIF and ITIS,
harvesting names from wikipedia and fuzzy matching.
Author: Vijay Barve [aut, cre] (<https://orcid.org/0000-0002-4852-2567>)
Maintainer: Vijay Barve <vijay.barve@gmail.com>
Diff between taxotools versions 0.0.43 dated 2020-03-08 and 0.0.79 dated 2021-01-18
taxotools-0.0.43/taxotools/R/guess_taxo_level.R |only taxotools-0.0.43/taxotools/man/guess_taxo_level.Rd |only taxotools-0.0.79/taxotools/DESCRIPTION | 16 + taxotools-0.0.79/taxotools/MD5 | 70 +++++--- taxotools-0.0.79/taxotools/NAMESPACE | 16 + taxotools-0.0.79/taxotools/NEWS | 31 +++ taxotools-0.0.79/taxotools/R/DwC2taxo.R |only taxotools-0.0.79/taxotools/R/build_gen_syn.R |only taxotools-0.0.79/taxotools/R/cast_canonical.R | 60 +++++-- taxotools-0.0.79/taxotools/R/cast_cs_field.R | 4 taxotools-0.0.79/taxotools/R/get_accepted_names.R |only taxotools-0.0.79/taxotools/R/guess_taxo_rank.R |only taxotools-0.0.79/taxotools/R/list_wiki_syn.R | 27 ++- taxotools-0.0.79/taxotools/R/match_lists.R | 42 +++-- taxotools-0.0.79/taxotools/R/melt_canonical.R | 16 + taxotools-0.0.79/taxotools/R/melt_cs_field.R | 10 - taxotools-0.0.79/taxotools/R/melt_scientificname.R |only taxotools-0.0.79/taxotools/R/merge_lists.R |only taxotools-0.0.79/taxotools/R/syn2taxo.R |only taxotools-0.0.79/taxotools/R/synonymize_subspecies.R |only taxotools-0.0.79/taxotools/R/taxo_fuzzy_match.R |only taxotools-0.0.79/taxotools/R/taxotools.R | 29 ++- taxotools-0.0.79/taxotools/R/wiki2taxo.R |only taxotools-0.0.79/taxotools/R/zzz.R | 25 ++- taxotools-0.0.79/taxotools/README.md | 5 taxotools-0.0.79/taxotools/man/DwC2taxo.Rd |only taxotools-0.0.79/taxotools/man/build_gen_syn.Rd |only taxotools-0.0.79/taxotools/man/cast_canonical.Rd | 94 ++++++----- taxotools-0.0.79/taxotools/man/cast_cs_field.Rd | 87 +++++----- taxotools-0.0.79/taxotools/man/check_scientific.Rd | 69 ++++---- taxotools-0.0.79/taxotools/man/expand_name.Rd | 75 ++++----- taxotools-0.0.79/taxotools/man/get_accepted_names.Rd |only taxotools-0.0.79/taxotools/man/get_itis_syn.Rd | 56 +++--- taxotools-0.0.79/taxotools/man/guess_taxo_rank.Rd |only taxotools-0.0.79/taxotools/man/list_higher_taxo.Rd | 133 ++++++++-------- taxotools-0.0.79/taxotools/man/list_itis_syn.Rd | 56 +++--- taxotools-0.0.79/taxotools/man/list_wiki_syn.Rd | 56 +++--- taxotools-0.0.79/taxotools/man/match_lists.Rd | 93 +++++------ taxotools-0.0.79/taxotools/man/melt_canonical.Rd | 97 ++++++----- taxotools-0.0.79/taxotools/man/melt_cs_field.Rd | 77 ++++----- taxotools-0.0.79/taxotools/man/melt_scientificname.Rd |only taxotools-0.0.79/taxotools/man/merge_lists.Rd |only taxotools-0.0.79/taxotools/man/syn2taxo.Rd |only taxotools-0.0.79/taxotools/man/synonymize_subspecies.Rd |only taxotools-0.0.79/taxotools/man/taxo_fuzzy_match.Rd |only taxotools-0.0.79/taxotools/man/taxotools.Rd | 119 +++++++------- taxotools-0.0.79/taxotools/man/wiki2taxo.Rd |only 47 files changed, 779 insertions(+), 584 deletions(-)
Title: Statistics Norway's Miscellaneous Tools
Description: Functions used by other packages from Statistics Norway are gathered. General data manipulation functions, and functions for hierarchical computations are included (Langsrud, 2020) <doi:10.13140/RG.2.2.27313.61283>. The hierarchy specification functions are useful within statistical disclosure control.
Author: Øyvind Langsrud [aut, cre],
Bjørn-Helge Mevik [cph]
Maintainer: Øyvind Langsrud <oyl@ssb.no>
Diff between SSBtools versions 0.8.0 dated 2020-09-17 and 0.9.0 dated 2021-01-18
DESCRIPTION | 10 +++++----- MD5 | 29 ++++++++++++++++------------- NAMESPACE | 5 +++++ R/Div.R | 25 +++++++++++++++++++++++++ R/FormulaSums.R | 7 ++++--- R/Hierarchies2ModelMatrix.R | 2 +- R/HierarchiesAndFormula2ModelMatrix.R | 19 ++++++++++++++----- R/HierarchyCompute.R | 2 +- R/ModelMatrix.R |only man/DummyHierarchy.Rd | 2 +- man/FormulaSums.Rd | 5 ++++- man/Hierarchies2ModelMatrix.Rd | 2 +- man/HierarchiesAndFormula2ModelMatrix.Rd | 2 +- man/ModelMatrix.Rd |only man/Model_Matrix.Rd |only man/RoundWhole.Rd | 8 ++++++++ tests/testthat/test-HierarchyCompute.R | 15 +++++++++++++++ 17 files changed, 101 insertions(+), 32 deletions(-)
Title: Fit a Principal Curve in Arbitrary Dimension
Description: Fitting a principal curve to a data matrix in arbitrary dimensions.
Hastie and Stuetzle (1989) <doi:10.2307/2289936>.
Author: Trevor Hastie [aut],
Andreas Weingessel [aut],
Kurt Hornik [aut] (<https://orcid.org/0000-0003-4198-9911>),
Henrik Bengtsson [ctb] (HenrikBengtsson),
Robrecht Cannoodt [aut, cre] (<https://orcid.org/0000-0003-3641-729X>,
rcannood)
Maintainer: Robrecht Cannoodt <rcannood@gmail.com>
Diff between princurve versions 2.1.5 dated 2020-08-25 and 2.1.6 dated 2021-01-18
DESCRIPTION | 6 ++-- MD5 | 29 +++++++++++----------- NEWS.md | 8 ++++++ R/RcppExports.R | 11 ++++++++ R/package.R | 2 - R/principal_curve.R | 2 - README.md | 17 ++++++------- build |only man/figures/README_example-1.png |binary man/figures/README_princurve-1.png |binary man/principal_curve.Rd | 2 - man/princurve-package.Rd | 2 - man/project_to_curve.Rd | 11 ++++++++ src/project_to_curve.cpp | 43 ++++++++++++++++++++++++--------- tests/testthat/test-legacy_princurve.R | 7 ----- tests/testthat/test-principal_curve.R | 27 ++++++++++---------- 16 files changed, 108 insertions(+), 59 deletions(-)
Title: Power and Sample Size for (Bio)Equivalence Studies
Description: Contains functions to calculate power and sample size for
various study designs used in bioequivalence studies. Use known.designs() to
see the designs supported. Power and sample size can be obtained based on
different methods, amongst them prominently the TOST procedure (two one-sided t-tests).
See README and NEWS for further information.
Author: Detlew Labes [aut, cre] (<https://orcid.org/0000-0003-2169-426X>),
Helmut Schütz [aut] (<https://orcid.org/0000-0002-1167-7880>),
Benjamin Lang [aut]
Maintainer: Detlew Labes <DetlewLabes@gmx.de>
Diff between PowerTOST versions 1.5-2 dated 2020-10-27 and 1.5-3 dated 2021-01-18
DESCRIPTION | 8 MD5 | 72 +- NAMESPACE | 5 NEWS.md | 24 R/pa.scABE.R | 2 R/pwrA_S3methods.R | 9 R/sampleN.scABEL.ad.R | 29 - R/sampleN.scABEL.sdsims.R | 4 R/samplesize_scABEL.R | 6 R/scABEL.R | 12 R/scABEL.ad.R | 83 +- README.md | 979 +++++++++++++++++++---------------- build/partial.rdb |binary inst/doc/ABE.html | 44 - inst/doc/DP.html | 42 - inst/doc/Expected_Power_for_TOST.pdf |binary inst/doc/NI.html | 42 - inst/doc/PA.html | 56 -- inst/doc/RSABE.Rmd | 64 +- inst/doc/RSABE.html | 610 ++++++++++----------- inst/doc/vignette.html | 131 +--- man/pa.scABE.Rd | 14 man/power.2TOST.Rd | 2 man/power.RatioF.Rd | 3 man/power.scABEL.Rd | 17 man/power.scABEL.sdsims.Rd | 3 man/reg_const.Rd | 5 man/sampleN.2TOST.Rd | 2 man/sampleN.RSABE.Rd | 3 man/sampleN.RSABE2L.sdsims.Rd | 6 man/sampleN.RatioF.Rd | 3 man/sampleN.scABEL.Rd | 57 +- man/sampleN.scABEL.ad.Rd | 48 - man/sampleN.scABEL.sdsims.Rd | 32 - man/scABEL.Rd | 49 + man/scABEL.ad.Rd | 23 vignettes/RSABE.Rmd | 64 +- 37 files changed, 1301 insertions(+), 1252 deletions(-)
Title: Difference Benchmarking for Multivariate Small Area Estimation
Description: Implements Benchmarking Method for Multivariate Small Area Estimation under Fay Herriot Model. Multivariate Small Area Estimation (MSAE) is a development of Univariate Small Area Estimation that considering the correlation among response variables and borrowing the strength from related areas and auxiliary variables to increase the effectiveness of sample size, the multivariate model in this package is based on multivariate model 1 proposed by Roberto Benavent and Domingo Morales (2015) <doi:10.1016/j.csda.2015.07.013>. Benchmarking in Small Area Estimation is a modification of Small Area Estimation model to guarantee that the aggregate weighted mean of the county predictors equals the corresponding weighted mean of survey estimates. Difference Benchmarking is the simplest benchmarking method but widely used by multiplying empirical best linear unbiased prediction (EBLUP) estimator by the common adjustment factors (J.N.K Rao and Isabel Molina, 2015).
Author: Zaza Yuda Perwira, Azka Ubaidillah
Maintainer: Zaza Yuda Perwira <221710086@stis.ac.id>
Diff between msaeDB versions 0.1.1 dated 2021-01-13 and 0.1.2 dated 2021-01-18
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/msaedb.R | 8 ++++---- R/saedb.R | 8 ++++---- 4 files changed, 14 insertions(+), 14 deletions(-)
Title: Project MOSAIC Statistics and Mathematics Teaching Utilities
Description: Data sets and utilities from Project MOSAIC (<http://www.mosaic-web.org>) used
to teach mathematics, statistics, computation and modeling. Funded by the
NSF, Project MOSAIC is a community of educators working to tie together
aspects of quantitative work that students in science, technology,
engineering and mathematics will need in their professional lives, but
which are usually taught in isolation, if at all.
Author: Randall Pruim [aut, cre],
Daniel T. Kaplan [aut],
Nicholas J. Horton [aut]
Maintainer: Randall Pruim <rpruim@calvin.edu>
Diff between mosaic versions 1.8.2 dated 2020-09-16 and 1.8.3 dated 2021-01-18
DESCRIPTION | 10 +- MD5 | 115 ++++++++++++----------- NAMESPACE | 3 NEWS.md | 14 ++ R/Mustangs.R |only R/Sleep.R |only R/chisq.R | 15 ++- R/diffmean.R | 4 R/findZerosMult.R | 12 ++ R/mPlots.R | 78 +++++++++++---- R/mosaic-package.R | 2 R/mplot.R | 6 - R/pqrdata.R | 5 + R/prop.test.R | 25 +++-- R/reexports.R | 3 R/rgeo.R | 4 R/utils.R | 6 + R/vdiffr.R |only R/zzz.R | 1 README.md | 13 ++ build/vignette.rds |binary data |only inst/doc/MinimalRgg.Rnw | 2 inst/doc/MinimalRgg.pdf |binary inst/doc/Resampling.R | 5 - inst/doc/Resampling.Rmd | 11 +- inst/doc/Resampling.html | 29 ++++- inst/doc/mosaic-resources.Rmd | 14 +- inst/doc/mosaic-resources.html | 27 ++++- man/Mustangs.Rd |only man/Sleep.Rd |only man/design_plot.Rd |only man/mPlotting.Rd | 10 ++ man/mosaic-package.Rd | 2 man/reexports.Rd | 3 tests/testthat/Rplots.pdf |only tests/testthat/test-ashplots.R | 4 tests/testthat/test-bargraph.R | 12 +- tests/testthat/test-cdist.R | 18 +-- tests/testthat/test-chisq.R | 44 ++++---- tests/testthat/test-cisim.R | 6 - tests/testthat/test-clustering.R | 10 +- tests/testthat/test-dotplot.R | 6 - tests/testthat/test-dpqrdist.R | 2 tests/testthat/test-fitspline.R | 8 - tests/testthat/test-frequencyPolygon.R | 10 +- tests/testthat/test-ladd.R | 18 +-- tests/testthat/test-maps2.R | 10 +- tests/testthat/test-mplot.R | 8 - tests/testthat/test-plotCumfreq.R | 4 tests/testthat/test-plotDist.R | 38 +++---- tests/testthat/test-plotModel.R | 8 - tests/testthat/test-plotPoints.R | 8 - tests/testthat/test-read.file.R | 56 +++++------ tests/testthat/test-rfun.R | 4 tests/testthat/test-statTally.R | 12 +- tests/testthat/test-xpnorm.R | 8 - vignettes/MinimalRgg.Rnw | 2 vignettes/Resampling.Rmd | 11 +- vignettes/mosaic-resources.Rmd | 14 +- vignettes/web-only/LessVolume-MoreCreativity.Rmd | 4 vignettes/web-only/ggformula-lattice.Rmd | 4 62 files changed, 454 insertions(+), 294 deletions(-)
Title: Mixture Models for Clustering and Classification
Description: An implementation of 14 parsimonious mixture models for model-based clustering or model-based classification. Gaussian, generalized hyperbolic, variance-gamma or skew-t mixtures are available. All approaches work with missing data. Celeux and Govaert (1995) <doi:10.1016/0031-3203(94)00125-6>, Browne and McNicholas (2014) <doi:10.1007/s11634-013-0139-1>, Browne and McNicholas (2015) <doi:10.1002/cjs.11246>.
Author: Nik Pocuca [aut],
Ryan P. Browne [aut],
Paul D. McNicholas [aut, cre]
Maintainer: Paul D. McNicholas <mcnicholas@math.mcmaster.ca>
Diff between mixture versions 2.0.1 dated 2021-01-15 and 2.0.2 dated 2021-01-18
ChangeLog | 3 + DESCRIPTION | 8 +-- MD5 | 24 +++++------ configure | 84 ---------------------------------------- configure.ac | 28 ------------- man/mixture.Rd | 4 - src/GH_Model/GH_Mixture_Model.h | 20 ++++----- src/ST_Model/ST_Mixture_Model.h | 18 ++++---- src/VG_Model/VG_Mixture_Model.h | 18 ++++---- src/ghpcm_arma.cpp | 2 src/gpcm_arma.cpp | 2 src/stpcm_arma.cpp | 2 src/vgpcm_arma.cpp | 2 13 files changed, 53 insertions(+), 162 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 4.15-1 dated 2020-10-02 and 4.16-0 dated 2021-01-18
DESCRIPTION | 8 MD5 | 118 ++++++------- NAMESPACE | 5 NEWS.md | 123 +++++++++++++ R/JAMAlabels.R |only R/cathet.R | 124 ++++++++----- R/catmeth.R | 56 +++--- R/ci.R | 2 R/drapery.R | 62 ++++-- R/forest.R | 237 +++++++++++++++++++------- R/forest.metabind.R | 6 R/funnel.R | 59 ++++-- R/hetcalc.R | 399 +++++++++++++++++++++++++++++++-------------- R/meta-internal.R | 24 ++ R/meta-package.R | 21 +- R/metabias.R | 2 R/metabin.R | 431 ++++++++++++++++++++++++++++++------------------ R/metabind.R | 170 ++++++++++++++++--- R/metacont.R | 223 ++++++++++++++++++------- R/metacor.R | 153 +++++++++++------ R/metacr.R | 110 +++++++++++- R/metacum.R | 5 R/metagen.R | 443 +++++++++++++++++++++++++++++++++++++------------- R/metainc.R | 325 +++++++++++++++++++++++++----------- R/metainf.R | 5 R/metamean.R | 140 ++++++++++----- R/metamerge.R |only R/metaprop.R | 280 +++++++++++++++++++++---------- R/metarate.R | 280 +++++++++++++++++++++---------- R/metareg.R | 12 + R/print.meta.R | 28 ++- R/read.mtv.R | 3 R/read.rm5-internal.R | 236 ++++++++++++++++---------- R/read.rm5.R | 10 - R/settings.meta.R | 189 +++++++++++++++------ R/subgroup.R | 152 +++++++++++------ R/summary.meta.R | 130 +++++++++++--- R/trimfill.R | 7 R/update.meta.R | 226 +++++++++++++++++++------ R/updateversion.R | 3 man/JAMAlabels.Rd |only man/ci.Rd | 2 man/drapery.Rd | 9 - man/forest.meta.Rd | 18 +- man/funnel.meta.Rd | 41 ++-- man/meta-package.Rd | 17 + man/metabias.Rd | 2 man/metabin.Rd | 195 ++++++++++++---------- man/metabind.Rd | 50 ++++- man/metacont.Rd | 92 ++++++++-- man/metacor.Rd | 80 ++++++--- man/metacr.Rd | 27 ++- man/metagen.Rd | 135 +++++++++++---- man/metainc.Rd | 84 ++++++--- man/metamean.Rd | 68 +++++-- man/metamerge.Rd |only man/metaprop.Rd | 78 ++++++-- man/metarate.Rd | 78 ++++++-- man/read.mtv.Rd | 3 man/read.rm5.Rd | 5 man/settings.meta.Rd | 22 +- man/update.meta.Rd | 35 +++ 62 files changed, 4139 insertions(+), 1709 deletions(-)
Title: Extended Joint Models for Longitudinal and Time-to-Event Data
Description: Fit joint models for longitudinal and time-to-event data under the Bayesian approach. Multiple longitudinal outcomes of mixed type (continuous/categorical) and multiple event times (competing risks and multi-state processes) are accommodated. Rizopoulos (2012, ISBN:9781439872864).
Author: Dimitris Rizopoulos [aut, cre]
(<https://orcid.org/0000-0001-9397-0900>),
Grigorios Papageorgiou [aut],
Pedro Miranda Afonso [aut]
Maintainer: Dimitris Rizopoulos <d.rizopoulos@erasmusmc.nl>
Diff between JMbayes2 versions 0.1-2 dated 2021-01-13 and 0.1-3 dated 2021-01-18
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NAMESPACE | 3 ++- NEWS.md | 7 +++++++ R/jm.R | 16 +++++----------- R/jm_fit.R | 3 +-- man/JMbayes2.Rd | 4 ++-- 7 files changed, 27 insertions(+), 26 deletions(-)
Title: Summary Statistics for Geospatial Features
Description: Provides summary statistics of local geospatial features within a given geographic area.
It does so by calculating the area covered by a target geospatial feature (i.e. buildings, parks, lakes, etc.).
The geospatial features can be of any type of geospatial data, including point, polygon or line data.
Author: Nikos Patias [aut, cre] (<https://orcid.org/0000-0002-6542-2330>),
Francisco Rowe [aut]
Maintainer: Nikos Patias <n.patias@liverpool.ac.uk>
Diff between extRatum versions 1.0.3 dated 2021-01-15 and 1.0.4 dated 2021-01-18
DESCRIPTION | 8 - MD5 | 8 - R/areal_calc.R | 202 ++++++++++++++++----------------- R/line_calc.R | 192 ++++++++++++++++---------------- R/point_calc.R | 340 ++++++++++++++++++++++++++++----------------------------- 5 files changed, 375 insertions(+), 375 deletions(-)
Title: A Fast and Scalable Exhaustive Feature Selection Framework
Description: The goal of this package is to provide an easy to use, fast and
scalable exhaustive search framework. Exhaustive feature selections
typically require a very large number of models to be fitted and evaluated.
Execution speed and memory management are crucial factors here. This package
provides solutions for both. Execution speed is optimized by using a
multi-threaded C++ backend, and memory issues are solved by by only storing
the best results during execution and thus keeping memory usage constant.
Author: Rudolf Jagdhuber [aut, cre],
Jorge Nocedal [cph] (lbfgs c library),
Naoaki Okazaki [cph] (lbfgs c library)
Maintainer: Rudolf Jagdhuber <r.jagdhuber@gmail.com>
Diff between ExhaustiveSearch versions 1.0.0 dated 2021-01-15 and 1.0.1 dated 2021-01-18
ExhaustiveSearch-1.0.0/ExhaustiveSearch/src/globals.h |only ExhaustiveSearch-1.0.1/ExhaustiveSearch/DESCRIPTION | 6 - ExhaustiveSearch-1.0.1/ExhaustiveSearch/MD5 | 10 - ExhaustiveSearch-1.0.1/ExhaustiveSearch/NEWS.md |only ExhaustiveSearch-1.0.1/ExhaustiveSearch/README.md | 8 - ExhaustiveSearch-1.0.1/ExhaustiveSearch/man/print.ExhaustiveSearch.Rd | 52 +++++----- ExhaustiveSearch-1.0.1/ExhaustiveSearch/src/Combination.h | 1 7 files changed, 40 insertions(+), 37 deletions(-)
More information about ExhaustiveSearch at CRAN
Permanent link
Title: Analyze Group Patterns using Graph Theory in Educational
Settings
Description: Analyzes group patterns using discourse analysis data with graph theory mathematics. Takes the order of which individuals talk and converts it to a network edge and weight list. Returns the density, centrality, centralization, and subgroup information for each group. Based on the analytical framework laid out in Chai et al. (2019) <doi:10.1187/cbe.18-11-0222>.
Author: Albert Chai [aut],
Andrew Lee [aut],
Joshua Le [aut, cre],
Katherine Ly [ctb],
Kevin Banh [ctb],
Priya Pahal [ctb],
Stanley Lo [aut]
Maintainer: Joshua Le <jpl038@ucsd.edu>
Diff between discourseGT versions 1.1.2 dated 2020-12-08 and 1.1.3 dated 2021-01-18
DESCRIPTION | 13 +++++++------ LICENSE | 2 +- MD5 | 6 +++--- R/summaryNet.R | 1 + 4 files changed, 12 insertions(+), 10 deletions(-)
Title: Animal Movement Tools
Description: Manage and analyze animal movement data. The functionality of 'amt' includes methods to calculate home ranges <doi:10.1101/2020.08.19.256859v2>, track statistics (e.g. step lengths, speed, or turning angles), prepare data for fitting habitat selection analyses <doi:10.1101/2020.11.12.379834v4>, and simulation of space-use from fitted step-selection functions <doi:10.1002/ecs2.1771>.
Author: Johannes Signer [aut, cre],
Brian Smith [ctb],
Bjoern Reineking [ctb],
Ulrike Schlaegel [ctb],
John Fieberg [ctb],
Scott LaPoint [dtc]
Maintainer: Johannes Signer <jsigner@gwdg.de>
Diff between amt versions 0.1.3 dated 2020-10-01 and 0.1.4 dated 2021-01-18
amt-0.1.3/amt/R/hr_intersection.R |only amt-0.1.3/amt/man/hr_intersection.Rd |only amt-0.1.4/amt/DESCRIPTION | 22 +- amt-0.1.4/amt/MD5 | 109 +++++----- amt-0.1.4/amt/NAMESPACE | 10 amt-0.1.4/amt/NEWS.md | 13 + amt-0.1.4/amt/R/coercion.R | 22 +- amt-0.1.4/amt/R/distributions.R | 2 amt-0.1.4/amt/R/eda_sampling_rate.R | 14 - amt-0.1.4/amt/R/fit_ctmm.R | 23 +- amt-0.1.4/amt/R/hr_akde.R | 21 +- amt-0.1.4/amt/R/hr_area.R | 10 amt-0.1.4/amt/R/hr_isopleths.R | 24 ++ amt-0.1.4/amt/R/hr_kde.R | 8 amt-0.1.4/amt/R/hr_locoh.R | 18 + amt-0.1.4/amt/R/hr_mcp.R | 2 amt-0.1.4/amt/R/hr_overlap.R | 251 ++++++++++++++++-------- amt-0.1.4/amt/R/hr_ud.R | 4 amt-0.1.4/amt/R/insepct.R | 5 amt-0.1.4/amt/R/log_rss.R | 177 +++++++++++++++- amt-0.1.4/amt/R/simulate_movement2.R | 2 amt-0.1.4/amt/R/site_fidelity.R | 4 amt-0.1.4/amt/R/time_of_day.R | 3 amt-0.1.4/amt/R/track.R | 40 +++ amt-0.1.4/amt/build/partial.rdb |binary amt-0.1.4/amt/build/vignette.rds |binary amt-0.1.4/amt/inst/WORDLIST | 11 + amt-0.1.4/amt/inst/doc/p1_getting_started.R | 5 amt-0.1.4/amt/inst/doc/p1_getting_started.Rmd | 7 amt-0.1.4/amt/inst/doc/p1_getting_started.html | 117 +++++++---- amt-0.1.4/amt/inst/doc/p2_hr.R |only amt-0.1.4/amt/inst/doc/p2_hr.Rmd |only amt-0.1.4/amt/inst/doc/p2_hr.html |only amt-0.1.4/amt/inst/doc/p3_rsf.Rmd | 1 amt-0.1.4/amt/inst/doc/p3_rsf.html | 215 +++++++++++++------- amt-0.1.4/amt/inst/doc/p4_SSF.R | 10 amt-0.1.4/amt/inst/doc/p4_SSF.Rmd | 32 --- amt-0.1.4/amt/inst/doc/p4_SSF.html | 213 ++++++++++---------- amt-0.1.4/amt/inst/doc/p5_other_packages.html | 152 +++++++++----- amt-0.1.4/amt/inst/tinytest/test_as_sf_star.R | 24 +- amt-0.1.4/amt/inst/tinytest/test_as_telemetry.R |only amt-0.1.4/amt/inst/tinytest/test_as_track.R | 18 - amt-0.1.4/amt/inst/tinytest/test_hr.R | 111 +++++----- amt-0.1.4/amt/inst/tinytest/test_log_rss.R | 2 amt-0.1.4/amt/inst/tinytest/test_track.R | 14 + amt-0.1.4/amt/man/amt-package.Rd | 1 amt-0.1.4/amt/man/boot1.Rd | 6 amt-0.1.4/amt/man/bootstrap_logrss.Rd | 4 amt-0.1.4/amt/man/check_factors.Rd |only amt-0.1.4/amt/man/fit_ctmm.Rd | 4 amt-0.1.4/amt/man/hr.Rd | 3 amt-0.1.4/amt/man/hr_overlap_feature.Rd |only amt-0.1.4/amt/man/hr_overlaps.Rd | 23 +- amt-0.1.4/amt/man/log_rss.Rd | 3 amt-0.1.4/amt/man/site_fidelity.Rd | 7 amt-0.1.4/amt/man/summarize_sampling_rate.Rd | 8 amt-0.1.4/amt/vignettes/p1_getting_started.Rmd | 7 amt-0.1.4/amt/vignettes/p2_hr.Rmd |only amt-0.1.4/amt/vignettes/p3_rsf.Rmd | 1 amt-0.1.4/amt/vignettes/p4_SSF.Rmd | 32 --- 60 files changed, 1201 insertions(+), 614 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-12-18 0.2.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-10-02 1.0.7
2020-09-21 1.0.6
2019-11-25 1.0.3
Title: Markov Models for Health Economic Evaluations
Description: An implementation of the modelling and reporting features described
in reference textbook and guidelines (Briggs, Andrew, et al. Decision
Modelling for Health Economic Evaluation. Oxford Univ. Press, 2011;
Siebert, U. et al. State-Transition Modeling. Medical Decision Making
32, 690-700 (2012).): deterministic and probabilistic sensitivity analysis,
heterogeneity analysis, time dependency on state-time and model-time
(semi-Markov and non-homogeneous Markov models), etc.
Author: Kevin Zarca [aut, cre],
Antoine Filipovic-Pierucci [aut],
Matthew Wiener [ctb],
Zdenek Kabat [ctb],
Vojtech Filipec [ctb],
Jordan Amdahl [ctb],
Yonatan Carranza Alarcon [ctb],
Vince Daniels [ctb]
Maintainer: Kevin Zarca <kevin.zarca@gmail.com>
Diff between heemod versions 0.14.0 dated 2020-12-08 and 0.14.1 dated 2021-01-18
DESCRIPTION | 6 - MD5 | 42 ++++++------ NEWS.md | 3 R/tabular_input.R | 10 ++ README.md | 4 - inst/doc/a_introduction.html | 4 - inst/doc/b_time_dependency.html | 4 - inst/doc/c_homogeneous.Rmd | 2 inst/doc/c_homogeneous.html | 6 - inst/doc/d_non_homogeneous.Rmd | 2 inst/doc/d_non_homogeneous.html | 6 - inst/doc/e_probabilistic.html | 72 ++++++++++----------- inst/doc/f_sensitivity.html | 4 - inst/doc/g_heterogeneity.html | 136 ++++++++++++++++++++-------------------- inst/doc/h_tabular.html | 6 - inst/doc/i_reproduction.Rmd | 2 inst/doc/i_reproduction.html | 6 - inst/doc/j_survival.html | 8 +- inst/doc/k_calibration.html | 4 - vignettes/c_homogeneous.Rmd | 2 vignettes/d_non_homogeneous.Rmd | 2 vignettes/i_reproduction.Rmd | 2 22 files changed, 168 insertions(+), 165 deletions(-)
Title: Extreme Gradient Boosting
Description: Extreme Gradient Boosting, which is an efficient implementation
of the gradient boosting framework from Chen & Guestrin (2016) <doi:10.1145/2939672.2939785>.
This package is its R interface. The package includes efficient linear
model solver and tree learning algorithms. The package can automatically
do parallel computation on a single machine which could be more than 10
times faster than existing gradient boosting packages. It supports
various objective functions, including regression, classification and ranking.
The package is made to be extensible, so that users are also allowed to define
their own objectives easily.
Author: Tianqi Chen [aut],
Tong He [aut, cre],
Michael Benesty [aut],
Vadim Khotilovich [aut],
Yuan Tang [aut] (<https://orcid.org/0000-0001-5243-233X>),
Hyunsu Cho [aut],
Kailong Chen [aut],
Rory Mitchell [aut],
Ignacio Cano [aut],
Tianyi Zhou [aut],
Mu Li [aut],
Junyuan Xie [aut],
Min Lin [aut],
Yifeng Geng [aut],
Yutian Li [aut],
XGBoost contributors [cph] (base XGBoost implementation)
Maintainer: Tong He <hetong007@gmail.com>
Diff between xgboost versions 1.3.1.1 dated 2021-01-05 and 1.3.2.1 dated 2021-01-18
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- inst/doc/discoverYourData.html | 8 ++++---- inst/doc/xgboost.pdf |binary inst/doc/xgboostPresentation.html | 24 ++++++++++++------------ inst/doc/xgboostfromJSON.html | 2 +- src/include/xgboost/base.h | 2 +- src/include/xgboost/version_config.h | 2 +- src/rabit/include/rabit/internal/socket.h | 4 ++++ src/src/gbm/gblinear_model.cc | 4 ---- 10 files changed, 36 insertions(+), 36 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 0.3.6 dated 2020-12-05 and 0.3.7 dated 2021-01-18
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 5 +++++ R/config.R | 8 ++++++-- R/custom_s3.R | 26 +++++++++++++++++++++++++- R/net.R | 10 +++++++--- R/url.R | 6 +++--- 7 files changed, 55 insertions(+), 18 deletions(-)
Title: Highest Density Regions and Conditional Density Estimation
Description: Computation of highest density regions in one and two dimensions, kernel estimation of univariate density functions conditional on one covariate,and multimodal regression.
Author: Rob Hyndman [aut, cre, cph] (<https://orcid.org/0000-0002-2140-5352>),
Jochen Einbeck [aut] (<https://orcid.org/0000-0002-9457-2020>),
Matthew Wand [aut] (<https://orcid.org/0000-0003-2555-896X>),
Simon Carrignon [ctb] (<https://orcid.org/0000-0002-4416-1389>),
Fan Cheng [ctb] (<https://orcid.org/0000-0003-0009-3262>)
Maintainer: Rob Hyndman <Rob.Hyndman@monash.edu>
Diff between hdrcde versions 3.3 dated 2018-12-21 and 3.4 dated 2021-01-18
DESCRIPTION | 26 +++--- MD5 | 62 ++++++++------- NAMESPACE | 4 NEWS.md | 4 R/HDRbw.r | 40 ++++----- R/cde.bandwidths.R | 6 - R/cde.est.R | 12 +- R/hdr.R | 206 ++++++++++++++++++++++++++++++++++---------------- R/hdr.boxplot.2d.R | 27 +++++- R/hdr.conf.R | 18 +--- R/hdrcde-package.R | 8 - R/hdrscatterplot.R | 13 ++- R/modalreg.r | 67 +++++++--------- R/plot.hdr.conf.R | 9 -- R/plotcde.R | 6 - README.md | 9 -- inst/CITATION | 4 man/alpha.Rd |only man/cde.Rd | 36 ++++++-- man/cde.bandwidths.Rd | 25 ++++-- man/hdr.Rd | 87 +++------------------ man/hdr.boxplot.2d.Rd | 55 +++++++++---- man/hdr.boxplot.Rd |only man/hdr.cde.Rd | 22 ++++- man/hdr.den.Rd |only man/hdrbw.Rd | 5 - man/hdrconf.Rd | 10 -- man/hdrscatterplot.Rd | 14 ++- man/lane2.Rd | 7 - man/maxtemp.Rd | 5 - man/modalreg.Rd | 28 ++++-- man/plot.cde.Rd | 16 ++- man/plot.hdrconf.Rd | 9 -- man/shades.Rd |only 34 files changed, 472 insertions(+), 368 deletions(-)
Title: Hierarchical Partitioning for Canonical Analysis
Description: This function calculates the independent contribution of each explanatory variable to explained variation (R-squared) on RDA,CCA and db-RDA, applying the hierarchy algorithm of Chevan, A. and Sutherland, M. 1991 Hierarchical Partitioning.The American Statistician, 90-96 <DOI:10.1080/00031305.1991.10475776>.
Author: Jiangshan Lai,Pedro Peres-neto
Maintainer: Jiangshan Lai <lai@ibcas.ac.cn>
Diff between rdacca.hp versions 0.1.0 dated 2020-12-04 and 0.2.0 dated 2021-01-18
rdacca.hp-0.1.0/rdacca.hp/R/CanonicalFunctions_withResiduals.r |only rdacca.hp-0.2.0/rdacca.hp/DESCRIPTION | 10 ++-- rdacca.hp-0.2.0/rdacca.hp/MD5 | 21 ++++++---- rdacca.hp-0.2.0/rdacca.hp/NAMESPACE | 13 +++++- rdacca.hp-0.2.0/rdacca.hp/R/CanonicalFunctions.r |only rdacca.hp-0.2.0/rdacca.hp/R/GMI.r |only rdacca.hp-0.2.0/rdacca.hp/R/creatbin.r | 5 ++ rdacca.hp-0.2.0/rdacca.hp/R/genList.r | 6 +- rdacca.hp-0.2.0/rdacca.hp/R/globals.r |only rdacca.hp-0.2.0/rdacca.hp/R/rdacca.hp.r | 20 +++++++-- rdacca.hp-0.2.0/rdacca.hp/man/Canonical.Rsq.Rd |only rdacca.hp-0.2.0/rdacca.hp/man/GMI.Rd |only rdacca.hp-0.2.0/rdacca.hp/man/creatbin.Rd |only rdacca.hp-0.2.0/rdacca.hp/man/genList.Rd |only rdacca.hp-0.2.0/rdacca.hp/man/odd.Rd |only rdacca.hp-0.2.0/rdacca.hp/man/rdacca.hp.Rd | 12 +++-- 16 files changed, 62 insertions(+), 25 deletions(-)
Title: Explainable Outlier Detection Through Decision Tree Conditioning
Description: Will try to fit decision trees that try to "predict" values for each column based on the values of each other column.
Along the way, each time a split is evaluated, it will take the observations that fall into each branch as a homogeneous
cluster in which it will search for outliers in the 1-d distribution of the column being predicted. Outliers are determined
according to confidence intervals in this 1-d distribution, and need to have a large gap with respect to the next observation
in sorted order to be flagged as outliers. Since outliers are searched for in a decision tree branch, it will know the conditions
that make it a rare observation compared to others that meet the same conditions, and the conditions will always be correlated
with the target variable (as it's being predicted from them). Full procedure is described in Cortes (2020) <arXiv:2001.00636>.
Loosely based on the 'GritBot' <https://www.rulequest.com/gritbot-info.html> software.
Author: David Cortes
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between outliertree versions 1.3.1 dated 2020-12-11 and 1.3.4 dated 2021-01-18
DESCRIPTION | 8 ++-- MD5 | 34 ++++++++++--------- NAMESPACE | 28 +++++++++------ R/helpers.R | 4 +- R/obj_methods.R | 3 + R/outliertree.R | 49 ++++++++++++++++++++++++++- man/as.list.outlieroutputs.Rd |only man/outlier.tree.Rd | 5 ++ man/predict.outliertree.Rd | 3 + man/print.outlieroutputs.Rd | 2 - man/print.outliertree.Rd | 3 + man/sub-.outlieroutputs.Rd |only man/summary.outliertree.Rd | 3 + src/Makevars | 1 src/RcppExports.cpp | 5 -- src/Rwrapper.cpp | 29 ++++++++++++---- src/fit_model.cpp | 26 ++++++++++++++ src/misc.cpp | 74 ++++++++++++++++++++++++++++++++++++++++++ src/outlier_tree.h | 23 +++++++++++++ 19 files changed, 249 insertions(+), 51 deletions(-)
Title: List Comprehensions
Description: Provides 'Python'-style list comprehensions.
List comprehension expressions use usual loops (for(), while() and repeat()) and
usual if() as list producers. In many cases it gives more concise notation than
standard "*apply + filter" strategy.
Author: Gregory Demin [aut, cre]
Maintainer: Gregory Demin <gdemin@gmail.com>
Diff between comprehenr versions 0.6.8 dated 2020-07-22 and 0.6.9 dated 2021-01-18
DESCRIPTION | 6 ++--- MD5 | 12 +++++----- NEWS | 6 ++++- R/to_list.R | 36 ++++++++++++++++++++++---------- build/vignette.rds |binary inst/doc/Introduction.html | 48 +++++++++++++++++++++++++++++++++++++++++++ inst/tinytest/test_to_list.R | 37 +++++++++++++++++++++++++++++++++ 7 files changed, 124 insertions(+), 21 deletions(-)