Title: Uncorrelated Bets via Minimum Torsion Algorithm
Description: Implements Minimum Torsion for portfolio diversification as
described in Meucci, Attilio (2013) <doi:10.2139/ssrn.2276632>.
Author: Bernardo Reckziegel [aut, cre]
Maintainer: Bernardo Reckziegel <bernardo_cse@hotmail.com>
Diff between uncorbets versions 0.1.1 dated 2021-09-24 and 0.1.2 dated 2024-02-19
DESCRIPTION | 17 +++++++------ LICENSE | 2 - MD5 | 12 ++++----- NEWS.md | 28 +++++++++++++--------- R/utils.R | 2 - README.md | 72 ++++++++++++++++++++++++++++++++++++----------------------- man/sqrtm.Rd | 2 - 7 files changed, 79 insertions(+), 56 deletions(-)
Title: Utilities for the Open Geospatial Consortium 'GeoPackage' Format
Description: Build Open Geospatial Consortium 'GeoPackage' files (<https://www.geopackage.org/>). 'GDAL' utilities for reading and writing spatial data are provided by the 'terra' package. Additional 'GeoPackage' and 'SQLite' features for attributes and tabular data are implemented with the 'RSQLite' package.
Author: Andrew Brown [aut, cre]
Maintainer: Andrew Brown <brown.andrewg@gmail.com>
Diff between gpkg versions 0.0.7 dated 2023-11-21 and 0.0.8 dated 2024-02-19
DESCRIPTION | 10 ++++++---- MD5 | 21 ++++++++++++++------- NAMESPACE | 1 + NEWS.md | 11 +++++++++++ R/gpkg-io.R | 6 +++++- R/gpkg-util.R | 9 ++++++++- R/gpkg-view.R |only R/gpkg_bbox.R | 6 +++--- build |only inst/doc |only man/gpkg_bbox.Rd | 2 +- man/gpkg_create_spatial_view.Rd |only vignettes |only 13 files changed, 49 insertions(+), 17 deletions(-)
Title: Design Experiments for Batches
Description: Distributes samples in batches while making batches
homogeneous according to their description. Allows for an arbitrary
number of variables, both numeric and categorical. For quality control
it provides functions to subset a representative sample.
Author: Lluis Revilla Sancho [aut, cre]
,
Juanjo Lozano [ths] ,
Azucena Salas Martinez [ths]
Maintainer: Lluis Revilla Sancho <lluis.revilla@gmail.com>
Diff between experDesign versions 0.2.0 dated 2023-04-05 and 0.3.0 dated 2024-02-19
DESCRIPTION | 8 MD5 | 40 +-- NEWS.md | 8 R/designer.R | 2 R/evaluate.R | 244 +++++++++++------------ R/experDesign-package.R | 37 ++- R/follow_up.R | 2 R/indexing.R | 389 +++++++++++++++++++++---------------- R/optimum.R | 2 R/reporting.R | 144 ++++++------- R/spatial.R | 31 +- R/utils.R | 34 ++- build/vignette.rds |binary inst/doc/experdesign.html | 167 +++++++-------- man/experDesign-package.Rd | 17 + tests/testthat/test-batch_names.R | 30 +- tests/testthat/test-distribution.R | 22 +- tests/testthat/test-indexing.R | 85 +++++++- tests/testthat/test-inspect.R | 72 +++--- tests/testthat/test-replicates.R | 28 +- tests/testthat/test-spatial.R | 68 +++--- 21 files changed, 822 insertions(+), 608 deletions(-)
Title: Package to Calculate the Influence of the Data on a Changepoint
Segmentation
Description: Allows users to input their data, segmentation and function used for the segmentation (and additional arguments) and the package calculates the influence of the data on the changepoint locations, see Wilms et al. (2022) <doi:10.1080/10618600.2021.2000873>. Currently this can only be used with the changepoint package functions to identify changes, but we plan to extend this. There are options for different types of graphics to assess the influence.
Author: Rebecca Killick [aut, cre],
Ines Wilms [aut]
Maintainer: Rebecca Killick <r.killick@lancs.ac.uk>
Diff between changepoint.influence versions 1.0.1 dated 2021-08-04 and 1.0.2 dated 2024-02-19
DESCRIPTION | 12 ++++++------ MD5 | 20 ++++++++++---------- NEWS | 18 +++++++++++++----- R/influence.cpt.R | 2 +- build/partial.rdb |binary man/InfluenceMap.Rd | 6 +++--- man/LocationStability.Rd | 4 ++-- man/ParameterStability.Rd | 4 ++-- man/StabilityOverview.Rd | 4 ++-- man/changepoint.influence-package.Rd | 5 +++-- man/influence-methods.Rd | 1 - 11 files changed, 42 insertions(+), 34 deletions(-)
More information about changepoint.influence at CRAN
Permanent link
Title: 'Toggl.com' Api for 'Rstudio'
Description: Use the <https://toggl.com> time tracker api through R.
Author: Vincent Guyader [aut, cre],
ThinkR [cph, fnd]
Maintainer: Vincent Guyader <vincent@thinkr.fr>
Diff between togglr versions 0.2 dated 2024-02-15 and 0.2.1 dated 2024-02-19
DESCRIPTION | 6 - MD5 | 42 +++++----- NAMESPACE | 178 ++++++++++++++++++++++---------------------- NEWS.md | 4 R/Get_time_entries.R | 39 ++++++--- R/client.R | 20 ++-- R/get.R | 9 +- R/get_dashboard.R | 32 +++---- R/get_project.R | 70 +++++++++++------ R/get_workspace.R | 9 -- R/get_workspace_users.R | 9 -- R/globals.R | 2 R/put.R | 116 ++++++++++++++++++---------- R/put_project.R | 156 +++++++++++++++++++++----------------- R/put_update_time_entries.R | 27 +++--- inst/doc/togglr.html | 4 man/get_all_client_info.Rd | 7 + man/get_client_project.Rd | 8 + man/toggl_create.Rd | 5 - man/toggl_start.Rd | 2 man/toggl_stop.Rd | 8 + man/toggl_update_entries.Rd | 10 +- 22 files changed, 438 insertions(+), 325 deletions(-)
Title: Retrieve Historical Data of Companies Listed on the 'Euronext'
Stock Exchange
Description: Provides seamless access to historical data of companies listed on the 'Euronext' Stock Exchange (<https://live.euronext.com/en>), enabling users to retrieve real-time information directly within the R environment. With functions tailored for data retrieval and manipulation, users can effortlessly access a wide range of financial data, including stock prices, trading volumes, and more. Leveraging the power of R, this package facilitates efficient analysis and visualization of stock market trends, aiding investors, analysts, and researchers in making informed decisions. By combining ease of use with comprehensive data access, 'Euronext' empowers R users to delve deep into the dynamics of European financial markets, offering valuable insights for various financial applications.
Author: Sessie Koffi Frederic [aut, cre, cph]
Maintainer: Sessie Koffi Frederic <koffisessie@gmail.com>
Diff between Euronext versions 2.0.1 dated 2024-02-17 and 2.0.2 dated 2024-02-19
DESCRIPTION | 8 MD5 | 48 - NAMESPACE | 12 R/00_global_variables.R | 3 R/EN_Etfs_List_bis.R | 4 R/EN_GetProfile.R | 4 R/EN_Get_OB.R | 84 ++ R/EN_OrderBook.Chart.R |only R/EN_Performers.Settings.R |only R/EN_Stock.Performers.R | 207 +++--- README.md | 1287 ++++++++++++++++++++++++------------------ man/EN_Etfs_List_bis.Rd | 4 man/EN_Get_News.Rd | 1 man/EN_Get_OB.Rd | 21 man/EN_HistData.Rd | 3 man/EN_HistData_bis.Rd | 2 man/EN_OrderBook.Chart.Rd |only man/EN_Overview_plot.Rd | 3 man/EN_P_Ticker_adn.Rd | 1 man/EN_Performers.Settings.Rd |only man/EN_Stock.Performers.Rd | 18 man/EN_Ticker_Performance.Rd | 2 man/EN_Ticker_hcData.Rd | 2 man/EN_Ticker_infos.Rd | 2 man/EN_intraday_Data.Rd | 2 man/EN_plot.Rd | 3 man/En_Market.Sumarry.Rd | 1 27 files changed, 1038 insertions(+), 684 deletions(-)
Title: Call R from R
Description: It is sometimes useful to perform a computation in a separate
R process, without affecting the current R process at all. This
packages does exactly that.
Author: Gabor Csardi [aut, cre, cph] ,
Winston Chang [aut],
Posit Software, PBC [cph, fnd],
Ascent Digital Services [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between callr versions 3.7.4 dated 2024-02-19 and 3.7.5 dated 2024-02-19
DESCRIPTION | 10 +++++----- LICENSE | 4 ++-- MD5 | 7 ++++--- NEWS.md | 4 ++++ inst/COPYRIGHTS |only 5 files changed, 15 insertions(+), 10 deletions(-)
Title: Utilities to Output CDISC SDTM/ADaM XPT Files
Description: Tools to build CDISC compliant data sets and check for CDISC compliance.
Author: Eli Miller [aut, cre] ,
Vignesh Thanikachalam [aut],
Ben Straub [aut],
Ross Didenko [aut],
Zelos Zhu [aut],
Ethan Brockmann [aut],
Vedha Viyash [aut],
Andre Verissimo [aut],
Sophie Shapcott [aut],
Celine Piraux [aut],
Adrian Chan [aut],
Sadchla Masca [...truncated...]
Maintainer: Eli Miller <Eli.Miller@AtorusResearch.com>
Diff between xportr versions 0.3.1 dated 2023-09-14 and 0.3.2 dated 2024-02-19
DESCRIPTION | 10 - MD5 | 20 +- NAMESPACE | 2 NEWS.md | 8 R/df_label.R | 2 R/xportr-package.R | 4 inst/doc/deepdive.html | 360 ++++++++++++++++++++--------------------- inst/doc/xportr.html | 194 +++++++++++----------- man/xportr-package.Rd | 2 man/xportr_df_label.Rd | 2 tests/testthat/test-df_label.R | 35 --- 11 files changed, 306 insertions(+), 333 deletions(-)
Title: Analyzes Real-World Treatment Patterns of a Study Population of
Interest
Description: Computes treatment patterns within a given cohort using the Observational
Medical Outcomes Partnership (OMOP) common data model (CDM). As described
in Markus, Verhamme, Kors, and Rijnbeek (2022) <doi:10.1016/j.cmpb.2022.107081>.
Author: Aniek Markus [aut] ,
Maarten van Kessel [cre]
Maintainer: Maarten van Kessel <m.l.vankessel@erasmusmc.nl>
Diff between TreatmentPatterns versions 2.6.4 dated 2024-01-26 and 2.6.5 dated 2024-02-19
DESCRIPTION | 11 - MD5 | 29 +- NAMESPACE | 3 NEWS.md | 10 R/R6-CDMInterface.R | 5 R/R6-PathwayConstructor.R | 26 ++ R/TreatmentPatterns-package.R | 3 R/constructPathways.R | 5 R/export.R | 3 inst/WORDLIST | 5 inst/doc/DefiningCohorts.html | 16 - tests/testthat/test-CDMInterface.R |only tests/testthat/test-PathwayConstructor.R | 52 ++++ tests/testthat/test-computePathways.R | 152 +++++++++++++- tests/testthat/test-pathwaysLogical.R | 328 +++++++++++++++++++++++++------ vignettes/articles/PareReport.Rmd | 4 16 files changed, 539 insertions(+), 113 deletions(-)
More information about TreatmentPatterns at CRAN
Permanent link
Title: Dynamic Survey Sampling Solutions
Description: A robust solution employing both systematic and PPS
(Probability Proportional to Size) sampling methods, ensuring a
methodical and representative selection of data. Seamlessly allocate
predetermined allocations to smaller levels. Kish, L. (1965)
<https://books.google.co.id/books?id=xiZmAAAAIAAJ>.
Author: Choerul Afifanto [aut, cre, cph]
Maintainer: Choerul Afifanto <choerulafifanto@gmail.com>
Diff between samplingin versions 1.0.4 dated 2023-12-15 and 1.0.5 dated 2024-02-19
DESCRIPTION | 6 +-- MD5 | 10 +++--- NEWS.md | 52 ++++++++++++++++++++++++++++--- R/global.R | 2 - R/samplingin.R | 90 ++++++++++++++++++++++++++++++++++++++++++------------ man/doSampling.Rd | 29 +++++++++++++++++ 6 files changed, 157 insertions(+), 32 deletions(-)
Title: In-Text Resizer for Images, Tables and Fancy Resizable
Containers in 'shiny', 'rmarkdown' and 'quarto' Documents
Description: Automatic resizing toolbar for containers, images and tables. Various resizable or expandable container functionalities are also included. Most suitable to include in 'shiny', 'markdown' and 'quarto' documents.
Author: Obinna Obianom [aut, cre]
Maintainer: Obinna Obianom <idonshayo@gmail.com>
Diff between r2resize versions 1.8 dated 2023-08-27 and 1.9 dated 2024-02-19
r2resize-1.8/r2resize/inst/examples/sample1.html |only r2resize-1.9/r2resize/DESCRIPTION | 14 ++--- r2resize-1.9/r2resize/MD5 | 27 +++++----- r2resize-1.9/r2resize/NAMESPACE | 2 r2resize-1.9/r2resize/NEWS.md | 7 ++ r2resize-1.9/r2resize/R/addJquery.R |only r2resize-1.9/r2resize/R/markdownResizer.R | 6 +- r2resize-1.9/r2resize/R/novoImageResizer.R |only r2resize-1.9/r2resize/README.md | 4 + r2resize-1.9/r2resize/inst/doc/example_frequently_asked_r2resize.html | 4 - r2resize-1.9/r2resize/inst/doc/introduction_r2resize.html | 6 +- r2resize-1.9/r2resize/inst/doc/resizable_containers_split_screen_r2resize.html | 4 - r2resize-1.9/r2resize/inst/examples/sample1.Rmd | 5 + r2resize-1.9/r2resize/inst/themes/default.css | 2 r2resize-1.9/r2resize/inst/themes/imgviewer.css |only r2resize-1.9/r2resize/inst/themes/imgviewer.js |only r2resize-1.9/r2resize/man/add.JQuery.Rd |only r2resize-1.9/r2resize/man/shinyExpandImage.Rd |only 18 files changed, 50 insertions(+), 31 deletions(-)
Title: Markov Chain Gaussian Fields Simulation and Parameter Estimation
Description: Simulating and estimating (regime-switching) Markov chain Gaussian
fields with covariance functions of the Gneiting class. It supports
parameter estimation by weighted least squares and maximum likelihood
methods, and produces Kriging forecasts and intervals (Cressie 1993)
<doi:10.1002/9781119115151>.
Author: Tianxia Jia [aut, cre, cph]
Maintainer: Tianxia Jia <tianxia.jia@ucalgary.ca>
Diff between mcgf versions 1.0.0 dated 2023-10-31 and 1.0.1 dated 2024-02-19
DESCRIPTION | 9 +++---- MD5 | 42 ++++++++++++++++----------------- NEWS.md | 42 +++++++++++++++++++++++++++++---- R/add_lagr.R | 12 ++++----- R/ccfs.R | 2 - R/check.R | 62 +++++++++++++++++++++++++++---------------------- R/cor_stat.R | 2 - R/find_dists.R | 6 ++-- R/fit_lagr.R | 6 ++-- R/mcgf_rs.R | 1 R/mcgf_sim.R | 2 - README.md | 2 + build/vignette.rds |binary inst/doc/mcgf.html | 2 - man/check_dist.Rd | 6 +++- man/check_dist_sign.Rd | 6 +++- man/check_length.Rd | 2 - man/check_length_ls.Rd | 2 - man/cor_stat.Rd | 2 - man/dot-cor_stat.Rd | 2 - man/find_dists.Rd | 4 +-- man/mcgf_sim.Rd | 2 - 22 files changed, 133 insertions(+), 83 deletions(-)
Title: Latent Position and Cluster Models for Statistical Networks
Description: Fit and simulate latent position and cluster models for statistical networks. See Krivitsky and Handcock (2008) <doi:10.18637/jss.v024.i05> and Krivitsky, Handcock, Raftery, and Hoff (2009) <doi:10.1016/j.socnet.2009.04.001>.
Author: Pavel N. Krivitsky [aut, cre] ,
Mark S. Handcock [aut],
Susan M. Shortreed [ctb],
Jeremy Tantrum [ctb],
Peter D. Hoff [ctb],
Li Wang [ctb],
Kirk Li [ctb],
Jake Fisher [ctb],
Jordan T. Bates [ctb]
Maintainer: Pavel N. Krivitsky <pavel@statnet.org>
Diff between latentnet versions 2.10.6 dated 2022-05-11 and 2.11.0 dated 2024-02-19
latentnet-2.10.6/latentnet/build/partial.rdb |only latentnet-2.10.6/latentnet/man/ergmm-terms.Rd |only latentnet-2.11.0/latentnet/DESCRIPTION | 13 latentnet-2.11.0/latentnet/LICENSE | 2 latentnet-2.11.0/latentnet/MD5 | 196 ++-- latentnet-2.11.0/latentnet/NAMESPACE | 16 latentnet-2.11.0/latentnet/NEWS | 488 +++++----- latentnet-2.11.0/latentnet/R/InitErgmm.fixed.R | 314 ++++++ latentnet-2.11.0/latentnet/R/InitErgmm.latent.R | 90 + latentnet-2.11.0/latentnet/R/InitErgmm.random.R | 69 + latentnet-2.11.0/latentnet/R/P.alloc.R | 2 latentnet-2.11.0/latentnet/R/bayesmbc.MCMC.C.R | 2 latentnet-2.11.0/latentnet/R/bayesmbc.R | 2 latentnet-2.11.0/latentnet/R/ergmm.MCMC.C.R | 2 latentnet-2.11.0/latentnet/R/ergmm.R | 81 + latentnet-2.11.0/latentnet/R/ergmm.defaults.R | 6 latentnet-2.11.0/latentnet/R/ergmm.draw.utils.R | 2 latentnet-2.11.0/latentnet/R/ergmm.families.R | 2 latentnet-2.11.0/latentnet/R/ergmm.geodesicmatrix.R | 2 latentnet-2.11.0/latentnet/R/ergmm.get.model.R | 18 latentnet-2.11.0/latentnet/R/ergmm.initvals.R | 2 latentnet-2.11.0/latentnet/R/ergmm.latent.effects.R | 2 latentnet-2.11.0/latentnet/R/ergmm.par.R | 10 latentnet-2.11.0/latentnet/R/ergmm.permutation.R | 2 latentnet-2.11.0/latentnet/R/ergmm.probs.R | 2 latentnet-2.11.0/latentnet/R/ergmm.statseval.R | 2 latentnet-2.11.0/latentnet/R/ergmm.tuner.R | 2 latentnet-2.11.0/latentnet/R/gof.ergmm.R | 2 latentnet-2.11.0/latentnet/R/label.switching.R | 2 latentnet-2.11.0/latentnet/R/latent.R | 2 latentnet-2.11.0/latentnet/R/latentnet-package.R | 447 --------- latentnet-2.11.0/latentnet/R/mcmc.diagnostics.ergmm.R | 2 latentnet-2.11.0/latentnet/R/merge.ergmm.R | 2 latentnet-2.11.0/latentnet/R/plot.ergmm.R | 2 latentnet-2.11.0/latentnet/R/predict.ergmm.R | 2 latentnet-2.11.0/latentnet/R/print.ergmm.R | 2 latentnet-2.11.0/latentnet/R/print.ergmm.model.R | 2 latentnet-2.11.0/latentnet/R/procrustes.R | 2 latentnet-2.11.0/latentnet/R/simulate.ergmm.R | 6 latentnet-2.11.0/latentnet/R/summary.ergmm.R | 2 latentnet-2.11.0/latentnet/R/utilities.R | 2 latentnet-2.11.0/latentnet/R/zzz.R | 10 latentnet-2.11.0/latentnet/build/latentnet.pdf |only latentnet-2.11.0/latentnet/build/stage23.rdb |only latentnet-2.11.0/latentnet/data/davis.RData |binary latentnet-2.11.0/latentnet/inst/CITATION | 6 latentnet-2.11.0/latentnet/man/Intercept-ergmTerm-49126971.Rd |only latentnet-2.11.0/latentnet/man/bilinear-ergmTerm-3e739bd7.Rd |only latentnet-2.11.0/latentnet/man/davis.Rd | 10 latentnet-2.11.0/latentnet/man/ergmm-class.Rd | 68 - latentnet-2.11.0/latentnet/man/ergmm-families.Rd | 40 latentnet-2.11.0/latentnet/man/ergmm.Rd | 76 + latentnet-2.11.0/latentnet/man/ergmm.par.list.Rd | 76 - latentnet-2.11.0/latentnet/man/ergmm.prior.Rd | 4 latentnet-2.11.0/latentnet/man/euclidean-ergmTerm-6ab46c25.Rd |only latentnet-2.11.0/latentnet/man/euclidean2-ergmTerm-939e9c32.Rd |only latentnet-2.11.0/latentnet/man/latentcov-ergmTerm-fba43306.Rd |only latentnet-2.11.0/latentnet/man/latentnet-package.Rd | 52 - latentnet-2.11.0/latentnet/man/loopcov-ergmTerm-bbc2e00a.Rd |only latentnet-2.11.0/latentnet/man/loopfactor-ergmTerm-19d02eff.Rd |only latentnet-2.11.0/latentnet/man/loops-ergmTerm-968722e8.Rd |only latentnet-2.11.0/latentnet/man/plot.ergmm.Rd | 34 latentnet-2.11.0/latentnet/man/receivercov-ergmTerm-ea158ece.Rd |only latentnet-2.11.0/latentnet/man/rreceiver-ergmTerm-abdcadad.Rd |only latentnet-2.11.0/latentnet/man/rsender-ergmTerm-b342610b.Rd |only latentnet-2.11.0/latentnet/man/rsociality-ergmTerm-7ae668b9.Rd |only latentnet-2.11.0/latentnet/man/sendercov-ergmTerm-a7b5c66c.Rd |only latentnet-2.11.0/latentnet/man/simulate.ergmm.Rd | 4 latentnet-2.11.0/latentnet/man/socialitycov-ergmTerm-339101cf.Rd |only latentnet-2.11.0/latentnet/man/summary.ergmm.Rd | 12 latentnet-2.11.0/latentnet/man/tribes.Rd | 28 latentnet-2.11.0/latentnet/src/P_alloc.c | 8 latentnet-2.11.0/latentnet/src/P_alloc.h | 6 latentnet-2.11.0/latentnet/src/ergmm_families.c | 2 latentnet-2.11.0/latentnet/src/ergmm_families.h | 2 latentnet-2.11.0/latentnet/src/ergmm_latent_effects.c | 2 latentnet-2.11.0/latentnet/src/ergmm_latent_effects.h | 2 latentnet-2.11.0/latentnet/src/ergmm_probs.c | 2 latentnet-2.11.0/latentnet/src/ergmm_probs.h | 2 latentnet-2.11.0/latentnet/src/ergmm_sampler.c | 2 latentnet-2.11.0/latentnet/src/ergmm_sampler.h | 2 latentnet-2.11.0/latentnet/src/ergmm_structs.h | 2 latentnet-2.11.0/latentnet/src/ergmm_updaters.c | 2 latentnet-2.11.0/latentnet/src/ergmm_updaters.h | 2 latentnet-2.11.0/latentnet/src/ergmm_utils.c | 2 latentnet-2.11.0/latentnet/src/ergmm_utils.h | 2 latentnet-2.11.0/latentnet/src/init.c | 4 latentnet-2.11.0/latentnet/src/kl_switch.c | 2 latentnet-2.11.0/latentnet/src/kl_switch.h | 2 latentnet-2.11.0/latentnet/src/matrix_utils.c | 2 latentnet-2.11.0/latentnet/src/matrix_utils.h | 2 latentnet-2.11.0/latentnet/src/mbc_sampler.c | 2 latentnet-2.11.0/latentnet/src/mbc_sampler.h | 2 latentnet-2.11.0/latentnet/src/mvnorm.c | 2 latentnet-2.11.0/latentnet/src/mvnorm.h | 2 latentnet-2.11.0/latentnet/src/post_predict.c | 2 latentnet-2.11.0/latentnet/src/post_predict.h | 2 latentnet-2.11.0/latentnet/src/procrustes.c | 2 latentnet-2.11.0/latentnet/src/procrustes.h | 2 latentnet-2.11.0/latentnet/src/wishart.c | 2 latentnet-2.11.0/latentnet/src/wishart.h | 2 latentnet-2.11.0/latentnet/tests/missing.R | 2 latentnet-2.11.0/latentnet/tests/nofixed.R | 2 latentnet-2.11.0/latentnet/tests/nolatent.R | 2 latentnet-2.11.0/latentnet/tests/nomcmc.R | 2 latentnet-2.11.0/latentnet/tests/nomixing.R | 2 latentnet-2.11.0/latentnet/tests/normal.R | 2 latentnet-2.11.0/latentnet/tests/onlymcmc.R | 2 108 files changed, 1212 insertions(+), 1100 deletions(-)
Title: Genealogical Data Analysis
Description: Genealogical data analysis including descriptive statistics (e.g., kinship and inbreeding coefficients) and gene-dropping simulations. See: "GENLIB: an R package for the analysis of genealogical data" Gauvin et al. (2015) <doi:10.1186/s12859-015-0581-5>.
Author: Louis Houde [aut],
Jean-Francois Lefebvre [aut],
Valery Roy-Lagace [aut],
Sebastien Lemieux [aut],
Michael J. Fromberger [ctb],
Jarno van der Kolk [ctb],
Mohan Rakesh [ctb],
Marie-Helene Roy-Gagnon [cre]
Maintainer: Marie-Helene Roy-Gagnon <r.genlib@gmail.com>
Diff between GENLIB versions 1.1.9 dated 2023-01-17 and 1.1.10 dated 2024-02-19
GENLIB-1.1.10/GENLIB/DESCRIPTION | 12 ++++++------ GENLIB-1.1.10/GENLIB/MD5 | 10 ++++------ GENLIB-1.1.10/GENLIB/man/GLgen-class.Rd | 4 ++-- GENLIB-1.1.10/GENLIB/src/Makevars | 1 - GENLIB-1.1.10/GENLIB/src/Makevars.win | 2 +- GENLIB-1.1.9/GENLIB/R/genlibDLL.R |only GENLIB-1.1.9/GENLIB/man/GenlibR-package.Rd |only 7 files changed, 13 insertions(+), 16 deletions(-)
Title: Segmentation and Classification of Accelerometer Data
Description: Segmentation and classification procedures for data from the 'Activinsights GENEActiv' <https://activinsights.com/technology/geneactiv/> accelerometer that provides the user with a model to guess behaviour from test data where behaviour is missing.
Includes a step counting algorithm, a function to create segmented data with custom features and a function to use recursive partitioning provided in the function rpart() of the 'rpart' package to create classification models.
Author: Chris Campbell [aut],
Aimee Gott [aut],
Joss Langford [aut],
Charles Sweetland [aut],
Penny Sweetland [aut],
Jia Ying Chua [aut, cre],
Activinsights Ltd [cph]
Maintainer: Jia Ying Chua <jiayingc@activinsights.com>
Diff between GENEAclassify versions 1.5.4 dated 2023-03-22 and 1.5.5 dated 2024-02-19
DESCRIPTION | 16 MD5 | 31 - build/vignette.rds |binary inst/doc/GENEAclassifyDemo.R | 14 inst/doc/GENEAclassifyDemo.html | 971 +++++++++++++++++++++++----------- inst/doc/GENEAclassifyDemo.rmd | 2 inst/vignettes/GENEAclassifyDemo.html | 817 ++++++++++++++++++---------- inst/vignettes/GENEAclassifyDemo.rmd | 2 man/CirDisp.Rd | 2 man/CirKurt.Rd | 3 man/CirSD.Rd | 2 man/CirSkew.Rd | 2 man/CirVar.Rd | 2 man/MeanDir.Rd | 2 man/figures |only man/impact.Rd | 2 vignettes/GENEAclassifyDemo.rmd | 2 17 files changed, 1229 insertions(+), 641 deletions(-)
Title: Test Analysis Modules
Description: Includes marginal maximum likelihood estimation and joint maximum
likelihood estimation for unidimensional and multidimensional
item response models. The package functionality covers the
Rasch model, 2PL model, 3PL model, generalized partial credit model,
multi-faceted Rasch model, nominal item response model,
structured latent class model, mixture distribution IRT models,
and located latent class models. Latent regression models and
plausible value imputation are also supported. For details see
Adams, Wilson and Wang, 1997 <doi:10.1177/0146621697211001>,
Adams, Wilson and Wu, 1997 <doi:10.3102/10769986022001047>,
Formann, 1982 <doi:10.1002/bimj.4710240209>,
Formann, 1992 <doi:10.1080/01621459.1992.10475229>.
Author: Alexander Robitzsch [aut,cre] ,
Thomas Kiefer [aut],
Margaret Wu [aut]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between TAM versions 4.1-4 dated 2022-08-28 and 4.2-21 dated 2024-02-19
TAM-4.1-4/TAM/R/IRT.modelfit.tam.R |only TAM-4.2-21/TAM/DESCRIPTION | 10 +- TAM-4.2-21/TAM/MD5 | 112 +++++++++++------------ TAM-4.2-21/TAM/NAMESPACE | 1 TAM-4.2-21/TAM/R/IRT.itemfit.R | 14 +- TAM-4.2-21/TAM/R/IRT_modelfit_TAM.R |only TAM-4.2-21/TAM/R/RcppExports.R | 2 TAM-4.2-21/TAM/R/designMatrices_aux.R | 6 - TAM-4.2-21/TAM/R/tam.fa.R | 6 - TAM-4.2-21/TAM/R/tam.latreg.R | 8 + TAM-4.2-21/TAM/R/tam.mml.R | 7 - TAM-4.2-21/TAM/R/tam.mml.wle2.R | 51 +++++++--- TAM-4.2-21/TAM/R/tam_calc_posterior.R | 13 +- TAM-4.2-21/TAM/R/tam_mml_person_posterior.R | 17 +++ TAM-4.2-21/TAM/R/tam_rbind_twomatrices.R | 5 - TAM-4.2-21/TAM/R/tampv2datalist.R | 12 +- TAM-4.2-21/TAM/README.md | 12 +- TAM-4.2-21/TAM/build/partial.rdb |binary TAM-4.2-21/TAM/data/data.cqc01.rda |binary TAM-4.2-21/TAM/data/data.cqc02.rda |binary TAM-4.2-21/TAM/data/data.cqc03.rda |binary TAM-4.2-21/TAM/data/data.cqc04.rda |binary TAM-4.2-21/TAM/data/data.cqc05.rda |binary TAM-4.2-21/TAM/data/data.ctest1.rda |binary TAM-4.2-21/TAM/data/data.ctest2.rda |binary TAM-4.2-21/TAM/data/data.ex08.rda |binary TAM-4.2-21/TAM/data/data.ex10.rda |binary TAM-4.2-21/TAM/data/data.ex11.rda |binary TAM-4.2-21/TAM/data/data.ex12.rda |binary TAM-4.2-21/TAM/data/data.ex14.rda |binary TAM-4.2-21/TAM/data/data.ex15.rda |binary TAM-4.2-21/TAM/data/data.ex16.rda |binary TAM-4.2-21/TAM/data/data.ex17.rda |binary TAM-4.2-21/TAM/data/data.exJ03.rda |binary TAM-4.2-21/TAM/data/data.fims.Aus.Jpn.raw.rda |binary TAM-4.2-21/TAM/data/data.fims.Aus.Jpn.scored.rda |binary TAM-4.2-21/TAM/data/data.geiser.rda |binary TAM-4.2-21/TAM/data/data.gpcm.rda |binary TAM-4.2-21/TAM/data/data.janssen.rda |binary TAM-4.2-21/TAM/data/data.janssen2.rda |binary TAM-4.2-21/TAM/data/data.mc.rda |binary TAM-4.2-21/TAM/data/data.numeracy.rda |binary TAM-4.2-21/TAM/data/data.sim.facets.rda |binary TAM-4.2-21/TAM/data/data.sim.mfr.rda |binary TAM-4.2-21/TAM/data/data.sim.rasch.missing.rda |binary TAM-4.2-21/TAM/data/data.sim.rasch.pweights.rda |binary TAM-4.2-21/TAM/data/data.sim.rasch.rda |binary TAM-4.2-21/TAM/data/data.timssAusTwn.rda |binary TAM-4.2-21/TAM/data/data.timssAusTwn.scored.rda |binary TAM-4.2-21/TAM/inst/CITATION | 5 - TAM-4.2-21/TAM/inst/NEWS | 19 +++ TAM-4.2-21/TAM/man/designMatrices.Rd | 10 +- TAM-4.2-21/TAM/man/tam.latreg.Rd | 5 - TAM-4.2-21/TAM/man/tam.mml.Rd | 4 TAM-4.2-21/TAM/man/tam.wle.Rd | 5 - TAM-4.2-21/TAM/src/RcppExports.cpp | 2 TAM-4.2-21/TAM/src/init.c | 2 TAM-4.2-21/TAM/src/tam_rcpp_wle.cpp | 2 58 files changed, 195 insertions(+), 135 deletions(-)
Title: A Comprehensive R Interface for the DSSAT Cropping Systems Model
Description: The purpose of this package is to provide a comprehensive
R interface to the Decision Support System for Agrotechnology
Transfer Cropping Systems Model (DSSAT-CSM; see <https://dssat.net> for more information).
The package provides cross-platform functions to read and
write input files, run DSSAT-CSM, and read output files.
Author: Phillip D. Alderman [aut, cre]
Maintainer: Phillip D. Alderman <phillip.alderman@okstate.edu>
Diff between DSSAT versions 0.0.8 dated 2023-11-08 and 0.0.9 dated 2024-02-19
DESCRIPTION | 8 MD5 | 21 +- NEWS.md | 12 + R/filex_template.R | 10 R/filex_template_harvest_details.R |only R/find_pedon.R | 2 R/missing_columns.R |only R/read_output.R | 2 R/v_fmt_to_type.R |only R/write_filex.R | 6 R/write_wth.R | 2 inst/tinytest/test_read_sol.R | 371 +++++++++++++++++++++++++++++++++++++ inst/tinytest/test_write_filex.R | 225 ++++++++++++++++++++++ 13 files changed, 643 insertions(+), 16 deletions(-)
Title: L-Moments, Censored L-Moments, Trimmed L-Moments, L-Comoments,
and Many Distributions
Description: Extensive functions for Lmoments (LMs) and probability-weighted moments (PWMs),
distribution parameter estimation, LMs for distributions, LM ratio diagrams, multivariate
Lcomoments, and asymmetric (asy) trimmed LMs (TLMs). Maximum likelihood and
maximum product spacings estimation are available. Right-tail and left-tail LM censoring
by threshold or indicator variable are available. LMs of residual (resid) and reversed
(rev) residual life are implemented along with 13 quantile operators for reliability analyses.
Exact analytical bootstrap estimates of order statistics, LMs, and LM var-covars are available.
Harri-Coble Tau34-squared Normality Test is available. Distributions with L, TL, and added
(+) support for right-tail censoring (RC) encompass: Asy Exponential (Exp) Power [L],
Asy Triangular [L], Cauchy [TL], Eta-Mu [L], Exp. [L], Gamma [L], Generalized (Gen) Exp
Poisson [L], Gen Extreme Value [L], Gen Lambda [L, TL], Gen Logistic [L], Gen Normal [L],
Gen Pareto [L+RC, TL], Govindara [...truncated...]
Author: William Asquith
Maintainer: William Asquith <william.asquith@ttu.edu>
Diff between lmomco versions 2.4.13 dated 2024-01-09 and 2.4.14 dated 2024-02-19
DESCRIPTION | 8 +-- MD5 | 8 +-- NEWS | 13 ++++++ R/xlo2qua.R | 33 ++++++++++++---- man/xlo2qua.Rd | 115 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++- 5 files changed, 160 insertions(+), 17 deletions(-)
Title: Combining Tree-Boosting with Gaussian Process and Mixed Effects
Models
Description: An R package that allows for combining tree-boosting with Gaussian process and mixed effects models. It also allows for independently doing tree-boosting as well as inference and prediction for Gaussian process and mixed effects models. See <https://github.com/fabsig/GPBoost> for more information on the software and Sigrist (2022, JMLR) <https://www.jmlr.org/papers/v23/20-322.html> and Sigrist (2023, TPAMI) <doi:10.1109/TPAMI.2022.3168152> for more information on the methodology.
Author: Fabio Sigrist [aut, cre],
Tim Gyger [aut],
Pascal Kuendig [aut],
Benoit Jacob [cph],
Gael Guennebaud [cph],
Nicolas Carre [cph],
Pierre Zoppitelli [cph],
Gauthier Brun [cph],
Jean Ceccato [cph],
Jitse Niesen [cph],
Other authors of Eigen for the incl [...truncated...]
Maintainer: Fabio Sigrist <fabiosigrist@gmail.com>
Diff between gpboost versions 1.2.8 dated 2024-01-18 and 1.2.9 dated 2024-02-19
gpboost-1.2.8/gpboost/src/include/GPBoost/OptimLib_utils.h |only gpboost-1.2.9/gpboost/DESCRIPTION | 20 gpboost-1.2.9/gpboost/MD5 | 133 gpboost-1.2.9/gpboost/R/GPModel.R | 51 gpboost-1.2.9/gpboost/R/gpb.Dataset.R | 2 gpboost-1.2.9/gpboost/R/gpb.cv.R | 106 gpboost-1.2.9/gpboost/R/gpboost.R | 10 gpboost-1.2.9/gpboost/configure.ac | 2 gpboost-1.2.9/gpboost/man/GPModel.Rd | 11 gpboost-1.2.9/gpboost/man/GPModel_shared_params.Rd | 32 gpboost-1.2.9/gpboost/man/fit.GPModel.Rd | 21 gpboost-1.2.9/gpboost/man/fit.Rd | 21 gpboost-1.2.9/gpboost/man/fitGPModel.Rd | 34 gpboost-1.2.9/gpboost/man/gpb.cv.Rd | 22 gpboost-1.2.9/gpboost/man/gpb.grid.search.tune.parameters.Rd | 9 gpboost-1.2.9/gpboost/man/gpb.train.Rd | 5 gpboost-1.2.9/gpboost/man/gpb_shared_params.Rd | 9 gpboost-1.2.9/gpboost/man/gpboost.Rd | 20 gpboost-1.2.9/gpboost/man/neg_log_likelihood.GPModel.Rd | 4 gpboost-1.2.9/gpboost/man/neg_log_likelihood.Rd | 4 gpboost-1.2.9/gpboost/man/predict.GPModel.Rd | 12 gpboost-1.2.9/gpboost/man/set_optim_params.GPModel.Rd | 17 gpboost-1.2.9/gpboost/man/set_optim_params.Rd | 17 gpboost-1.2.9/gpboost/src/GP_utils.cpp | 54 gpboost-1.2.9/gpboost/src/c_api.cpp | 7 gpboost-1.2.9/gpboost/src/gpboost_R.cpp | 8 gpboost-1.2.9/gpboost/src/gpboost_R.h | 4 gpboost-1.2.9/gpboost/src/include/GPBoost/GP_utils.h | 4 gpboost-1.2.9/gpboost/src/include/GPBoost/Vecchia_utils.h | 9 gpboost-1.2.9/gpboost/src/include/GPBoost/likelihoods.h | 93 gpboost-1.2.9/gpboost/src/include/GPBoost/optim_utils.h |only gpboost-1.2.9/gpboost/src/include/GPBoost/re_comp.h | 2 gpboost-1.2.9/gpboost/src/include/GPBoost/re_model.h | 12 gpboost-1.2.9/gpboost/src/include/GPBoost/re_model_template.h | 1999 ++++-- gpboost-1.2.9/gpboost/src/include/LBFGS.h |only gpboost-1.2.9/gpboost/src/include/LBFGSB.h |only gpboost-1.2.9/gpboost/src/include/LBFGSpp |only gpboost-1.2.9/gpboost/src/include/LICENSE.md |only gpboost-1.2.9/gpboost/src/include/LightGBM/c_api.h | 4 gpboost-1.2.9/gpboost/src/include/LightGBM/config.h | 4 gpboost-1.2.9/gpboost/src/include/LightGBM/fmt/args.h | 13 gpboost-1.2.9/gpboost/src/include/LightGBM/fmt/base.h |only gpboost-1.2.9/gpboost/src/include/LightGBM/fmt/chrono.h | 373 - gpboost-1.2.9/gpboost/src/include/LightGBM/fmt/color.h | 140 gpboost-1.2.9/gpboost/src/include/LightGBM/fmt/compile.h | 23 gpboost-1.2.9/gpboost/src/include/LightGBM/fmt/core.h | 2925 ---------- gpboost-1.2.9/gpboost/src/include/LightGBM/fmt/format-inl.h | 395 + gpboost-1.2.9/gpboost/src/include/LightGBM/fmt/format.h | 1341 ++-- gpboost-1.2.9/gpboost/src/include/LightGBM/fmt/os.h | 63 gpboost-1.2.9/gpboost/src/include/LightGBM/fmt/ostream.h | 78 gpboost-1.2.9/gpboost/src/include/LightGBM/fmt/printf.h | 192 gpboost-1.2.9/gpboost/src/include/LightGBM/fmt/ranges.h | 234 gpboost-1.2.9/gpboost/src/include/LightGBM/fmt/std.h | 254 gpboost-1.2.9/gpboost/src/include/LightGBM/fmt/xchar.h | 141 gpboost-1.2.9/gpboost/src/include/LightGBM/objective_function.h | 2 gpboost-1.2.9/gpboost/src/include/unconstrained/bfgs.hpp | 22 gpboost-1.2.9/gpboost/src/include/unconstrained/nm.hpp | 24 gpboost-1.2.9/gpboost/src/io/config_auto.cpp | 4 gpboost-1.2.9/gpboost/src/objective/objective_function.cpp | 2 gpboost-1.2.9/gpboost/src/objective/regression_objective.hpp | 11 gpboost-1.2.9/gpboost/src/re_model.cpp | 68 gpboost-1.2.9/gpboost/tests/testthat/test_GPModel_combined_GP_random_effects.R | 34 gpboost-1.2.9/gpboost/tests/testthat/test_GPModel_gaussian_process.R | 722 +- gpboost-1.2.9/gpboost/tests/testthat/test_GPModel_grouped_random_effects.R | 1293 ++-- gpboost-1.2.9/gpboost/tests/testthat/test_GPModel_non_Gaussian_data.R | 503 + gpboost-1.2.9/gpboost/tests/testthat/test_z_GPBoost_algorithm.R | 126 gpboost-1.2.9/gpboost/tests/testthat/test_z_GPBoost_algorithm_non_Gaussian_data.R | 411 - 67 files changed, 5403 insertions(+), 6753 deletions(-)
Title: A Wrapper of the JavaScript Library 'DataTables'
Description: Data objects in R can be rendered as HTML tables using the
JavaScript library 'DataTables' (typically via R Markdown or Shiny). The
'DataTables' library has been included in this R package. The package name
'DT' is an abbreviation of 'DataTables'.
Author: Yihui Xie [aut, cre],
Joe Cheng [aut],
Xianying Tan [aut],
JJ Allaire [ctb],
Maximilian Girlich [ctb],
Greg Freedman Ellis [ctb],
Johannes Rauh [ctb],
SpryMedia Limited [ctb, cph] ,
Brian Reavis [ctb, cph] ,
Leon Gersen [ctb, cph] ,
Bartek Szopka [ct [...truncated...]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between DT versions 0.31 dated 2023-12-09 and 0.32 dated 2024-02-19
DESCRIPTION | 8 ++-- MD5 | 18 +++++---- R/datatables.R | 40 +++++++++++++++++--- R/format.R | 17 -------- R/searchbuilder.R |only R/shiny.R | 12 ++++++ inst/doc/DT.html | 75 +++++++++++++++++++++++--------------- inst/htmlwidgets/datatables.js | 67 +++++++++++++++++++++------------ man/datatable.Rd | 38 ++++++++++++++++--- man/replaceData.Rd | 3 + tests/testit/test-searchbuilder.R |only 11 files changed, 185 insertions(+), 93 deletions(-)
Title: Automate Package and Project Setup
Description: Automate package and project setup tasks that are otherwise
performed manually. This includes setting up unit testing, test
coverage, continuous integration, Git, 'GitHub', licenses, 'Rcpp',
'RStudio' projects, and more.
Author: Hadley Wickham [aut] ,
Jennifer Bryan [aut, cre] ,
Malcolm Barrett [aut] ,
Andy Teucher [aut] ,
Posit Software, PBC [cph, fnd]
Maintainer: Jennifer Bryan <jenny@posit.co>
Diff between usethis versions 2.2.2 dated 2023-07-05 and 2.2.3 dated 2024-02-19
DESCRIPTION | 15 ++- MD5 | 66 ++++++++-------- NAMESPACE | 1 NEWS.md | 4 R/course.R | 41 +++++----- R/cran.R | 1 R/documentation.R | 12 +- R/license.R | 2 R/release.R | 9 -- R/upkeep.R | 141 ++++++++++++++++------------------- R/usethis-package.R | 1 R/write.R | 1 README.md | 2 inst/WORDLIST | 2 inst/templates/tidy-support.md | 2 man/licenses.Rd | 2 man/tidyverse.Rd | 2 man/use_course_details.Rd | 30 ++++--- man/use_git_config.Rd | 4 man/use_git_hook.Rd | 4 man/use_git_ignore.Rd | 4 man/use_package_doc.Rd | 12 +- man/write-this.Rd | 2 tests/testthat/_snaps/release.md | 13 +-- tests/testthat/_snaps/ui.md | 10 ++ tests/testthat/_snaps/upkeep.md | 79 ++++++++----------- tests/testthat/helper.R | 5 - tests/testthat/test-cpp11.R | 2 tests/testthat/test-github-actions.R | 12 +- tests/testthat/test-helpers.R | 8 - tests/testthat/test-release.R | 64 ++++----------- tests/testthat/test-ui.R | 13 +++ tests/testthat/test-upkeep.R | 69 ++++++++--------- tests/testthat/test-use_standalone.R | 3 34 files changed, 314 insertions(+), 324 deletions(-)
Title: Bio-Logging Toolbox
Description: An R-shiny application to visualize bio-loggers time series at a microsecond precision as Acceleration, Temperature, Pressure, Light intensity. It is possible to link behavioral labels extracted
from 'BORIS' software <http://www.boris.unito.it> or manually written in a csv file.
Author: Sebastien Geiger [aut, cre]
Maintainer: Sebastien Geiger <sebastien.geiger@iphc.cnrs.fr>
Diff between rblt versions 0.2.4.6 dated 2023-05-11 and 0.2.4.7 dated 2024-02-19
DESCRIPTION | 11 ++++------- MD5 | 12 ++++++------ R/default.R | 52 +++++++++++++++++++++++++++++----------------------- R/logger.R | 32 ++++++++++++++++---------------- R/loggerui.R | 2 +- build/vignette.rds |binary inst/doc/rblt.html | 4 ++-- 7 files changed, 58 insertions(+), 55 deletions(-)
Title: Analysis of Diversity
Description: Functions, data sets and examples for the calculation of various indices of biodiversity including species, functional and phylogenetic diversity. Part of the indices are expressed in terms of equivalent numbers of species. The package also provides ways to partition biodiversity across spatial or temporal scales (alpha, beta, gamma diversities). In addition to the quantification of biodiversity, ordination approaches are available which rely on diversity indices and allow the detailed identification of species, functional or phylogenetic differences between communities.
Author: Sandrine Pavoine
Maintainer: Sandrine Pavoine <sandrine.pavoine@mnhn.fr>
Diff between adiv versions 2.2 dated 2022-10-06 and 2.2.1 dated 2024-02-19
adiv-2.2.1/adiv/DESCRIPTION | 8 ++++---- adiv-2.2.1/adiv/MD5 | 7 ++----- adiv-2.2.1/adiv/build/partial.rdb |binary adiv-2.2/adiv/inst/doc |only adiv-2.2/adiv/vignettes |only 5 files changed, 6 insertions(+), 9 deletions(-)
Title: Lipid Annotation for LC-MS/MS DDA or DIA Data
Description: Lipid annotation in untargeted LC-MS lipidomics based on fragmentation rules. Alcoriza-Balaguer MI, Garcia-Canaveras JC, Lopez A, Conde I, Juan O, Carretero J, Lahoz A (2019) <doi:10.1021/acs.analchem.8b03409>.
Author: M Isabel Alcoriza-Balaguer
Maintainer: M Isabel Alcoriza-Balaguer <maribel_alcoriza@iislafe.es>
Diff between LipidMS versions 3.0.3 dated 2022-02-22 and 3.0.4 dated 2024-02-19
LipidMS-3.0.3/LipidMS/inst/doc/Vignette.R |only LipidMS-3.0.3/LipidMS/inst/doc/Vignette.Rmd |only LipidMS-3.0.3/LipidMS/inst/doc/Vignette.html |only LipidMS-3.0.3/LipidMS/vignettes/Vignette.Rmd |only LipidMS-3.0.4/LipidMS/DESCRIPTION | 8 LipidMS-3.0.4/LipidMS/MD5 | 53 ++--- LipidMS-3.0.4/LipidMS/R/LipidMS.R | 2 LipidMS-3.0.4/LipidMS/R/additionalFunctions.R | 199 ++++++++++++------- LipidMS-3.0.4/LipidMS/R/dataProcessing.R | 8 LipidMS-3.0.4/LipidMS/R/idFunctionsNeg.R | 55 ++--- LipidMS-3.0.4/LipidMS/R/idFunctionsPos.R | 60 +++-- LipidMS-3.0.4/LipidMS/R/internal.R | 41 +++ LipidMS-3.0.4/LipidMS/R/internalProcessing.R | 18 + LipidMS-3.0.4/LipidMS/R/internaldbs.R | 4 LipidMS-3.0.4/LipidMS/R/msbatchAnnotationFunctions.R | 76 +++---- LipidMS-3.0.4/LipidMS/R/subfunctionsIdentification.R | 76 +++++-- LipidMS-3.0.4/LipidMS/README.md |only LipidMS-3.0.4/LipidMS/build/vignette.rds |binary LipidMS-3.0.4/LipidMS/inst/LipidMSapp/ui.R | 26 -- LipidMS-3.0.4/LipidMS/inst/doc/vignette.R |only LipidMS-3.0.4/LipidMS/inst/doc/vignette.Rmd |only LipidMS-3.0.4/LipidMS/inst/doc/vignette.html |only LipidMS-3.0.4/LipidMS/man/MassAcylCer.Rd | 2 LipidMS-3.0.4/LipidMS/man/MassPEo.Rd | 2 LipidMS-3.0.4/LipidMS/man/annotateIsotopes.Rd | 7 LipidMS-3.0.4/LipidMS/man/dataProcessing.Rd | 8 LipidMS-3.0.4/LipidMS/man/findMS2precursor.Rd | 8 LipidMS-3.0.4/LipidMS/man/idNEG.Rd | 6 LipidMS-3.0.4/LipidMS/man/idPOS.Rd | 3 LipidMS-3.0.4/LipidMS/man/joinAnnotationResults.Rd | 2 LipidMS-3.0.4/LipidMS/man/organizeResults.Rd | 8 LipidMS-3.0.4/LipidMS/vignettes/vignette.Rmd |only 32 files changed, 413 insertions(+), 259 deletions(-)
Title: Ensemble Penalized Cox Regression for Survival Prediction
Description: The top-performing ensemble-based Penalized Cox Regression (ePCR) framework developed during the DREAM 9.5 mCRPC Prostate Cancer Challenge <https://www.synapse.org/ProstateCancerChallenge> presented in Guinney J, Wang T, Laajala TD, et al. (2017) <doi:10.1016/S1470-2045(16)30560-5> is provided here-in, together with the corresponding follow-up work. While initially aimed at modeling the most advanced stage of prostate cancer, metastatic Castration-Resistant Prostate Cancer (mCRPC), the modeling framework has subsequently been extended to cover also the non-metastatic form of advanced prostate cancer (CRPC). Readily fitted ensemble-based model S4-objects are provided, and a simulated example dataset based on a real-life cohort is provided from the Turku University Hospital, to illustrate the use of the package. Functionality of the ePCR methodology relies on constructing ensembles of strata in patient cohorts and averaging over them, with each ensemble member consisting of a [...truncated...]
Author: Teemu Daniel Laajala <teelaa@utu.fi> [aut, cre], Mika Murtojarvi <mianmu2@hotmail.com> [ctb]
Maintainer: Teemu Daniel Laajala <teelaa@utu.fi>
Diff between ePCR versions 0.9.9-11 dated 2019-11-24 and 0.11.0 dated 2024-02-19
ePCR-0.11.0/ePCR/DESCRIPTION | 22 ++++----- ePCR-0.11.0/ePCR/MD5 | 58 ++++++++++++------------ ePCR-0.11.0/ePCR/NAMESPACE | 1 ePCR-0.11.0/ePCR/NEWS | 23 +++++++++ ePCR-0.11.0/ePCR/R/ext.R | 4 - ePCR-0.11.0/ePCR/R/int.R | 14 ++--- ePCR-0.11.0/ePCR/R/pep.R | 8 +-- ePCR-0.11.0/ePCR/R/psp.R | 11 ++-- ePCR-0.11.0/ePCR/README.md |only ePCR-0.11.0/ePCR/build/vignette.rds |binary ePCR-0.11.0/ePCR/data/TYKSSIMU.RData |binary ePCR-0.11.0/ePCR/data/ePCRmodels.RData |binary ePCR-0.11.0/ePCR/inst/doc/ePCR_guide.R |only ePCR-0.11.0/ePCR/inst/doc/ePCR_guide.Rmd |only ePCR-0.11.0/ePCR/inst/doc/ePCR_guide.html |only ePCR-0.11.0/ePCR/man/DREAM.Rd | 4 + ePCR-0.11.0/ePCR/man/NelsonAalen.Rd | 11 +++- ePCR-0.11.0/ePCR/man/PEP-methods.Rd | 1 ePCR-0.11.0/ePCR/man/PSP-class.Rd | 2 ePCR-0.11.0/ePCR/man/PSP-methods.Rd | 20 +++++--- ePCR-0.11.0/ePCR/man/TYKS.Rd | 4 + ePCR-0.11.0/ePCR/man/TYKSSIMU.Rd | 18 +++++++ ePCR-0.11.0/ePCR/man/TYKS_reduced.Rd | 4 + ePCR-0.11.0/ePCR/man/TimeSurvProb.Rd | 12 ++++ ePCR-0.11.0/ePCR/man/cv.Rd | 3 - ePCR-0.11.0/ePCR/man/cv.alpha.Rd | 12 ++++ ePCR-0.11.0/ePCR/man/cv.grid.Rd | 13 ++++- ePCR-0.11.0/ePCR/man/ePCR.Rd | 4 - ePCR-0.11.0/ePCR/man/heatcv.Rd | 17 +++++-- ePCR-0.11.0/ePCR/vignettes/ePCR_guide.Rmd |only ePCR-0.9.9-11/ePCR/inst/doc/ePCR_guide.ltx |only ePCR-0.9.9-11/ePCR/inst/doc/ePCR_guide.pdf |only ePCR-0.9.9-11/ePCR/vignettes/ePCR_guide-005.pdf |only ePCR-0.9.9-11/ePCR/vignettes/ePCR_guide-006.pdf |only ePCR-0.9.9-11/ePCR/vignettes/ePCR_guide.ltx |only 35 files changed, 175 insertions(+), 91 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-06-02 1.0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-12-19 0.2.2
2019-06-24 0.2.1
2018-03-03 0.2.0
2017-11-15 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-01-08 1.3.2
2016-01-22 1.3
2015-11-24 1.2
Title: Portable Native and Joint Stack Traces
Description: Obtain the native stack trace and fuse it with R's
stack trace for easier debugging of R packages with native code.
Author: Kirill Mueller [aut, cre] ,
R Consortium [fnd],
Ian Lance Taylor [aut] ,
Free Software Foundation [cph]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between winch versions 0.1.0 dated 2023-04-20 and 0.1.1 dated 2024-02-19
DESCRIPTION | 10 ++-- MD5 | 14 +++--- NEWS.md | 7 +++ build/vignette.rds |binary inst/doc/report.R | 2 inst/doc/report.html | 112 ++++++++++++++++++++++++------------------------ src/configure.sh | 8 +-- src/trace_back_unwind.c | 4 + 8 files changed, 83 insertions(+), 74 deletions(-)
Title: Performing Bayesian Inference for Repeated-Measures Designs
Description: A Bayesian credible interval is interpreted with respect to posterior probability,
and this interpretation is far more intuitive than that of a frequentist confidence interval.
However, standard highest-density intervals can be wide due to between-subjects variability and tends
to hide within-subject effects, rendering its relationship with the Bayes factor less clear
in within-subject (repeated-measures) designs.
This urgent issue can be addressed by using within-subject intervals in within-subject designs,
which integrate four methods including the Wei-Nathoo-Masson (2023) <doi:10.3758/s13423-023-02295-1>,
the Loftus-Masson (1994) <doi:10.3758/BF03210951>,
the Nathoo-Kilshaw-Masson (2018) <doi:10.1016/j.jmp.2018.07.005>,
and the Heck (2019) <doi:10.31234/osf.io/whp8t> interval estimates.
Author: Zhengxiao Wei [aut, cre] ,
Farouk S. Nathoo [aut] ,
Michael E. J. Masson [aut]
Maintainer: Zhengxiao Wei <zhengxiao@uvic.ca>
Diff between rmBayes versions 0.1.15 dated 2022-09-14 and 0.1.16 dated 2024-02-19
rmBayes-0.1.15/rmBayes/tests/testthat/test-fixed_methods.R |only rmBayes-0.1.15/rmBayes/tests/testthat/test-heteroscedastic_methods.R |only rmBayes-0.1.15/rmBayes/tests/testthat/test-regular_methods.R |only rmBayes-0.1.16/rmBayes/DESCRIPTION | 28 rmBayes-0.1.16/rmBayes/MD5 | 77 rmBayes-0.1.16/rmBayes/NEWS.md |only rmBayes-0.1.16/rmBayes/R/recall.long.R | 2 rmBayes-0.1.16/rmBayes/R/recall.wide.R | 2 rmBayes-0.1.16/rmBayes/R/rmBayes-package.R | 24 rmBayes-0.1.16/rmBayes/R/rmHDI.R | 38 rmBayes-0.1.16/rmBayes/README.md | 101 rmBayes-0.1.16/rmBayes/inst/stan/HDIc.stan | 5 rmBayes-0.1.16/rmBayes/inst/stan/HDIcCauchy.stan | 3 rmBayes-0.1.16/rmBayes/inst/stan/HDIcUnif.stan | 3 rmBayes-0.1.16/rmBayes/inst/stan/HDId.stan | 7 rmBayes-0.1.16/rmBayes/inst/stan/HDIdCauchy.stan | 3 rmBayes-0.1.16/rmBayes/inst/stan/HDIdCauchyFixed.stan | 3 rmBayes-0.1.16/rmBayes/inst/stan/HDIdFixed.stan | 7 rmBayes-0.1.16/rmBayes/inst/stan/HDIdUnif.stan | 3 rmBayes-0.1.16/rmBayes/inst/stan/HDIdUnifFixed.stan | 3 rmBayes-0.1.16/rmBayes/inst/stan/HDIstandard.stan | 5 rmBayes-0.1.16/rmBayes/inst/stan/HDIstandardFixed.stan | 5 rmBayes-0.1.16/rmBayes/inst/stan/HDIstandardHetero.stan | 6 rmBayes-0.1.16/rmBayes/man/recall.long.Rd | 2 rmBayes-0.1.16/rmBayes/man/recall.wide.Rd | 2 rmBayes-0.1.16/rmBayes/man/rmBayes-package.Rd | 37 rmBayes-0.1.16/rmBayes/man/rmHDI.Rd | 30 rmBayes-0.1.16/rmBayes/src/Makevars | 6 rmBayes-0.1.16/rmBayes/src/stanExports_HDIc.h | 1129 ++++--- rmBayes-0.1.16/rmBayes/src/stanExports_HDIcCauchy.h | 1037 +++--- rmBayes-0.1.16/rmBayes/src/stanExports_HDIcUnif.h | 1032 +++--- rmBayes-0.1.16/rmBayes/src/stanExports_HDId.h | 1367 ++++----- rmBayes-0.1.16/rmBayes/src/stanExports_HDIdCauchy.h | 1160 ++++--- rmBayes-0.1.16/rmBayes/src/stanExports_HDIdCauchyFixed.h | 1316 ++++---- rmBayes-0.1.16/rmBayes/src/stanExports_HDIdFixed.h | 1499 +++++----- rmBayes-0.1.16/rmBayes/src/stanExports_HDIdUnif.h | 1150 ++++--- rmBayes-0.1.16/rmBayes/src/stanExports_HDIdUnifFixed.h | 1306 ++++---- rmBayes-0.1.16/rmBayes/src/stanExports_HDIstandard.h | 1038 +++--- rmBayes-0.1.16/rmBayes/src/stanExports_HDIstandardFixed.h | 1169 ++++--- rmBayes-0.1.16/rmBayes/src/stanExports_HDIstandardHetero.h | 1268 ++++---- rmBayes-0.1.16/rmBayes/tests/testthat/test-all.R |only rmBayes-0.1.16/rmBayes/tests/testthat/test-errors.R | 74 42 files changed, 7896 insertions(+), 7051 deletions(-)
Title: Accelerating 'ggplot2'
Description: The aim of 'ggplot2' is to aid in visual data investigations. This
focus has led to a lack of facilities for composing specialised plots.
'ggforce' aims to be a collection of mainly new stats and geoms that fills
this gap. All additional functionality is aimed to come through the official
extension system so using 'ggforce' should be a stable experience.
Author: Thomas Lin Pedersen [cre, aut]
,
RStudio [cph]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Diff between ggforce versions 0.4.1 dated 2022-10-04 and 0.4.2 dated 2024-02-19
DESCRIPTION | 8 ++--- MD5 | 16 +++++------ NEWS.md | 62 +++++++++++++++++++++++--------------------- R/interpolate.R | 2 - man/facet_grid_paginate.Rd | 2 - man/geom_autohistogram.Rd | 3 +- man/geom_sina.Rd | 3 +- man/interpolateDataFrame.Rd | 2 - man/trans_reverser.Rd | 2 - 9 files changed, 53 insertions(+), 47 deletions(-)
Title: Bootstrap Functions (Originally by Angelo Canty for S)
Description: Functions and datasets for bootstrapping from the
book "Bootstrap Methods and Their Application" by A. C. Davison and
D. V. Hinkley (1997, CUP), originally written by Angelo Canty for S.
Author: Angelo Canty [aut],
Brian Ripley [aut, trl] ,
Alessandra R. Brazzale [ctb, cre]
Maintainer: Alessandra R. Brazzale <brazzale@stat.unipd.it>
Diff between boot versions 1.3-28.1 dated 2022-11-22 and 1.3-29 dated 2024-02-19
ChangeLog | 4 DESCRIPTION | 20 +-- MD5 | 12 - R/bootfuns.q | 2 R/bootpracs.q | 238 ++++++++++++++++++++++++++++++++++++++- inst/CITATION | 14 +- tests/Examples/boot-Ex.Rout.save | 10 - 7 files changed, 271 insertions(+), 29 deletions(-)
Title: Modeling Workflows
Description: Managing both a 'parsnip' model and a preprocessor, such as a
model formula or recipe from 'recipes', can often be challenging. The
goal of 'workflows' is to streamline this process by bundling the
model alongside the preprocessor, all within the same object.
Author: Davis Vaughan [aut],
Simon Couch [aut, cre] ,
Posit Software, PBC [cph, fnd]
Maintainer: Simon Couch <simon.couch@posit.co>
Diff between workflows versions 1.1.3 dated 2023-02-22 and 1.1.4 dated 2024-02-19
DESCRIPTION | 22 +++++------ LICENSE | 4 +- MD5 | 53 ++++++++++++++-------------- NAMESPACE | 2 + NEWS.md | 19 ++++++++++ R/broom.R | 40 +++++++++++++++------ R/fit-action-model.R | 2 - R/pre-action-case-weights.R | 2 - R/pre-action-formula.R | 2 - R/pre-action-recipe.R | 10 ++++- R/pre-action-variables.R | 2 - R/predict.R | 3 + R/pull.R | 10 ++--- R/survival-censoring-weights.R |only R/workflow.R | 2 - R/workflows-package.R | 1 README.md | 54 ++++++++++++++--------------- build/vignette.rds |binary man/add_recipe.Rd | 4 +- man/augment.workflow.Rd | 6 ++- man/figures/logo.png |binary man/predict-workflow.Rd | 5 +- man/workflow.Rd | 2 - man/workflows-package.Rd | 6 +-- tests/testthat/_snaps/pre-action-recipe.md | 8 ++++ tests/testthat/test-broom.R | 32 ++++++++++++++++- tests/testthat/test-pre-action-recipe.R | 8 ++++ tests/testthat/test-predict.R | 15 ++++---- 28 files changed, 207 insertions(+), 107 deletions(-)
Title: Seasonality Variation Plots of Stock Prices and Cryptocurrencies
Description: The price action at any given time is determined by investor
sentiment and market conditions. Although there is no established principle,
over a long period of time, things often move with a certain periodicity.
This is sometimes referred to as anomaly.
The seasonPlot() function in this package calculates and visualizes the
average value of price movements over a year for any given period.
In addition, the monthly increase or decrease in price movement is
represented with a colored background.
This seasonPlot() function can use the same symbols as the 'quantmod' package
(e.g. ^IXIC, ^DJI, SPY, BTC-USD, and ETH-USD etc).
Author: Satoshi Kume [aut, cre]
Maintainer: Satoshi Kume <satoshi.kume.1984@gmail.com>
Diff between seasonalityPlot versions 1.1.0 dated 2023-11-27 and 1.2.1 dated 2024-02-19
seasonalityPlot-1.1.0/seasonalityPlot/inst/images/SeasonalityPlot_BTC-USD_StartYear2014_EndYear2020.png |only seasonalityPlot-1.1.0/seasonalityPlot/inst/images/SeasonalityPlot_ETH-USD_StartYear2015_EndYear2020.png |only seasonalityPlot-1.1.0/seasonalityPlot/inst/images/SeasonalityPlot_SPY_StartYear2010_EndYear2020.png |only seasonalityPlot-1.1.0/seasonalityPlot/inst/images/SeasonalityPlot_^DJI_StartYear2010_EndYear2020.png |only seasonalityPlot-1.1.0/seasonalityPlot/inst/images/SeasonalityPlot_^IXIC_StartYear2010_EndYear2020.png |only seasonalityPlot-1.2.1/seasonalityPlot/DESCRIPTION | 10 +- seasonalityPlot-1.2.1/seasonalityPlot/MD5 | 24 ++--- seasonalityPlot-1.2.1/seasonalityPlot/NAMESPACE | 6 + seasonalityPlot-1.2.1/seasonalityPlot/R/CryptoRSIheatmap.R |only seasonalityPlot-1.2.1/seasonalityPlot/R/seasonPlot.R | 47 ++++++++-- seasonalityPlot-1.2.1/seasonalityPlot/README.md | 39 +++++--- seasonalityPlot-1.2.1/seasonalityPlot/inst/images/CryptoRSIheatmap.png |only seasonalityPlot-1.2.1/seasonalityPlot/inst/images/SeasonalityPlot_Adjusted_BTC-USD_StartYear2014_EndYear2023.png |only seasonalityPlot-1.2.1/seasonalityPlot/inst/images/SeasonalityPlot_BTC-USD_StartYear2017_EndYear2022.png |only seasonalityPlot-1.2.1/seasonalityPlot/inst/images/SeasonalityPlot_ETH-USD_StartYear2017_EndYear2022.png |only seasonalityPlot-1.2.1/seasonalityPlot/inst/images/SeasonalityPlot_SPY_StartYear2012_EndYear2022.png |only seasonalityPlot-1.2.1/seasonalityPlot/inst/images/SeasonalityPlot_^DJI_StartYear2012_EndYear2022.png |only seasonalityPlot-1.2.1/seasonalityPlot/inst/images/SeasonalityPlot_^IXIC_StartYear2012_EndYear2022.png |only seasonalityPlot-1.2.1/seasonalityPlot/man/CryptoRSIheatmap.Rd |only seasonalityPlot-1.2.1/seasonalityPlot/man/seasonPlot.Rd | 11 +- 20 files changed, 102 insertions(+), 35 deletions(-)
More information about seasonalityPlot at CRAN
Permanent link
Title: Interpretive Clustering for Repertory Grids
Description: Shiny UI to identify cliques of related constructs in repertory grid data.
See Burr, King, & Heckmann (2020) <doi:10.1080/14780887.2020.1794088> for a description
of the interpretive clustering (IC) method.
Author: Mark Heckmann [aut, cre, cph] ,
Viv Burr [aut],
Nigel King [aut]
Maintainer: Mark Heckmann <heckmann.mark@gmail.com>
Diff between OpenRepGrid.ic versions 0.6.1 dated 2022-10-25 and 0.6.2 dated 2024-02-19
DESCRIPTION | 10 LICENSE | 4 MD5 | 82 - NAMESPACE | 82 - R/01-utils.R | 236 ++-- R/02-calculate.R | 1628 +++++++++++++++---------------- R/03-excel.R | 798 +++++++-------- R/OpenRepGrid.ic.R | 121 +- R/zzz.R | 26 build/partial.rdb |binary inst/CITATION | 32 inst/examples/01-process-excel-file.R | 68 - inst/extdata/bibliography.bib | 736 +++++++------- inst/shiny/server.R | 798 +++++++-------- inst/shiny/ui.R | 1046 ++++++++++---------- inst/shiny/www/example.Rmd | 196 +-- inst/shiny/www/example.html | 1736 +++++++++++++++++----------------- inst/shiny/www/method.Rmd | 392 +++---- inst/shiny/www/method.html | 1112 ++++++++++----------- inst/shiny/www/method.md | 318 +++--- man/OpenRepGrid.ic.Rd | 153 +- man/add_image_border.Rd | 24 man/align_positive_poles.Rd | 24 man/calculate_similarity.Rd | 36 man/cell_text_split.Rd | 42 man/check_excel_input.Rd | 28 man/check_excel_input_test.Rd | 28 man/clique_color_pals.Rd | 44 man/count_matches.Rd | 34 man/create_excel_output.Rd | 40 man/dt_default.Rd | 34 man/emptify_object.Rd | 30 man/fnum.Rd | 24 man/ic.Rd | 46 man/make-names.Rd | 36 man/network_graph_images.Rd | 140 +- man/replace-poles.Rd | 50 man/valence_pole_prefix.Rd | 24 tests/testthat.R | 8 tests/testthat/test-calculate.R | 160 +-- tests/testthat/test-excel.R | 120 +- tests/testthat/test-utils.R | 80 - 42 files changed, 5323 insertions(+), 5303 deletions(-)
More information about OpenRepGrid.ic at CRAN
Permanent link
Title: Multivariate Autoregressive State-Space Modeling
Description: The MARSS package provides maximum-likelihood parameter
estimation for constrained and unconstrained linear multivariate autoregressive
state-space (MARSS) models, including partially deterministic models. MARSS models are a class
of dynamic linear model (DLM) and vector autoregressive model (VAR)
model. Fitting available via Expectation-Maximization (EM), BFGS (using optim), and 'TMB'
(using the 'marssTMB' companion package). Functions are provided for parametric and
innovations bootstrapping, Kalman filtering and smoothing, model selection criteria including
bootstrap AICb, confidences intervals via the Hessian approximation or bootstrapping, and all
conditional residual types. See the user guide for examples of dynamic factor analysis,
dynamic linear models, outlier and shock detection, and multivariate AR-p models.
Online workshops (lectures, eBook, and computer labs)
at <https://atsa-es.github.io/>.
Author: Elizabeth Eli Holmes [aut, cre]
,
Eric J. Ward [aut] ,
Mark D. Scheuerell [aut] ,
Kellie Wills [aut]
Maintainer: Elizabeth Eli Holmes <eli.holmes@noaa.gov>
Diff between MARSS versions 3.11.8 dated 2023-05-20 and 3.11.9 dated 2024-02-19
DESCRIPTION | 10 +++++----- MD5 | 46 +++++++++++++++++++++++----------------------- NEWS.md | 9 ++++++++- R/MARSS-methods.R | 6 +++++- R/MARSS.R | 8 ++++---- R/MARSScv.R | 2 +- R/MARSShatyt.r | 2 +- README.md | 19 +++++++++++++++++-- build/vignette.rds |binary inst/doc/Quick_Start.html | 12 +++--------- man/MARSS-package.Rd | 4 ++-- man/MARSS.Rd | 8 ++++---- man/MARSS_marxss.Rd | 26 +++++++++++++------------- man/MARSScv.Rd | 2 +- man/MARSSfit.Rd | 6 +++++- man/MARSShatyt.Rd | 4 ++-- man/coef_marssMLE.Rd | 2 +- man/graywhales.Rd | 2 +- man/marssMODEL-class.Rd | 6 +++--- man/plankton.Rd | 2 +- man/predict_marssMLE.Rd | 2 +- man/print_marssMLE.Rd | 2 +- man/utility_functions.Rd | 2 ++ vignettes/index.html | 2 +- 24 files changed, 105 insertions(+), 79 deletions(-)
Title: Interpolation and Extrapolation for Three Dimensions of
Biodiversity
Description: Biodiversity is a multifaceted concept covering different levels of organization from
genes to ecosystems. 'iNEXT.3D' extends 'iNEXT' to include three dimensions (3D)
of biodiversity, i.e., taxonomic diversity (TD), phylogenetic diversity (PD) and functional
diversity (FD). This package provides functions to compute standardized 3D diversity estimates
with a common sample size or sample coverage. A unified framework based on Hill numbers
and their generalizations (Hill-Chao numbers) are used to quantify 3D. All 3D estimates
are in the same units of species/lineage equivalents and can be meaningfully compared.
The package features size- and coverage-based rarefaction and extrapolation sampling
curves to facilitate rigorous comparison of 3D diversity across individual assemblages.
Asymptotic 3D diversity estimates are also provided. See Chao et al. (2021)
<doi:10.1111/2041-210X.13682> for more details.
Author: Anne Chao [aut, cre],
KaiHsiang Hu [ctb]
Maintainer: Anne Chao <chao@stat.nthu.edu.tw>
Diff between iNEXT.3D versions 1.0.0 dated 2024-02-12 and 1.0.1 dated 2024-02-19
DESCRIPTION | 6 +-- MD5 | 12 +++--- NEWS | 5 ++ R/CommonFun.R | 20 ++++++++-- R/MainFun.r | 2 - inst/doc/Introduction.pdf |binary tests/testthat/test-iNEXT.3D.R | 78 +++++++++++++++++++++++++++++++++++++++++ 7 files changed, 107 insertions(+), 16 deletions(-)
Title: Create Codebooks from Data Frames
Description: Quickly and easily create codebooks (i.e. data dictionaries) directly from a data frame.
Author: Brad Cannell [aut, cre, cph]
Maintainer: Brad Cannell <brad.cannell@gmail.com>
Diff between codebookr versions 0.1.7 dated 2024-02-14 and 0.1.8 dated 2024-02-19
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/codebook.R | 2 +- tests/testthat/test-codebook.R | 28 ++++++++++++++++++++++++++++ 5 files changed, 40 insertions(+), 8 deletions(-)
Title: Core Methods and Classes Used by 'aroma.*' Packages Part of the
Aroma Framework
Description: Core methods and classes used by higher-level 'aroma.*' packages
part of the Aroma Project, e.g. 'aroma.affymetrix' and 'aroma.cn'.
Author: Henrik Bengtsson [aut, cre, cph],
Mark Robinson [ctb],
Ken Simpson [ctb]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between aroma.core versions 3.3.0 dated 2022-11-15 and 3.3.1 dated 2024-02-19
DESCRIPTION | 6 MD5 | 48 +- NEWS.md | 733 ++++++++++++++++----------------- R/999.NonDocumentedObjects.R | 1 R/AromaTransform.R | 3 R/ChromosomeExplorer.R | 2 R/CopyNumberSegmentationModel.R | 2 R/Explorer.R | 6 R/HaarSegModel.R | 2 R/colBinnedSmoothing.R | 2 README.md | 37 - man/HaarSegModel.Rd | 2 man/Non-documented_objects.Rd | 1 man/RawMirroredAlleleBFractions.Rd | 2 man/RawSequenceReads.Rd | 2 man/SegmentedAlleleBFractions.Rd | 2 man/SegmentedCopyNumbers.Rd | 2 man/aroma.core-package.Rd | 2 man/colBinnedSmoothing.matrix.Rd | 2 man/fit.CopyNumberSegmentationModel.Rd | 2 man/getPath.Explorer.Rd | 1 man/process.AromaTransform.Rd | 3 man/process.ChromosomeExplorer.Rd | 2 man/process.Explorer.Rd | 3 man/setArrays.Explorer.Rd | 2 25 files changed, 420 insertions(+), 450 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-08-18 1.0.0
Title: Tools for Manipulating Gas Exchange Data
Description: Set of tools for manipulating gas exchange data from cardiopulmonary exercise testing.
Author: Felipe Mattioni Maturana [aut, cre]
Maintainer: Felipe Mattioni Maturana <felipe.mattioni@med.uni-tuebingen.de>
Diff between whippr versions 0.1.2 dated 2022-09-09 and 0.1.3 dated 2024-02-19
whippr-0.1.2/whippr/man/check_addin_deps.Rd |only whippr-0.1.3/whippr/DESCRIPTION | 18 +++--- whippr-0.1.3/whippr/MD5 | 41 +++++++------- whippr-0.1.3/whippr/NEWS.md | 7 ++ whippr-0.1.3/whippr/R/addin.R | 24 -------- whippr-0.1.3/whippr/R/helpers-incremental.R | 6 -- whippr-0.1.3/whippr/R/helpers-outliers.R | 5 - whippr-0.1.3/whippr/R/incremental.R | 4 - whippr-0.1.3/whippr/R/kinetics.R | 39 ++++++++------ whippr-0.1.3/whippr/R/max.R | 12 +--- whippr-0.1.3/whippr/R/nlstools.R | 6 +- whippr-0.1.3/whippr/R/outliers.R | 21 +++---- whippr-0.1.3/whippr/R/plot-theme.R | 2 whippr-0.1.3/whippr/R/read-data.R | 13 ++-- whippr-0.1.3/whippr/R/shinyThings.R | 11 --- whippr-0.1.3/whippr/R/utils.R | 2 whippr-0.1.3/whippr/R/whippr-package.R | 4 - whippr-0.1.3/whippr/README.md | 78 ++++++++++++++-------------- whippr-0.1.3/whippr/man/perform_kinetics.Rd | 6 +- whippr-0.1.3/whippr/man/remove_empty.Rd | 3 - whippr-0.1.3/whippr/man/undoHistory.Rd | 16 ----- whippr-0.1.3/whippr/man/whippr-package.Rd | 1 22 files changed, 135 insertions(+), 184 deletions(-)
Title: Procedures for Gaussian and Non Gaussian Geostatistical (Large)
Data Analysis
Description: Functions for Gaussian and Non Gaussian (bivariate) spatial and spatio-temporal data analysis are provided for a) simulation and inference for random fields using standard likelihood and a likelihood approximation method called weighted composite likelihood based on pairs and b) prediction using (local) best linear unbiased prediction. Weighted composite likelihood can be very efficient for estimating massive datasets. Both regression and spatial (temporal) dependence analysis can be jointly performed. Covariance functions for spatial and spatial-temporal data on Euclidean domains and spheres are provided. There are also many useful functions for plotting and performing diagnostic analysis. Different non Gaussian random fields can be considered in the analysis. Among them, random fields with marginal distributions such as Skew-Gaussian, Student-t, Tukey-h, Sin-Arcsin, Two-piece, Weibull, Gamma, Log-Gaussian, Binomial, Negative Binomial and Poisson. See the URL for the papers associ [...truncated...]
Author: Moreno Bevilacqua [aut, cre] ,
Victor Morales-Onate [aut] ,
Christian Caamano-Carrillo [aut]
Maintainer: Moreno Bevilacqua <moreno.bevilacqua89@gmail.com>
Diff between GeoModels versions 1.1.6 dated 2024-02-06 and 1.1.7 dated 2024-02-19
DESCRIPTION | 6 +++--- MD5 | 8 +++++--- R/GeoSimapprox.r | 29 +++++++++++++++++------------ R/SimCE.R |only man/GeoSimapprox.Rd | 48 ++++++++++++++++++++++++++++++++++++++---------- man/SimCE.Rd |only 6 files changed, 63 insertions(+), 28 deletions(-)
Title: Bias-Corrected GEE for Cluster Randomized Trials
Description: Population-averaged models have been increasingly used in the design and analysis of
cluster randomized trials (CRTs). To facilitate the applications of population-averaged
models in CRTs, the package implements the generalized estimating equations (GEE) and
matrix-adjusted estimating equations (MAEE) approaches to jointly estimate the marginal
mean models correlation models both for general CRTs and stepped wedge CRTs. Despite the
general GEE/MAEE approach, the package also implements a fast cluster-period GEE method by
Li et al. (2022) <doi:10.1093/biostatistics/kxaa056>
specifically for stepped wedge CRTs with large and variable cluster-period sizes and gives
a simple and efficient estimating equations approach based on the cluster-period means to
estimate the intervention effects as well as correlation parameters. In addition, the package
also provides functions for generating correlated binary data with specific mean vector and
correlation matrix based on the multivariate pr [...truncated...]
Author: Hengshi Yu [aut, cre],
Fan Li [aut],
Paul Rathouz [aut],
Elizabeth L. Turner [aut],
John Preisser [aut]
Maintainer: Hengshi Yu <hengshi@umich.edu>
Diff between geeCRT versions 1.1.2 dated 2023-10-22 and 1.1.3 dated 2024-02-19
DESCRIPTION | 10 MD5 | 23 NEWS.md | 6 R/binMAEE.R | 102 +- R/contMAEE.R | 125 ++- R/countMAEE.R |only R/cpgee_ed.R | 1684 +++++++++++++++++++++---------------------- R/geemaee.R | 79 +- inst/doc/geeCRT.R | 1450 ++++++++++++++++++++++--------------- inst/doc/geeCRT.Rmd | 1440 ++++++++++++++++++++++--------------- inst/doc/geeCRT.html | 1954 ++++++++++++++++++++++++++++++--------------------- man/geemaee.Rd | 67 + vignettes/geeCRT.Rmd | 1440 ++++++++++++++++++++++--------------- 13 files changed, 4880 insertions(+), 3500 deletions(-)
Title: Call R from R
Description: It is sometimes useful to perform a computation in a separate
R process, without affecting the current R process at all. This
packages does exactly that.
Author: Gabor Csardi [aut, cre, cph] ,
Winston Chang [aut],
Posit Software, PBC [cph, fnd],
Mango Solutions [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between callr versions 3.7.3 dated 2022-11-02 and 3.7.4 dated 2024-02-19
DESCRIPTION | 24 ++-- LICENSE | 4 MD5 | 104 ++++++++++++--------- NEWS.md | 9 + R/aaa-rstudio-detect.R | 2 R/errors.R | 63 ++++++++----- R/eval-bg.R | 2 R/load-client.R | 19 +++ R/package.R | 20 ++-- R/r-session.R | 8 + R/result.R | 4 R/rscript.R | 2 R/script.R | 84 +++++++++-------- README.md | 184 ++++++++++++++++++++++---------------- inst/WORDLIST | 1 man/callr-package.Rd | 116 +++++++++++------------ man/figures/bg-dark.svg |only man/figures/bg-methods-dark.svg |only man/figures/bg-methods.svg | 2 man/figures/bg.svg | 2 man/figures/error1-dark.svg |only man/figures/error1.svg | 2 man/figures/error2-2-dark.svg |only man/figures/error2-2.svg | 2 man/figures/io-2-dark.svg |only man/figures/io-2.svg | 2 man/figures/io-dark.svg |only man/figures/io.svg | 2 man/figures/packages-dark.svg |only man/figures/packages.svg | 2 man/figures/passargsfail-dark.svg |only man/figures/passargsfail.svg | 2 man/figures/passargsok-dark.svg |only man/figures/passargsok.svg | 2 man/figures/poll-2-dark.svg |only man/figures/poll-2.svg | 2 man/figures/poll-3-dark.svg |only man/figures/poll-3.svg | 2 man/figures/poll-4-dark.svg |only man/figures/poll-4.svg | 2 man/figures/poll-dark.svg |only man/figures/poll.svg | 2 man/figures/rcmd-dark.svg |only man/figures/rcmd.svg | 2 man/figures/rsession-4-dark.svg |only man/figures/rsession-4.svg | 2 man/figures/rsession-5-dark.svg |only man/figures/rsession-5.svg | 2 man/figures/rsession-dark.svg |only man/figures/rsession.svg | 2 man/figures/rsession2-2-dark.svg |only man/figures/rsession2-2.svg | 2 man/figures/rsession2-dark.svg |only man/figures/rsession2.svg | 2 man/figures/simple-dark.svg |only man/figures/simple.svg | 2 man/get_result.Rd | 6 - man/r_bg.Rd | 2 tests/testthat/_snaps/error.md | 33 ++++-- tests/testthat/helper.R | 6 + tests/testthat/test-load-client.R | 17 +++ tests/testthat/test-r-session.R | 13 ++ tests/testthat/test-rcmd.R | 1 63 files changed, 456 insertions(+), 308 deletions(-)