Title: Send Messages, Images, R Objects and Files to 'Slack'
Channels/Users
Description: 'Slack' <https://slack.com/> provides a service for teams to
collaborate by sharing messages, images, links, files and more.
Functions are provided that make it possible to interact with the
'Slack' platform 'API'. When you need to share information or data
from R, rather than resort to copy/ paste in e-mails or other services
like 'Skype' <https://www.skype.com/en/>, you can use this package to
send well-formatted output from multiple R objects and expressions to
all teammates at the same time with little effort. You can also send
images from the current graphics device, R objects, and upload files.
Author: Bob Rudis [aut, cre], Jay Jacobs [ctb], David Severski [ctb],
Quinn Weber [ctb], Konrad Karczewski [ctb], Shinya Uryu [ctb], Gregory
Jefferis [ctb], Ed Niles [ctb], Rick Saporta [ctb], Jonathan Sidi
[aut, ctb], Matt Kaye [aut, ctb], Xinye Li [ctb], Andrie de Vries
[aut, ctb]
Maintainer: Matt Kaye <mrkaye97@gmail.com>
Diff between slackr versions 2.3.0 dated 2021-05-02 and 2.4.0 dated 2021-07-05
slackr-2.3.0/slackr/R/deprecated.r |only slackr-2.3.0/slackr/R/text_slackr.r |only slackr-2.3.0/slackr/man/dev.slackr.Rd |only slackr-2.3.0/slackr/man/dev_slackr.Rd |only slackr-2.3.0/slackr/man/save.slackr.Rd |only slackr-2.3.0/slackr/man/save_slackr.Rd |only slackr-2.3.0/slackr/man/slackrBot.Rd |only slackr-2.3.0/slackr/man/slackrChannels.Rd |only slackr-2.3.0/slackr/man/slackrChtrans.Rd |only slackr-2.3.0/slackr/man/slackrIms.Rd |only slackr-2.3.0/slackr/man/slackrMsg.Rd |only slackr-2.3.0/slackr/man/slackrSetup.Rd |only slackr-2.3.0/slackr/man/slackrUpload.Rd |only slackr-2.3.0/slackr/man/slackrUsers.Rd |only slackr-2.3.0/slackr/man/tex_slackr.Rd |only slackr-2.3.0/slackr/man/textSlackr.Rd |only slackr-2.3.0/slackr/man/text_slackr.Rd |only slackr-2.3.0/slackr/tests/testthat/test-deprecation.R |only slackr-2.4.0/slackr/DESCRIPTION | 47 +++--- slackr-2.4.0/slackr/LICENSE | 4 slackr-2.4.0/slackr/MD5 | 112 ++++++--------- slackr-2.4.0/slackr/NAMESPACE | 21 -- slackr-2.4.0/slackr/NEWS.md | 11 + slackr-2.4.0/slackr/R/call_slack_api.R | 66 ++++----- slackr-2.4.0/slackr/R/call_slack_internals.R | 26 +-- slackr-2.4.0/slackr/R/gg_slackr.R | 15 -- slackr-2.4.0/slackr/R/internals.R |only slackr-2.4.0/slackr/R/register_onexit.R | 17 +- slackr-2.4.0/slackr/R/slackr.R | 47 +++--- slackr-2.4.0/slackr/R/slackr_bot.r | 30 +--- slackr-2.4.0/slackr/R/slackr_csv.R | 8 - slackr-2.4.0/slackr/R/slackr_delete.R | 20 +- slackr-2.4.0/slackr/R/slackr_dev.R | 14 - slackr-2.4.0/slackr/R/slackr_history.R | 19 +- slackr-2.4.0/slackr/R/slackr_save.R | 16 +- slackr-2.4.0/slackr/R/slackr_setup.r | 75 ++++++---- slackr-2.4.0/slackr/R/slackr_tex.R | 36 +---- slackr-2.4.0/slackr/R/slackr_upload.R | 18 +- slackr-2.4.0/slackr/R/slackr_utils.R | 127 +++++++++--------- slackr-2.4.0/slackr/inst/doc/scoped-bot-setup.html | 12 + slackr-2.4.0/slackr/inst/doc/using-slackr.html | 12 + slackr-2.4.0/slackr/inst/doc/webhook-setup.html | 12 + slackr-2.4.0/slackr/man/auth_test.Rd | 11 + slackr-2.4.0/slackr/man/call_slack_api.Rd | 4 slackr-2.4.0/slackr/man/check_tokens.Rd |only slackr-2.4.0/slackr/man/create_config_file.Rd | 13 + slackr-2.4.0/slackr/man/ggslackr.Rd | 7 slackr-2.4.0/slackr/man/register_onexit.Rd | 5 slackr-2.4.0/slackr/man/slackr.Rd | 7 slackr-2.4.0/slackr/man/slackr_bot.Rd | 14 - slackr-2.4.0/slackr/man/slackr_channels.Rd | 5 slackr-2.4.0/slackr/man/slackr_chtrans.Rd | 10 + slackr-2.4.0/slackr/man/slackr_csv.Rd | 5 slackr-2.4.0/slackr/man/slackr_delete.Rd | 5 slackr-2.4.0/slackr/man/slackr_dev.Rd | 9 - slackr-2.4.0/slackr/man/slackr_history.Rd | 9 - slackr-2.4.0/slackr/man/slackr_ims.Rd | 9 - slackr-2.4.0/slackr/man/slackr_msg.Rd | 5 slackr-2.4.0/slackr/man/slackr_save.Rd | 9 - slackr-2.4.0/slackr/man/slackr_setup.Rd | 14 - slackr-2.4.0/slackr/man/slackr_tex.Rd | 29 ---- slackr-2.4.0/slackr/man/slackr_upload.Rd | 5 slackr-2.4.0/slackr/man/slackr_users.Rd | 9 - slackr-2.4.0/slackr/man/warn_for_args.Rd |only slackr-2.4.0/slackr/tests/testthat/test-connection.R | 18 +- slackr-2.4.0/slackr/tests/testthat/test-helpers.R |only slackr-2.4.0/slackr/tests/testthat/test-posting.R | 11 - slackr-2.4.0/slackr/tests/testthat/test-zconfig.R | 54 ++++--- 68 files changed, 542 insertions(+), 490 deletions(-)
Title: Robust Data-Driven Statistical Inference in
Regression-Discontinuity Designs
Description: Regression-discontinuity (RD) designs are quasi-experimental research designs popular in social, behavioral and natural sciences. The RD design is usually employed to study the (local) causal effect of a treatment, intervention or policy. This package provides tools for data-driven graphical and analytical statistical inference in RD designs: rdrobust() to construct local-polynomial point estimators and robust confidence intervals for average treatment effects at the cutoff in Sharp, Fuzzy and Kink RD settings, rdbwselect() to perform bandwidth selection for the different procedures implemented, and rdplot() to conduct exploratory data analysis (RD plots).
Author: Sebastian Calonico <sebastian.calonico@columbia.edu>, Matias D. Cattaneo <cattaneo@princeton.edu>, Max H. Farrell <max.farrell@chicagobooth.edu>, Rocio Titiunik <titiunik@princeton.edu>
Maintainer: Sebastian Calonico <sebastian.calonico@columbia.edu>
Diff between rdrobust versions 1.0.2 dated 2021-05-18 and 1.0.3 dated 2021-07-05
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/rdbwselect.R | 20 ++++++++++---------- R/rdplot.R | 45 ++++++++++++++++++++++----------------------- R/rdrobust.R | 39 +++++++++++++++++++-------------------- man/rdrobust-package.Rd | 4 ++-- 6 files changed, 62 insertions(+), 64 deletions(-)
Title: Generalized Linear Mixed Models using Adaptive Gaussian
Quadrature
Description: Fits generalized linear mixed models for a single grouping factor under
maximum likelihood approximating the integrals over the random effects with an
adaptive Gaussian quadrature rule; Jose C. Pinheiro and Douglas M. Bates (1995)
<doi:10.1080/10618600.1995.10474663>.
Author: Dimitris Rizopoulos [aut, cre]
(<https://orcid.org/0000-0001-9397-0900>)
Maintainer: Dimitris Rizopoulos <d.rizopoulos@erasmusmc.nl>
Diff between GLMMadaptive versions 0.8-0 dated 2021-01-27 and 0.8-2 dated 2021-07-05
GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Custom_Models.R |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Custom_Models.Rmd |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Custom_Models.html |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Dynamic_Predictions.R |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Dynamic_Predictions.Rmd |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Dynamic_Predictions.html |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Goodness_of_Fit.R |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Goodness_of_Fit.Rmd |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Goodness_of_Fit.html |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Methods.R |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Methods.Rmd |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Methods.html |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Multiple_Comparisons.R |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Multiple_Comparisons.Rmd |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Multiple_Comparisons.html |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Optimization.R |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Optimization.Rmd |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Optimization.html |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Ordinal_Mixed_Models.R |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Ordinal_Mixed_Models.Rmd |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/Ordinal_Mixed_Models.html |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/ZeroInflated_and_TwoPart_Models.R |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/ZeroInflated_and_TwoPart_Models.Rmd |only GLMMadaptive-0.8-0/GLMMadaptive/inst/doc/ZeroInflated_and_TwoPart_Models.html |only GLMMadaptive-0.8-0/GLMMadaptive/vignettes/Custom_Models.Rmd |only GLMMadaptive-0.8-0/GLMMadaptive/vignettes/Dynamic_Predictions.Rmd |only GLMMadaptive-0.8-0/GLMMadaptive/vignettes/Goodness_of_Fit.Rmd |only GLMMadaptive-0.8-0/GLMMadaptive/vignettes/Methods.Rmd |only GLMMadaptive-0.8-0/GLMMadaptive/vignettes/Multiple_Comparisons.Rmd |only GLMMadaptive-0.8-0/GLMMadaptive/vignettes/Optimization.Rmd |only GLMMadaptive-0.8-0/GLMMadaptive/vignettes/Ordinal_Mixed_Models.Rmd |only GLMMadaptive-0.8-0/GLMMadaptive/vignettes/ZeroInflated_and_TwoPart_Models.Rmd |only GLMMadaptive-0.8-2/GLMMadaptive/DESCRIPTION | 9 - GLMMadaptive-0.8-2/GLMMadaptive/MD5 | 48 +--------- GLMMadaptive-0.8-2/GLMMadaptive/R/Fit_Funs.R | 7 + GLMMadaptive-0.8-2/GLMMadaptive/R/methods.R | 4 GLMMadaptive-0.8-2/GLMMadaptive/R/mixed_fit.R | 5 - GLMMadaptive-0.8-2/GLMMadaptive/R/mixed_model.R | 11 +- GLMMadaptive-0.8-2/GLMMadaptive/build/vignette.rds |binary GLMMadaptive-0.8-2/GLMMadaptive/inst/doc/GLMMadaptive.html | 14 ++ GLMMadaptive-0.8-2/GLMMadaptive/man/GLMMadaptive.Rd | 4 41 files changed, 43 insertions(+), 59 deletions(-)
Title: Interface to 'OxCal' Radiocarbon Calibration
Description: A set of tools that enables using 'OxCal' from within R. 'OxCal' (<https://c14.arch.ox.ac.uk/oxcal.html>) is a standard archaeological tool intended to provide 14C calibration and analysis of archaeological and environmental chronological information. 'OxcAAR' allows simple calibration with 'Oxcal' and plotting of the results as well as the execution of sophisticated ('OxCal') code and the import of the results of bulk analysis and complex Bayesian sequential calibration.
Author: Hinz Martin [aut, cre],
Clemens Schmid [aut],
Daniel Knitter [aut],
Carolin Tietze [aut]
Maintainer: Hinz Martin <martin.hinz@iaw.unibe.ch>
Diff between oxcAAR versions 1.1.0 dated 2021-02-23 and 1.1.1 dated 2021-07-05
DESCRIPTION | 9 MD5 | 26 - R/parsing_functions.R | 6 R/utility_functions.R | 29 - README.md | 32 - build/vignette.rds |binary inst/doc/basic-usage.Rmd | 2 inst/doc/basic-usage.html | 818 ++++---------------------------- man/Phase.Rd | 2 man/Sequence.Rd | 2 man/wrap_in_boundaries.Rd | 2 tests/testthat/Rplots.pdf |binary tests/testthat/test_utility_functions.R | 1 vignettes/basic-usage.Rmd | 2 14 files changed, 180 insertions(+), 751 deletions(-)
Title: Epidemiological Report
Description: Drafting an epidemiological report in 'Microsoft Word' format for a given disease,
similar to the Annual Epidemiological Reports published by the European Centre
for Disease Prevention and Control. Through standalone functions, it is specifically
designed to generate each disease specific output presented in these reports and includes:
- Table with the distribution of cases by Member State over the last five years;
- Seasonality plot with the distribution of cases at the European Union / European Economic Area level,
by month, over the past five years;
- Trend plot with the trend and number of cases at the European Union / European Economic Area level,
by month, over the past five years;
- Age and gender bar graph with the distribution of cases at the European Union / European Economic Area level.
Two types of datasets can be used:
- The default dataset of dengue 2015-2019 data;
- Any dataset specified as described in the vignette.
Author: Lore Merdrignac [aut, ctr, cre] (Author of the package and original
code),
Tommi Karki [aut, fnd],
Esther Kissling [aut, ctr],
Joana Gomes Dias [aut, fnd] (Project manager)
Maintainer: Lore Merdrignac <l.merdrignac@epiconcept.fr>
Diff between EpiReport versions 1.0.1 dated 2021-02-04 and 1.0.2 dated 2021-07-05
DESCRIPTION | 13 MD5 | 36 - R/AER_age_gender_bar.R | 2 R/AER_maps.R | 2 R/AER_report.R | 5 R/AER_seasonality_graph.R | 2 R/AER_table.R | 2 R/AER_trend_graph.R | 2 build/vignette.rds |binary inst/doc/EpiReport_Vignette.Rmd | 6 inst/doc/EpiReport_Vignette.html | 728 ++++++++++++++------------------------- man/getAER.Rd | 2 man/getAgeGender.Rd | 2 man/getMap.Rd | 2 man/getSeason.Rd | 2 man/getTableByMS.Rd | 2 man/getTemplate.Rd | 3 man/getTrend.Rd | 2 vignettes/EpiReport_Vignette.Rmd | 6 19 files changed, 327 insertions(+), 492 deletions(-)
Title: 'DataSHIELD' Implementation for 'Opal'
Description: 'DataSHIELD' is an infrastructure and series of R packages that
enables the remote and 'non-disclosive' analysis of sensitive research data.
This package is the 'DataSHIELD' interface implementation for 'Opal', which is
the data integration application for biobanks by 'OBiBa'. Participant data, once
collected from any data source, must be integrated and stored in a central
data repository under a uniform model. 'Opal' is such a central repository.
It can import, process, validate, query, analyze, report, and export data.
'Opal' is the reference implementation of the 'DataSHIELD' infrastructure.
Author: Yannick Marcon [aut, cre] (<https://orcid.org/0000-0003-0138-2023>),
Becca Wilson [ctb] (<https://orcid.org/0000-0003-2294-593X>),
OBiBa group [cph]
Maintainer: Yannick Marcon <yannick.marcon@obiba.org>
Diff between DSOpal versions 1.2.0 dated 2021-03-16 and 1.3.0 dated 2021-07-05
DESCRIPTION | 22 ++++++++++++--------- MD5 | 22 ++++++++++++--------- NAMESPACE | 1 R/DSOpal-package.R |only R/OpalConnection.R | 29 ++++++++++++++++++++++++++-- R/datashield.assign.r | 1 R/datashield.method.r | 14 +++++++++++++ R/utils.R | 3 ++ README.md | 6 ++--- inst/examples/datashield.R | 20 +++++++++---------- man/DSOpal-package.Rd |only man/dot-datashield.profiles.Rd |only man/dsConnect-OpalDriver-method.Rd | 3 ++ man/dsListProfiles-OpalConnection-method.Rd |only 14 files changed, 88 insertions(+), 33 deletions(-)
Title: Proteomics Data Analysis Functions
Description: Data analysis of proteomics experiments by mass spectrometry is supported by this collection of functions mostly dedicated to the analysis of (bottom-up) quantitative (XIC) data.
Fasta-formatted proteomes (eg from UniProt Consortium <doi:10.1093/nar/gky1049>) can be read with automatic parsing and multiple annotation types (like species origin, abbreviated gene names, etc) extracted.
Quantitative proteomics measurements frequently contain multiple NA values, due to physical absence of given peptides in some samples, limitations in sensitivity or other reasons.
The functions provided here help to inspect graphically the data to investigate the nature of NA-values via their respective replicate measurements and to help/confirm the choice of NA-replacement by low random values.
Dedicated filtering and statistical testing using the framework of package 'limma' <doi:10.18129/B9.bioc.limma> can be run, enhanced by multiple rounds of NA-replacements to provide robustness towards rare stochastic events.
Multi-species samples, as frequently used in benchmark-tests (eg Navarro et al 2016 <doi:10.1038/nbt.3685>, Ramus et al 2016 <doi:10.1016/j.jprot.2015.11.011>), can be run with special options separating the data into sub-groups during normalization and testing.
As example the data-set from Ramus et al 2016 <doi:10.1016/j.jprot.2015.11.011>) is provided quantified by MaxQuant (Tyanova et al 2016 <doi:10.1038/nprot.2016.136>), ProteomeDiscoverer,
OpenMS (<doi:10.1038/nmeth.3959>) and Proline (Bouyssie et al 2020 <doi:10.1093/bioinformatics/btaa118>).
Subsequently, ROC curves (Hand and Till 2001 <doi:10.1023/A:1010920819831>) can be constructed to compare multiple analysis approaches.
Author: Wolfgang Raffelsberger [aut, cre]
Maintainer: Wolfgang Raffelsberger <w.raffelsberger@gmail.com>
Diff between wrProteo versions 1.4.1 dated 2021-04-15 and 1.4.2 dated 2021-07-05
DESCRIPTION | 9 MD5 | 64 NAMESPACE | 1 R/VolcanoPlotW2.R | 29 R/combineMultFilterNAimput.R | 14 R/extractTestingResults.R | 79 R/foldChangeArrow2.R | 16 R/matrixNAinspect.R | 2 R/matrixNAneighbourImpute.R | 116 - R/readMaxQuantFile.R | 65 R/readProlineFile.R | 5 R/readProtDiscovFile.R | 240 +- R/summarizeForROC.R | 2 R/testRobustToNAimputation.R | 51 build/vignette.rds |binary inst/doc/wrProteoVignette1.R | 2 inst/doc/wrProteoVignette1.Rmd | 14 inst/doc/wrProteoVignette1.html | 885 +++------ inst/doc/wrProteoVignetteUPS1.R | 77 inst/doc/wrProteoVignetteUPS1.Rmd | 106 - inst/doc/wrProteoVignetteUPS1.html | 3443 +++++++++++++++++-------------------- inst/extdata/proteinGroups.txt.gz |binary inst/extdata/pxd001819_PL.xlsx |binary man/VolcanoPlotW2.Rd | 15 man/combineMultFilterNAimput.Rd | 3 man/extractTestingResults.Rd | 4 man/foldChangeArrow2.Rd | 14 man/matrixNAneighbourImpute.Rd | 4 man/readMaxQuantFile.Rd | 12 man/readProtDiscovFile.Rd | 24 man/testRobustToNAimputation.Rd | 16 vignettes/wrProteoVignette1.Rmd | 14 vignettes/wrProteoVignetteUPS1.Rmd | 106 - 33 files changed, 2693 insertions(+), 2739 deletions(-)
Title: Pathway Testing for Longitudinal Omics
Description: A self-contained hypothesis is tested for a given pathway of longitudinal omics. 'SlaPMEG' is a two-step procedure. First, a shared latent process mixed model is fitted over the longitudinal measures of omics in a pathway. This shared model allows deviation from the shared process at subject level (a random intercept, slope, or both per subject) and also at omic level (a random effect per omic). These random effects summarize the longitudinal trend of the observations which can be used to test for group differences using 'Globaltest' in the second step. If the pathway is large or the shared effect is small, the package fits a series of pairwise models and estimates the shared random effects based on them.
Author: Mitra Ebrahimpoor
Maintainer: Mitra Ebrahimpoor <mitra.ebrahimpoor@gmail.com>
Diff between SlaPMEG versions 1.0.0 dated 2020-09-23 and 1.0.1 dated 2021-07-05
DESCRIPTION | 11 +++++------ MD5 | 25 +++++++++++++------------ R/multslapmeg.R | 5 ++--- R/pairsetinval.R | 6 +++--- R/pairslapmeg.R | 7 +++---- R/plotslapmeg.R | 4 ++-- R/setinval.R | 6 +++--- R/slapmeg.R | 20 +++++++++++--------- inst |only man/multslapmeg.Rd | 8 +++----- man/pairslapmeg.Rd | 4 ++-- man/plotslapmeg.Rd | 4 ++-- man/simslapmeg.Rd | 20 ++++++++++++++++---- man/slapmeg.Rd | 4 ++-- 14 files changed, 67 insertions(+), 57 deletions(-)
Title: True Discovery Guarantee by Combining Partial Closed Testings
Description: Closed testing has been proved powerful for true discovery guarantee. The computation of closed testing is, however, quite burdensome. A general way to reduce computational complexity is to combine partial closed testings for some prespecified feature sets of interest. Partial closed testings are performed at Bonferroni-corrected alpha level to guarantee the lower bounds for the number of true discoveries in prespecified sets are simultaneously valid. For any post hoc chosen sets of interest, coherence property is used to get the lower bound. In this package, we implement closed testing with globaltest to calculate the lower bound for number of true discoveries, see Ningning Xu et.al (2021) <arXiv:2001.01541> for detailed description.
Author: Ningning Xu
Maintainer: Ningning Xu <n.xu@lumc.nl>
Diff between newFocus versions 1.0 dated 2020-07-10 and 1.1 dated 2021-07-05
DESCRIPTION | 12 ++++++------ MD5 | 10 +++++----- R/focus_discovery.R | 2 +- build/partial.rdb |binary man/newFocus-package.Rd | 7 ++++++- man/newFocus.Rd | 2 +- 6 files changed, 19 insertions(+), 14 deletions(-)
Title: Combination of Independent P-Values
Description: Provides access to six fundamental statistics that can be used for the purpose of combination p-values. All methods used can referenced here: Heard & Rubin-Delanchy (2017) <arXiv:1707.06897>.
Author: Breya McGlown [cre, aut]
Maintainer: Breya McGlown <bswlker2@memphis.edu>
Diff between combinationpvalues versions 0.1.2 dated 2021-06-01 and 0.1.3 dated 2021-07-05
combinationpvalues-0.1.2/combinationpvalues/R/InfinitePs.r |only combinationpvalues-0.1.2/combinationpvalues/man/InfinitePs.Rd |only combinationpvalues-0.1.3/combinationpvalues/DESCRIPTION | 6 - combinationpvalues-0.1.3/combinationpvalues/MD5 | 38 +++++----- combinationpvalues-0.1.3/combinationpvalues/NAMESPACE | 2 combinationpvalues-0.1.3/combinationpvalues/NEWS.md | 2 combinationpvalues-0.1.3/combinationpvalues/R/CombinedPValues.R | 8 +- combinationpvalues-0.1.3/combinationpvalues/R/EdgingtonMethod.r | 4 - combinationpvalues-0.1.3/combinationpvalues/R/FishersMethod.r | 4 - combinationpvalues-0.1.3/combinationpvalues/R/GeorgeMethod.r | 4 - combinationpvalues-0.1.3/combinationpvalues/R/PearsonsMethod.r | 2 combinationpvalues-0.1.3/combinationpvalues/R/StoufferMethod.r | 4 - combinationpvalues-0.1.3/combinationpvalues/R/SumOfPs.r |only combinationpvalues-0.1.3/combinationpvalues/R/TippettMethod.r | 4 - combinationpvalues-0.1.3/combinationpvalues/man/CombinedPValueMethod.Rd | 2 combinationpvalues-0.1.3/combinationpvalues/man/EdMethod.Rd | 4 - combinationpvalues-0.1.3/combinationpvalues/man/FishersMethod.Rd | 4 - combinationpvalues-0.1.3/combinationpvalues/man/GeorgeMethod.Rd | 4 - combinationpvalues-0.1.3/combinationpvalues/man/PearsonsMethod.Rd | 2 combinationpvalues-0.1.3/combinationpvalues/man/StoufferMethod.Rd | 4 - combinationpvalues-0.1.3/combinationpvalues/man/SumOfPs.Rd |only combinationpvalues-0.1.3/combinationpvalues/man/TippettMethod.Rd | 4 - 22 files changed, 52 insertions(+), 50 deletions(-)
More information about combinationpvalues at CRAN
Permanent link
Title: Read-Write API Client Library for 'Wikidata'
Description: An API client for the Wikidata <https://www.wikidata.org/wiki/Wikidata:Main_Page> store of
semantic data.
Author: Thomas Shafee [aut, cre], Oliver Keyes [aut, cre], Serena Signorelli [aut, cre],
Alex Lum [ctb], Christian Graul [ctb], Mikhail Popov [ctb]
Maintainer: Thomas Shafee <T.Shafee@latrobe.edu.au>
Diff between WikidataR versions 2.1.5 dated 2021-05-25 and 2.2.0 dated 2021-07-05
DESCRIPTION | 6 ++-- MD5 | 20 ++++++------- NEWS | 29 ++++++++++++------- R/queries.R | 16 ++++++++-- R/schol.R | 6 ++-- R/sysdata.rda |binary R/utils.R | 7 ++-- R/writes.R | 73 ++++++++++++++++++++++++++------------------------ R/zzz.R | 59 +++++++++++++++++++++++++--------------- man/as_quot.Rd | 2 - man/write_wikidata.Rd | 1 11 files changed, 127 insertions(+), 92 deletions(-)
Title: Prediction Rule Ensembles
Description: Derives prediction rule ensembles (PREs). Largely follows the
procedure for deriving PREs as described in Friedman & Popescu (2008;
<DOI:10.1214/07-AOAS148>), with adjustments and improvements. The
main function pre() derives prediction rule ensembles consisting of
rules and/or linear terms for continuous, binary, count, multinomial,
and multivariate continuous responses. Function gpe() derives
generalized prediction ensembles, consisting of rules, hinge and linear
functions of the predictor variables.
Author: Marjolein Fokkema [aut, cre],
Benjamin Christoffersen [aut]
Maintainer: Marjolein Fokkema <m.fokkema@fsw.leidenuniv.nl>
Diff between pre versions 1.0.0 dated 2020-03-06 and 1.0.1 dated 2021-07-05
DESCRIPTION | 8 MD5 | 82 - NAMESPACE | 1 NEWS | 17 R/caret_pre_model.R | 23 R/pre.R | 308 +++- README.md | 250 +++ build |only inst/README-figures/README-caretplot-1.png |only inst/README-figures/README-unnamed-chunk-19-1.png |only man/bsnullinteract.Rd | 139 +- man/caret_pre_model.Rd | 203 +-- man/carrillo.Rd | 106 - man/coef.gpe.Rd | 58 man/coef.pre.Rd | 104 - man/corplot.Rd | 112 - man/cvpre.Rd | 182 +- man/explain.Rd | 308 ++-- man/gpe.Rd | 182 +- man/gpe_cv.glmnet.Rd | 40 man/gpe_rules_pre.Rd | 166 +- man/gpe_sample.Rd | 46 man/gpe_trees.Rd | 184 +- man/importance.Rd | 255 ++-- man/interact.Rd | 273 ++-- man/maxdepth_sampler.Rd | 150 +- man/pairplot.Rd | 204 +-- man/plot.pre.Rd | 144 +- man/pre.Rd | 627 +++++----- man/predict.gpe.Rd | 68 - man/predict.pre.Rd | 122 - man/print.gpe.Rd | 62 man/print.pre.Rd | 94 - man/rTerm.Rd | 106 - man/rare_level_sampler.Rd |only man/singleplot.Rd | 172 +- man/summary.gpe.Rd | 76 - man/summary.pre.Rd | 90 - tests/testthat/helper.R | 3 tests/testthat/previous_results/gpe_predict_regression.RDS |binary tests/testthat/previous_results/lung_w_pre_surv.RDS |binary tests/testthat/previous_results/rare_level_sampler.RDS |only tests/testthat/previous_results/rare_level_sampler_output.RDS |only tests/testthat/test_gpe_misc.R | 5 tests/testthat/tests_pre.R | 19 45 files changed, 2686 insertions(+), 2303 deletions(-)
Title: Junction Tree Inference
Description: Minimal and memory efficient implementation of the junction tree
algorithm using the Lauritzen-Spiegelhalter scheme;
S. L. Lauritzen and D. J. Spiegelhalter (1988)
<https://www.jstor.org/stable/2345762?seq=1>.
Author: Mads Lindskou [aut, cre]
Maintainer: Mads Lindskou <mads@math.aau.dk>
Diff between jti versions 0.7.1 dated 2021-05-21 and 0.8.0 dated 2021-07-05
jti-0.7.1/jti/README.md |only jti-0.8.0/jti/DESCRIPTION | 8 jti-0.8.0/jti/MD5 | 58 - jti-0.8.0/jti/NAMESPACE | 13 jti-0.8.0/jti/NEWS.md | 23 jti-0.8.0/jti/R/api_compile.R | 267 ++++++- jti-0.8.0/jti/R/api_jt.R | 171 +++- jti-0.8.0/jti/R/asserters.R | 2 jti-0.8.0/jti/R/helper_binary_ops.R | 45 - jti-0.8.0/jti/R/helper_charge.R | 31 jti-0.8.0/jti/R/helper_compile.R | 24 jti-0.8.0/jti/R/helper_elimination_game.R | 570 ++++++++-------- jti-0.8.0/jti/R/helper_jt.R | 260 ++++--- jti-0.8.0/jti/R/helper_triang.R | 65 + jti-0.8.0/jti/R/sandbox.R | 323 +++------ jti-0.8.0/jti/man/compile.Rd | 38 - jti-0.8.0/jti/man/figures/README-unnamed-chunk-17-1.png |binary jti-0.8.0/jti/man/figures/README-unnamed-chunk-18-1.png |only jti-0.8.0/jti/man/figures/README-unnamed-chunk-19-1.png |binary jti-0.8.0/jti/man/figures/README-unnamed-chunk-20-1.png |only jti-0.8.0/jti/man/figures/README-unnamed-chunk-21-1.png |binary jti-0.8.0/jti/man/figures/README-unnamed-chunk-22-1.png |binary jti-0.8.0/jti/man/figures/README-unnamed-chunk-23-1.png |only jti-0.8.0/jti/man/figures/README-unnamed-chunk-4-1.png |binary jti-0.8.0/jti/man/figures/README-unnamed-chunk-5-1.png |binary jti-0.8.0/jti/man/figures/README-unnamed-chunk-7-1.png |binary jti-0.8.0/jti/man/figures/README-unnamed-chunk-8-1.png |only jti-0.8.0/jti/man/figures/logo.png |only jti-0.8.0/jti/man/get-graph.Rd | 3 jti-0.8.0/jti/man/get_cliques.Rd | 9 jti-0.8.0/jti/man/getters.Rd | 22 jti-0.8.0/jti/man/pot_list.Rd |only jti-0.8.0/jti/man/print.pot_list.Rd |only jti-0.8.0/jti/man/triangulate.Rd | 29 34 files changed, 1203 insertions(+), 758 deletions(-)
Title: Comprehensive Science Mapping Analysis
Description: Tool for quantitative research in scientometrics and bibliometrics.
It provides various routines for importing bibliographic data from 'SCOPUS' (<https://scopus.com>),
'Clarivate Analytics Web of Science' (<https://www.webofknowledge.com/>), 'Digital Science Dimensions'
(<https://www.dimensions.ai/>), 'Cochrane Library' (<https://www.cochranelibrary.com/>), 'Lens' (<https://lens.org>),
and 'PubMed' (<https://pubmed.ncbi.nlm.nih.gov/>) databases, performing bibliometric analysis
and building networks for co-citation, coupling, scientific collaboration and co-word analysis.
Author: Massimo Aria [cre, aut],
Corrado Cuccurullo [aut]
Maintainer: Massimo Aria <aria@unina.it>
Diff between bibliometrix versions 3.1.3 dated 2021-05-25 and 3.1.4 dated 2021-07-05
DESCRIPTION | 13 - MD5 | 26 +-- NAMESPACE | 5 NEWS | 8 + R/couplingMap.R | 44 +++++- R/histPlot.R | 12 + R/metaTagExtraction.R | 2 R/networkStat.R | 14 +- R/termExtraction.R | 30 ++++ R/zzz.R | 305 +++++++++++++++++++++++++++++++++++++++++----- build/partial.rdb |binary inst/biblioshiny/server.R | 72 ++++++---- inst/biblioshiny/ui.R | 13 + man/networkStat.Rd | 2 14 files changed, 446 insertions(+), 100 deletions(-)
Title: Computation of Satellite Position
Description: Provides basic functionalities to calculate the position of
satellites given a known state vector. The package includes implementations
of the SGP4 and SDP4 simplified perturbation models to propagate orbital
state vectors, as well as utilities to read TLE files and convert coordinates
between different frames of reference. Several of the functionalities of the
package (including the high-precision numerical orbit propagator) require
the coefficients and data included in the 'asteRiskData' package, available
in a 'drat' repository. To install this data package, run
'install.packages("asteRiskData", repos="https://rafael-ayala.github.io/drat/")'.
Felix R. Hoots, Ronald L. Roehrich and T.S. Kelso (1988) <https://celestrak.com/NORAD/documentation/spacetrk.pdf>.
David Vallado, Paul Crawford, Richard Hujsak and T.S. Kelso (2012) <doi:10.2514/6.2006-6753>.
Felix R. Hoots, Paul W. Schumacher Jr. and Robert A. Glover (2014) <doi:10.2514/1.9161>.
Author: Rafael Ayala [aut, cre] (<https://orcid.org/0000-0002-9332-4623>),
Daniel Ayala [aut] (<https://orcid.org/0000-0003-2095-1009>),
David Ruiz [aut] (<https://orcid.org/0000-0003-4460-5493>),
Lara Selles Vidal [aut] (<https://orcid.org/0000-0003-2537-6824>)
Maintainer: Rafael Ayala <rafael.ayala@oist.jp>
Diff between asteRisk versions 1.0.0 dated 2021-05-02 and 1.1.0 dated 2021-07-05
DESCRIPTION | 17 MD5 | 32 + NAMESPACE | 2 NEWS | 4 R/auxiliaryFunctions.R | 111 ------ R/coordinatesTransformations.R | 10 R/fileParsers.R |only R/radau_tests.R | 229 ++++++++++--- inst/doc/asteRisk.R | 216 ++++++------ inst/doc/asteRisk.Rmd | 46 ++ inst/doc/asteRisk.html | 666 ++++++++++++++++++++------------------ inst/testGLONASSRINEX.txt |only inst/testGPSRINEX.txt |only inst/unitTests/test_all.R | 103 +++++ man/ECEFtoLATLON.Rd | 4 man/readGLONASSNavigationRINEX.Rd |only man/readGPSNavigationRINEX.Rd |only man/readTLE.Rd | 2 vignettes/asteRisk.Rmd | 46 ++ vignettes/static_plots |only 20 files changed, 881 insertions(+), 607 deletions(-)
Title: Sparse Tables
Description: Fast Multiplication and Marginalization of Sparse Tables.
Author: Mads Lindskou [aut, cre]
Maintainer: Mads Lindskou <mads@math.aau.dk>
Diff between sparta versions 0.8.0 dated 2021-06-18 and 0.8.1 dated 2021-07-05
sparta-0.8.0/sparta/README.md |only sparta-0.8.1/sparta/DESCRIPTION | 8 ++++---- sparta-0.8.1/sparta/MD5 | 11 +++++------ sparta-0.8.1/sparta/NEWS.md | 4 ++++ sparta-0.8.1/sparta/R/api_converters.R | 23 +++++++++++++++++------ sparta-0.8.1/sparta/R/api_sparta.R | 3 +++ sparta-0.8.1/sparta/R/helpers_misc.R | 5 +++++ 7 files changed, 38 insertions(+), 16 deletions(-)
Title: Helper Package for Installing OpenCV with R
Description: Installs 'OpenCV' for use by other packages. 'OpenCV' <https://opencv.org/>
is library of programming functions mainly aimed at real-time computer
vision. This 'Lite' version contains the stable base version of 'OpenCV' and
does not contain any of its externally contributed modules.
Author: Simon Garnier [aut, cre] (<https://orcid.org/0000-0002-3886-3974>),
Muschelli John [ctb]
Maintainer: Simon Garnier <garnier@njit.edu>
Diff between ROpenCVLite versions 4.51.0 dated 2021-03-21 and 4.52.0 dated 2021-07-05
DESCRIPTION | 9 ++++----- MD5 | 9 +++++---- NEWS.md | 12 ++++++++++++ R/opencv.R | 28 ++++++++++++++-------------- build/vignette.rds |binary inst/OpenCVModule.4.5.2.cmake |only 6 files changed, 35 insertions(+), 23 deletions(-)
Title: Explore and Visualize Your Data Interactively
Description: A 'shiny' gadget to create 'ggplot2' figures interactively with drag-and-drop to map your variables to different aesthetics.
You can quickly visualize your data accordingly to their type, export in various formats,
and retrieve the code to reproduce the plot.
Author: Fanny Meyer [aut],
Victor Perrier [aut, cre],
Ian Carroll [ctb] (Faceting support),
Xiangnan Dang [ctb] (Facets rows and cols, X/Y limits),
Nicolas Bevacqua [cph] (author of dragula JavaScript library),
Daybrush (Younkue Choi) [cph] (author of moveable JavaScript library),
Zeno Rocha [cph] (author of clipboard JavaScript library)
Maintainer: Victor Perrier <victor.perrier@dreamrs.fr>
Diff between esquisse versions 1.0.1 dated 2021-04-20 and 1.0.2 dated 2021-07-05
esquisse-1.0.1/esquisse/man/figures/esquisse.png |only esquisse-1.0.2/esquisse/DESCRIPTION | 18 esquisse-1.0.2/esquisse/MD5 | 37 esquisse-1.0.2/esquisse/NEWS.md | 9 esquisse-1.0.2/esquisse/R/default-options.R | 69 + esquisse-1.0.2/esquisse/R/esquisse-server.R | 4 esquisse-1.0.2/esquisse/R/export.R | 31 esquisse-1.0.2/esquisse/R/input-colors.R | 23 esquisse-1.0.2/esquisse/R/input-dragula.R | 39 esquisse-1.0.2/esquisse/R/module-controls.R | 54 esquisse-1.0.2/esquisse/R/scales.R | 189 +-- esquisse-1.0.2/esquisse/R/utils.R | 8 esquisse-1.0.2/esquisse/build/vignette.rds |binary esquisse-1.0.2/esquisse/inst/assets/dragula/dragula-bindings.js | 52 esquisse-1.0.2/esquisse/inst/assets/moveable/LICENSE |only esquisse-1.0.2/esquisse/inst/doc/get-started.html | 225 --- esquisse-1.0.2/esquisse/inst/doc/shiny-usage.html | 623 +++------- esquisse-1.0.2/esquisse/man/dragulaInput.Rd | 3 esquisse-1.0.2/esquisse/man/figures/logo.png |only esquisse-1.0.2/esquisse/man/input-colors.Rd | 1 esquisse-1.0.2/esquisse/man/save-ggplot-module.Rd | 17 21 files changed, 569 insertions(+), 833 deletions(-)
Title: Builds Chronologies from Oxygen Isotope Profiles in Shells
Description: Takes as input a stable oxygen isotope (d18O) profile measured in growth direction (D)
through a shell + uncertainties in both variables (d18O_err & D_err). It then models the seasonality
in the d18O record by fitting a combination of a growth and temperature sine wave to year-length chunks of
the data (see Judd et al., (2018) <doi:10.1016/j.palaeo.2017.09.034>). This modeling is carried out along a sliding window through the data and yields estimates of
the day of the year (Julian Day) and local growth rate for each data point. Uncertainties in both modeling
routine and the data itself are propagated and pooled to obtain a confidence envelope around the age of
each data point in the shell. The end result is a shell chronology consisting of estimated ages of shell
formation relative to the annual cycle with their uncertainties. All formulae in the package serve this
purpose, but the user can customize the model (e.g. number of days in a year and the mineralogy of the
shell carbonate) through input parameters.
Author: Niels de Winter [aut, cre] (<https://orcid.org/0000-0002-1453-5407>)
Maintainer: Niels de Winter <niels_de_winter@live.nl>
Diff between ShellChron versions 0.2.8 dated 2020-11-20 and 0.4.0 dated 2021-07-05
DESCRIPTION | 14 +-- MD5 | 84 +++++++++++---------- NAMESPACE | 1 NEWS.md | 12 ++- R/Virtual_shell.r | 10 +- R/age_corr.r | 6 + R/cumdy.r | 12 +-- R/cumulative_day.r | 59 +++++++++++---- R/d18O_model.r | 36 ++++++--- R/data_import.r | 67 ++++++++++++----- R/export_results.r | 84 ++++++++++----------- R/growth_model.r | 42 ++++++---- R/growth_rate_curve.r | 4 - R/mc_err_form.r | 21 +++-- R/mc_err_orth.r | 25 ++++-- R/mc_err_proj.r | 17 +++- R/peakid.r | 5 + R/run_model.r | 96 ++++++++++++++---------- R/sinreg.r | 22 ++++- R/temperature_curve.r | 2 R/wrap_function.r | 34 +++++--- README.md | 24 +++++- build |only data/Virtual_shell.rda |binary inst/extdata/Bad_data.csv |only inst/extdata/Virtual_shell.csv | 160 ++++++++++++++++++++--------------------- man/Virtual_shell.Rd | 10 +- man/age_corr.Rd | 2 man/cumdy.Rd | 4 - man/cumulative_day.Rd | 9 +- man/d18O_model.Rd | 32 ++++++-- man/data_import.Rd | 13 ++- man/export_results.Rd | 18 ++-- man/figures/README-Timing.png |binary man/growth_model.Rd | 17 ++-- man/growth_rate_curve.Rd | 5 + man/mc_err_form.Rd | 14 +-- man/mc_err_orth.Rd | 10 +- man/mc_err_proj.Rd | 10 +- man/peakid.Rd | 4 + man/run_model.Rd | 33 +++++--- man/sinreg.Rd | 10 +- man/temperature_curve.Rd | 2 man/wrap_function.Rd | 31 +++++-- 44 files changed, 656 insertions(+), 405 deletions(-)
Title: Ocean Biodiversity Information System (OBIS) Client
Description: Client for the Ocean Biodiversity Information System (<https://obis.org>).
Author: Pieter Provoost [cre, aut],
Samuel Bosch [aut],
Ward Appeltans [ctb],
OBIS [cph]
Maintainer: Pieter Provoost <pieterprovoost@gmail.com>
Diff between robis versions 2.3.9 dated 2020-07-06 and 2.6.0 dated 2021-07-05
DESCRIPTION | 16 +++++++------ MD5 | 44 ++++++++++++++++++++++--------------- NAMESPACE | 3 ++ NEWS.md | 20 ++++++++++++++++ R/area.R | 11 +++++---- R/checklist.R | 18 ++++++++------- R/dataset.R | 14 +++++------ R/node.R | 9 ++++--- R/occurrence.R | 52 ++++++++++++++++++++++++++++++-------------- R/robis.R | 13 ++++++++--- R/taxon.R |only R/util.R | 33 +++++++++++++++++++++------ README.md | 48 ++++------------------------------------ build |only inst |only man/area.Rd | 7 ++++- man/checklist.Rd | 7 +++++ man/dataset.Rd | 4 ++- man/node.Rd | 5 +++- man/occurrence.Rd | 10 +++++--- man/robis.Rd | 12 ++++++++-- man/taxon.Rd |only tests/spelling.R |only tests/testthat/test_taxon.R |only vignettes |only 25 files changed, 197 insertions(+), 129 deletions(-)
Title: Regression using GMDH Algorithms
Description: Regression using GMDH algorithms from Prof. Alexey G. Ivakhnenko.
Group Method of Data Handling (GMDH), or polynomial neural networks, is a family of inductive algorithms
that performs gradually complicated polynomial models and selecting the best solution by an external criterion.
In other words, inductive GMDH algorithms give possibility finding automatically interrelations in data, and
selecting an optimal structure of model or network.
The package includes GMDH Combinatorial, GMDH MIA (Multilayered Iterative Algorithm), GMDH GIA (Generalized Iterative Algorithm) and GMDH Combinatorial with Active Neurons.
Author: Manuel Villacorta Tilve
Maintainer: Manuel Villacorta Tilve <mvt.oviedo@gmail.com>
Diff between GMDHreg versions 0.2.1 dated 2020-08-01 and 0.2.2 dated 2021-07-05
GMDHreg-0.2.1/GMDHreg/R/predict.N.R |only GMDHreg-0.2.2/GMDHreg/DESCRIPTION | 12 - GMDHreg-0.2.2/GMDHreg/MD5 | 99 +++++----- GMDHreg-0.2.2/GMDHreg/NAMESPACE | 2 GMDHreg-0.2.2/GMDHreg/NEWS.md | 39 ++-- GMDHreg-0.2.2/GMDHreg/R/combi.R | 164 +++++++++--------- GMDHreg-0.2.2/GMDHreg/R/combi.twice.R | 164 +++++++++--------- GMDHreg-0.2.2/GMDHreg/R/combi.twice_1.R | 155 +++++++++-------- GMDHreg-0.2.2/GMDHreg/R/combi.twice_2.R | 186 ++++++++++---------- GMDHreg-0.2.2/GMDHreg/R/combi.twice_3.R | 155 +++++++++-------- GMDHreg-0.2.2/GMDHreg/R/combi_1.R | 51 ++--- GMDHreg-0.2.2/GMDHreg/R/combi_2.R | 61 +++--- GMDHreg-0.2.2/GMDHreg/R/combi_3.R | 51 ++--- GMDHreg-0.2.2/GMDHreg/R/fun.N_1.R | 63 +++--- GMDHreg-0.2.2/GMDHreg/R/fun.N_2.R | 72 +++---- GMDHreg-0.2.2/GMDHreg/R/fun.N_3.R | 86 ++++----- GMDHreg-0.2.2/GMDHreg/R/fun.filter.R |only GMDHreg-0.2.2/GMDHreg/R/fun.poly.R | 67 +++---- GMDHreg-0.2.2/GMDHreg/R/fun.svd_1.R | 66 +++---- GMDHreg-0.2.2/GMDHreg/R/fun.svd_2.R | 69 +++---- GMDHreg-0.2.2/GMDHreg/R/fun.svd_3.R | 91 +++++----- GMDHreg-0.2.2/GMDHreg/R/gia.R | 153 ++++++++-------- GMDHreg-0.2.2/GMDHreg/R/gia_1.R | 183 ++++++++++---------- GMDHreg-0.2.2/GMDHreg/R/gia_2.R | 217 ++++++++++++------------ GMDHreg-0.2.2/GMDHreg/R/gia_3.R | 183 ++++++++++---------- GMDHreg-0.2.2/GMDHreg/R/mia.R | 148 ++++++++-------- GMDHreg-0.2.2/GMDHreg/R/mia_1.R | 158 ++++++++--------- GMDHreg-0.2.2/GMDHreg/R/mia_2.R | 181 ++++++++++---------- GMDHreg-0.2.2/GMDHreg/R/mia_3.R | 157 ++++++++--------- GMDHreg-0.2.2/GMDHreg/R/predict.combi.R | 74 ++++---- GMDHreg-0.2.2/GMDHreg/R/predict.combitwice.R | 110 ++++++------ GMDHreg-0.2.2/GMDHreg/R/predict.gia.R | 118 ++++++------- GMDHreg-0.2.2/GMDHreg/R/predict.mia.R | 112 ++++++------ GMDHreg-0.2.2/GMDHreg/R/predict.neurona.R | 42 ++-- GMDHreg-0.2.2/GMDHreg/R/predict.svd.R | 37 +--- GMDHreg-0.2.2/GMDHreg/inst/doc/GMDHreg.html | 20 +- GMDHreg-0.2.2/GMDHreg/man/fun.filter.Rd |only GMDHreg-0.2.2/GMDHreg/man/gmdh.combi.Rd | 14 + GMDHreg-0.2.2/GMDHreg/man/gmdh.combi.twice.Rd | 16 + GMDHreg-0.2.2/GMDHreg/man/gmdh.combi.twice_1.Rd | 4 GMDHreg-0.2.2/GMDHreg/man/gmdh.combi.twice_2.Rd | 4 GMDHreg-0.2.2/GMDHreg/man/gmdh.combi.twice_3.Rd | 4 GMDHreg-0.2.2/GMDHreg/man/gmdh.combi_1.Rd | 2 GMDHreg-0.2.2/GMDHreg/man/gmdh.combi_2.Rd | 2 GMDHreg-0.2.2/GMDHreg/man/gmdh.combi_3.Rd | 2 GMDHreg-0.2.2/GMDHreg/man/gmdh.gia.Rd | 35 ++- GMDHreg-0.2.2/GMDHreg/man/gmdh.gia_1.Rd | 2 GMDHreg-0.2.2/GMDHreg/man/gmdh.gia_2.Rd | 2 GMDHreg-0.2.2/GMDHreg/man/gmdh.gia_3.Rd | 2 GMDHreg-0.2.2/GMDHreg/man/gmdh.mia.Rd | 20 +- GMDHreg-0.2.2/GMDHreg/man/predict.gia.Rd | 17 - GMDHreg-0.2.2/GMDHreg/man/predict.neurona.Rd | 11 - 52 files changed, 1910 insertions(+), 1773 deletions(-)
Title: Tools for Two-Dimensional Monte-Carlo Simulations
Description: A complete framework to build and study Two-Dimensional Monte-Carlo simulations, aka Second-Order Monte-Carlo simulations. Also includes various distributions (pert, triangular, Bernoulli, empirical discrete and continuous).
Author: Regis Pouillot [aut, cre],
Marie-Laure Delignette-Muller [ctb],
Jean-Baptiste Denis [ctb]
Maintainer: Regis Pouillot <rpouillot@yahoo.fr>
Diff between mc2d versions 0.1-20 dated 2021-07-01 and 0.1-21 dated 2021-07-05
mc2d-0.1-20/mc2d/data/ec.rda |only mc2d-0.1-21/mc2d/DESCRIPTION | 13 mc2d-0.1-21/mc2d/MD5 | 19 mc2d-0.1-21/mc2d/R/pert.R | 12 mc2d-0.1-21/mc2d/README.md |only mc2d-0.1-21/mc2d/build/vignette.rds |binary mc2d-0.1-21/mc2d/data/ec.r |only mc2d-0.1-21/mc2d/inst/NEWS | 7 mc2d-0.1-21/mc2d/inst/doc/docmcEnglish.R | 894 ++++++++++++++-------------- mc2d-0.1-21/mc2d/inst/doc/docmcEnglish.pdf |binary mc2d-0.1-21/mc2d/inst/doc/mc2dLmEnglish.R | 544 ++++++++--------- mc2d-0.1-21/mc2d/inst/doc/mc2dLmEnglish.pdf |binary 12 files changed, 747 insertions(+), 742 deletions(-)
Title: Subnational Data for COVID-19 Epidemiology
Description: An interface to subnational and national level COVID-19 data
sourced from both official sources, such as Public Health England in
the UK, and from other COVID-19 data collections, including the World
Health Organisation (WHO), European Centre for Disease Prevention and
Control (ECDC), John Hopkins University (JHU), Google Open Data and
others. Designed to streamline COVID-19 data extraction, cleaning, and
processing from a range of data sources in an open and transparent
way. This allows users to inspect and scrutinise the data, and tools
used to process it, at every step. For all countries supported, data
includes a daily time-series of cases. Wherever available data is also
provided for deaths, hospitalisations, and tests. National level data
are also supported using a range of sources as well as line list data
and links to intervention data sets.
Author: Joseph Palmer [aut] (<https://orcid.org/0000-0002-5593-9352>),
Katharine Sherratt [aut] (<https://orcid.org/0000-0003-2049-3423>),
Richard Martin-Nielsen [aut] (https://github.com/RichardMN),
Jonnie Bevan [aut],
Hamish Gibbs [aut] (<https://orcid.org/0000-0003-4413-453X>),
Sophie Meakin [ctb],
Joel Hellewell [ctb] (<https://orcid.org/0000-0003-2683-0849>),
Patrick Barks [ctb],
Paul Campbell [ctb],
Flavio Finger [ctb] (<https://orcid.org/0000-0002-8613-5170>),
Richard Boyes [ctb] (https://github.com/rboyes),
Hugo Gruson [ctb] (<https://orcid.org/0000-0002-4094-1476>),
Sebastian Funk [aut],
Sam Abbott [aut, cre] (<https://orcid.org/0000-0001-8057-8037>)
Maintainer: Sam Abbott <sam.abbott@lshtm.ac.uk>
Diff between covidregionaldata versions 0.9.1 dated 2021-05-07 and 0.9.2 dated 2021-07-05
covidregionaldata-0.9.1/covidregionaldata/inst/doc/dataset-status.R |only covidregionaldata-0.9.1/covidregionaldata/inst/doc/dataset-status.Rmd |only covidregionaldata-0.9.1/covidregionaldata/inst/doc/dataset-status.html |only covidregionaldata-0.9.1/covidregionaldata/tests/testthat/custom_tests/regional-dataset-specific.R |only covidregionaldata-0.9.1/covidregionaldata/vignettes/dataset-status.Rmd |only covidregionaldata-0.9.2/covidregionaldata/DESCRIPTION | 55 covidregionaldata-0.9.2/covidregionaldata/MD5 | 177 +- covidregionaldata-0.9.2/covidregionaldata/NAMESPACE | 18 covidregionaldata-0.9.2/covidregionaldata/NEWS.md | 34 covidregionaldata-0.9.2/covidregionaldata/R/Belgium.R | 7 covidregionaldata-0.9.2/covidregionaldata/R/Brazil.R | 5 covidregionaldata-0.9.2/covidregionaldata/R/Canada.R | 5 covidregionaldata-0.9.2/covidregionaldata/R/Colombia.R | 7 covidregionaldata-0.9.2/covidregionaldata/R/Covid19DataHub.R |only covidregionaldata-0.9.2/covidregionaldata/R/Cuba.R | 6 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More information about covidregionaldata at CRAN
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Title: Working with Sets the Tidy Way
Description: Implements a class and methods to work with sets,
doing intersection, union, complementary sets, power sets, cartesian
product and other set operations in a "tidy" way. These set operations
are available for both classical sets and fuzzy sets. Import sets from
several formats or from other several data structures.
Author: Lluís Revilla Sancho [aut, cre, cph]
(<https://orcid.org/0000-0001-9747-2570>),
Zebulun Arendsee [rev],
Jennifer Chang [rev]
Maintainer: Lluís Revilla Sancho <lluis.revilla@gmail.com>
Diff between BaseSet versions 0.0.16 dated 2021-04-22 and 0.0.17 dated 2021-07-05
DESCRIPTION | 10 ++-- MD5 | 20 ++++---- NEWS.md | 5 ++ R/GeneSetCollection.R | 3 - inst/doc/advanced.html | 28 ++++++------ inst/doc/basic.html | 104 ++++++++++++++++++++++----------------------- inst/doc/fuzzy.html | 26 +++++------ man/BaseSet-package.Rd | 2 man/tidy.Rd | 3 - tests/testthat/test-obo.R | 1 tests/testthat/test-tidy.R | 1 11 files changed, 106 insertions(+), 97 deletions(-)
Title: Relative Survival
Description: Contains functions for analysing relative survival data, including nonparametric estimators of net (marginal relative) survival, relative survival ratio, crude mortality, methods for fitting and checking additive and multiplicative regression models, transformation approach, methods for dealing with population mortality tables. Work has been described in Pohar Perme, Pavlic (2018) <doi:10.18637/jss.v087.i08>.
Author: Maja Pohar Perme [aut],
Damjan Manevski [aut, cre]
Maintainer: Damjan Manevski <damjan.manevski@mf.uni-lj.si>
Diff between relsurv versions 2.2-4 dated 2021-06-17 and 2.2-5 dated 2021-07-05
DESCRIPTION | 9 MD5 | 20 NAMESPACE | 1 R/Rcode.r | 974 ++++++++++++++++++++++++++++++++++++++++++++++ R/cmprel.r | 183 ++++++++ R/relsurv_2.2-5-package.R |only R/rsdiff.r | 308 ++++++++------ R/rssurvrsadd.r | 42 + R/survfitrsadd.r | 53 ++ R/zzz.R | 58 ++ inst/news.Rd | 6 man/expprep2.Rd |only 12 files changed, 1512 insertions(+), 142 deletions(-)
Title: 'Opal' Data Repository Client and 'DataSHIELD' Utils
Description: Data integration Web application for biobanks by 'OBiBa'. 'Opal' is
the core database application for biobanks. Participant data, once
collected from any data source, must be integrated and stored in a central
data repository under a uniform model. 'Opal' is such a central repository.
It can import, process, validate, query, analyze, report, and export data.
'Opal' is typically used in a research center to analyze the data acquired at
assessment centres. Its ultimate purpose is to achieve seamless
data-sharing among biobanks. This 'Opal' client allows to interact with 'Opal'
web services and to perform operations on the R server side. 'DataSHIELD'
administration tools are also provided.
Author: Yannick Marcon [aut, cre] (<https://orcid.org/0000-0003-0138-2023>),
Amadou Gaye [ctb] (<https://orcid.org/0000-0002-1180-2792>),
OBiBa group [cph]
Maintainer: Yannick Marcon <yannick.marcon@obiba.org>
Diff between opalr versions 2.1.1 dated 2021-05-31 and 3.0.0 dated 2021-07-05
DESCRIPTION | 14 MD5 | 290 ++++++----- NAMESPACE | 38 + R/datashield.admin.R | 716 +++++++++++++++++++++++------ R/dictionary.R | 71 +- R/dictionary.annotations.R | 2 R/opal.R | 206 +++++--- R/opal.admin.R | 385 +++++++++++++-- R/opal.annotations.R | 2 R/opal.assign.R | 2 R/opal.command.R | 2 R/opal.datasource.R | 2 R/opal.execute.R | 2 R/opal.file.R | 83 ++- R/opal.project.R | 193 +++++++ R/opal.report.R | 2 R/opal.resource.R | 21 R/opal.sql.R | 2 R/opal.symbol.R | 2 R/opal.table.R | 17 R/opal.task.R | 2 R/opal.taxonomy.R | 2 R/opal.users.R |only R/opal.workspace.R | 2 R/opalr-package.R |only R/utils.R | 13 README.md | 51 +- build/vignette.rds |binary inst/doc/datashield-admin.R |only inst/doc/datashield-admin.Rmd |only inst/doc/datashield-admin.html |only inst/doc/opal-files.R | 30 - inst/doc/opal-files.Rmd | 39 - inst/doc/opal-files.html | 40 - inst/doc/opal-projects.R | 70 ++ inst/doc/opal-projects.Rmd | 157 +++++- inst/doc/opal-projects.html | 137 ++++- inst/doc/opal-rsession.R | 32 + inst/doc/opal-rsession.Rmd | 67 ++ inst/doc/opal-rsession.html | 61 +- man/dot-newSession.Rd | 2 man/dot-opal.login.Rd | 10 man/dsadmin.get_method.Rd | 9 man/dsadmin.get_methods.Rd | 9 man/dsadmin.get_options.Rd | 9 man/dsadmin.install_github_package.Rd | 10 man/dsadmin.install_local_package.Rd | 12 man/dsadmin.install_package.Rd | 15 man/dsadmin.installed_package.Rd | 9 man/dsadmin.package_description.Rd | 12 man/dsadmin.package_descriptions.Rd | 12 man/dsadmin.profile.Rd |only man/dsadmin.profile_access.Rd |only man/dsadmin.profile_create.Rd |only man/dsadmin.profile_delete.Rd |only man/dsadmin.profile_enable.Rd |only man/dsadmin.profile_exists.Rd |only man/dsadmin.profile_init.Rd |only man/dsadmin.profile_perm.Rd |only man/dsadmin.profile_perm_add.Rd |only man/dsadmin.profile_perm_delete.Rd |only man/dsadmin.profile_rparser.Rd |only man/dsadmin.profiles.Rd |only man/dsadmin.publish_package.Rd |only man/dsadmin.remove_package.Rd | 9 man/dsadmin.rm_method.Rd | 9 man/dsadmin.rm_methods.Rd | 9 man/dsadmin.rm_option.Rd | 9 man/dsadmin.rm_options.Rd |only man/dsadmin.rm_package_methods.Rd | 9 man/dsadmin.set_method.Rd | 23 man/dsadmin.set_option.Rd | 9 man/dsadmin.set_package_methods.Rd | 9 man/dsadmin.unpublish_package.Rd |only man/oadmin.install_bioconductor_package.Rd | 5 man/oadmin.install_cran_package.Rd |only man/oadmin.install_devtools.Rd | 5 man/oadmin.install_github_package.Rd | 6 man/oadmin.install_local_package.Rd | 6 man/oadmin.install_package.Rd | 9 man/oadmin.installed_devtools.Rd | 5 man/oadmin.installed_package.Rd | 5 man/oadmin.installed_packages.Rd | 9 man/oadmin.package_description.Rd | 5 man/oadmin.perm.Rd | 10 man/oadmin.perm_add.Rd | 10 man/oadmin.perm_delete.Rd | 10 man/oadmin.r_perm.Rd |only man/oadmin.r_perm_add.Rd |only man/oadmin.r_perm_delete.Rd |only man/oadmin.remove_package.Rd | 5 man/oadmin.system_metrics.Rd |only man/oadmin.system_perm.Rd |only man/oadmin.system_perm_add.Rd |only man/oadmin.system_perm_delete.Rd |only man/oadmin.user_add.Rd |only man/oadmin.user_delete.Rd |only man/oadmin.user_enable.Rd |only man/oadmin.user_exists.Rd |only man/oadmin.user_profile_delete.Rd |only man/oadmin.user_profiles.Rd |only man/oadmin.user_reset_password.Rd |only man/oadmin.users.Rd |only man/opal.delete.Rd | 2 man/opal.file.Rd | 1 man/opal.file_cp.Rd | 1 man/opal.file_download.Rd | 1 man/opal.file_ls.Rd | 1 man/opal.file_mkdir.Rd | 1 man/opal.file_mkdir_tmp.Rd | 1 man/opal.file_mv.Rd | 1 man/opal.file_read.Rd | 1 man/opal.file_rm.Rd | 1 man/opal.file_unzip.Rd |only man/opal.file_upload.Rd | 23 man/opal.file_write.Rd | 1 man/opal.get.Rd | 2 man/opal.login.Rd | 37 + man/opal.logout.Rd | 5 man/opal.post.Rd | 4 man/opal.profiles.Rd |only man/opal.project.Rd | 9 man/opal.project_backup.Rd |only man/opal.project_command.Rd |only man/opal.project_create.Rd | 17 man/opal.project_delete.Rd | 9 man/opal.project_exists.Rd | 9 man/opal.project_perm_add.Rd | 8 man/opal.project_restore.Rd |only man/opal.projects.Rd | 9 man/opal.projects_databases.Rd |only man/opal.put.Rd | 4 man/opal.resource.Rd | 16 man/opal.resource_create.Rd | 16 man/opal.resource_delete.Rd | 16 man/opal.resource_exists.Rd | 16 man/opal.resource_extension_create.Rd | 16 man/opal.resource_get.Rd | 16 man/opal.resource_perm.Rd | 16 man/opal.resource_perm_add.Rd | 16 man/opal.resource_perm_delete.Rd | 16 man/opal.resources.Rd | 16 man/opal.resources_perm.Rd | 16 man/opal.resources_perm_add.Rd | 16 man/opal.resources_perm_delete.Rd | 16 man/opal.table_create.Rd | 16 man/opal.table_delete.Rd | 16 man/opal.table_dictionary_get.Rd | 16 man/opal.table_dictionary_update.Rd | 16 man/opal.table_exists.Rd | 16 man/opal.table_export.Rd | 16 man/opal.table_get.Rd | 16 man/opal.table_import.Rd | 16 man/opal.table_perm.Rd | 16 man/opal.table_perm_add.Rd | 16 man/opal.table_perm_delete.Rd | 16 man/opal.table_save.Rd | 16 man/opal.table_truncate.Rd | 16 man/opal.version_compare.Rd | 2 man/opalr-package.Rd |only tests/testthat/test-dictionary.R | 5 tests/testthat/test-dsprofile.R |only tests/testthat/test-permissions.R |only tests/testthat/test-project.R |only tests/testthat/test-token.R | 4 tests/testthat/test-users.R |only vignettes/datashield-admin.Rmd |only vignettes/opal-files.Rmd | 39 - vignettes/opal-projects.Rmd | 157 +++++- vignettes/opal-rsession.Rmd | 67 ++ 170 files changed, 3048 insertions(+), 830 deletions(-)
Title: Residual Diagnostics for Hierarchical (Multi-Level / Mixed)
Regression Models
Description: The 'DHARMa' package uses a simulation-based approach to create
readily interpretable scaled (quantile) residuals for fitted (generalized) linear mixed
models. Currently supported are linear and generalized linear (mixed) models from 'lme4'
(classes 'lmerMod', 'glmerMod'), 'glmmTMB' 'GLMMadaptive' and 'spaMM', generalized additive models
('gam' from 'mgcv'), 'glm' (including 'negbin' from 'MASS', but excluding quasi-distributions) and
'lm' model classes. Moreover, externally created simulations, e.g. posterior predictive simulations
from Bayesian software such as 'JAGS', 'STAN', or 'BUGS' can be processed as well.
The resulting residuals are standardized to values between 0 and 1 and can be interpreted
as intuitively as residuals from a linear regression. The package also provides a number of
plot and test functions for typical model misspecification problems, such as
over/underdispersion, zero-inflation, and residual spatial and temporal autocorrelation.
Author: Florian Hartig [aut, cre] (<https://orcid.org/0000-0002-6255-9059>),
Lukas Lohse [ctb]
Maintainer: Florian Hartig <florian.hartig@biologie.uni-regensburg.de>
Diff between DHARMa versions 0.4.1 dated 2021-04-08 and 0.4.2 dated 2021-07-05
DHARMa-0.4.1/DHARMa/tests/testthat/Rplots.pdf |only DHARMa-0.4.2/DHARMa/DESCRIPTION | 14 DHARMa-0.4.2/DHARMa/MD5 | 37 +- DHARMa-0.4.2/DHARMa/NEWS | 13 DHARMa-0.4.2/DHARMa/R/compatibility.R | 3 DHARMa-0.4.2/DHARMa/R/data.R |only DHARMa-0.4.2/DHARMa/R/simulateResiduals.R | 16 DHARMa-0.4.2/DHARMa/R/tests.R | 2 DHARMa-0.4.2/DHARMa/build/vignette.rds |binary DHARMa-0.4.2/DHARMa/data |only DHARMa-0.4.2/DHARMa/inst/doc/DHARMa.R | 125 ++++-- DHARMa-0.4.2/DHARMa/inst/doc/DHARMa.Rmd | 55 ++- DHARMa-0.4.2/DHARMa/inst/doc/DHARMa.html | 251 +++++++------- DHARMa-0.4.2/DHARMa/inst/doc/DHARMaForBayesians.R | 12 DHARMa-0.4.2/DHARMa/inst/doc/DHARMaForBayesians.html | 4 DHARMa-0.4.2/DHARMa/inst/examples/hurricanes.R |only DHARMa-0.4.2/DHARMa/inst/examples/simulateResidualsHelp.R | 7 DHARMa-0.4.2/DHARMa/man/hurricanes.Rd |only DHARMa-0.4.2/DHARMa/man/recalculateResiduals.Rd | 7 DHARMa-0.4.2/DHARMa/man/residuals.DHARMa.Rd | 7 DHARMa-0.4.2/DHARMa/man/simulateResiduals.Rd | 21 - DHARMa-0.4.2/DHARMa/vignettes/DHARMa.Rmd | 55 ++- 22 files changed, 392 insertions(+), 237 deletions(-)
Title: Computer Algebra
Description: Computer algebra via the 'SymPy' library (<https://www.sympy.org/>).
This makes it possible to solve equations symbolically,
find symbolic integrals, symbolic sums and other important quantities.
Author: Mikkel Meyer Andersen [aut, cre, cph],
Søren Højsgaard [aut, cph]
Maintainer: Mikkel Meyer Andersen <mikl@math.aau.dk>
Diff between caracas versions 1.1.0 dated 2021-04-08 and 1.1.1 dated 2021-07-05
DESCRIPTION | 6 ++-- MD5 | 16 ++++++------ NEWS.md | 4 +++ R/symbol.R | 3 +- README.md | 7 +++++ inst/doc/ar-ssm.html | 2 - inst/doc/linear-algebra.html | 2 - inst/doc/sympy-object.html | 56 +++++++++++++++++++++---------------------- tests/testthat/test-linalg.R | 18 ++++++------- 9 files changed, 63 insertions(+), 51 deletions(-)
Title: Analysis of Simulation Studies Including Monte Carlo Error
Description: Summarise results from simulation studies and compute Monte Carlo
standard errors of commonly used summary statistics. This package is modelled
on the 'simsum' user-written command in 'Stata' (White I.R., 2010
<https://www.stata-journal.com/article.html?article=st0200>), further extending
it with additional functionality.
Author: Alessandro Gasparini [aut, cre]
(<https://orcid.org/0000-0002-8319-7624>),
Ian R. White [aut]
Maintainer: Alessandro Gasparini <alessandro.gasparini@ki.se>
Diff between rsimsum versions 0.10.0 dated 2021-05-21 and 0.10.1 dated 2021-07-05
DESCRIPTION | 6 +++--- MD5 | 27 ++++++++++++++------------- NEWS.md | 6 ++++++ R/simsum.R | 4 ++-- README.md | 8 ++++---- build/partial.rdb |binary inst/doc/A-introduction.html | 4 ++-- inst/doc/B-relhaz.html | 4 ++-- inst/doc/C-plotting.html | 16 ++++++++-------- inst/doc/D-nlp.html | 4 ++-- inst/doc/E-custom-inputs.html | 4 ++-- inst/doc/F-rsimsumtidyverse.html | 4 ++-- man/figures/README-density-1.png |binary man/figures/README-hex-1.png |binary tests/testthat/test-#33.R |only 15 files changed, 47 insertions(+), 40 deletions(-)
Title: Binarize Images for Enhancing Optical Character Recognition
Description: Improve optical character recognition by binarizing images. The package focuses primarily on local adaptive thresholding algorithms.
In English, this means that it has the ability to turn a color or gray scale image into a black and white image. This is particularly useful
as a preprocessing step for optical character recognition or handwritten text recognition.
Author: Jan Wijffels [aut, cre, cph] (R wrapper),
Vrije Universiteit Brussel - DIGI: Brussels Platform for Digital
Humanities [cph] (R wrapper),
Brandon M. Petty [ctb, cph] (Files in src/Doxa)
Maintainer: Jan Wijffels <jan.wijffels@vub.be>
Diff between image.binarization versions 0.1.1 dated 2020-07-30 and 0.1.2 dated 2021-07-05
DESCRIPTION | 9 ++++----- MD5 | 4 ++-- NEWS.md | 8 ++++++-- 3 files changed, 12 insertions(+), 9 deletions(-)
More information about image.binarization at CRAN
Permanent link
Title: SA Counterparty Credit Risk under CRR2
Description: Computes the Exposure-At-Default based on the standardized approach
of CRR2 (SA-CCR). The simplified version of SA-CCR has been included, as well as the OEM methodology.
Multiple trade types of all the five major asset classes are being supported including the 'Other' Exposure and, given the inheritance-
based structure of the application, the addition of further trade types
is straightforward. The application returns a list of trees per Counterparty and CSA after
automatically separating the trades based on the Counterparty, the CSAs, the hedging sets, the
netting sets and the risk factors. The basis and volatility transactions are
also identified and treated in specific hedging sets whereby the corresponding
penalty factors are applied. All the examples appearing on the
regulatory papers (both for the margined and the un-margined workflow) have been
implemented including the latest CRR2 developments.
Author: Tasos Grivas
Maintainer: Tasos Grivas <info@openriskcalculator.com>
Diff between SACCR versions 3.0 dated 2020-08-24 and 3.1 dated 2021-07-05
DESCRIPTION | 12 ++++++------ MD5 | 22 +++++++++++----------- R/CalcAddon.R | 2 +- R/CalcPFE.R | 6 +++++- R/CalcRC.R | 7 +++++-- R/GroupFXTrades.R | 2 ++ R/SACCRCalculator.R | 7 ++++--- R/runExampleCalcs.R | 35 +++++++++++++++++++++++++---------- inst/extdata/supervisory_factors.csv | 2 +- man/CalcPFE.Rd | 4 +++- man/CalcRC.Rd | 4 +++- man/SACCRCalculator.Rd | 5 ++++- 12 files changed, 70 insertions(+), 38 deletions(-)
Title: Interface to Open Collaboration Services (OCS) REST API
Description: Provides an Interface to Open Collaboration Services 'OCS' (<https://www.open-collaboration-services.org/>) REST API.
Author: Emmanuel Blondel [aut, cre] (<https://orcid.org/0000-0002-5870-5762>)
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>
Diff between ocs4R versions 0.1 dated 2020-03-09 and 0.2 dated 2021-07-05
DESCRIPTION | 14 ++++---- MD5 | 30 +++++++++--------- NAMESPACE | 1 R/ocs4R.R | 9 +++-- R/ocsApiWebdavManager.R | 57 +++++++++++++++++++++++++++++++++-- R/ocsManager.R | 10 +++--- R/ocsRequest.R | 37 +++++++++++++++------- README.md | 6 +-- man/ocs4R.Rd | 6 +-- man/ocs4RLogger.Rd | 5 +-- man/ocsApiSharingManager.Rd | 5 +-- man/ocsApiUserProvisioningManager.Rd | 5 +-- man/ocsApiWebdavManager.Rd | 13 +++++-- man/ocsManager.Rd | 5 +-- man/ocsRequest.Rd | 7 +--- tests/testthat/test_api_webdav.R | 13 +++++++ 16 files changed, 152 insertions(+), 71 deletions(-)
Title: Nonlinear Root Finding, Equilibrium and Steady-State Analysis of
Ordinary Differential Equations
Description: Routines to find the root of nonlinear functions, and to perform steady-state and equilibrium analysis of ordinary differential equations (ODE).
Includes routines that: (1) generate gradient and jacobian matrices (full and banded),
(2) find roots of non-linear equations by the 'Newton-Raphson' method,
(3) estimate steady-state conditions of a system of (differential) equations in full, banded or sparse form, using the 'Newton-Raphson' method, or by dynamically running,
(4) solve the steady-state conditions for uni-and multicomponent 1-D, 2-D, and 3-D partial differential equations, that have been converted to ordinary differential equations
by numerical differencing (using the method-of-lines approach).
Includes fortran code.
Author: Karline Soetaert [aut, cre],
Alan C. Hindmarsh [ctb] (files lsodes.f, sparse.f),
S.C. Eisenstat [ctb] (file sparse.f),
Cleve Moler [ctb] (file dlinpk.f),
Jack Dongarra [ctb] (file dlinpk.f),
Youcef Saad [ctb] (file dsparsk.f)
Maintainer: Karline Soetaert <karline.soetaert@nioz.nl>
Diff between rootSolve versions 1.8.2.1 dated 2020-04-27 and 1.8.2.2 dated 2021-07-05
DESCRIPTION | 7 +++---- MD5 | 4 ++-- src/R_init_rootSolve.c | 6 +++--- 3 files changed, 8 insertions(+), 9 deletions(-)
Title: Download Content from NCBI Databases
Description: A set of tools to extract bibliographic content from the National
Center for Biotechnology Information (NCBI) databases, including PubMed. The
name RISmed is a portmanteau of RIS (for Research Information Systems, a common
tag format for bibliographic data) and PubMed.
Author: Stephanie Kovalchik [aut, cre]
Maintainer: Stephanie Kovalchik <s.a.kovalchik@gmail.com>
Diff between RISmed versions 2.2 dated 2020-10-29 and 2.3.0 dated 2021-07-05
RISmed-2.2/RISmed/R/Cited.R |only RISmed-2.2/RISmed/man/Acronym-methods.Rd |only RISmed-2.2/RISmed/man/Acronym.Rd |only RISmed-2.2/RISmed/man/Agency-methods.Rd |only RISmed-2.2/RISmed/man/Agency.Rd |only RISmed-2.2/RISmed/man/CollectiveName-methods.Rd |only RISmed-2.2/RISmed/man/CollectiveName.Rd |only RISmed-2.2/RISmed/man/RefSource-methods.Rd |only RISmed-2.2/RISmed/man/RefSource.Rd |only RISmed-2.2/RISmed/man/RegistryNumber-methods.Rd |only RISmed-2.2/RISmed/man/RegistryNumber.Rd |only RISmed-2.3.0/RISmed/DESCRIPTION | 10 RISmed-2.3.0/RISmed/MD5 | 44 +- RISmed-2.3.0/RISmed/NAMESPACE | 3 RISmed-2.3.0/RISmed/NEWS | 7 RISmed-2.3.0/RISmed/R/AllGenerics.R | 16 - RISmed-2.3.0/RISmed/R/EUtils.R | 132 -------- RISmed-2.3.0/RISmed/R/EUtilsSummary.R | 3 RISmed-2.3.0/RISmed/R/Medline.R | 365 ++++++++---------------- RISmed-2.3.0/RISmed/R/MedlineC.R | 34 +- RISmed-2.3.0/RISmed/R/ParseMedline.R |only RISmed-2.3.0/RISmed/data/myeloma.RData |binary RISmed-2.3.0/RISmed/man/Author.Rd | 2 RISmed-2.3.0/RISmed/man/Cited-methods.Rd | 12 RISmed-2.3.0/RISmed/man/Cited.Rd | 14 RISmed-2.3.0/RISmed/man/EUtilsGet.Rd | 2 RISmed-2.3.0/RISmed/man/GrantID.Rd | 2 RISmed-2.3.0/RISmed/man/Keywords-methods.Rd |only RISmed-2.3.0/RISmed/man/Keywords.Rd |only RISmed-2.3.0/RISmed/man/Medline.Rd | 18 - 30 files changed, 216 insertions(+), 448 deletions(-)
Title: Robust Generalized Linear Models (GLM) using Mixtures
Description: Robust generalized linear models (GLM) using a mixture method, as described in Beath (2018) <doi:10.1080/02664763.2017.1414164>. This assumes that the data are a mixture of standard observations, being a generalised linear model, and outlier observations from an overdispersed generalized linear model. The overdispersed linear model is obtained by including a normally distributed random effect in the linear predictor of the generalized linear model.
Author: Ken Beath [aut, cre]
Maintainer: Ken Beath <ken.beath@mq.edu.au>
Diff between robmixglm versions 1.2-1 dated 2021-01-07 and 1.2-2 dated 2021-07-05
DESCRIPTION | 14 ++++++------- MD5 | 12 +++++------ R/outlierTest.robmixglm.R | 42 ++++++++++------------------------------- build/vignette.rds |binary inst/NEWS | 4 +++ inst/doc/robmixglm-package.pdf |binary man/robmixglm.Rd | 2 + 7 files changed, 30 insertions(+), 44 deletions(-)
Title: Left-Truncated Mixtures of Gamma, Weibull, and Lognormal
Distributions
Description: Mixture modelling of one-dimensional data using combinations of left-truncated Gamma, Weibull, and Lognormal Distributions. Blostein, Martin & Miljkovic, Tatjana. (2019) <doi:10.1016/j.insmatheco.2018.12.001>.
Author: Martin Blostein <martin.blostein@gmail.com> and Tatjana Miljkovic <miljkot@miamioh.edu>
Maintainer: Martin Blostein <martin.blostein@gmail.com>
Diff between ltmix versions 0.2.0 dated 2019-04-30 and 0.2.1 dated 2021-07-05
DESCRIPTION | 11 ++++++----- MD5 | 14 +++++++------- R/top_level.R | 2 ++ data/secura.RData |binary man/ltmix.Rd | 1 - man/ltmm.Rd | 19 +++++++++++++++---- man/ltmmCombo.Rd | 25 ++++++++++++++++++++----- man/secura.Rd | 4 +++- 8 files changed, 53 insertions(+), 23 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-06-21 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-12-17 3.2.0
2019-01-29 3.1.6
2019-01-23 3.1.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-10-28 0.2.1
2018-09-10 0.2.0
2017-08-07 0.1.9
2017-05-02 0.1.8
2016-12-19 0.1.7
2016-11-11 0.1.6
2016-08-15 0.1.5
2016-05-08 0.1.4
2016-03-16 0.1.3
2015-09-10 0.1.2
2014-12-31 0.1.1
Title: 'Rcpp' Interface to 'PostgreSQL'
Description: Fully 'DBI'-compliant 'Rcpp'-backed interface to
'PostgreSQL' <https://www.postgresql.org/>, an open-source relational
database.
Author: Hadley Wickham [aut],
Jeroen Ooms [aut],
Kirill Müller [aut, cre] (<https://orcid.org/0000-0002-1416-3412>),
RStudio [cph],
R Consortium [fnd],
Tomoaki Nishiyama [ctb] (Code for encoding vectors into strings derived
from RPostgreSQL)
Maintainer: Kirill Müller <krlmlr+r@mailbox.org>
Diff between RPostgres versions 1.3.2 dated 2021-04-12 and 1.3.3 dated 2021-07-05
DESCRIPTION | 8 MD5 | 18 + NEWS.md | 6 build/vignette.rds |binary configure | 1 inst/doc/work-queue.R | 312 +++++++++++++++++----------------- inst/doc/work-queue.html | 275 +++++++++++++++-------------- src/Makevars.ucrt |only src/Makevars.win | 4 src/PqResultImpl.cpp | 11 - tests/testthat/test-checkInterrupts.R |only 11 files changed, 330 insertions(+), 305 deletions(-)