Title: A Wrapper for the 'Clockify' API
Description: A wrapper for the Clockify API <https://clockify.me/developers-api>, making it possible to query, insert and update time keeping data.
Author: Andrew B. Collier [aut, cre],
Megan Beckett [ctb]
Maintainer: Andrew B. Collier <andrew@fathomdata.dev>
Diff between clockify versions 0.0.9 dated 2021-09-08 and 0.0.10 dated 2022-08-08
clockify-0.0.10/clockify/DESCRIPTION | 8 - clockify-0.0.10/clockify/MD5 | 32 +++--- clockify-0.0.10/clockify/NAMESPACE | 2 clockify-0.0.10/clockify/NEWS.md | 5 + clockify-0.0.10/clockify/R/client.R | 82 +++++++++++++--- clockify-0.0.10/clockify/R/clockify.R | 3 clockify-0.0.10/clockify/R/project.R | 10 +- clockify-0.0.10/clockify/R/report.R |only clockify-0.0.10/clockify/R/tasks.R | 20 ++-- clockify-0.0.10/clockify/R/time-entry.R | 2 clockify-0.0.10/clockify/R/time.R | 6 - clockify-0.0.10/clockify/R/user.R | 21 +++- clockify-0.0.10/clockify/R/util.R |only clockify-0.0.10/clockify/README.md | 100 ++++++++++---------- clockify-0.0.10/clockify/man/client_delete.Rd |only clockify-0.0.10/clockify/man/client_insert.Rd |only clockify-0.0.10/clockify/man/time_entry_insert.Rd | 2 clockify-0.0.10/clockify/tests/testthat/test-user.R | 2 clockify-0.0.9/clockify/man/time_format.Rd |only clockify-0.0.9/clockify/man/time_parse.Rd |only 20 files changed, 192 insertions(+), 103 deletions(-)
Title: Business Analytics using R and Shiny
Description: A platform-independent browser-based interface for business
analytics in R, based on the shiny package. The application combines the
functionality of 'radiant.data', 'radiant.design', 'radiant.basics',
'radiant.model', and 'radiant.multivariate'.
Author: Vincent Nijs [aut, cre]
Maintainer: Vincent Nijs <radiant@rady.ucsd.edu>
Diff between radiant versions 1.4.2 dated 2022-05-25 and 1.4.4 dated 2022-08-08
DESCRIPTION | 14 +++++++------- MD5 | 12 ++++++------ NEWS.md | 4 ++++ README.md | 4 ++-- build/vignette.rds |binary inst/doc/programming.html | 10 +++++----- vignettes/_footer.md | 2 +- 7 files changed, 25 insertions(+), 21 deletions(-)
Title: Calculating Topographic Paths and Distances
Description: A toolkit for calculating topographic distances and identifying and plotting topographic paths. Topographic distances can be calculated along shortest topographic paths (Wang (2009) <doi:10.1111/j.1365-294X.2009.04338.x>), weighted topographic paths (Zhan et al. (1993) <doi:10.1007/3-540-57207-4_29>), and topographic least cost paths (Wang and Summers (2010) <doi:10.1111/j.1365-294X.2009.04465.x>). Functions can map topographic paths on colored or hill shade maps and plot topographic cross sections (elevation profiles) for the paths.
Author: Ian Wang [aut, cre]
Maintainer: Ian Wang <ianwang@berkeley.edu>
Diff between topoDistance versions 1.0.1 dated 2019-08-02 and 1.0.2 dated 2022-08-08
DESCRIPTION | 10 MD5 | 27 - R/topoWeightedDist.R | 13 build/vignette.rds |binary inst/CITATION |only inst/doc/topoDistance-vignette.R | 27 - inst/doc/topoDistance-vignette.Rmd | 15 inst/doc/topoDistance-vignette.html | 596 ++++++++++++++++++++++++++++-------- man/Yosemite.Rd | 4 man/topoDistance.Rd | 1 man/topoLCP.Rd | 3 man/topoPathMap.Rd | 22 + man/topoProfile.Rd | 14 man/topoWeightedDist.Rd | 10 vignettes/topoDistance-vignette.Rmd | 15 15 files changed, 577 insertions(+), 180 deletions(-)
Title: Repeated Measures Correlation
Description: Compute the repeated measures correlation, a statistical technique
for determining the overall within-individual relationship among paired measures
assessed on two or more occasions, first introduced by Bland and Altman (1995).
Includes functions for diagnostics, p-value, effect size with confidence
interval including optional bootstrapping, as well as graphing. Also includes
several example datasets. For more details, see the web documentation
<https://lmarusich.github.io/rmcorr/index.html> and the
original paper: Bakdash and Marusich (2017) <doi:10.3389/fpsyg.2017.00456>.
Author: Jonathan Z. Bakdash [aut] ,
Laura R. Marusich [aut, cre]
Maintainer: Laura R. Marusich <lmarusich@gmail.com>
Diff between rmcorr versions 0.4.6 dated 2022-05-02 and 0.5.0 dated 2022-08-08
DESCRIPTION | 32 ++- MD5 | 60 +++--- NAMESPACE | 2 NEWS.md | 13 + R/data.R | 143 ++++++++++++--- R/plot.rmc.R | 52 +++-- R/rmcorr-package.R | 11 - R/rmcorr.R | 10 - R/rmcorr_mat.R |only README.md | 20 +- build/partial.rdb |binary build/vignette.rds |binary data/bland1995.rda |binary data/marusich2016_exp2.rda |only data/twedt_dist_measures.rda |only inst/doc/FAQ_and_limitations.R |only inst/doc/FAQ_and_limitations.Rmd |only inst/doc/FAQ_and_limitations.html |only inst/doc/New_rmcorr_paper_analyses_figures.R | 22 +- inst/doc/New_rmcorr_paper_analyses_figures.Rmd | 6 inst/doc/New_rmcorr_paper_analyses_figures.html | 226 ++++++++++++++++++++++-- man/bland1995.Rd | 14 - man/figures |only man/gilden2010.Rd | 13 - man/marusich2016_exp2.Rd |only man/plot.rmc.Rd | 25 +- man/print.rmc.Rd | 2 man/print.rmcmat.Rd |only man/raz2005.Rd | 15 - man/rmcorr-package.Rd | 13 - man/rmcorr.Rd | 2 man/rmcorr_mat.Rd |only man/twedt_dist_measures.Rd |only tests/testthat/test-rmcorr-mat.R |only tests/testthat/test-rmcorr.R | 25 ++ vignettes/FAQ_and_limitations.Rmd |only vignettes/New_rmcorr_paper_analyses_figures.Rmd | 6 37 files changed, 546 insertions(+), 166 deletions(-)
Title: 'RStudio' Addins and 'Shiny' Modules for Medical Research
Description: 'RStudio' addins and 'Shiny' modules for descriptive statistics, regression and survival analysis.
Author: Jinseob Kim [aut, cre] ,
Zarathu [cph, fnd],
Hyunki Lee [aut]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>
Diff between jsmodule versions 1.3.0 dated 2022-01-06 and 1.3.1 dated 2022-08-08
DESCRIPTION | 12 ++++++------ MD5 | 26 +++++++++++++------------- NEWS.md | 7 +++++++ R/display2.R | 2 +- R/jsBasicGadget.R | 2 +- R/jsPropensityGadget.R | 2 +- R/jsRepeatedGadget.R | 2 +- R/jsSurveyGadget.R | 2 +- R/kaplan.R | 6 +++--- README.md | 8 +------- build/vignette.rds |binary inst/doc/jsmodule.Rmd | 8 +------- inst/doc/jsmodule.html | 10 ++++------ vignettes/jsmodule.Rmd | 8 +------- 14 files changed, 41 insertions(+), 54 deletions(-)
Title: EcoPhyloMapper
Description: Facilitates the aggregation of species' geographic ranges from vector or raster spatial data, and that enables the calculation of various morphological and phylogenetic community metrics across geography. Citation: Title, PO, DL Swiderski and ML Zelditch (2022) <doi:10.1111/2041-210X.13914>.
Author: Pascal Title [aut, cre] ,
Donald Swiderski [aut],
Miriam Zelditch [aut]
Maintainer: Pascal Title <pascal.title@stonybrook.edu>
Diff between epm versions 1.0.2 dated 2022-06-22 and 1.1.0 dated 2022-08-08
DESCRIPTION | 8 - MD5 | 20 +- R/addLegend.R | 29 +++- R/addTraits.R | 3 R/createEPMgrid.R | 354 +++++++++++++++++++++++++++++++++++++-------------- R/plot.epmGrid.R | 77 +++++++---- R/spCountIndex.R | 6 build/partial.rdb |binary man/addLegend.Rd | 7 - man/createEPMgrid.Rd | 24 ++- man/plot.Rd | 3 11 files changed, 380 insertions(+), 151 deletions(-)
Title: Functions for Web Development
Description: Organizational framework for web development in R including functions to
serve static and dynamic content via HTTP methods, includes the html5 package to
create HTML pages, and offers other utility functions for common tasks related
to web development.
Author: Timothy Conwell
Maintainer: Timothy Conwell <timconwell@gmail.com>
Diff between webdeveloper versions 1.0.2 dated 2022-07-19 and 1.0.3 dated 2022-08-08
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/webdeveloper.R | 16 ++++++++-------- man/serveHTTP.Rd | 12 ++++++------ 4 files changed, 20 insertions(+), 20 deletions(-)
Title: Design Clinical Trials using Sequential Predictive Probability
Monitoring
Description: Functions are available to calibrate designs over a range of posterior and predictive thresholds, to plot the various design options, and to obtain the operating characteristics of optimal accuracy and optimal efficiency designs.
Author: Emily C. Zabor [aut, cre] ,
Brian P. Hobbs [aut],
Michael J. Kane [aut]
Maintainer: Emily C. Zabor <zabore2@ccf.org>
Diff between ppseq versions 0.1.1 dated 2021-09-09 and 0.2.0 dated 2022-08-08
DESCRIPTION | 13 MD5 | 115 - NAMESPACE | 4 NEWS.md | 38 R/calc_decision_rules.R | 32 R/calc_next.R |only R/calc_posterior.R | 47 R/calc_predictive.R | 69 R/calibrate_posterior_threshold.R | 34 R/calibrate_thresholds.R | 189 - R/one_sample_cal_tbl-data.R | 17 R/one_sample_decision_tbl-data.R | 5 R/optimize_design.R | 125 - R/plot.R | 51 R/print.R | 29 R/sim_single_trial.R | 37 R/two_sample_cal_tbl-data.R |only R/two_sample_decision_tbl-data.R |only README.md | 127 + build/vignette.rds |binary data/one_sample_cal_tbl.rda |binary data/one_sample_decision_tbl.rda |binary data/two_sample_cal_tbl.rda |only data/two_sample_decision_tbl.rda |only inst/REFERENCES.bib |only inst/WORDLIST | 12 inst/doc/one_sample_expansion.R | 25 inst/doc/one_sample_expansion.Rmd | 50 inst/doc/one_sample_expansion.html | 3040 +++++++++++++++++++++++++--- inst/doc/two_sample_randomized.R |only inst/doc/two_sample_randomized.Rmd |only inst/doc/two_sample_randomized.html |only man/calc_decision_rules.Rd | 30 man/calc_next.Rd |only man/calc_posterior.Rd | 45 man/calc_predictive.Rd | 58 man/calibrate_posterior_threshold.Rd | 32 man/calibrate_thresholds.Rd | 59 man/eval_thresh.Rd | 10 man/figures |only man/one_sample_cal_tbl.Rd | 69 man/one_sample_decision_tbl.Rd | 47 man/optimize_design.Rd | 54 man/optimize_design.calibrate_thresholds.Rd | 74 man/plot.calc_decision_rules.Rd | 23 man/plot.calibrate_thresholds.Rd | 114 - man/ppseq-package.Rd | 9 man/print.calibrate_thresholds.Rd | 25 man/sim_single_trial.Rd | 31 man/two_sample_cal_tbl.Rd |only man/two_sample_decision_tbl.Rd |only tests/spelling.Rout.save |only tests/testthat/_snaps |only tests/testthat/test-calc_decision_rules.R | 46 tests/testthat/test-calc_next.R |only tests/testthat/test-calibrate_thresholds.R | 37 tests/testthat/test-plot.R | 12 tests/testthat/test-sim_single_trial.R | 38 vignettes/one_sample_expansion.Rmd | 50 vignettes/two_sample_randomized.Rmd |only 60 files changed, 3944 insertions(+), 978 deletions(-)
Title: Analyze Paleontological Time-Series
Description: Facilitates analysis of paleontological sequences of trait values.
Functions are provided to fit, using maximum likelihood, simple
evolutionary models (including unbiased random walks, directional
evolution,stasis, Ornstein-Uhlenbeck, covariate-tracking) and
complex models (punctuation, mode shifts).
Author: Gene Hunt [aut, cre]
Maintainer: Gene Hunt <hunte@si.edu>
Diff between paleoTS versions 0.5.2 dated 2019-03-12 and 0.5.3 dated 2022-08-08
DESCRIPTION | 10 MD5 | 80 ++--- NAMESPACE | 6 NEWS.md | 23 - R/basics.R | 6 R/complexModels.R | 52 +-- R/multModels.R | 12 R/simpleModels.R | 18 - build/vignette.rds |binary inst/doc/paleoTS_basics.R | 26 - inst/doc/paleoTS_basics.Rmd | 2 inst/doc/paleoTS_basics.html | 634 ++++++++++++++++++++++++++++++++----------- man/ESD.Rd | 10 man/as.paleoTS.Rd | 14 man/bootSimpleComplex.Rd | 16 - man/cantius_L.Rd | 4 man/dorsal.spines.Rd | 4 man/fit.sgs.Rd | 14 man/fit3models.Rd | 4 man/fitGpunc.Rd | 17 - man/fitModeShift.Rd | 14 man/fitMult.Rd | 10 man/fitSimple.Rd | 11 man/lynchD.Rd | 3 man/mle.GRW.Rd | 6 man/opt.GRW.Rd | 50 ++- man/opt.GRW.shift.Rd | 3 man/opt.covTrack.Rd | 26 + man/opt.joint.GRW.Rd | 42 +- man/opt.joint.OU.Rd | 9 man/opt.punc.Rd | 28 + man/plot.paleoTS.Rd | 13 man/sim.GRW.Rd | 3 man/sim.GRW.shift.Rd | 10 man/sim.OU.Rd | 12 man/sim.Stasis.RW.Rd | 14 man/sim.Stasis.Rd | 10 man/sim.covTrack.Rd | 11 man/sim.punc.Rd | 11 man/sim.sgs.Rd | 12 vignettes/paleoTS_basics.Rmd | 2 41 files changed, 877 insertions(+), 375 deletions(-)
Title: Create HTML Content with Bootstrap 5 Classes and Layouts
Description: Functions are pre-configured to utilize Bootstrap 5 classes and
HTML structures to create Bootstrap-styled HTML quickly and easily. Includes
functions for creating common Bootstrap elements such as containers, rows, cols,
navbars, etc. Intended to be used with the html5 package. Learn more at
<https://getbootstrap.com/>.
Author: Timothy Conwell
Maintainer: Timothy Conwell <timconwell@gmail.com>
Diff between bsTools versions 1.0.2 dated 2022-07-19 and 1.0.3 dated 2022-08-08
bsTools-1.0.2/bsTools/man/pasteCols.Rd |only bsTools-1.0.2/bsTools/man/sampleStr.Rd |only bsTools-1.0.3/bsTools/DESCRIPTION | 7 ++- bsTools-1.0.3/bsTools/MD5 | 8 +--- bsTools-1.0.3/bsTools/R/bsTools2.R | 62 +-------------------------------- bsTools-1.0.3/bsTools/man/bs_navbar.Rd | 2 - 6 files changed, 10 insertions(+), 69 deletions(-)
Title: Monte-Carlo Methods for Simulating Luminescence Phenomena
Description: A collection of functions to simulate luminescence production in
dosimetric materials using Monte Carlo methods. Implemented are models for
delocalised transitions (e.g., Chen and McKeever (1997) <doi:10.1142/2781>),
localised transitions (e.g., Pagonis et al. (2019) <doi:10.1016/j.jlumin.2018.11.024>)
and tunnelling transitions (Jain et al. (2012) <doi:10.1088/0953-8984/24/38/385402>
and Pagonis et al. (2019) <doi:10.1016/j.jlumin.2018.11.024>).
Supported stimulation methods are thermal luminescence (TL),
continuous-wave optically stimulated luminescence (CW-OSL),
linearly-modulated optically stimulated luminescence (LM-OSL),
linearly-modulated infrared stimulated luminescence (LM-IRSL),
and isothermal luminescence (ITL or ISO-TL).
Author: Johannes Friedrich [aut, trl] ,
Sebastian Kreutzer [aut, trl, cre]
,
Vasilis Pagonis [aut] ,
Christoph Schmidt [aut] ,
Christian Laag [ctb] ,
Ena Rajovic [ctb],
Alex Roy Duncan [ctb]
Maintainer: Sebastian Kreutzer <sebastian.kreutzer@uni-heidelberg.de>
Diff between RLumCarlo versions 0.1.8 dated 2022-02-21 and 0.1.9 dated 2022-08-08
DESCRIPTION | 26 ++--- MD5 | 76 ++++++++-------- NEWS.md | 55 ----------- R/RLumCarlo-package.R | 2 R/create_ClusterSystem.R | 2 R/methods.R | 4 R/plot_RLumCarlo.R | 2 R/run_MC_CW_IRSL_LOC.R | 2 R/run_MC_CW_IRSL_TUN.R | 2 R/run_MC_CW_OSL_DELOC.R | 2 R/run_MC_ISO_DELOC.R | 2 R/run_MC_ISO_LOC.R | 2 R/run_MC_ISO_TUN.R | 2 R/run_MC_LM_OSL_DELOC.R | 2 R/run_MC_LM_OSL_LOC.R | 2 R/run_MC_LM_OSL_TUN.R | 2 R/run_MC_TL_DELOC.R | 2 R/run_MC_TL_LOC.R | 2 R/utils.R | 4 build/partial.rdb |binary build/vignette.rds |binary inst/doc/RLumCarlo_-_Getting_started_with_RLumCarlo.pdf |binary man/RLumCarlo-package.Rd | 2 man/create_ClusterSystem.Rd | 4 man/figures/README-unnamed-chunk-2-1.png |binary man/methods_RLumCarlo.Rd | 4 man/plot_RLumCarlo.Rd | 4 man/run_MC_CW_IRSL_LOC.Rd | 4 man/run_MC_CW_IRSL_TUN.Rd | 4 man/run_MC_CW_OSL_DELOC.Rd | 4 man/run_MC_ISO_DELOC.Rd | 4 man/run_MC_ISO_LOC.Rd | 4 man/run_MC_ISO_TUN.Rd | 4 man/run_MC_LM_OSL_DELOC.Rd | 4 man/run_MC_LM_OSL_LOC.Rd | 4 man/run_MC_LM_OSL_TUN.Rd | 4 man/run_MC_TL_DELOC.Rd | 4 man/run_MC_TL_LOC.Rd | 4 man/run_MC_TL_TUN.Rd | 2 39 files changed, 102 insertions(+), 151 deletions(-)
Title: Dose Rate Modelling of Carbonate-Rich Samples
Description: Translation of the 'MATLAB' program 'Carb' (Nathan and Mauz 2008 <DOI:10.1016/j.radmeas.2007.12.012>; Mauz and Hoffmann 2014) for dose rate modelling for carbonate-rich samples in the context of trapped charged dating (e.g., luminescence dating) applications.
Author: Sebastian Kreutzer [aut, trl, cre, dtc]
,
Roger P. Nathan [aut, cph],
Barbara Mauz [aut, cph]
Maintainer: Sebastian Kreutzer <sebastian.kreutzer@uni-heidelberg.de>
Diff between RCarb versions 0.1.5 dated 2022-02-20 and 0.1.6 dated 2022-08-08
DESCRIPTION | 20 +++++++-------- MD5 | 34 +++++++++++++------------- NEWS.md | 57 +-------------------------------------------- R/RCarb-package.R | 20 +++++++-------- R/calc_DoseRate.R | 4 +-- R/internals_RCarb.R | 4 +-- R/model_DoseRate.R | 8 +++--- R/write_InputTemplate.R | 2 - README.md | 4 +-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/GetStarted.html | 29 +++++++++++----------- man/Example_Data.Rd | 6 ++-- man/RCarb-package.Rd | 2 - man/Reference_Data.Rd | 12 ++++----- man/model_DoseRate.Rd | 4 +-- man/write_InputTemplate.Rd | 4 +-- vignettes/GetStarted.Rmd | 2 - 18 files changed, 80 insertions(+), 132 deletions(-)
Title: Paws Low-Level Amazon Web Services API
Description: Functions for making low-level API requests to Amazon Web Services
<https://aws.amazon.com>. The functions handle building, signing, and
sending requests, and receiving responses. They are designed to help build
higher-level interfaces to individual services, such as Simple Storage
Service (S3).
Author: David Kretch [aut],
Adam Banker [aut],
Dyfan Jones [cre],
Amazon.com, Inc. [cph]
Maintainer: Dyfan Jones <dyfan.r.jones@gmail.com>
Diff between paws.common versions 0.3.17 dated 2022-03-26 and 0.4.0 dated 2022-08-08
DESCRIPTION | 18 +-- MD5 | 30 +++-- NAMESPACE | 6 + NEWS.md | 10 + R/convert.R | 6 - R/credential_providers.R | 8 + R/credentials.R | 4 R/handlers_rest.R | 8 - R/signer_v4.R | 28 +++-- R/url.R | 167 +++++++++++++++++++-------------- R/util.R | 38 +++++++ R/xmlutil.R | 9 + man/is_empty_xml.Rd |only tests/testthat/test_escape.R |only tests/testthat/test_handlers_restxml.R | 22 ++++ tests/testthat/test_signer_v4.R | 34 ++++++ tests/testthat/test_util.R | 13 ++ 17 files changed, 290 insertions(+), 111 deletions(-)
Title: Nash Optimal Party Positions
Description: Estimation of party/candidate ideological positions
that correspond to a Nash equilibrium along a
one-dimensional space.
Author: Luigi Curini, Stefano M. Iacus
Maintainer: Stefano M. Iacus <siacus@iq.harvard.edu>
Diff between nopp versions 1.1.0 dated 2017-11-02 and 1.1.2 dated 2022-08-08
DESCRIPTION | 9 ++++----- MD5 | 11 ++++++----- NEWS |only R/equilibrium.R | 4 ++-- man/italy2006.Rd | 2 +- man/italy2006.lin.Rd | 2 +- man/italy2006.wide.Rd | 2 +- 7 files changed, 15 insertions(+), 15 deletions(-)
Title: Tools to Calibrate and Work with NEON Atmospheric Isotope Data
Description: Functions for downloading,
calibrating, and analyzing atmospheric isotope data bundled
into the eddy covariance data products of the National Ecological
Observatory Network (NEON) <https://www.neonscience.org>.
Calibration tools are provided for carbon and water isotope products.
Carbon isotope calibration details are found in Fiorella et al. (2021)
<doi:10.1029/2020JG005862>, and the readme
file at <https://github.com/lanl/NEONiso>. Tools for calibrating water
isotope products have been added as of 0.6.0, but have known deficiencies
and should be considered very experimental currently.
Author: Rich Fiorella [aut, cre]
Maintainer: Rich Fiorella <rfiorella@lanl.gov>
Diff between NEONiso versions 0.5.3 dated 2022-01-03 and 0.6.0 dated 2022-08-08
NEONiso-0.5.3/NEONiso/man/calibrate_carbon_reference_data2.Rd |only NEONiso-0.5.3/NEONiso/man/write_carbon_reference_data2.Rd |only NEONiso-0.6.0/NEONiso/DESCRIPTION | 34 NEONiso-0.6.0/NEONiso/MD5 | 145 +- NEONiso-0.6.0/NEONiso/NAMESPACE | 3 NEONiso-0.6.0/NEONiso/NEWS.md | 23 NEONiso-0.6.0/NEONiso/R/calibrate_ambient_carbon_Bowling2003.R | 70 - NEONiso-0.6.0/NEONiso/R/calibrate_ambient_carbon_linreg.R | 23 NEONiso-0.6.0/NEONiso/R/calibrate_ambient_water_isotopes.R | 2 NEONiso-0.6.0/NEONiso/R/calibrate_carbon.R | 61 NEONiso-0.6.0/NEONiso/R/calibrate_carbon_bymonth.R | 12 NEONiso-0.6.0/NEONiso/R/calibrate_standards_carbon.R | 626 ++++++---- NEONiso-0.6.0/NEONiso/R/calibrate_standards_water.R | 2 NEONiso-0.6.0/NEONiso/R/calibrate_water.R | 2 NEONiso-0.6.0/NEONiso/R/calibrate_water_linreg_bymonth.R | 4 NEONiso-0.6.0/NEONiso/R/filtering_functions.R | 2 NEONiso-0.6.0/NEONiso/R/isotope_conversions.R | 10 NEONiso-0.6.0/NEONiso/R/output_functions.R | 144 -- NEONiso-0.6.0/NEONiso/R/quality_control.R |only NEONiso-0.6.0/NEONiso/R/reference_data_extraction.R | 8 NEONiso-0.6.0/NEONiso/R/reference_data_regression.R | 179 ++ NEONiso-0.6.0/NEONiso/R/restructure_data.R | 60 NEONiso-0.6.0/NEONiso/R/standard_corrections.R | 606 +++++---- NEONiso-0.6.0/NEONiso/R/sysdata.rda |only NEONiso-0.6.0/NEONiso/R/time_functions.R | 6 NEONiso-0.6.0/NEONiso/R/utility_functions.R | 13 NEONiso-0.6.0/NEONiso/README.md | 32 NEONiso-0.6.0/NEONiso/build/vignette.rds |binary NEONiso-0.6.0/NEONiso/inst/doc/example_workflow.html | 246 +++ NEONiso-0.6.0/NEONiso/inst/doc/reference_corrections.R |only NEONiso-0.6.0/NEONiso/inst/doc/reference_corrections.Rmd |only NEONiso-0.6.0/NEONiso/inst/doc/reference_corrections.html |only NEONiso-0.6.0/NEONiso/inst/extdata/NEON.D12.YELL.DP4.00200.001.nsae.2020-11.basic.packed.h5 |only NEONiso-0.6.0/NEONiso/man/R_to_delta.Rd | 2 NEONiso-0.6.0/NEONiso/man/calculate_12CO2.Rd | 2 NEONiso-0.6.0/NEONiso/man/calculate_13CO2.Rd | 2 NEONiso-0.6.0/NEONiso/man/calibrate_ambient_carbon_Bowling2003.Rd | 4 NEONiso-0.6.0/NEONiso/man/calibrate_ambient_carbon_linreg.Rd | 2 NEONiso-0.6.0/NEONiso/man/calibrate_ambient_water_linreg.Rd | 2 NEONiso-0.6.0/NEONiso/man/calibrate_carbon.Rd | 16 NEONiso-0.6.0/NEONiso/man/calibrate_carbon_bymonth.Rd | 4 NEONiso-0.6.0/NEONiso/man/calibrate_carbon_reference_data.Rd | 2 NEONiso-0.6.0/NEONiso/man/calibrate_standards_carbon.Rd | 4 NEONiso-0.6.0/NEONiso/man/calibrate_standards_water.Rd | 2 NEONiso-0.6.0/NEONiso/man/calibrate_water.Rd | 2 NEONiso-0.6.0/NEONiso/man/calibrate_water_linreg_bymonth.Rd | 2 NEONiso-0.6.0/NEONiso/man/carbon_regression_plots.Rd |only NEONiso-0.6.0/NEONiso/man/convert_NEONhdf5_to_POSIXct_time.Rd | 2 NEONiso-0.6.0/NEONiso/man/convert_POSIXct_to_NEONhdf5_time.Rd | 2 NEONiso-0.6.0/NEONiso/man/copy_qfqm_group.Rd | 2 NEONiso-0.6.0/NEONiso/man/copy_ucrt_group.Rd | 2 NEONiso-0.6.0/NEONiso/man/correct_carbon_ref_cval.Rd | 22 NEONiso-0.6.0/NEONiso/man/correct_carbon_ref_output.Rd |only NEONiso-0.6.0/NEONiso/man/delta_to_R.Rd | 2 NEONiso-0.6.0/NEONiso/man/estimate_calibration_error.Rd |only NEONiso-0.6.0/NEONiso/man/extract_carbon_calibration_data.Rd | 2 NEONiso-0.6.0/NEONiso/man/extract_water_calibration_data.Rd | 2 NEONiso-0.6.0/NEONiso/man/filter_median_Brock86.Rd | 2 NEONiso-0.6.0/NEONiso/man/fit_carbon_regression.Rd | 19 NEONiso-0.6.0/NEONiso/man/get_Rstd.Rd | 2 NEONiso-0.6.0/NEONiso/man/ingest_data.Rd | 9 NEONiso-0.6.0/NEONiso/man/loocv.Rd |only NEONiso-0.6.0/NEONiso/man/manage_local_EC_archive.Rd | 2 NEONiso-0.6.0/NEONiso/man/setup_output_file.Rd | 2 NEONiso-0.6.0/NEONiso/man/swap_standard_isotoperatios.Rd | 2 NEONiso-0.6.0/NEONiso/man/terrestrial_core_sites.Rd | 2 NEONiso-0.6.0/NEONiso/man/terrestrial_relocatable_sites.Rd | 2 NEONiso-0.6.0/NEONiso/man/validate_analyte.Rd | 4 NEONiso-0.6.0/NEONiso/man/validate_output_file.Rd |only NEONiso-0.6.0/NEONiso/man/water_isotope_sites.Rd | 2 NEONiso-0.6.0/NEONiso/man/write_carbon_ambient_data.Rd | 2 NEONiso-0.6.0/NEONiso/man/write_carbon_calibration_data.Rd | 2 NEONiso-0.6.0/NEONiso/man/write_carbon_reference_data.Rd | 2 NEONiso-0.6.0/NEONiso/man/write_qfqm.Rd | 2 NEONiso-0.6.0/NEONiso/man/write_ucrt.Rd | 2 NEONiso-0.6.0/NEONiso/man/write_water_calibration_data.Rd | 2 NEONiso-0.6.0/NEONiso/man/write_water_reference_data.Rd | 2 NEONiso-0.6.0/NEONiso/tests/testthat/test-data_regression.R | 15 NEONiso-0.6.0/NEONiso/tests/testthat/test-high_level_functions.R | 2 NEONiso-0.6.0/NEONiso/tests/testthat/test-output_values.R |only NEONiso-0.6.0/NEONiso/vignettes/reference_corrections.Rmd |only 81 files changed, 1646 insertions(+), 828 deletions(-)
Title: Libreria Del Laboratorio Di Statistica Con R
Description: Insieme di funzioni di supporto al volume "Laboratorio di
Statistica con R", Iacus-Masarotto, MacGraw-Hill Italia, 2006.
This package contains sets of functions defined in "Laboratorio
di Statistica con R", Iacus-Masarotto, MacGraw-Hill Italia,
2006. Function names and docs are in italian as well.
Author: Stefano M.Iacus <siacus@iq.harvard.edu> and Guido Masarotto
<guido@sirio.stat.unipd.it>
Maintainer: Stefano M. Iacus <siacus@iq.harvard.edu>
Diff between labstatR versions 1.0.11 dated 2020-10-22 and 1.0.13 dated 2022-08-08
DESCRIPTION | 11 +++++------ MD5 | 2 +- 2 files changed, 6 insertions(+), 7 deletions(-)
Title: Functions for Wayne W. Daniel's Biostatistics, Tenth Edition
Description: Functions to accompany Wayne W. Daniel's Biostatistics: A Foundation for Analysis in the Health Sciences, Tenth Edition.
Author: Tingting Zhan [aut, cre, cph]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>
Diff between DanielBiostatistics10th versions 0.1.6 dated 2022-06-15 and 0.1.7 dated 2022-08-08
DanielBiostatistics10th-0.1.6/DanielBiostatistics10th/R/chp09.R |only DanielBiostatistics10th-0.1.6/DanielBiostatistics10th/inst/example/LDS_C09.R |only DanielBiostatistics10th-0.1.6/DanielBiostatistics10th/inst/example/LDS_C10.R |only DanielBiostatistics10th-0.1.6/DanielBiostatistics10th/inst/example/LDS_C11.R |only DanielBiostatistics10th-0.1.6/DanielBiostatistics10th/inst/example/LDS_C12.R |only DanielBiostatistics10th-0.1.6/DanielBiostatistics10th/inst/example/LDS_C13.R |only DanielBiostatistics10th-0.1.6/DanielBiostatistics10th/inst/example/LDS_chp7.R |only DanielBiostatistics10th-0.1.6/DanielBiostatistics10th/inst/example/LDS_chp8.R |only DanielBiostatistics10th-0.1.6/DanielBiostatistics10th/inst/example/LargeData_Chapter2_NCBIRTH800.R |only DanielBiostatistics10th-0.1.6/DanielBiostatistics10th/inst/example/LargeData_Chapter6.R |only DanielBiostatistics10th-0.1.6/DanielBiostatistics10th/inst/extdata/EXA_C09_S03_01_corrected.csv |only DanielBiostatistics10th-0.1.6/DanielBiostatistics10th/inst/extdata/EXA_C11_S03_01_corrected.csv |only DanielBiostatistics10th-0.1.6/DanielBiostatistics10th/inst/extdata/LDS_C07_HEMOGLOB_corrected.csv |only DanielBiostatistics10th-0.1.6/DanielBiostatistics10th/inst/extdata/LDS_C07_MANDEXT_corrected.csv |only DanielBiostatistics10th-0.1.6/DanielBiostatistics10th/inst/extdata/LDS_C07_PROTHROM_corrected.csv |only DanielBiostatistics10th-0.1.6/DanielBiostatistics10th/inst/extdata/LDS_C10_RISKFACT_corrected.csv |only DanielBiostatistics10th-0.1.6/DanielBiostatistics10th/inst/extdata/LDS_C11_WGTLOSS_corrected.csv |only DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/DESCRIPTION | 14 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/MD5 | 111 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/NAMESPACE | 7 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/NEWS.md | 3 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/R/0S4_Boolean.R | 12 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/R/0S4_freqs.R | 8 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/R/DanielBiostatistics10th.R | 5 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/R/Gosset_Welch.R | 16 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/R/chp12.R | 16 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/R/chp2.R | 7 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/R/chp3.R | 8 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/R/chp4.R | 8 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/R/chp5.6.7.R | 45 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/R/chp7.power.R | 206 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/R/chp9.R |only DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/build/partial.rdb |binary DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/inst/example/Chapter1.R | 5 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/inst/example/Chapter10.R | 5 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/inst/example/Chapter11.R | 38 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/inst/example/Chapter12.R | 34 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/inst/example/Chapter13.R | 6 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/inst/example/Chapter14.R | 32 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/inst/example/Chapter2.R | 15 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/inst/example/Chapter3.R | 8 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/inst/example/Chapter4.R | 4 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/inst/example/Chapter7.power.R | 11 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/inst/example/Chapter8.R | 36 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/inst/example/Chapter9.R | 11 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/inst/extdata/LDS_C07_HEMOGLOB.csv | 2003 ++++---- DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/inst/extdata/LDS_C07_MANDEXT.csv | 2003 ++++---- DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/inst/extdata/LDS_C07_PROTHROM.csv | 2003 ++++---- DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/inst/extdata/LDS_C11_WGTLOSS.csv | 2372 +++++----- DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/man/BooleanRisk-class.Rd | 4 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/man/BooleanTest-class.Rd | 4 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/man/Chapter01.Rd | 5 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/man/Chapter02.Rd | 22 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/man/Chapter03.Rd | 16 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/man/Chapter04.Rd | 4 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/man/Chapter05to07.Rd | 7 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/man/Chapter07_power.Rd | 24 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/man/Chapter09.Rd | 13 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/man/Chapter11.Rd | 38 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/man/Chapter12.Rd | 42 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/man/DanielBiostatistics10th-package.Rd | 5 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/man/Gosset_Welch.Rd | 12 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/man/RejectionRegion-class.Rd |only DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/man/binom2pois.Rd | 8 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/man/freqs-class.Rd | 4 DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/man/power-class.Rd |only DanielBiostatistics10th-0.1.7/DanielBiostatistics10th/man/show-power-method.Rd |only 67 files changed, 4609 insertions(+), 4651 deletions(-)
More information about DanielBiostatistics10th at CRAN
Permanent link
Title: Bayesian Structure Learning in Graphical Models using
Birth-Death MCMC
Description: Statistical tools for Bayesian structure learning in undirected graphical models for continuous, discrete, and mixed data. The package is implemented the recent improvements in the Bayesian graphical models' literature, including Mohammadi and Wit (2015) <doi:10.1214/14-BA889>, Mohammadi et al. (2021) <doi:10.1080/01621459.2021.1996377>, and Mohammadi and Wit (2019) <doi:10.18637/jss.v089.i03>.
Author: Reza Mohammadi [aut, cre] ,
Ernst Wit [aut] ,
Adrian Dobra [ctb]
Maintainer: Reza Mohammadi <a.mohammadi@uva.nl>
Diff between BDgraph versions 2.67 dated 2022-05-09 and 2.68 dated 2022-08-08
BDgraph-2.67/BDgraph/inst/doc/BDgraph.pdf |only BDgraph-2.67/BDgraph/inst/doc/BDgraph_examples.R |only BDgraph-2.67/BDgraph/inst/doc/BDgraph_examples_JSS.R |only BDgraph-2.67/BDgraph/inst/doc/vignette.Rnw |only BDgraph-2.67/BDgraph/inst/doc/vignette.pdf |only BDgraph-2.67/BDgraph/vignettes/BDgraph-Examples.html |only BDgraph-2.67/BDgraph/vignettes/BDgraph.pdf |only BDgraph-2.67/BDgraph/vignettes/vignette.Rnw |only BDgraph-2.68/BDgraph/DESCRIPTION | 7 BDgraph-2.68/BDgraph/MD5 | 76 ++-- BDgraph-2.68/BDgraph/NEWS.md | 8 BDgraph-2.68/BDgraph/R/bdgraph.R | 79 ++-- BDgraph-2.68/BDgraph/R/bdgraph.dw.R | 27 - BDgraph-2.68/BDgraph/R/bdgraph.mpl.R | 46 +- BDgraph-2.68/BDgraph/R/detect_cores.R | 7 BDgraph-2.68/BDgraph/R/plotcoda.R | 24 - BDgraph-2.68/BDgraph/build/partial.rdb |binary BDgraph-2.68/BDgraph/build/vignette.rds |binary BDgraph-2.68/BDgraph/data/churn.RData |binary BDgraph-2.68/BDgraph/data/geneExpression.RData |binary BDgraph-2.68/BDgraph/data/reinis.RData |binary BDgraph-2.68/BDgraph/data/surveyData.RData |binary BDgraph-2.68/BDgraph/inst/doc/BDgraph-Examples.R |only BDgraph-2.68/BDgraph/inst/doc/BDgraph-Examples.Rmd | 38 +- BDgraph-2.68/BDgraph/inst/doc/BDgraph-Examples.html | 106 ++--- BDgraph-2.68/BDgraph/inst/doc/Introduction-BDgraph.R |only BDgraph-2.68/BDgraph/inst/doc/Introduction-BDgraph.Rmd |only BDgraph-2.68/BDgraph/inst/doc/Introduction-BDgraph.html |only BDgraph-2.68/BDgraph/man/bdgraph.Rd | 5 BDgraph-2.68/BDgraph/man/bdgraph.dw.Rd | 3 BDgraph-2.68/BDgraph/man/bdgraph.mpl.Rd | 3 BDgraph-2.68/BDgraph/man/compare.Rd | 2 BDgraph-2.68/BDgraph/man/figures/Figure_1.png |only BDgraph-2.68/BDgraph/man/plotcoda.Rd | 5 BDgraph-2.68/BDgraph/src/BDgraph_init.c | 4 BDgraph-2.68/BDgraph/src/gcgm_DMH.cpp | 297 ++++++++-------- BDgraph-2.68/BDgraph/src/gcgm_bd.cpp | 16 BDgraph-2.68/BDgraph/src/gcgm_dw_bd.cpp | 18 BDgraph-2.68/BDgraph/src/ggm_DMH.cpp | 26 - BDgraph-2.68/BDgraph/src/ggm_bd.cpp | 16 BDgraph-2.68/BDgraph/src/ggm_mpl_bd.cpp | 24 - BDgraph-2.68/BDgraph/src/gm_mpl_bd_dis.cpp | 40 +- BDgraph-2.68/BDgraph/src/gm_rj.cpp | 16 BDgraph-2.68/BDgraph/src/omp_set_num_cores.cpp | 4 BDgraph-2.68/BDgraph/vignettes/BDgraph-Examples.Rmd |only BDgraph-2.68/BDgraph/vignettes/Figure_1.png |only BDgraph-2.68/BDgraph/vignettes/Introduction-BDgraph.Rmd |only 47 files changed, 491 insertions(+), 406 deletions(-)
Title: Troubles Solver for 'lme4'
Description: The main function of the package aims to update 'lmer()'/'glmer()' models depending on their warnings, so trying to avoid convergence and singularity problems.
Author: Iago Gine-Vazquez [aut, cre]
Maintainer: Iago Gine-Vazquez <iago.gin-vaz@protonmail.com>
Diff between trouBBlme4SolveR versions 0.1 dated 2022-07-14 and 0.1.1 dated 2022-08-08
DESCRIPTION | 10 +++++----- MD5 | 13 +++++++------ NEWS.md | 7 +++++++ README.md |only inst/doc/introduction.pdf |binary man/fly_parameters.Rd | 5 +++++ man/issue618.Rd | 2 +- man/issue618large.Rd | 6 +++--- 8 files changed, 28 insertions(+), 15 deletions(-)
More information about trouBBlme4SolveR at CRAN
Permanent link
Title: Calculating Linkage Disequilibrium (LD) in Human Population
Groups of Interest
Description: Provides access to the 'LDlink' API (<https://ldlink.nci.nih.gov/?tab=apiaccess>)
using the R console. This programmatic access facilitates researchers who are
interested in performing batch queries in 1000 Genomes Project (2015) <doi:10.1038/nature15393>
data using 'LDlink'. 'LDlink' is an interactive and powerful suite of web-based tools for querying
germline variants in human population groups of interest. For more details, please see
Machiela et al. (2015) <doi:10.1093/bioinformatics/btv402>.
Author: Timothy A. Myers [aut, cre] ,
Stephen J. Chanock [aut],
Mitchell J. Machiela [aut]
Maintainer: Timothy A. Myers <myersta@mail.nih.gov>
Diff between LDlinkR versions 1.2.1 dated 2022-06-07 and 1.2.2 dated 2022-08-08
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- NEWS.md | 7 ++++++- R/LDtrait.R | 4 ++-- README.md | 12 ++++++------ build/partial.rdb |binary inst/WORDLIST | 3 +-- inst/doc/LDlinkR.Rmd | 8 ++++---- inst/doc/LDlinkR.html | 23 +++++++++++------------ man/LDtrait.Rd | 2 +- tests/testthat/test-ldhap.R | 14 +++++++------- vignettes/LDlinkR.Rmd | 8 ++++---- 12 files changed, 56 insertions(+), 53 deletions(-)
Title: Extract and Visualize Motif Information from MEME Software
Description: Extract and visualize motif information from XML file from MEME software.
In biology, a motif is a nucleotide or amino acid sequence pattern that is widespread
and usually assumed to be related to specifical biological functions.
There exist many software was used to discover motif sequences from a set of nucleotide
or amino acid sequences. MEME is almost the most used software to detect motif.
It's difficult for biologists to extract and visualize the location of a motif
on sequences from the results from MEME software.
Author: Xiang LI
Maintainer: Xiang LI <lixiang117423@foxmail.com>
Diff between ggmotif versions 0.1.4 dated 2022-07-04 and 0.2.0 dated 2022-08-08
DESCRIPTION | 15 +++--- MD5 | 26 ++++++++--- NAMESPACE | 4 + R/getMotifFromMEME.R | 100 ++++++++++++++++++++++--------------------- R/motifLocation.R | 27 +++++++++-- build |only inst/demo_data/tree.anno.txt |only inst/doc |only inst/examples/tree.anno.txt |only man/getMotifFromMEME.Rd | 6 +- man/motifLocation.Rd | 3 - vignettes |only 12 files changed, 113 insertions(+), 68 deletions(-)
Title: Methods for Analysing 'EQ-5D' Data and Calculating 'EQ-5D' Index
Scores
Description: EQ-5D is a popular health related quality of life instrument used
in the clinical and economic evaluation of health care. Developed by the
EuroQol group <https://euroqol.org/>, the instrument consists of two
components: health state description and evaluation. For the description
component a subject self-rates their health in terms of five dimensions;
mobility, self-care, usual activities, pain/discomfort, and
anxiety/depression using either a three-level (EQ-5D-3L,
<https://euroqol.org/eq-5d-instruments/eq-5d-3l-about/>) or a five-level
(EQ-5D-5L, <https://euroqol.org/eq-5d-instruments/eq-5d-5l-about/>)
scale. Frequently the scores on these five dimensions are converted to a
single utility index using country specific value sets, which can be used
in the clinical and economic evaluation of health care as well as in
population health surveys. The eq5d package provides methods to calculate
index scores from a subject's dimension scores. 29 TTO and 11 VAS EQ-5D-3L
value sets including those for countries in Szende et al (2007)
<doi:10.1007/1-4020-5511-0> and Szende et al (2014)
<doi:10.1007/978-94-007-7596-1>, 35 EQ-5D-5L EQ-VT value sets from the
EuroQol website, the EQ-5D-5L crosswalk value sets developed by
van Hout et al. (2012) <doi:10.1016/j.jval.2012.02.008>, the
crosswalk value set for Russia and reverse crosswalk value sets. Four
EQ-5D-Y value sets are also included as are the NICE 'DSU' age-sex
based EQ-5D-3L to EQ-5D-5L and EQ-5D-5L to EQ-5D-3L mappings. Methods are
also included for the analysis of EQ-5D profiles along with a shiny web
tool to enable the calculation, visualisation and automated statistical
analysis of EQ-5D data via a web browser using EQ-5D dimension scores
stored in CSV or Excel files.
Author: Fraser Morton [aut, cre],
Jagtar Singh Nijjar [aut]
Maintainer: Fraser Morton <fraser.morton@glasgow.ac.uk>
Diff between eq5d versions 0.11.0 dated 2022-04-05 and 0.12.0 dated 2022-08-08
DESCRIPTION | 10 +++++----- MD5 | 38 +++++++++++++++++++------------------- NAMESPACE | 8 ++++++++ NEWS.md | 11 +++++++++++ R/data.R | 43 +++++++++++++++++++++++++++++++++---------- R/eq5d.R | 10 ++++++---- R/eq5dmap.R | 4 ++-- R/sysdata.rda |binary inst/doc/eq5d.html | 30 +++++++++++++++--------------- inst/shiny/server.R | 2 +- man/TTO.Rd | 2 +- man/VT.Rd | 17 ++++++++++------- man/Y.Rd | 3 ++- man/eq5d-package.Rd | 2 +- man/eq5d.Rd | 10 ++++++---- man/eq5dmap.Rd | 4 ++-- tests/testthat/test-eq5d.R | 2 +- tests/testthat/test-eq5d3l.R | 4 ++-- tests/testthat/test-eq5d5l.R | 38 +++++++++++++++++++++++++++++++++++--- tests/testthat/test-eq5dy.R | 8 ++++++++ 20 files changed, 168 insertions(+), 78 deletions(-)
Title: Analyzing Toxicology Dose-Response Data
Description: Toxicology routines for analyzing dose-response data include dose-response analysis
and trend tests. Dose-Response methods are based upon the US EPA's benchmark dose software 3. Methods have
been extended to include additional functionality based on World Health Organization
guidelines. It further supports the European Food Safety Authority's
draft guidance on model averaging. The dose-response methods and datasets used in this package are
described in Wheeler et al. (2019) <doi:10.1111/risa.13218>, Wheeler et al. (2020) <doi:10.1111/risa.13537>,
and Wheeler et al. (2022) <doi:10.1002/env.2728>. NTP routines are described in
Bailer and Portier (1988) <doi:10.2307/2531856>, Bieler and Williams (1993) <doi:10.2307/2532200>,
Williams (1971) <doi:10.2307/2528930>, and Shirley (1977) <doi:10.2307/2529789>.
Author: Matt Wheeler [aut, cre] ,
Sooyeong Lim [aut],
Eric Wimberly [ctb],
Keith Shockley [com],
Jennifer Fostel [com],
Lonlong Yang [ctb] ,
Dawan Taley [com],
Cari Martini [com],
Ashwin Raghuraman [ctb]
to make them standalone functions.),
Steven Johnson [ [...truncated...]
Maintainer: Matt Wheeler <matt.wheeler@nih.gov>
Diff between ToxicR versions 22.5.1 dated 2022-06-09 and 22.8.1.0.2 dated 2022-08-08
ToxicR-22.5.1/ToxicR/src/CHANGELOG.md |only ToxicR-22.8.1.0.2/ToxicR/DESCRIPTION | 8 ToxicR-22.8.1.0.2/ToxicR/MD5 | 31 - ToxicR-22.8.1.0.2/ToxicR/NAMESPACE | 5 ToxicR-22.8.1.0.2/ToxicR/R/continuous_wrappers.R | 4 ToxicR-22.8.1.0.2/ToxicR/R/model_averaging_fits.R | 4 ToxicR-22.8.1.0.2/ToxicR/R/opening_messages.R | 1 ToxicR-22.8.1.0.2/ToxicR/R/prior_classes.R | 44 + ToxicR-22.8.1.0.2/ToxicR/R/summary_continuous.R | 62 ++ ToxicR-22.8.1.0.2/ToxicR/R/summary_dichotomous.R | 2 ToxicR-22.8.1.0.2/ToxicR/build/partial.rdb |binary ToxicR-22.8.1.0.2/ToxicR/build/vignette.rds |binary ToxicR-22.8.1.0.2/ToxicR/inst/doc/Continuous.html | 277 ++++++++-- ToxicR-22.8.1.0.2/ToxicR/src/code_base/continuous_clean_aux.cpp | 2 ToxicR-22.8.1.0.2/ToxicR/src/code_base/continuous_entry_code.cpp | 28 - ToxicR-22.8.1.0.2/ToxicR/src/include/statmod.h | 8 ToxicR-22.8.1.0.2/ToxicR/tests/testthat/test-single_continuous_mle.R | 3 17 files changed, 376 insertions(+), 103 deletions(-)
Title: Presenting Statistical Results Effectively
Description: Includes functions and data used in the book "Presenting Statistical Results Effectively", Andersen and Armstrong (2022, 978-1446269800).
Author: Dave Armstrong [aut, cre],
Robert Andersen [aut],
Justin Esarey [cph],
John Fox [cph],
Michael Friendly [cph],
Adrian Bowman [cph],
Adelchi Azzalini [cph]
Maintainer: Dave Armstrong <dave@quantoid.net>
Diff between psre versions 0.1.1 dated 2022-04-10 and 0.1.2 dated 2022-08-08
DESCRIPTION | 10 +++++----- MD5 | 22 +++++++++++----------- R/effective_functions.r | 6 +----- build/partial.rdb |binary data/ces.rda |binary data/gss.rda |binary data/inc_ineq.rda |binary data/india.rda |binary data/relig_imp.rda |binary data/repress.rda |binary data/wvs.rda |binary man/rrPlot.Rd | 6 +----- 12 files changed, 18 insertions(+), 26 deletions(-)
Title: Analyze Big Files Without Loading Them in Memory
Description: A simple set of wrapper functions for data.table::fread() that allows subsetting or
filtering rows and selecting columns of table-formatted files too large for the available RAM.
'b stands for 'big files'.
bread makes heavy use of Unix commands like 'grep', 'sed', 'wc', 'awk' and 'cut'. They are available
by default in all Unix environments.
For Windows, you need to install those commands externally in order to simulate a
Unix environment and make sure that the executables are in the Windows PATH variable.
To my knowledge, the simplest ways are to install 'RTools', 'Git' or 'Cygwin'. If they have been
correctly installed (with the expected registry entries), they should be detected on loading
the package and the correct directories will be added automatically to the PATH.
Author: Vincent Guegan [aut, cre]
Maintainer: Vincent Guegan <vincent.guegan@banque-france.fr>
Diff between bread versions 0.1.7 dated 2022-01-19 and 0.2.3 dated 2022-08-08
DESCRIPTION | 15 - MD5 | 46 +-- NAMESPACE | 25 +- R/bcolnames.R | 76 +++--- R/bfile_split.R | 634 +++++++++++++++++++++++++-------------------------- R/bfilter.R | 38 +-- R/bmeta.R | 58 ++-- R/bnrow.R | 64 ++--- R/bnumrange.R |only R/bread.R | 154 ++++++++---- R/bselect.R | 20 - R/bsep.R | 106 ++++---- R/bsubset.R | 16 - R/helper_functions.R | 282 +++++++++++++++------- README.md | 2 man/bcolnames.Rd | 6 man/bfile_split.Rd | 152 ++++++------ man/bfilter.Rd | 118 ++++----- man/bmeta.Rd | 4 man/bnrow.Rd | 6 man/bnumrange.Rd |only man/bread.Rd | 217 +++++++++-------- man/bselect.Rd | 12 man/bsep.Rd | 54 ++-- man/bsubset.Rd | 112 ++++----- 25 files changed, 1207 insertions(+), 1010 deletions(-)
Title: An Image Processing Toolkit
Description: Incorporates functions for image preprocessing, filtering and image recognition. The package takes advantage of 'RcppArmadillo' to speed up computationally intensive functions. The histogram of oriented gradients descriptor is a modification of the 'findHOGFeatures' function of the 'SimpleCV' computer vision platform, the average_hash(), dhash() and phash() functions are based on the 'ImageHash' python library. The Gabor Feature Extraction functions are based on 'Matlab' code of the paper, "CloudID: Trustworthy cloud-based and cross-enterprise biometric identification" by M. Haghighat, S. Zonouz, M. Abdel-Mottaleb, Expert Systems with Applications, vol. 42, no. 21, pp. 7905-7916, 2015, <doi:10.1016/j.eswa.2015.06.025>. The 'SLIC' and 'SLICO' superpixel algorithms were explained in detail in (i) "SLIC Superpixels Compared to State-of-the-art Superpixel Methods", Radhakrishna Achanta, Appu Shaji, Kevin Smith, Aurelien Lucchi, Pascal Fua, and Sabine Suesstrunk, IEEE Transactions on Pattern Analysis and Machine Intelligence, vol. 34, num. 11, p. 2274-2282, May 2012, <doi:10.1109/TPAMI.2012.120> and (ii) "SLIC Superpixels", Radhakrishna Achanta, Appu Shaji, Kevin Smith, Aurelien Lucchi, Pascal Fua, and Sabine Suesstrunk, EPFL Technical Report no. 149300, June 2010.
Author: Lampros Mouselimis [aut, cre] ,
Sight Machine [cph] ,
Johannes Buchner [cph] ,
Mohammad Haghighat [cph] ,
Radhakrishna Achanta [cph] ),
Oleh Onyshchak [cph]
Maintainer: Lampros Mouselimis <mouselimislampros@gmail.com>
Diff between OpenImageR versions 1.2.2 dated 2022-06-07 and 1.2.3 dated 2022-08-08
DESCRIPTION | 19 - MD5 | 44 ++- NAMESPACE | 2 NEWS.md | 9 R/RcppExports.R | 12 R/shiny_rscript.R | 9 R/warp_affine.R |only README.md | 2 build/vignette.rds |binary inst/CITATION | 8 inst/COPYRIGHTS | 28 ++ inst/doc/Gabor_Feature_Extraction.html | 4 inst/doc/Image_segmentation_superpixels_clustering.html | 4 inst/doc/The_OpenImageR_package.html | 18 - inst/doc/Warp_Affine.R |only inst/doc/Warp_Affine.Rmd |only inst/doc/Warp_Affine.html |only inst/documentation |only inst/include/OpenImageRheader.h | 212 +++++++++++++++- inst/tmp_images/landscape.jpg |only man/getAffineTransform.Rd |only man/imageShow.Rd | 4 man/warpAffine.Rd |only src/RcppExports.cpp | 47 +++ src/extract_inst_folder_headers.cpp | 44 +++ src/init.c | 6 tests/testthat/test-warp_affine.R |only vignettes/Warp_Affine.Rmd |only 28 files changed, 418 insertions(+), 54 deletions(-)
Title: Testing for Symmetry of Data and Model Residuals
Description: Implementations of a large number of tests for symmetry and their
bootstrap variants, which can be used for testing the symmetry of random
samples around a known or unknown mean. Functions are also there for testing
the symmetry of model residuals around zero. Currently, the supported models
are linear models and generalized autoregressive conditional
heteroskedasticity (GARCH) models (fitted with the 'fGarch' package). All
tests are implemented using the 'Rcpp' package which ensures great
performance of the code.
Author: Blagoje Ivanović [aut, cre]
Bojana Milosević [aut]
Marko Obradović [aut]
Maintainer: Blagoje Ivanović <blagoje_ivanovic@matf.bg.ac.rs>
Diff between symmetry versions 0.2.1 dated 2020-02-28 and 0.2.2 dated 2022-08-08
DESCRIPTION | 11 +++++------ MD5 | 12 ++++++------ NEWS.md | 6 +++++- build/partial.rdb |binary man/symmetry.Rd | 1 - man/symmetry_test.Rd | 43 ++++++++++++++++++++++++++++++++----------- src/RcppExports.cpp | 5 +++++ 7 files changed, 53 insertions(+), 25 deletions(-)
Title: Data Simulation for Life Science and Breeding
Description: Data simulator including genotype, phenotype, pedigree,
selection and reproduction in R. It simulates most of reproduction process
of animals or plants and provides data for GS (Genomic Selection),
GWAS (Genome-Wide Association Study), and Breeding.
For ADI model, please see Kao C and Zeng Z (2002) <doi:10.1093/genetics/160.3.1243>.
For build.cov, please see B. D. Ripley (1987) <ISBN:9780470009604>.
Author: Dong Yin [aut],
Xuanning Zhang [aut],
Lilin Yin [aut],
Haohao Zhang [aut],
Zhenshuang Tang [aut],
Jingya Xu [aut],
Xiaohui Yuan [aut],
Xinyun Li [aut],
Shuhong Zhao [aut],
Xiaolei Liu [cre, aut, cph]
Maintainer: Xiaolei Liu <xiaoleiliu@mail.hzau.edu.cn>
Diff between simer versions 0.9.0.0 dated 2022-05-12 and 0.9.0.2 dated 2022-08-08
DESCRIPTION | 30 MD5 | 78 - NAMESPACE | 4 R/RcppExports.R | 8 R/exports.R | 3 R/simer.Data.R | 376 +++++++- R/simer.Genotype.r | 1182 +++++++++++++-------------- R/simer.Parameter.r | 493 ++++++----- R/simer.Phenotype.r | 1143 +++++++++++++------------- R/simer.Reproduces.r | 25 R/simer.Selects.r | 340 ++++--- R/simer.Utility.R | 13 README.md | 1375 ++++++++++++++++++-------------- inst/extdata/04breeding_plan/plan1.json | 131 +-- man/annotation.Rd | 7 man/mate.2waycro.Rd | 2 man/mate.3waycro.Rd | 2 man/mate.4waycro.Rd | 2 man/mate.backcro.Rd | 2 man/mate.clone.Rd | 2 man/mate.dh.Rd | 2 man/mate.randexself.Rd | 2 man/mate.randmate.Rd | 2 man/mate.selfpol.Rd | 2 man/mate.userped.Rd | 2 man/param.annot.Rd | 7 man/param.geno.Rd | 2 man/param.global.Rd | 6 man/param.pheno.Rd | 2 man/param.reprod.Rd | 2 man/param.sel.Rd | 2 man/param.simer.Rd | 2 man/phenotype.Rd | 15 man/reproduces.Rd | 2 man/selects.Rd | 2 man/simer.Data.Bfile2MVP.Rd |only man/simer.Data.MVP2Bfile.Rd |only man/simer.Data.Map.Rd |only src/RcppExports.cpp | 36 src/data_converter.cpp |only src/genotype.cpp | 222 ----- src/pedigree.cpp | 2 42 files changed, 2965 insertions(+), 2565 deletions(-)
Title: Creates Statistical Reports
Description: Contains functions to create regulatory-style statistical reports.
Originally designed to create tables, listings, and figures for the
pharmaceutical, biotechnology, and medical device industries, these
reports are generalized enough that they could be used in any industry.
Generates text, rich-text, PDF, HTML, and Microsoft Word file formats.
The package specializes
in printing wide and long tables with automatic page wrapping and splitting.
Reports can be produced with a minimum of function calls, and without
relying on other table packages. The package supports titles, footnotes,
page header, page footers, spanning headers, page by variables,
and automatic page numbering.
Author: David Bosak [aut, cre],
Kevin Kramer [ctb],
Duong Tran [ctb],
Archytas Clinical Solutions [cph]
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between reporter versions 1.3.3 dated 2022-06-20 and 1.3.5 dated 2022-08-08
reporter-1.3.3/reporter/inst/doc/reporter-example1.R |only reporter-1.3.3/reporter/inst/doc/reporter-example1.Rmd |only reporter-1.3.3/reporter/inst/doc/reporter-example1.html |only reporter-1.3.3/reporter/inst/doc/reporter-example2.R |only reporter-1.3.3/reporter/inst/doc/reporter-example2.Rmd |only reporter-1.3.3/reporter/inst/doc/reporter-example2.html |only reporter-1.3.3/reporter/inst/doc/reporter-example3.R |only reporter-1.3.3/reporter/inst/doc/reporter-example3.Rmd |only reporter-1.3.3/reporter/inst/doc/reporter-example3.html |only reporter-1.3.3/reporter/inst/doc/reporter-example4.R |only reporter-1.3.3/reporter/inst/doc/reporter-example4.Rmd |only reporter-1.3.3/reporter/inst/doc/reporter-example4.html |only reporter-1.3.3/reporter/inst/doc/reporter-example5.R |only reporter-1.3.3/reporter/inst/doc/reporter-example5.Rmd |only reporter-1.3.3/reporter/inst/doc/reporter-example5.html |only reporter-1.3.3/reporter/man/images/example1a.png |only reporter-1.3.3/reporter/man/images/example1b.png |only reporter-1.3.3/reporter/man/images/example1c.png |only reporter-1.3.3/reporter/man/images/example1d.png |only reporter-1.3.3/reporter/man/images/example1e.png |only reporter-1.3.3/reporter/man/images/example1f.png |only reporter-1.3.3/reporter/man/images/example2.png |only reporter-1.3.3/reporter/man/images/example3a.png |only reporter-1.3.3/reporter/man/images/example3b.png |only reporter-1.3.3/reporter/man/images/example3c.png |only reporter-1.3.3/reporter/man/images/example3d.png |only reporter-1.3.3/reporter/man/images/example4a.png |only reporter-1.3.3/reporter/man/images/example4b.png |only reporter-1.3.3/reporter/man/images/example4c.png |only reporter-1.3.3/reporter/man/images/example5a.png |only reporter-1.3.3/reporter/man/images/example5b.png |only reporter-1.3.3/reporter/man/images/reporter4.png |only reporter-1.3.3/reporter/tests/testthat/docx/test0.docx |only reporter-1.3.3/reporter/tests/testthat/docx/test1.docx |only reporter-1.3.3/reporter/tests/testthat/docx/test10.docx |only reporter-1.3.3/reporter/tests/testthat/docx/test13.docx |only reporter-1.3.3/reporter/tests/testthat/docx/test14.docx |only reporter-1.3.3/reporter/tests/testthat/docx/test2.docx |only reporter-1.3.3/reporter/tests/testthat/docx/test23.docx |only reporter-1.3.3/reporter/tests/testthat/docx/test3.docx |only reporter-1.3.3/reporter/tests/testthat/docx/test4.docx |only reporter-1.3.3/reporter/tests/testthat/docx/test5.docx |only reporter-1.3.3/reporter/tests/testthat/docx/test6.docx |only reporter-1.3.3/reporter/tests/testthat/docx/test7.docx |only reporter-1.3.3/reporter/tests/testthat/docx/test8.docx |only reporter-1.3.3/reporter/tests/testthat/docx/user1.docx |only reporter-1.3.3/reporter/tests/testthat/docx/user2.docx |only reporter-1.3.3/reporter/tests/testthat/docx/user3.docx |only reporter-1.3.3/reporter/tests/testthat/docx/user4.docx |only reporter-1.3.3/reporter/tests/testthat/docx/user5.docx |only reporter-1.3.3/reporter/tests/testthat/docx/user6.docx |only reporter-1.3.3/reporter/tests/testthat/docx/user6a.docx |only reporter-1.3.3/reporter/vignettes/reporter-example1.Rmd |only reporter-1.3.3/reporter/vignettes/reporter-example2.Rmd |only reporter-1.3.3/reporter/vignettes/reporter-example3.Rmd |only reporter-1.3.3/reporter/vignettes/reporter-example4.Rmd |only reporter-1.3.3/reporter/vignettes/reporter-example5.Rmd |only reporter-1.3.5/reporter/DESCRIPTION | 8 reporter-1.3.5/reporter/MD5 | 249 ++++------ reporter-1.3.5/reporter/NAMESPACE | 3 reporter-1.3.5/reporter/NEWS.md | 11 reporter-1.3.5/reporter/R/attributes.R |only reporter-1.3.5/reporter/R/create_table_docx.R | 2 reporter-1.3.5/reporter/R/create_table_rtf.R | 15 reporter-1.3.5/reporter/R/page_template_docx.R | 4 reporter-1.3.5/reporter/R/report_spec.r | 1 reporter-1.3.5/reporter/R/table_spec.r | 53 +- reporter-1.3.5/reporter/R/text_spec.R | 140 ++++- reporter-1.3.5/reporter/R/utilities.R | 9 reporter-1.3.5/reporter/R/write_report_docx.R | 73 ++ reporter-1.3.5/reporter/README.md | 2 reporter-1.3.5/reporter/build/vignette.rds |binary reporter-1.3.5/reporter/inst/doc/reporter-faq.Rmd | 17 reporter-1.3.5/reporter/inst/doc/reporter-faq.html | 14 reporter-1.3.5/reporter/inst/doc/reporter-figure.Rmd | 7 reporter-1.3.5/reporter/inst/doc/reporter-figure.html | 4 reporter-1.3.5/reporter/inst/doc/reporter-fonts.Rmd | 4 reporter-1.3.5/reporter/inst/doc/reporter-fonts.html | 11 reporter-1.3.5/reporter/inst/doc/reporter-listing.R | 61 -- reporter-1.3.5/reporter/inst/doc/reporter-listing.Rmd | 68 -- reporter-1.3.5/reporter/inst/doc/reporter-listing.html | 66 -- reporter-1.3.5/reporter/inst/doc/reporter-more.R |only reporter-1.3.5/reporter/inst/doc/reporter-more.Rmd |only reporter-1.3.5/reporter/inst/doc/reporter-more.html |only reporter-1.3.5/reporter/inst/doc/reporter-pageby.R | 77 --- reporter-1.3.5/reporter/inst/doc/reporter-pageby.Rmd | 81 --- reporter-1.3.5/reporter/inst/doc/reporter-pageby.html | 91 --- reporter-1.3.5/reporter/inst/doc/reporter-rtf.R | 31 - reporter-1.3.5/reporter/inst/doc/reporter-rtf.Rmd | 39 - reporter-1.3.5/reporter/inst/doc/reporter-rtf.html | 70 +- reporter-1.3.5/reporter/inst/doc/reporter-spanning.R | 39 - reporter-1.3.5/reporter/inst/doc/reporter-spanning.Rmd | 45 - reporter-1.3.5/reporter/inst/doc/reporter-spanning.html | 57 -- reporter-1.3.5/reporter/inst/doc/reporter-stub.R | 36 - reporter-1.3.5/reporter/inst/doc/reporter-stub.Rmd | 43 - reporter-1.3.5/reporter/inst/doc/reporter-stub.html | 66 -- reporter-1.3.5/reporter/inst/doc/reporter-styles.Rmd | 3 reporter-1.3.5/reporter/inst/doc/reporter-styles.html | 6 reporter-1.3.5/reporter/inst/doc/reporter-super.R |only reporter-1.3.5/reporter/inst/doc/reporter-super.Rmd |only reporter-1.3.5/reporter/inst/doc/reporter-super.html |only reporter-1.3.5/reporter/inst/doc/reporter-table.R | 34 - reporter-1.3.5/reporter/inst/doc/reporter-table.Rmd | 40 - reporter-1.3.5/reporter/inst/doc/reporter-table.html | 64 -- reporter-1.3.5/reporter/inst/doc/reporter-text.R | 41 - reporter-1.3.5/reporter/inst/doc/reporter-text.Rmd | 47 - reporter-1.3.5/reporter/inst/doc/reporter-text.html | 66 -- reporter-1.3.5/reporter/inst/doc/reporter-title_header.R | 45 - reporter-1.3.5/reporter/inst/doc/reporter-title_header.Rmd | 48 - reporter-1.3.5/reporter/inst/doc/reporter-title_header.html | 60 +- reporter-1.3.5/reporter/inst/doc/reporter-wrap.R | 51 -- reporter-1.3.5/reporter/inst/doc/reporter-wrap.Rmd | 53 -- reporter-1.3.5/reporter/inst/doc/reporter-wrap.html | 65 -- reporter-1.3.5/reporter/inst/doc/reporter.R | 38 - reporter-1.3.5/reporter/inst/doc/reporter.Rmd | 51 -- reporter-1.3.5/reporter/inst/doc/reporter.html | 65 -- reporter-1.3.5/reporter/man/ftn.Rd |only reporter-1.3.5/reporter/man/images/e1a.png |only reporter-1.3.5/reporter/man/images/e1b.png |only reporter-1.3.5/reporter/man/images/e1c.png |only reporter-1.3.5/reporter/man/images/e2.png |only reporter-1.3.5/reporter/man/images/e3.png |only reporter-1.3.5/reporter/man/images/e4.png |only reporter-1.3.5/reporter/man/images/e5.png |only reporter-1.3.5/reporter/man/images/e6a.png |only reporter-1.3.5/reporter/man/images/e6b.png |only reporter-1.3.5/reporter/man/images/e7a.png |only reporter-1.3.5/reporter/man/images/e7b.png |only reporter-1.3.5/reporter/man/images/e7c.png |only reporter-1.3.5/reporter/man/images/e8.png |only reporter-1.3.5/reporter/man/images/reporter1.png |only reporter-1.3.5/reporter/man/images/reporter_blue.png |only reporter-1.3.5/reporter/man/images/rtf.png |binary reporter-1.3.5/reporter/man/images/super.png |only reporter-1.3.5/reporter/man/images/supertable.png |only reporter-1.3.5/reporter/man/lowcase_parens.Rd | 37 + reporter-1.3.5/reporter/man/span.Rd |only reporter-1.3.5/reporter/man/titles.Rd | 3 reporter-1.3.5/reporter/man/ttl.Rd |only reporter-1.3.5/reporter/tests/testthat/attr |only reporter-1.3.5/reporter/tests/testthat/test-attributes.R |only reporter-1.3.5/reporter/tests/testthat/test-create_table_html.R | 1 reporter-1.3.5/reporter/tests/testthat/test-docx.R | 189 +++++++ reporter-1.3.5/reporter/tests/testthat/test-html.R | 1 reporter-1.3.5/reporter/tests/testthat/test-rtf.R | 1 reporter-1.3.5/reporter/tests/testthat/test-rtf2.R | 147 +++++ reporter-1.3.5/reporter/tests/testthat/test-system_text.R | 5 reporter-1.3.5/reporter/tests/testthat/test-table_spec.R | 8 reporter-1.3.5/reporter/tests/testthat/test-text_spec.R | 42 + reporter-1.3.5/reporter/tests/testthat/test-user.R | 10 reporter-1.3.5/reporter/tests/testthat/test-utilities.R | 8 reporter-1.3.5/reporter/tests/testthat/text/text1.out | 127 ++--- reporter-1.3.5/reporter/tests/testthat/text/text1.rtf |only reporter-1.3.5/reporter/tests/testthat/text/text1.txt |only reporter-1.3.5/reporter/tests/testthat/user |only reporter-1.3.5/reporter/vignettes/reporter-faq.Rmd | 17 reporter-1.3.5/reporter/vignettes/reporter-figure.Rmd | 7 reporter-1.3.5/reporter/vignettes/reporter-fonts.Rmd | 4 reporter-1.3.5/reporter/vignettes/reporter-listing.Rmd | 68 -- reporter-1.3.5/reporter/vignettes/reporter-more.Rmd |only reporter-1.3.5/reporter/vignettes/reporter-pageby.Rmd | 81 --- reporter-1.3.5/reporter/vignettes/reporter-rtf.Rmd | 39 - reporter-1.3.5/reporter/vignettes/reporter-spanning.Rmd | 45 - reporter-1.3.5/reporter/vignettes/reporter-stub.Rmd | 43 - reporter-1.3.5/reporter/vignettes/reporter-styles.Rmd | 3 reporter-1.3.5/reporter/vignettes/reporter-super.Rmd |only reporter-1.3.5/reporter/vignettes/reporter-table.Rmd | 40 - reporter-1.3.5/reporter/vignettes/reporter-text.Rmd | 47 - reporter-1.3.5/reporter/vignettes/reporter-title_header.Rmd | 48 - reporter-1.3.5/reporter/vignettes/reporter-wrap.Rmd | 53 -- reporter-1.3.5/reporter/vignettes/reporter.Rmd | 51 -- 171 files changed, 1465 insertions(+), 1934 deletions(-)
Title: User-Friendly R Interface to Biologic Web Services' API
Description: Currently fully supports Enrichr, JASPAR, miEAA, PANTHER,
Reactome, STRING, and UniProt! The goal of rbioapi is to provide a
user-friendly and consistent interface to biological databases and
services: In a way that insulates the user from technicalities of
using web services API and creates a unified and easy-to-use interface
to biological and medical web services. This an ongoing project; New
databases and services will be added periodically. Feel free to
suggest any databases or services you often use.
Author: Moosa Rezwani [aut, cre]
Maintainer: Moosa Rezwani <moosa.rezwani@gmail.com>
Diff between rbioapi versions 0.7.6 dated 2022-04-05 and 0.7.7 dated 2022-08-08
DESCRIPTION | 8 MD5 | 122 NEWS.md | 6 R/enrichr.R | 36 R/internal_functions.R | 24 R/mieaa.R | 16 R/reactome_analysis.R | 4 R/uniprot_proteins.R | 2 build/vignette.rds |binary inst/CITATION | 45 inst/doc/rbioapi.Rmd | 34 inst/doc/rbioapi.html | 534 +++ inst/doc/rbioapi_do_enrich.R | 15 inst/doc/rbioapi_do_enrich.Rmd | 65 inst/doc/rbioapi_do_enrich.html | 3778 ++++++++++++++++++++++++--- inst/doc/rbioapi_enrichr.R | 6 inst/doc/rbioapi_enrichr.Rmd | 24 inst/doc/rbioapi_enrichr.html | 3021 +++++++++++++++++++++ inst/doc/rbioapi_jaspar.Rmd | 38 inst/doc/rbioapi_jaspar.html | 610 +++- inst/doc/rbioapi_mieaa.R | 2 inst/doc/rbioapi_mieaa.Rmd | 31 inst/doc/rbioapi_mieaa.html | 3036 +++++++++++++++++++++ inst/doc/rbioapi_panther.R | 2 inst/doc/rbioapi_panther.Rmd | 29 inst/doc/rbioapi_panther.html | 3031 +++++++++++++++++++++ inst/doc/rbioapi_reactome.R | 2 inst/doc/rbioapi_reactome.Rmd | 44 inst/doc/rbioapi_reactome.html | 3315 ++++++++++++++++++++++- inst/doc/rbioapi_string.R | 2 inst/doc/rbioapi_string.Rmd | 36 inst/doc/rbioapi_string.html | 3125 +++++++++++++++++++++- inst/doc/rbioapi_uniprot.Rmd | 42 inst/doc/rbioapi_uniprot.html | 568 ++-- man/rba_enrichr.Rd | 12 man/rba_enrichr_add_list.Rd | 6 man/rba_enrichr_enrich.Rd | 6 man/rba_enrichr_gene_map.Rd | 2 man/rba_enrichr_libs.Rd | 2 man/rba_enrichr_view_list.Rd | 2 man/rba_mieaa_enrich.Rd | 4 man/rba_mieaa_enrich_results.Rd | 4 man/rba_mieaa_enrich_status.Rd | 4 man/rba_mieaa_enrich_submit.Rd | 4 man/rba_reactome_analysis.Rd | 2 man/rba_reactome_analysis_mapping.Rd | 2 man/rba_uniprot_variation_search.Rd | 2 tests/testthat/helper_expects.R | 5 tests/testthat/test-api_calls_rba_api_call.R | 2 tests/testthat/test-api_calls_rba_httr.R | 4 tests/testthat/test-api_calls_rba_skeleton.R | 2 tests/testthat/test-elper_functions.R | 4 tests/testthat/test-response_parser.R | 4 vignettes/rbioapi.Rmd | 34 vignettes/rbioapi_do_enrich.Rmd | 65 vignettes/rbioapi_enrichr.Rmd | 24 vignettes/rbioapi_jaspar.Rmd | 38 vignettes/rbioapi_mieaa.Rmd | 31 vignettes/rbioapi_panther.Rmd | 29 vignettes/rbioapi_reactome.Rmd | 44 vignettes/rbioapi_string.Rmd | 36 vignettes/rbioapi_uniprot.Rmd | 42 62 files changed, 20326 insertions(+), 1743 deletions(-)
Title: R Bayesian Evidence Synthesis Tools
Description: Tool-set to support Bayesian evidence synthesis. This
includes meta-analysis, (robust) prior derivation from historical
data, operating characteristics and analysis (1 and 2 sample
cases). Please refer to Weber et al. (2021) <doi:10.18637/jss.v100.i19>
for details on applying this package while Neuenschwander et al. (2010)
<doi:10.1177/1740774509356002> and Schmidli et al. (2014)
<doi:10.1111/biom.12242> explain details on the methodology.
Author: Novartis Pharma AG [cph],
Sebastian Weber [aut, cre],
Beat Neuenschwander [ctb],
Heinz Schmidli [ctb],
Baldur Magnusson [ctb],
Yue Li [ctb],
Satrajit Roychoudhury [ctb],
Trustees of Columbia University [cph]
Maintainer: Sebastian Weber <sebastian.weber@novartis.com>
Diff between RBesT versions 1.6-3 dated 2021-11-24 and 1.6-4 dated 2022-08-08
RBesT-1.6-3/RBesT/R/log_colSum_exp.R |only RBesT-1.6-3/RBesT/R/log_sum_exp.R |only RBesT-1.6-3/RBesT/inst/NEWS |only RBesT-1.6-3/RBesT/inst/doc/robustMAP.R |only RBesT-1.6-3/RBesT/inst/doc/robustMAP.Rmd |only RBesT-1.6-3/RBesT/inst/doc/robustMAP.html |only RBesT-1.6-3/RBesT/man/log_colSum_exp.Rd |only RBesT-1.6-3/RBesT/man/log_sum_exp.Rd |only RBesT-1.6-3/RBesT/tools |only RBesT-1.6-3/RBesT/vignettes/robustMAP.Rmd |only RBesT-1.6-4/RBesT/DESCRIPTION | 11 RBesT-1.6-4/RBesT/MD5 | 139 +-- RBesT-1.6-4/RBesT/NAMESPACE | 6 RBesT-1.6-4/RBesT/NEWS.md |only RBesT-1.6-4/RBesT/R/EM_bmm_ab.R | 25 RBesT-1.6-4/RBesT/R/EM_bmm_mun.R | 4 RBesT-1.6-4/RBesT/R/EM_gmm.R | 20 RBesT-1.6-4/RBesT/R/EM_mnmm.R | 8 RBesT-1.6-4/RBesT/R/EM_msmm.R | 9 RBesT-1.6-4/RBesT/R/EM_plot.R | 3 RBesT-1.6-4/RBesT/R/RBesT-package.R | 1 RBesT-1.6-4/RBesT/R/decision1S.R | 32 RBesT-1.6-4/RBesT/R/decision2S.R | 16 RBesT-1.6-4/RBesT/R/decision2S_boundary.R | 18 RBesT-1.6-4/RBesT/R/gMAP.R | 19 RBesT-1.6-4/RBesT/R/knn.R | 12 RBesT-1.6-4/RBesT/R/likelihood.R | 7 RBesT-1.6-4/RBesT/R/log_inv_logit.R | 9 RBesT-1.6-4/RBesT/R/mix.R | 15 RBesT-1.6-4/RBesT/R/mixbeta.R | 39 RBesT-1.6-4/RBesT/R/mixdiff.R | 18 RBesT-1.6-4/RBesT/R/mixess.R | 6 RBesT-1.6-4/RBesT/R/mixgamma.R | 45 RBesT-1.6-4/RBesT/R/mixnorm.R | 33 RBesT-1.6-4/RBesT/R/oc2S.R | 33 RBesT-1.6-4/RBesT/R/pos2S.R | 4 RBesT-1.6-4/RBesT/R/postmix.R | 6 RBesT-1.6-4/RBesT/R/sysdata.rda |binary RBesT-1.6-4/RBesT/build/vignette.rds |binary RBesT-1.6-4/RBesT/data/AS.rda |binary RBesT-1.6-4/RBesT/data/colitis.rda |binary RBesT-1.6-4/RBesT/data/crohn.rda |binary RBesT-1.6-4/RBesT/data/transplant.rda |binary RBesT-1.6-4/RBesT/demo/00Index | 2 RBesT-1.6-4/RBesT/demo/robustMAP.R |only RBesT-1.6-4/RBesT/inst/doc/PoS_codata.Rmd | 10 RBesT-1.6-4/RBesT/inst/doc/PoS_codata.html | 245 +++-- RBesT-1.6-4/RBesT/inst/doc/PoS_interim.html | 85 + RBesT-1.6-4/RBesT/inst/doc/RBesT.pdf |binary RBesT-1.6-4/RBesT/inst/doc/customizing_plots.html | 103 +- RBesT-1.6-4/RBesT/inst/doc/introduction.R | 97 +- RBesT-1.6-4/RBesT/inst/doc/introduction.Rmd | 154 ++- RBesT-1.6-4/RBesT/inst/doc/introduction.html | 382 +++++--- RBesT-1.6-4/RBesT/inst/doc/introduction_normal.Rmd | 6 RBesT-1.6-4/RBesT/inst/doc/introduction_normal.html | 119 +- RBesT-1.6-4/RBesT/inst/doc/variances_MAP.html | 109 +- RBesT-1.6-4/RBesT/inst/sbc/calibration.md5 | 6 RBesT-1.6-4/RBesT/inst/sbc/make_reference_rankhist.R | 189 +--- RBesT-1.6-4/RBesT/inst/sbc/sbc_report.R | 31 RBesT-1.6-4/RBesT/inst/sbc/sbc_report.html | 874 ++++++++++--------- RBesT-1.6-4/RBesT/inst/sbc/sbc_tools.R | 69 + RBesT-1.6-4/RBesT/man/decision1S.Rd | 8 RBesT-1.6-4/RBesT/man/decision2S.Rd | 8 RBesT-1.6-4/RBesT/man/log_inv_logit.Rd | 2 RBesT-1.6-4/RBesT/man/mixbeta.Rd | 12 RBesT-1.6-4/RBesT/man/mixgamma.Rd | 18 RBesT-1.6-4/RBesT/man/mixnorm.Rd | 24 RBesT-1.6-4/RBesT/man/plot.EM.Rd | 2 RBesT-1.6-4/RBesT/src/RcppExports.cpp | 5 RBesT-1.6-4/RBesT/src/stanExports_gMAP.h | 20 RBesT-1.6-4/RBesT/tests/testthat/test-gMAP.R | 4 RBesT-1.6-4/RBesT/tests/testthat/test-oc2S.R | 5 RBesT-1.6-4/RBesT/vignettes/PoS_codata.Rmd | 10 RBesT-1.6-4/RBesT/vignettes/introduction.Rmd | 154 ++- RBesT-1.6-4/RBesT/vignettes/introduction_normal.Rmd | 6 75 files changed, 1978 insertions(+), 1319 deletions(-)
Title: Joint Modeling of Longitudinal and Survival Data
Description: Shared parameter models for the joint modeling of longitudinal and time-to-event data.
Author: Dimitris Rizopoulos <d.rizopoulos@erasmusmc.nl>
Maintainer: Dimitris Rizopoulos <d.rizopoulos@erasmusmc.nl>
Diff between JM versions 1.5-1 dated 2022-02-06 and 1.5-2 dated 2022-08-08
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/piecewisePHGH.fit.R | 2 +- R/splinePHGH.fit.R | 2 +- R/weibullAFTGH.fit.R | 2 +- R/weibullPHGH.fit.R | 2 +- build/partial.rdb |binary man/JM.Rd | 4 ++-- 8 files changed, 17 insertions(+), 17 deletions(-)
Title: ICESat-2 Altimeter Data using R
Description: Programmatic connection to the 'OpenAltimetry API' <https://openaltimetry.org/data/swagger-ui/> to download and process 'ATL03' (Global Geolocated Photon Data), 'ATL06' (Land Ice Height), 'ATL07' (Sea Ice Height), 'ATL08' (Land and Vegetation Height), 'ATL10' (Sea Ice Freeboard), 'ATL12' (Ocean Surface Height) and 'ATL13' (Inland Water Surface Height) 'ICESat-2' Altimeter Data. The user has the option to download the data by selecting a bounding box from a 1- or 5-degree grid globally utilizing a shiny application. The 'ICESat-2' mission collects altimetry data of the Earth's surface. The sole instrument on 'ICESat-2' is the Advanced Topographic Laser Altimeter System (ATLAS) instrument that measures ice sheet elevation change and sea ice thickness, while also generating an estimate of global vegetation biomass. 'ICESat-2' continues the important observations of ice-sheet elevation change, sea-ice freeboard, and vegetation canopy height begun by 'ICESat' in 2003.
Author: Lampros Mouselimis [aut, cre] ,
OpenAltimetry.org [cph]
Maintainer: Lampros Mouselimis <mouselimislampros@gmail.com>
Diff between IceSat2R versions 1.0.2 dated 2022-07-04 and 1.0.3 dated 2022-08-08
DESCRIPTION | 8 - MD5 | 16 +-- NAMESPACE | 1 NEWS.md | 5 + R/mission_orbits.R | 77 +++++++------------ README.md | 2 inst/doc/IceSat-2_Atlas_products_PDF.pdf |binary inst/doc/IceSat-2_Mission_Orbits_PDF.pdf |binary inst/doc/IceSat-2_Virtual_File_System_Orbits_PDF.pdf |binary 9 files changed, 50 insertions(+), 59 deletions(-)
Title: Algorithm for Searching the Space of Gaussian Directed Acyclic
Graph Models Through Moment Fractional Bayes Factors
Description: We propose an objective Bayesian algorithm for searching the space of Gaussian directed acyclic graph (DAG) models. The algorithm proposed makes use of moment fractional Bayes factors (MFBF) and thus it is suitable for learning sparse graph. The algorithm is implemented by using Armadillo: an open-source C++ linear algebra library.
Author: Davide Altomare, Guido Consonni and Luca La Rocca
Maintainer: Davide Altomare <davide.altomare@gmail.com>
Diff between FBFsearch versions 1.1 dated 2016-11-22 and 1.2 dated 2022-08-08
DESCRIPTION | 8 ++++---- MD5 | 15 ++++++++------- NAMESPACE | 4 ++-- man/FBF_GS.Rd | 4 ---- man/FBF_LS.Rd | 3 --- man/FBF_RS.Rd | 4 ---- src/FBFsearch.cpp | 46 ++++++++++++++++++++++++---------------------- src/FBFsearch_H.h | 16 +++++++++------- src/init.c |only 9 files changed, 47 insertions(+), 53 deletions(-)
Title: Continuous Time Structural Equation Modelling
Description: Hierarchical continuous (and discrete) time state space modelling, for linear
and nonlinear systems measured by continuous variables, with limited support for
binary data. The subject specific dynamic system is modelled as a stochastic
differential equation (SDE) or difference equation, measurement models are typically multivariate normal factor models.
Linear mixed effects SDE's estimated via maximum likelihood and optimization are the default.
Nonlinearities, (state dependent parameters) and random effects on all parameters
are possible, using either max likelihood / max a posteriori optimization
(with optional importance sampling) or Stan's Hamiltonian Monte Carlo sampling.
See <https://github.com/cdriveraus/ctsem/raw/master/vignettes/hierarchicalmanual.pdf>
for details. Priors may be used. For the conceptual overview of the hierarchical Bayesian
linear SDE approach,
see <https://www.researchgate.net/publication/324093594_Hierarchical_Bayesian_Continuous_Time_Dynamic_Modeling>.
Exogenous inputs may also be included, for an overview of such possibilities see <https://www.researchgate.net/publication/328221807_Understanding_the_Time_Course_of_Interventions_with_Continuous_Time_Dynamic_Models> .
Stan based functions are not available on 32 bit Windows systems at present.
<https://cdriver.netlify.app/> contains some tutorial blog posts.
Author: Charles Driver [aut, cre, cph],
Manuel Voelkle [aut, cph],
Han Oud [aut, cph],
Trustees of Columbia University [cph]
Maintainer: Charles Driver <charles.driver@ibe.uzh.ch>
Diff between ctsem versions 3.6.0 dated 2022-03-10 and 3.7.1 dated 2022-08-08
ctsem-3.6.0/ctsem/R/gdbfgs.R |only ctsem-3.6.0/ctsem/R/sgdhess.R |only ctsem-3.6.0/ctsem/R/sgdmcmc.R |only ctsem-3.6.0/ctsem/vignettes/hierarchicalmanual-concordance.tex |only ctsem-3.6.0/ctsem/vignettes/references.bib |only ctsem-3.7.1/ctsem/DESCRIPTION | 15 ctsem-3.7.1/ctsem/MD5 | 60 - ctsem-3.7.1/ctsem/NAMESPACE | 1 ctsem-3.7.1/ctsem/NEWS | 4 ctsem-3.7.1/ctsem/R/ctDiscretePars.R | 25 ctsem-3.7.1/ctsem/R/ctKalman.R | 35 ctsem-3.7.1/ctsem/R/ctModelLatex.R | 437 +++++----- ctsem-3.7.1/ctsem/R/ctPlotArray.R | 2 ctsem-3.7.1/ctsem/R/ctStanData.R | 15 ctsem-3.7.1/ctsem/R/ctStanFit.R | 19 ctsem-3.7.1/ctsem/R/ctStanModelWriter.R | 191 ++-- ctsem-3.7.1/ctsem/R/ctsem.R | 31 ctsem-3.7.1/ctsem/R/sgd.R | 7 ctsem-3.7.1/ctsem/R/stanoptimis.R | 341 ++++--- ctsem-3.7.1/ctsem/build/vignette.rds |binary ctsem-3.7.1/ctsem/data/ctstantestdat.rda |binary ctsem-3.7.1/ctsem/data/ctstantestfit.rda |binary ctsem-3.7.1/ctsem/inst/doc/hierarchicalmanual.pdf |binary ctsem-3.7.1/ctsem/man/ctAddSamples.Rd | 3 ctsem-3.7.1/ctsem/man/ctKalman.Rd | 4 ctsem-3.7.1/ctsem/man/ctModelLatex.Rd | 5 ctsem-3.7.1/ctsem/man/ctStanDiscreteParsPlot.Rd | 153 +-- ctsem-3.7.1/ctsem/man/stanoptimis.Rd | 4 ctsem-3.7.1/ctsem/src/Makevars.win | 14 ctsem-3.7.1/ctsem/src/stan_files/ctsm.stan | 132 +-- ctsem-3.7.1/ctsem/src/stan_files/ctsmgen.stan | 132 +-- ctsem-3.7.1/ctsem/tests/testthat/test-bootHessian.R |only ctsem-3.7.1/ctsem/tests/testthat/test-tdeffectvariation_covtest.R | 83 + ctsem-3.7.1/ctsem/tests/testthat/test-timevarying.R | 2 34 files changed, 929 insertions(+), 786 deletions(-)
Title: Univariate Feature Selection and Compound Covariate for
Predicting Survival
Description: Univariate feature selection and compound covariate methods under the Cox model with high-dimensional features (e.g., gene expressions).
Available are survival data for non-small-cell lung cancer patients with gene expressions (Chen et al 2007 New Engl J Med) <DOI:10.1056/NEJMoa060096>,
statistical methods in Emura et al (2012 PLoS ONE) <DOI:10.1371/journal.pone.0047627>,
Emura & Chen (2016 Stat Methods Med Res) <DOI:10.1177/0962280214533378>, and Emura et al. (2019)<DOI:10.1016/j.cmpb.2018.10.020>.
Algorithms for generating correlated gene expressions are also available.
Author: Takeshi Emura, Hsuan-Yu Chen, Shigeyuki Matsui, Yi-Hau Chen
Maintainer: Takeshi Emura <takeshiemura@gmail.com>
Diff between compound.Cox versions 3.20 dated 2020-07-05 and 3.21 dated 2022-08-08
DESCRIPTION | 10 +++++----- MD5 | 16 +++++++++------- NAMESPACE | 2 +- R/CG.Clayton.R | 10 +++++----- R/CG.Frank.R |only R/CG.Gumbel.R | 6 +++--- man/CG.Clayton.Rd | 1 + man/CG.Frank.Rd |only man/CG.Gumbel.Rd | 1 + man/compound.Cox-package.Rd | 4 ++-- 10 files changed, 27 insertions(+), 23 deletions(-)
Title: Bayesian Seemingly Unrelated Regression
Description: Bayesian seemingly unrelated regression with general variable selection and dense/sparse covariance matrix. The sparse seemingly unrelated regression is described in Bottolo et al. (2021) <doi:10.1111/rssc.12490>, the software paper is in Zhao et al. (2021) <doi:10.18637/jss.v100.i11>, and the model with random effects is described in Zhao et al. (2021) <arXiv:2101.05899>.
Author: Marco Banterle [aut],
Zhi Zhao [aut, cre],
Leonardo Bottolo [ctb],
Sylvia Richardson [ctb],
Waldir Leoncio [ctb],
Alex Lewin [aut],
Manuela Zucknick [aut]
Maintainer: Zhi Zhao <zhi.zhao@medisin.uio.no>
Diff between BayesSUR versions 2.1-1 dated 2022-08-06 and 2.1-2 dated 2022-08-08
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 4 ++++ inst/doc/BayesSUR.pdf |binary src/SUR_Chain.cpp | 2 +- 5 files changed, 13 insertions(+), 9 deletions(-)
Title: Libraries, Data Dictionaries, and a Data Step for R
Description: Contains a set of functions to create data libraries,
generate data dictionaries, and simulate a data step.
The libname() function will load a directory of data into
a library in one line of code. The dictionary() function
will generate data dictionaries for individual
data frames or an entire library. And the datestep() function
will perform row-by-row data processing.
Author: David J. Bosak
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between libr versions 1.2.3 dated 2022-06-23 and 1.2.5 dated 2022-08-08
libr-1.2.3/libr/inst/doc/libr-eq.R |only libr-1.2.3/libr/inst/doc/libr-eq.Rmd |only libr-1.2.3/libr/inst/doc/libr-eq.html |only libr-1.2.3/libr/man/grapes-eq-grapes.Rd |only libr-1.2.3/libr/vignettes/libr-eq.Rmd |only libr-1.2.5/libr/DESCRIPTION | 8 libr-1.2.5/libr/MD5 | 54 +-- libr-1.2.5/libr/NAMESPACE | 2 libr-1.2.5/libr/NEWS.md | 9 libr-1.2.5/libr/R/datastep.R | 40 +- libr-1.2.5/libr/R/libr.R | 3 libr-1.2.5/libr/R/utilities.R | 108 ------- libr-1.2.5/libr/README.md | 13 libr-1.2.5/libr/build/vignette.rds |binary libr-1.2.5/libr/inst/doc/libr-datastep.Rmd | 2 libr-1.2.5/libr/inst/doc/libr-datastep.html | 2 libr-1.2.5/libr/inst/doc/libr-example2.R | 1 libr-1.2.5/libr/inst/doc/libr-example2.Rmd | 1 libr-1.2.5/libr/inst/doc/libr-example2.html | 287 ++++++++++----------- libr-1.2.5/libr/inst/doc/libr.R | 18 - libr-1.2.5/libr/inst/doc/libr.Rmd | 49 --- libr-1.2.5/libr/inst/doc/libr.html | 50 --- libr-1.2.5/libr/man/datastep.Rd | 4 libr-1.2.5/libr/man/images/libr_blue.png |only libr-1.2.5/libr/man/libr.Rd | 2 libr-1.2.5/libr/tests/testthat/test-datastep.R | 27 + libr-1.2.5/libr/tests/testthat/test-manipulation.R | 22 - libr-1.2.5/libr/tests/testthat/test-utilities.R | 68 ---- libr-1.2.5/libr/vignettes/libr-datastep.Rmd | 2 libr-1.2.5/libr/vignettes/libr-example2.Rmd | 1 libr-1.2.5/libr/vignettes/libr.Rmd | 49 --- 31 files changed, 246 insertions(+), 576 deletions(-)
Title: Common Public Health Statistics and their Confidence Intervals
Description: Functions to calculate commonly used public health statistics and
their confidence intervals using methods approved for use in the production
of Public Health England indicators such as those presented via Fingertips
(<http://fingertips.phe.org.uk/>). It provides functions for the generation
of proportions, crude rates, means, directly standardised rates, indirectly
standardised rates, standardised mortality ratios, slope and relative index
of inequality and life expectancy.
Statistical methods are referenced in the following publications.
Breslow NE, Day NE (1987) <doi:10.1002/sim.4780080614>.
Dobson et al (1991) <doi:10.1002/sim.4780100317>.
Armitage P, Berry G (2002) <doi:10.1002/9780470773666>.
Wilson EB. (1927) <doi:10.1080/01621459.1927.10502953>.
Altman DG et al (2000, ISBN: 978-0-727-91375-3).
Chiang CL. (1968, ISBN: 978-0-882-75200-6).
Newell C. (1994, ISBN: 978-0-898-62451-9).
Eayres DP, Williams ES (2004) <doi:10.1136/jech.2003.009654>.
Silcocks PBS et al (2001) <doi:10.1136/jech.55.1.38>.
Low and Low (2004) <doi:10.1093/pubmed/fdh175>.
Author: Anderson Georgina [aut, cre],
Fox Sebastian [ctb],
Francis Matthew [ctb],
Fryers Paul [ctb],
Clegg Emma [ctb]
Maintainer: Anderson Georgina <georgina.anderson@dhsc.gov.uk>
Diff between PHEindicatormethods versions 1.3.2 dated 2020-06-25 and 1.4.1 dated 2022-08-08
PHEindicatormethods-1.3.2/PHEindicatormethods/R/ISR.R |only PHEindicatormethods-1.3.2/PHEindicatormethods/R/SMR.R |only PHEindicatormethods-1.3.2/PHEindicatormethods/man/FindXValues.Rd |only PHEindicatormethods-1.3.2/PHEindicatormethods/man/SimulationFunc.Rd |only PHEindicatormethods-1.3.2/PHEindicatormethods/man/na.zero.Rd |only PHEindicatormethods-1.3.2/PHEindicatormethods/tests/testthat/testISRs.R |only PHEindicatormethods-1.3.2/PHEindicatormethods/tests/testthat/testSMRs.R |only PHEindicatormethods-1.3.2/PHEindicatormethods/tests/testthat/testdata_DSR_ISR_SMR.xlsx |only PHEindicatormethods-1.4.1/PHEindicatormethods/DESCRIPTION | 26 PHEindicatormethods-1.4.1/PHEindicatormethods/MD5 | 120 PHEindicatormethods-1.4.1/PHEindicatormethods/NAMESPACE | 7 PHEindicatormethods-1.4.1/PHEindicatormethods/NEWS.md | 9 PHEindicatormethods-1.4.1/PHEindicatormethods/R/DSR.R | 65 PHEindicatormethods-1.4.1/PHEindicatormethods/R/Funnels.R |only PHEindicatormethods-1.4.1/PHEindicatormethods/R/ISR_deprecated.R |only PHEindicatormethods-1.4.1/PHEindicatormethods/R/ISRate.R |only PHEindicatormethods-1.4.1/PHEindicatormethods/R/ISRatio.R |only PHEindicatormethods-1.4.1/PHEindicatormethods/R/LifeExpectancy.R | 48 PHEindicatormethods-1.4.1/PHEindicatormethods/R/PHEindicatormethods.R | 2 PHEindicatormethods-1.4.1/PHEindicatormethods/R/Proportions.R | 8 PHEindicatormethods-1.4.1/PHEindicatormethods/R/Quantiles.R | 2 PHEindicatormethods-1.4.1/PHEindicatormethods/R/Rates.R | 29 PHEindicatormethods-1.4.1/PHEindicatormethods/R/SII_function.R | 100 PHEindicatormethods-1.4.1/PHEindicatormethods/R/SMR_deprecated.R |only PHEindicatormethods-1.4.1/PHEindicatormethods/R/data.R | 6 PHEindicatormethods-1.4.1/PHEindicatormethods/R/sysdata.rda |binary PHEindicatormethods-1.4.1/PHEindicatormethods/R/utils.R | 218 + PHEindicatormethods-1.4.1/PHEindicatormethods/README.md | 53 PHEindicatormethods-1.4.1/PHEindicatormethods/build/vignette.rds |binary PHEindicatormethods-1.4.1/PHEindicatormethods/data/DSR_data.rda |binary PHEindicatormethods-1.4.1/PHEindicatormethods/data/LE_data.rda |binary PHEindicatormethods-1.4.1/PHEindicatormethods/data/esp2013.rda |binary PHEindicatormethods-1.4.1/PHEindicatormethods/data/prevalence_data.rda |binary PHEindicatormethods-1.4.1/PHEindicatormethods/inst/doc/DSR-vignette.html | 585 ++-- PHEindicatormethods-1.4.1/PHEindicatormethods/inst/doc/Introduction_to_PHEindicatormethods.Rmd | 42 PHEindicatormethods-1.4.1/PHEindicatormethods/inst/doc/Introduction_to_PHEindicatormethods.html | 1240 +++++----- PHEindicatormethods-1.4.1/PHEindicatormethods/inst/doc/WorkedExamples_phe_sii.html | 508 ++-- PHEindicatormethods-1.4.1/PHEindicatormethods/man/assign_funnel_significance.Rd |only PHEindicatormethods-1.4.1/PHEindicatormethods/man/byars_lower.Rd | 33 PHEindicatormethods-1.4.1/PHEindicatormethods/man/byars_upper.Rd | 29 PHEindicatormethods-1.4.1/PHEindicatormethods/man/calculate_ISRate.Rd |only PHEindicatormethods-1.4.1/PHEindicatormethods/man/calculate_ISRatio.Rd |only PHEindicatormethods-1.4.1/PHEindicatormethods/man/calculate_funnel_limits.Rd |only PHEindicatormethods-1.4.1/PHEindicatormethods/man/calculate_funnel_points.Rd |only PHEindicatormethods-1.4.1/PHEindicatormethods/man/esp2013.Rd | 6 PHEindicatormethods-1.4.1/PHEindicatormethods/man/figures |only PHEindicatormethods-1.4.1/PHEindicatormethods/man/phe_dsr.Rd | 74 PHEindicatormethods-1.4.1/PHEindicatormethods/man/phe_isr.Rd | 88 PHEindicatormethods-1.4.1/PHEindicatormethods/man/phe_life_expectancy.Rd | 98 PHEindicatormethods-1.4.1/PHEindicatormethods/man/phe_mean.Rd | 21 PHEindicatormethods-1.4.1/PHEindicatormethods/man/phe_proportion.Rd | 39 PHEindicatormethods-1.4.1/PHEindicatormethods/man/phe_quantile.Rd | 21 PHEindicatormethods-1.4.1/PHEindicatormethods/man/phe_rate.Rd | 57 PHEindicatormethods-1.4.1/PHEindicatormethods/man/phe_sii.Rd | 107 PHEindicatormethods-1.4.1/PHEindicatormethods/man/phe_smr.Rd | 86 PHEindicatormethods-1.4.1/PHEindicatormethods/man/wilson_lower.Rd | 31 PHEindicatormethods-1.4.1/PHEindicatormethods/man/wilson_upper.Rd | 31 PHEindicatormethods-1.4.1/PHEindicatormethods/tests/testthat/testFunnels.R |only PHEindicatormethods-1.4.1/PHEindicatormethods/tests/testthat/testISRates.R |only PHEindicatormethods-1.4.1/PHEindicatormethods/tests/testthat/testISRatios.R |only PHEindicatormethods-1.4.1/PHEindicatormethods/tests/testthat/testLifeExpectancy.R | 68 PHEindicatormethods-1.4.1/PHEindicatormethods/tests/testthat/test_ISRsuperceded.R |only PHEindicatormethods-1.4.1/PHEindicatormethods/tests/testthat/test_SMRsuperceded.R |only PHEindicatormethods-1.4.1/PHEindicatormethods/tests/testthat/testdata_DSR_ISR.xlsx |only PHEindicatormethods-1.4.1/PHEindicatormethods/tests/testthat/testdata_funnel_prop_inputs.csv |only PHEindicatormethods-1.4.1/PHEindicatormethods/tests/testthat/testdata_funnel_prop_outputs.csv |only PHEindicatormethods-1.4.1/PHEindicatormethods/tests/testthat/testdata_funnel_prop_outputs_with_axis_variation.csv |only PHEindicatormethods-1.4.1/PHEindicatormethods/tests/testthat/testdata_funnel_rate_dsr_inputs.csv |only PHEindicatormethods-1.4.1/PHEindicatormethods/tests/testthat/testdata_funnel_rate_input_funnels.csv |only PHEindicatormethods-1.4.1/PHEindicatormethods/tests/testthat/testdata_funnel_rate_outputs.csv |only PHEindicatormethods-1.4.1/PHEindicatormethods/tests/testthat/testdata_funnel_rate_outputs_2.csv |only PHEindicatormethods-1.4.1/PHEindicatormethods/tests/testthat/testdata_funnel_rate_outputs_3.csv |only PHEindicatormethods-1.4.1/PHEindicatormethods/tests/testthat/testdata_funnel_ratio_inputs.csv |only PHEindicatormethods-1.4.1/PHEindicatormethods/tests/testthat/testdata_funnel_ratio_outputs.csv |only PHEindicatormethods-1.4.1/PHEindicatormethods/vignettes/Introduction_to_PHEindicatormethods.Rmd | 42 75 files changed, 2301 insertions(+), 1598 deletions(-)
More information about PHEindicatormethods at CRAN
Permanent link
Title: Intrinsic Peak Analysis (IPA) for HRMS Data
Description: A sophisticated pipeline for processing LC/HRMS data to extract signals of organic compounds. The package performs isotope pairing, peak detection, alignment, RT correction, gap filling, peak annotation and visualization of extracted ion chromatograms and total ion chromatograms.
Author: Sadjad Fakouri-Baygi [cre, aut]
,
Dinesh Barupal [aut]
Maintainer: Sadjad Fakouri-Baygi <sadjad.fakouri-baygi@mssm.edu>
Diff between IDSL.IPA versions 2.0 dated 2022-08-06 and 2.1 dated 2022-08-08
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- R/IPA_PeakAlignment.R | 7 +++---- R/chromatography_analysis.R | 24 ++++++++++++------------ R/mz_clustering_xic.R | 12 ++++++------ R/peak_alignment.R | 6 +++--- build/partial.rdb |binary man/peak_Xcol2.Rd | 10 +++++++++- man/peak_alignment.Rd | 2 +- 9 files changed, 45 insertions(+), 38 deletions(-)
Title: An Implementation of Grammar of Graphics for Graphs and Networks
Description: The grammar of graphics as implemented in ggplot2 is a poor fit for
graph and network visualizations due to its reliance on tabular data input.
ggraph is an extension of the ggplot2 API tailored to graph visualizations
and provides the same flexible approach to building up plots layer by layer.
Author: Thomas Lin Pedersen [cre, aut]
,
RStudio [cph]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Diff between ggraph versions 2.0.5 dated 2021-02-23 and 2.0.6 dated 2022-08-08
DESCRIPTION | 8 MD5 | 100 ++--- NEWS.md | 4 R/geom_edge_hive.R | 2 R/ggraph-package.R | 1 R/tbl_graph.R | 2 README.md | 9 build/partial.rdb |binary build/vignette.rds |binary inst/doc/Edges.R | 3 inst/doc/Edges.Rmd | 4 inst/doc/Edges.html | 535 +++++++++++++++++++------------ inst/doc/Layouts.R | 3 inst/doc/Layouts.Rmd | 4 inst/doc/Layouts.html | 453 ++++++++++++++++---------- inst/doc/Nodes.R | 3 inst/doc/Nodes.Rmd | 4 inst/doc/Nodes.html | 220 +++++++----- inst/doc/tidygraph.R | 3 inst/doc/tidygraph.Rmd | 3 inst/doc/tidygraph.html | 208 +++++++----- man/facet_edges.Rd | 8 man/facet_graph.Rd | 4 man/facet_nodes.Rd | 8 man/figures/README-unnamed-chunk-2-1.png |binary man/geom_edge_arc.Rd | 3 man/geom_edge_bend.Rd | 3 man/geom_edge_diagonal.Rd | 3 man/geom_edge_elbow.Rd | 3 man/geom_edge_fan.Rd | 3 man/geom_edge_hive.Rd | 3 man/geom_edge_link.Rd | 3 man/geom_edge_loop.Rd | 3 man/geom_edge_parallel.Rd | 3 man/geom_edge_span.Rd | 3 man/geom_node_text.Rd | 3 man/ggraph-package.Rd | 8 man/guide_edge_colourbar.Rd | 4 man/guide_edge_direction.Rd | 2 man/scale_edge_colour.Rd | 32 + man/scale_edge_fill.Rd | 32 + man/scale_edge_linetype.Rd | 9 man/scale_edge_shape.Rd | 9 man/scale_edge_size.Rd | 6 man/scale_edge_width.Rd | 6 man/scale_label_size.Rd | 6 src/RcppExports.cpp | 5 vignettes/Edges.Rmd | 4 vignettes/Layouts.Rmd | 4 vignettes/Nodes.Rmd | 4 vignettes/tidygraph.Rmd | 3 51 files changed, 1110 insertions(+), 646 deletions(-)
Title: The Genie++ Hierarchical Clustering Algorithm with Noise Points
Detection
Description: A retake on the Genie algorithm
(Gagolewski, 2021 <DOI:10.1016/j.softx.2021.100722>) - a robust
hierarchical clustering method
(Gagolewski, Bartoszuk, Cena, 2016 <DOI:10.1016/j.ins.2016.05.003>).
Now faster and more memory efficient; determining the whole hierarchy
for datasets of 10M points in low dimensional Euclidean spaces or
100K points in high-dimensional ones takes only 1-2 minutes.
Allows clustering with respect to mutual reachability distances
so that it can act as a noise point detector or a robustified version of
'HDBSCAN*' (that is able to detect a predefined number of
clusters and hence it does not dependent on the somewhat
fragile 'eps' parameter).
The package also features an implementation of economic inequity indices
(the Gini, Bonferroni index) and external cluster validity measures
(partition similarity scores; e.g., the adjusted Rand, Fowlkes-Mallows,
adjusted mutual information, pair sets index).
See also the 'Python' version of 'genieclust' available on 'PyPI', which
supports sparse data, more metrics, and even larger datasets.
Author: Marek Gagolewski [aut, cre, cph]
,
Maciej Bartoszuk [ctb],
Anna Cena [ctb],
Peter M. Larsen [ctb]
Maintainer: Marek Gagolewski <marek@gagolewski.com>
Diff between genieclust versions 1.0.0 dated 2021-04-22 and 1.0.1 dated 2022-08-08
DESCRIPTION | 16 ++++++---- MD5 | 64 +++++++++++++++++++++---------------------- NAMESPACE | 1 NEWS | 57 +++++++++++++++++++++++--------------- R/RcppExports.R | 45 ++++++++++++++++++------------ R/gclust.R | 9 +++--- R/genieclust-package.R | 3 -- R/mst.R | 16 +++++----- inst/CITATION | 14 +++++---- man/comparing_partitions.Rd | 9 ++++++ man/emst_mlpack.Rd | 11 ++++++- man/gclust.Rd | 14 +++++++-- man/genieclust-package.Rd | 8 ++++- man/inequity.Rd | 51 ++++++++++++++++++++++------------ man/mst.Rd | 19 ++++++++---- src/RcppExports.cpp | 17 +++++++++++ src/c_argfuns.h | 2 - src/c_common.h | 2 - src/c_compare_partitions.h | 2 - src/c_disjoint_sets.h | 2 - src/c_distance.h | 8 ++--- src/c_genie.h | 2 - src/c_gini_disjoint_sets.h | 2 - src/c_inequity.h | 46 ++++++++++++++++++++++++++++++ src/c_int_dict.h | 2 - src/c_matrix.h | 2 - src/c_mst.h | 16 +++++----- src/c_postprocess.h | 6 ++-- src/c_preprocess.h | 4 +- src/r_compare_partitions.cpp | 2 - src/r_emst.cpp | 2 - src/r_gclust.cpp | 2 - src/r_inequity.cpp | 62 +++++++++++++++++++++++++++++------------ 33 files changed, 345 insertions(+), 173 deletions(-)
Title: Rmetrics - Markets and Basic Statistics
Description: Provides a collection of functions to
explore and to investigate basic properties of financial returns
and related quantities.
The covered fields include techniques of explorative data analysis
and the investigation of distributional properties, including
parameter estimation and hypothesis testing. Even more there are
several utility functions for data handling and management.
Author: Diethelm Wuertz [aut] ,
Tobias Setz [aut],
Yohan Chalabi [aut],
Martin Maechler [ctb] ,
CRAN Team [ctb],
Georgi N. Boshnakov [cre, ctb]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between fBasics versions 3042.89.2 dated 2022-06-17 and 4021.92 dated 2022-08-08
fBasics-3042.89.2/fBasics/data/Capitalization.rda |only fBasics-3042.89.2/fBasics/data/DowJones30.csv.xz |only fBasics-3042.89.2/fBasics/data/HedgeFund.rda |only fBasics-3042.89.2/fBasics/data/PensionFund.csv.bz2 |only fBasics-3042.89.2/fBasics/data/SWXLP.csv.xz |only fBasics-3042.89.2/fBasics/data/cars2.csv.gz |only fBasics-3042.89.2/fBasics/data/msft.dat.csv.bz2 |only fBasics-3042.89.2/fBasics/data/nyse.csv.xz |only fBasics-3042.89.2/fBasics/data/swissEconomy.rda |only fBasics-3042.89.2/fBasics/data/usdthb.csv.xz |only fBasics-4021.92/fBasics/DESCRIPTION | 39 fBasics-4021.92/fBasics/MD5 | 69 - fBasics-4021.92/fBasics/NAMESPACE | 463 +++++++++- fBasics-4021.92/fBasics/NEWS.md |only fBasics-4021.92/fBasics/data/Capitalization.R |only fBasics-4021.92/fBasics/data/DowJones30.csv |only fBasics-4021.92/fBasics/data/HedgeFund.R |only fBasics-4021.92/fBasics/data/PensionFund.csv |only fBasics-4021.92/fBasics/data/SWXLP.csv |only fBasics-4021.92/fBasics/data/cars2.csv |only fBasics-4021.92/fBasics/data/msft.dat.csv |only fBasics-4021.92/fBasics/data/nyse.csv |only fBasics-4021.92/fBasics/data/swissEconomy.R |only fBasics-4021.92/fBasics/data/usdthb.csv |only fBasics-4021.92/fBasics/inst/_pkgdown.yml |only fBasics-4021.92/fBasics/inst/unitTests/runit.NormalityTests.R | 3 fBasics-4021.92/fBasics/inst/unitTests/runit.ReturnSeriesBasics.R | 6 fBasics-4021.92/fBasics/inst/unitTests/runit.StylizedFacts.R | 24 fBasics-4021.92/fBasics/man/00fBasics-package.Rd | 2 fBasics-4021.92/fBasics/man/baseMethods.Rd | 2 fBasics-4021.92/fBasics/man/data-examples.Rd | 9 fBasics-4021.92/fBasics/man/dist-snigFit.Rd | 2 fBasics-4021.92/fBasics/man/fBasics-reexports.Rd |only fBasics-4021.92/fBasics/man/matrix-inv.Rd | 2 fBasics-4021.92/fBasics/man/matrix-kron.Rd | 2 fBasics-4021.92/fBasics/man/plot-acfPlot.Rd | 1 fBasics-4021.92/fBasics/man/plot-boxPlot.Rd | 1 fBasics-4021.92/fBasics/man/plot-histPlot.Rd | 1 fBasics-4021.92/fBasics/man/plot-qqPlot.Rd | 1 fBasics-4021.92/fBasics/man/plot-scalinglawPlot.Rd | 1 fBasics-4021.92/fBasics/man/plot-seriesPlot.Rd | 3 fBasics-4021.92/fBasics/man/stats-basicStats.Rd | 2 fBasics-4021.92/fBasics/man/utils-Heaviside.Rd | 2 fBasics-4021.92/fBasics/man/utils-characterTable.Rd | 2 fBasics-4021.92/fBasics/man/utils-decor.Rd | 59 - fBasics-4021.92/fBasics/man/utils-hessian.Rd | 6 fBasics-4021.92/fBasics/man/utils-symbolTable.Rd | 2 47 files changed, 585 insertions(+), 119 deletions(-)
Title: A Bayesian Tool for Fast and Flexible Estimation of the
Reproduction Number
Description: Estimation of the instantaneous reproduction number with
Laplacian-P-splines following the methodology of Gressani et al.(2021)
<doi:10.1101/2021.12.02.21267189>. The negative Binomial
distribution is used to model the time series of case counts. Two methods are
available for inference : (1) a sampling-free approach based on a maximum a
posteriori calibration of the hyperparameter vector and (2) a fully stochastic
approach with a Metropolis-within-Gibbs algorithm and Langevin diffusions for
efficient sampling of the posterior distribution.
Author: Oswaldo Gressani [aut, cre]
Maintainer: Oswaldo Gressani <oswaldo_gressani@hotmail.fr>
Diff between EpiLPS versions 1.0.5 dated 2022-05-06 and 1.0.6 dated 2022-08-08
DESCRIPTION | 10 +- MD5 | 14 +- NEWS.md | 6 + R/perfcheck.R | 107 +++++++++++++++++++--- README.md | 162 ++++++++++++++++++---------------- build/vignette.rds |binary inst/doc/EpiLPS-vignette.html | 197 +++++++++++++++++++++++++++++++++++++++++- man/perfcheck.Rd | 11 +- 8 files changed, 399 insertions(+), 108 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-09-22 0.3-8196
2020-06-21 0.3-819
2020-06-16 0.3-81
2019-07-31 0.3-8
2018-03-20 0.3
2014-08-08 0.2-3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-02-25 1.0.6
2018-12-16 1.0.5
2018-08-06 1.0.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-07-05 0.4-12
2022-04-21 0.4-1
2022-02-12 0.4
2021-10-18 0.3-8196
2021-05-08 0.3-819
2021-02-05 0.3-81
2021-01-21 0.3-8
2020-11-24 0.3
2020-10-10 0.2-3571
2020-09-18 0.2-357
2020-09-05 0.2-35
2020-08-28 0.2-3
2020-08-14 0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-06-04 0.1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-06-17 0.2.0
2019-04-04 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-02-04 0.1.10
2021-06-25 0.1.9
2021-03-15 0.1.8
2021-02-04 0.1.7
2021-01-07 0.1.6
2020-11-30 0.1.4
2020-11-17 0.1.3
2020-11-10 0.1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-07-15 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-04-21 0.40
2020-10-15 0.38.196
2017-11-14 0.38.19
2017-08-15 0.38.1
2017-02-20 0.38
2015-04-13 0.3
Title: Ecotoxicological Information from the Standartox Database
Description: The <http://standartox.uni-landau.de> database offers cleaned,
harmonized and aggregated ecotoxicological test data, which can
be used for assessing effects and risks of chemical concentrations
found in the environment.
Author: Andreas Scharmueller [aut, cre]
Maintainer: Andreas Scharmueller <andschar@protonmail.com>
Diff between standartox versions 0.0.1 dated 2021-05-05 and 0.0.2 dated 2022-08-08
DESCRIPTION | 14 +++--- MD5 | 8 +-- NEWS | 9 ++-- R/standartox.R | 108 +++++++++++++++++++++++++++++------------------- README.md | 126 ++++++++++++++++++++++++++++----------------------------- 5 files changed, 144 insertions(+), 121 deletions(-)
Title: NHDPlus Tools
Description: Tools for traversing and working with National Hydrography Dataset Plus (NHDPlus) data. All methods implemented in 'nhdplusTools' are available in the NHDPlus documentation available from the US Environmental Protection Agency <https://www.epa.gov/waterdata/basic-information>.
Author: David Blodgett [aut, cre] ,
Mike Johnson [aut] ,
Marc Weber [ctb] ,
Josh Erickson [ctb]
Maintainer: David Blodgett <dblodgett@usgs.gov>
Diff between nhdplusTools versions 0.5.5 dated 2022-07-20 and 0.5.6 dated 2022-08-08
DESCRIPTION | 6 MD5 | 31 - NAMESPACE | 1 NEWS.md | 10 R/downloading_tools.R | 556 ++++++++++++++++----------------- R/geoserver_tools.R | 5 R/get_path_lengths.R | 50 ++ R/subset_nhdplus.R | 22 + README.md | 30 + build/vignette.rds |binary inst/CITATION | 4 inst/doc/US_data.html | 134 ++++--- inst/doc/advanced_network.html | 2 inst/doc/plot_nhdplus.html | 18 - man/download_nhdplusv2.Rd | 4 man/get_path_members.Rd |only tests/testthat/test_get_path_lengths.R | 6 17 files changed, 501 insertions(+), 378 deletions(-)
Title: Operations to Ease Data Analyses Specific to Nigeria
Description: A set of convenience functions as well as geographical/political
data about Nigeria, aimed at simplifying work with data and information that
are specific to the country.
Author: Victor Ordu [aut, cre]
Maintainer: Victor Ordu <victorordu@outlook.com>
Diff between naijR versions 0.4.0 dated 2022-01-28 and 0.4.3 dated 2022-08-08
DESCRIPTION | 12 MD5 | 29 +- NAMESPACE | 1 NEWS.md | 7 R/class-regions.R | 1 R/map_nigeria.R | 66 ++++- R/methods-fix_region.R | 2 R/sysdata.rda |binary build/vignette.rds |binary data/lgas_nigeria.rda |binary inst/doc/interactive.html | 2 inst/doc/nigeria-maps.html | 25 +- man/map_ng.Rd | 18 + tests/testthat/data/taraba-lga.rds |only tests/testthat/test-map_nigeria.R | 378 ++++++++++++++++++++----------- tests/testthat/test-methods-fix_region.R | 10 16 files changed, 365 insertions(+), 186 deletions(-)
Title: Data Base Backend for 'mlr3'
Description: Extends the 'mlr3' package with a backend to
transparently work with databases such as 'SQLite', 'DuckDB', 'MySQL',
'MariaDB', or 'PostgreSQL'. The package provides two additional backends:
'DataBackendDplyr' relies on the abstraction of package 'dbplyr' to
interact with most DBMS. 'DataBackendDuckDB' operates on 'DuckDB' data bases
and also on Apache Parquet files.
Author: Michel Lang [cre, aut]
Maintainer: Michel Lang <michellang@gmail.com>
Diff between mlr3db versions 0.4.2 dated 2021-11-17 and 0.5.0 dated 2022-08-08
DESCRIPTION | 21 ++++----- MD5 | 32 ++++++++------ NAMESPACE | 1 NEWS.md | 5 ++ R/DataBackendDuckDB.R | 33 ++++++++------ R/as_duckdb_backend.R | 19 ++++++++ README.md | 71 ++++++++++++++++++++++++-------- inst |only man/DataBackendDplyr.Rd | 56 ++++++++++++------------- man/DataBackendDuckDB.Rd | 61 ++++++++++++++------------- man/mlr3db-package.Rd | 2 tests/testthat.R | 4 - tests/testthat/helper.R | 4 - tests/testthat/test_as_duckdb_backend.R | 6 ++ tests/testthat/test_duckdb.R | 13 +++++ 15 files changed, 212 insertions(+), 116 deletions(-)
Title: Mechanical Loading Prediction Through Accelerometer Data
Description: Functions to read, process and analyse accelerometer
data related to mechanical loading variables. This package is
developed and tested for use with raw accelerometer data from
triaxial 'ActiGraph' <https://actigraphcorp.com> accelerometers.
Author: Lucas Veras [aut, cre]
Maintainer: Lucas Veras <lucasdsveras@gmail.com>
Diff between impactr versions 0.4.0 dated 2022-01-15 and 0.4.1 dated 2022-08-08
DESCRIPTION | 8 +- MD5 | 34 +++++------ NEWS.md | 7 ++ R/data.R | 2 R/non_wear.R | 40 +++++++++--- R/predict.R | 24 +++---- R/summarise_loading.R | 77 +++++++++++++++++++++---- build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 2 inst/doc/impactr.html | 42 ++++++++----- man/import_dataset.Rd | 2 man/remove_nonwear.Rd | 2 man/summarise_loading.Rd | 18 +++-- tests/testthat/_snaps/impactr_data_printing.md | 6 + tests/testthat/_snaps/non_wear.md | 1 tests/testthat/_snaps/summarise_loading.md | 54 ++++++++++------- tests/testthat/test-non_wear.R | 14 ++++ 18 files changed, 230 insertions(+), 103 deletions(-)
Title: Hypothesis Matrix Translation
Description: Translation between experimental null hypotheses, hypothesis matrices, and contrast matrices as used in linear regression models. The package is based on the method described in Schad et al. (2019) <doi:10.1016/j.jml.2019.104038> and Rabe et al. (2020) <doi:10.21105/joss.02134>.
Author: Maximilian M. Rabe [aut, cre] ,
Shravan Vasishth [aut] ,
Sven Hohenstein [aut] ,
Reinhold Kliegl [aut] ,
Daniel J. Schad [aut]
Maintainer: Maximilian M. Rabe <maximilian.rabe@uni-potsdam.de>
Diff between hypr versions 0.2.2 dated 2021-07-19 and 0.2.3 dated 2022-08-08
DESCRIPTION | 12 ++++++------ MD5 | 20 ++++++++++---------- NAMESPACE | 2 ++ R/equations.R | 8 +++----- R/hypr.R | 25 +++++++++++++++++++++---- README.md | 22 ++++++++++------------ inst/doc/hypr-contrasts.html | 8 ++++---- inst/doc/hypr-intro.html | 25 ++++++++++++------------- inst/doc/hypr-regression.html | 10 +++++----- man/cmat.Rd | 12 ++++++------ man/hypr-class.Rd | 7 +++++++ 11 files changed, 86 insertions(+), 65 deletions(-)
Title: Interface for the 'Finnish Biodiversity Information Facility'
API
Description: A programmatic interface to the 'Finnish Biodiversity Information
Facility' ('FinBIF') API (<https://api.laji.fi>). 'FinBIF' aggregates
Finnish biodiversity data from multiple sources in a single open access
portal for researchers, citizen scientists, industry and government.
'FinBIF' allows users of biodiversity information to find, access, combine
and visualise data on Finnish plants, animals and microorganisms. The
'finbif' package makes the publicly available data in 'FinBIF' easily
accessible to programmers. Biodiversity information is available on taxonomy
and taxon occurrence. Occurrence data can be filtered by taxon, time,
location and other variables. The data accessed are conveniently
preformatted for subsequent analyses.
Author: Finnish Museum of Natural History - Luomus [cph],
William K. Morris [aut, cre]
Maintainer: William K. Morris <willi@mmorris.email>
Diff between finbif versions 0.6.5 dated 2022-05-20 and 0.6.6 dated 2022-08-08
DESCRIPTION | 8 MD5 | 40 +-- NAMESPACE | 2 NEWS.md | 21 + R/finbif_check_taxa.R | 2 R/finbif_collections.R | 2 R/finbif_occurrence.R | 21 + R/finbif_records.R | 52 ++++ R/methods.R | 2 R/sysdata.rda |binary README.md | 2 build/vignette.rds |binary data/finland_map.rda |binary inst/NEWS.Rd | 24 ++ inst/doc/v04_metadata.Rmd | 169 --------------- inst/doc/v04_metadata.html | 350 +++++++++----------------------- man/finbif_occurrence.Rd | 6 man/finbif_records.Rd | 6 tests/testthat/test-finbif_occurrence.R | 3 tests/testthat/test-zzz-finbif.R | 1 vignettes/v04_metadata.Rmd | 169 --------------- 21 files changed, 257 insertions(+), 623 deletions(-)
Title: IRT Equating Methods
Description: Computation of direct, chain and average (bisector) equating coefficients with
standard errors using Item Response Theory (IRT) methods for dichotomous items
(Battauz (2013) <doi:10.1007/s11336-012-9316-y>,
Battauz (2015) <doi:10.18637/jss.v068.i07>).
Test scoring can be performed by true score equating and observed score equating methods.
DIF detection can be performed using a Wald-type test
(Battauz (2019) <doi:10.1007/s10260-018-00442-w>).
The package includes tests to access the stability of the equating transformations
(Battauz(2022) <doi:10.1111/stan.12277>).
Author: Michela Battauz
Maintainer: Michela Battauz <michela.battauz@uniud.it>
Diff between equateIRT versions 2.2.1 dated 2021-10-08 and 2.3.0 dated 2022-08-08
DESCRIPTION | 10 MD5 | 26 - R/functions.r | 14 build/vignette.rds |binary inst/NEWS | 6 inst/doc/equateIRT_paper.pdf |binary inst/doc/equateIRT_tutorial.R | 74 +++ inst/doc/equateIRT_tutorial.Rmd | 112 +++++ inst/doc/equateIRT_tutorial.html | 737 ++++++++++++++++++++++++--------------- man/dif.test.Rd | 20 - man/equateIRT-package.Rd | 16 man/id.test.Rd | 4 man/sd.test.Rd | 4 vignettes/equateIRT_tutorial.Rmd | 112 +++++ 14 files changed, 789 insertions(+), 346 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-07-20 0.3-0
2022-02-28 0.1-18
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-11-11 1.3.3
2019-07-23 1.3.2
2019-04-04 1.2.7
2019-01-15 1.2.6
2018-11-28 1.2.4
2018-08-14 1.2.3
2018-08-03 1.2.1
2018-07-31 1.2.0
2018-06-12 1.1.2
2018-03-09 1.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-05-26 1.1.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-05-05 0.2.0
2021-01-18 0.1.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-07-14 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-02-10 0.5.6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-03-21 0.3.6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-06-10 0.0.129
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-07-21 0.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-10-20 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-07-03 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-07-16 5.7.1
2021-07-26 5.6.1
2021-01-27 5.6.0
2020-02-11 5.5.1
2019-11-21 5.5.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-06-07 0.1.20
2022-05-27 0.1.18
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-07-14 0.1.0
Title: Interface Between 'GRASS' Geographical Information System and
'R'
Description: An interface between the 'GRASS' geographical information system ('GIS') and 'R', based on starting 'R' from within the 'GRASS' 'GIS' environment, or running a free-standing 'R' session in a temporary 'GRASS' location; the package provides facilities for using all 'GRASS' commands from the 'R' command line. The original interface package for 'GRASS 5' (2000-2010) is described in Bivand (2000) <doi:10.1016/S0098-3004(00)00057-1> and Bivand (2001) <https://www.r-project.org/conferences/DSC-2001/Proceedings/Bivand.pdf>. This was succeeded by 'spgrass6' for 'GRASS 6' (2006-2016) and 'rgrass7' for 'GRASS 7' (2015-present). The 'rgrass' package modernizes the interface for 'GRASS 8' while still permitting the use of 'GRASS 7'.
Author: Roger Bivand [cre, aut] ,
Rainer Krug [ctb] ,
Markus Neteler [ctb] ,
Sebastian Jeworutzki [ctb] ,
Floris Vanderhaeghe [ctb]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>
Diff between rgrass versions 0.3-2 dated 2022-07-21 and 0.3-3 dated 2022-08-08
DESCRIPTION | 8 ++--- MD5 | 12 ++++---- NEWS.md | 6 +++- inst/doc/coerce.R | 60 ++++++++++++++++++------------------------- inst/doc/coerce.Rmd | 70 ++++++++++++++++++++------------------------------- inst/doc/coerce.html | 27 ++++++++----------- vignettes/coerce.Rmd | 70 ++++++++++++++++++++------------------------------- 7 files changed, 109 insertions(+), 144 deletions(-)
Title: Interactive Annotation of Text and Images
Description: Annotate text with entities and the relations between them. Annotate areas of interest in images with your labels.
Providing 'htmlwidgets' bindings to the 'recogito' <https://github.com/recogito/recogito-js> and 'annotorious' <https://github.com/recogito/annotorious> libraries.
Author: Jan Wijffels [aut, cre, cph],
Vrije Universiteit Brussel - DIGI: Brussels Platform for Digital
Humanities [cph],
Pelagios Network [cph] ,
CodePlex Foundation [cph] ,
OpenSeadragon contributors [cph]
Maintainer: Jan Wijffels <jan.wijffels@vub.be>
Diff between recogito versions 0.1.1 dated 2021-06-17 and 0.1.2 dated 2022-08-08
recogito-0.1.1/recogito/inst/htmlwidgets/lib/annotorious-2.4.1 |only recogito-0.1.1/recogito/inst/htmlwidgets/lib/recogito-js-1.1.0 |only recogito-0.1.2/recogito/DESCRIPTION | 23 recogito-0.1.2/recogito/LICENSE | 2 recogito-0.1.2/recogito/LICENSE.note | 66 ++ recogito-0.1.2/recogito/MD5 | 143 +++-- recogito-0.1.2/recogito/NAMESPACE | 7 recogito-0.1.2/recogito/NEWS.md | 26 recogito-0.1.2/recogito/R/annotorious.R | 285 +++++++--- recogito-0.1.2/recogito/R/crop.R |only recogito-0.1.2/recogito/R/pkg.R | 1 recogito-0.1.2/recogito/R/recogito.R | 109 ++- recogito-0.1.2/recogito/README.md | 81 ++ recogito-0.1.2/recogito/data |only recogito-0.1.2/recogito/inst/examples/test-openseadragon.R |only recogito-0.1.2/recogito/inst/examples/test-recogito.R | 100 +-- recogito-0.1.2/recogito/inst/examples/test-recogitotagsonly.R |only recogito-0.1.2/recogito/inst/htmlwidgets/annotorious.js | 83 ++ recogito-0.1.2/recogito/inst/htmlwidgets/annotorious.yaml | 8 recogito-0.1.2/recogito/inst/htmlwidgets/annotoriousopenseadragon.js |only recogito-0.1.2/recogito/inst/htmlwidgets/annotoriousopenseadragon.yaml |only recogito-0.1.2/recogito/inst/htmlwidgets/annotoriousopenseadragonnotoolbar.js |only recogito-0.1.2/recogito/inst/htmlwidgets/annotoriousopenseadragonnotoolbar.yaml |only recogito-0.1.2/recogito/inst/htmlwidgets/lib/anno-2.4.1 |only recogito-0.1.2/recogito/inst/htmlwidgets/lib/anno-2.5.10 |only recogito-0.1.2/recogito/inst/htmlwidgets/lib/openseadragon-2.4.2 |only recogito-0.1.2/recogito/inst/htmlwidgets/lib/recogito-js-1.7.1 |only recogito-0.1.2/recogito/inst/htmlwidgets/recogito.js | 61 +- recogito-0.1.2/recogito/inst/htmlwidgets/recogito.yaml | 18 recogito-0.1.2/recogito/inst/htmlwidgets/recogitotagsonly.js | 59 +- recogito-0.1.2/recogito/inst/htmlwidgets/recogitotagsonly.yaml | 18 recogito-0.1.2/recogito/man/annotorious-shiny.Rd | 206 +++++-- recogito-0.1.2/recogito/man/annotorious.Rd | 23 recogito-0.1.2/recogito/man/ocv_crop_annotorious.Rd |only recogito-0.1.2/recogito/man/ocv_read_annotorious.Rd |only recogito-0.1.2/recogito/man/openseadragon_areas.Rd |only recogito-0.1.2/recogito/man/read_annotorious.Rd | 14 recogito-0.1.2/recogito/man/recogito-shiny.Rd | 38 + recogito-0.1.2/recogito/man/recogito.Rd | 7 recogito-0.1.2/recogito/tools/example-annotorious-shiny.gif |binary recogito-0.1.2/recogito/tools/example-openseadragon.png |only 41 files changed, 972 insertions(+), 406 deletions(-)
Title: Meta-Analyses for Simultaneously Estimating Individual Means
Description: Implement meta-analyses for simultaneously estimating individual means with shrinkage,
isotonic regression and pretests. Include our original implementation of the isotonic regression via the pool-adjacent-violators algorithm (PAVA) algorithm.
This methodology is published in Taketomi et al.(2021) <doi:10.3390/axioms10040267>.
Author: Nanami Taketomi, Takeshi Emura
Maintainer: Nanami Taketomi <nanamitaketomitommy@gmail.com>
Diff between meta.shrinkage versions 0.1.2 dated 2022-01-03 and 0.1.3 dated 2022-08-08
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NAMESPACE | 2 -- R/gpt.R | 43 +++++++++++++++++++++++++++++++++---------- R/js.R | 8 ++++---- R/rjs.R | 16 +++++----------- R/rml.R | 35 +++++++++++++++-------------------- man/gpt.Rd | 23 +++++++++++++++++++---- man/rml.Rd | 6 +----- 9 files changed, 88 insertions(+), 67 deletions(-)
More information about meta.shrinkage at CRAN
Permanent link
Title: Fast Spatial Regression using Moran Eigenvectors
Description: Functions for estimating spatial varying coefficient models, mixed models, and other spatial regression models for Gaussian and non-Gaussian data. Moran eigenvectors are used to an approximate Gaussian process modeling which is interpretable in terms of the Moran coefficient. The GP is used for modeling the spatial processes in residuals and regression coefficients. For details see Murakami (2021) <arXiv:1703.04467>.
Author: Daisuke Murakami <dmuraka@ism.ac.jp>
Maintainer: Daisuke Murakami <dmuraka@ism.ac.jp>
Diff between spmoran versions 0.2.2.4 dated 2022-06-27 and 0.2.2.5 dated 2022-08-08
DESCRIPTION | 10 MD5 | 24 R/besf_vc.R | 2880 ++++++++++++------------- R/predict0.R | 1314 ++++++----- R/predict0_vc.R | 1797 ++++++++-------- R/resf.R | 316 +- R/resf_vc.R | 5915 ++++++++++++++++++++++++++--------------------------- build/vignette.rds |binary man/besf_vc.Rd | 232 +- man/predict0.Rd | 5 man/predict0_vc.Rd | 9 man/resf.Rd | 4 man/resf_vc.Rd | 7 13 files changed, 6288 insertions(+), 6225 deletions(-)
Title: NNG (Nanomsg Next Gen) Lightweight Messaging Library
Description: R binding for NNG (Nanomsg Next Gen), a successor to ZeroMQ. NNG is
a socket library providing high-performance scalability protocols,
implementing a cross-platform standard for messaging and communications.
Serves as a concurrency framework for building distributed applications,
utilising 'Aio' objects which automatically resolve upon completion of
asynchronous operations.
Author: Charlie Gao [aut, cre] ,
Hibiki AI Limited [cph]
Maintainer: Charlie Gao <charlie.gao@shikokuchuo.net>
Diff between nanonext versions 0.5.2 dated 2022-07-07 and 0.5.3 dated 2022-08-08
DESCRIPTION | 13 ++------ MD5 | 42 +++++++++++++-------------- NEWS.md | 10 ++++++ R/aio.R | 39 ++++++++----------------- R/context.R | 30 ++++++++----------- R/methods.R | 42 ++++----------------------- R/nano.R | 77 +++++++++++++++----------------------------------- R/opts.R | 35 +++------------------- R/utils.R | 39 +++---------------------- README.md | 26 ++++++++-------- configure | 15 ++++----- man/is_error_value.Rd | 2 - man/recv_aio.Rd | 13 +++----- man/reply.Rd | 14 ++++----- man/request.Rd | 8 ++--- man/send_aio.Rd | 13 +++----- src/aio.c | 12 +++---- src/core.c | 11 +++++++ src/init.c | 1 src/nanonext.h | 1 src/opts.c | 42 ++++++++++++++++++++++++--- src/utils.c | 43 +++++++++++++++++++++++++++ 22 files changed, 245 insertions(+), 283 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-07-21 2.14.1
2022-02-02 2.14.0
2021-07-28 2.13.1
2021-07-14 2.13.0
2020-06-08 2.12.0
2019-12-11 2.11.0
2018-09-27 2.10.3
2018-05-22 2.10.2
2018-04-07 2.10.1
2018-03-03 2.10.0
2017-08-28 2.9.3
2017-06-09 2.9.2
2017-03-19 2.9.1
2017-01-26 2.9.0
2016-12-08 2.8.4
2016-10-05 2.8.3
2016-06-20 2.8.2
2016-03-27 2.8.1
2016-03-25 2.8.0
2015-08-13 2.7.2
2015-04-04 2.7.1
2015-02-10 2.7.0
2014-09-05 2.6.2
2014-07-24 2.6.1
2014-06-25 2.6.0
2013-10-12 2.5.1
2013-01-25 2.5.0
2012-11-11 2.4.2
2012-06-28 2.4.1
2012-04-23 2.4.0
2012-01-25 2.3.0
2011-05-03 2.2.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-05-24 1.2.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-02-28 0.3.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-01-19 0.1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-02-09 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-05-14 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-06-21 2.3.1
2021-09-27 2.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-06-30 3.2.0
2021-06-16 3.1.2
2021-03-23 3.1.1
2020-11-05 3.1.0
2020-06-05 3.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-06-05 2.6.4
2021-07-25 2.6.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-01-29 0.2.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-07-11 4.0
2022-03-30 3.2.1
2022-03-26 3.2
2021-11-23 3.1
2021-08-21 3.0
2021-03-21 2.2
2021-03-06 2.1
2021-01-28 2.0
2019-04-18 0.1-3
2019-04-08 0.1-2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-02-22 1.0.4
2021-09-20 1.0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-09-08 2.5.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-09-30 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-07-15 0.1.9
2021-10-25 0.1.7
2021-10-14 0.1.6
2021-07-29 0.1.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-02-14 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-06-15 2.4.10
2022-06-03 2.4.9
2021-09-19 2.4.8
2021-09-07 2.4.7
2021-08-19 2.4.6
Title: An Automated Cell Type Annotation Tool for Single-Cell
RNA-Sequencing Data
Description: An entirely data-driven cell type annotation tools, which requires training data to learn the classifier, but not biological knowledge to make subjective decisions. It consists of three steps: preprocessing training and test data, model fitting on training data, and cell classification on test data. See Xiangling Ji,Danielle Tsao, Kailun Bai, Min Tsao, Xuekui Zhang.(2022)<doi:10.1101/2022.02.19.481159> for more details.
Author: Xiangling Ji [aut],
Danielle Tsao [aut],
Kailun Bai [ctb],
Min Tsao [aut],
Xuekui Zhang [aut, cre]
Maintainer: Xuekui Zhang <xuekui@uvic.ca>
Diff between scAnnotate versions 0.0.1 dated 2022-07-01 and 0.0.2 dated 2022-08-08
DESCRIPTION | 6 MD5 | 20 - NAMESPACE | 1 R/br_harmony.R | 22 - R/br_seurat.R | 24 - R/scAnnotate.R | 15 inst/doc/Introduction.R | 3 inst/doc/Introduction.Rmd | 12 inst/doc/Introduction.html | 816 ++++++++++++++++++++++----------------------- man/scAnnotate.Rd | 8 vignettes/Introduction.Rmd | 12 11 files changed, 493 insertions(+), 446 deletions(-)
Title: General Resampling Infrastructure
Description: Classes and functions to create and summarize different types
of resampling objects (e.g. bootstrap, cross-validation).
Author: Julia Silge [aut, cre] ,
Fanny Chow [aut],
Max Kuhn [aut],
Hadley Wickham [aut],
RStudio [cph, fnd]
Maintainer: Julia Silge <julia.silge@rstudio.com>
Diff between rsample versions 1.0.0 dated 2022-06-24 and 1.1.0 dated 2022-08-08
rsample-1.0.0/rsample/R/groups.R |only rsample-1.0.0/rsample/tests/testthat/_snaps/groups.md |only rsample-1.0.0/rsample/tests/testthat/test-groups.R |only rsample-1.1.0/rsample/DESCRIPTION | 9 rsample-1.1.0/rsample/MD5 | 149 +- rsample-1.1.0/rsample/NAMESPACE | 74 + rsample-1.1.0/rsample/NEWS.md | 26 rsample-1.1.0/rsample/R/boot.R | 107 + rsample-1.1.0/rsample/R/bootci.R | 2 rsample-1.1.0/rsample/R/compat-vctrs-helpers.R | 44 rsample-1.1.0/rsample/R/compat-vctrs.R | 739 ---------- rsample-1.1.0/rsample/R/initial_split.R | 31 rsample-1.1.0/rsample/R/make_groups.R | 161 ++ rsample-1.1.0/rsample/R/mc.R | 95 + rsample-1.1.0/rsample/R/misc.R | 128 + rsample-1.1.0/rsample/R/permutations.R | 3 rsample-1.1.0/rsample/R/printing.R | 94 + rsample-1.1.0/rsample/R/reg_intervals.R | 5 rsample-1.1.0/rsample/R/rolling_origin.R | 2 rsample-1.1.0/rsample/R/rsample-package.R | 2 rsample-1.1.0/rsample/R/rsplit.R | 2 rsample-1.1.0/rsample/R/slide.R | 8 rsample-1.1.0/rsample/R/tidy.R | 7 rsample-1.1.0/rsample/R/validation_split.R | 54 rsample-1.1.0/rsample/R/vfold.R | 138 + rsample-1.1.0/rsample/R/zzz-compat-vctrs-apparent.R |only rsample-1.1.0/rsample/R/zzz-compat-vctrs-bootstraps.R |only rsample-1.1.0/rsample/R/zzz-compat-vctrs-group_bootstraps.R |only rsample-1.1.0/rsample/R/zzz-compat-vctrs-group_mc_cv.R |only rsample-1.1.0/rsample/R/zzz-compat-vctrs-group_validation_split.R |only rsample-1.1.0/rsample/R/zzz-compat-vctrs-group_vfold_cv.R |only rsample-1.1.0/rsample/R/zzz-compat-vctrs-loo_cv.R |only rsample-1.1.0/rsample/R/zzz-compat-vctrs-manual_rset.R |only rsample-1.1.0/rsample/R/zzz-compat-vctrs-mc_cv.R |only rsample-1.1.0/rsample/R/zzz-compat-vctrs-nested_cv.R |only rsample-1.1.0/rsample/R/zzz-compat-vctrs-permutations.R |only rsample-1.1.0/rsample/R/zzz-compat-vctrs-rolling_origin.R |only rsample-1.1.0/rsample/R/zzz-compat-vctrs-sliding_index.R |only rsample-1.1.0/rsample/R/zzz-compat-vctrs-sliding_period.R |only rsample-1.1.0/rsample/R/zzz-compat-vctrs-sliding_window.R |only rsample-1.1.0/rsample/R/zzz-compat-vctrs-validation_split.R |only rsample-1.1.0/rsample/R/zzz-compat-vctrs-validation_time_split.R |only rsample-1.1.0/rsample/R/zzz-compat-vctrs-vfold_cv.R |only rsample-1.1.0/rsample/R/zzz.R | 7 rsample-1.1.0/rsample/build/vignette.rds |binary rsample-1.1.0/rsample/inst/doc/Common_Patterns.R |only rsample-1.1.0/rsample/inst/doc/Common_Patterns.Rmd |only rsample-1.1.0/rsample/inst/doc/Common_Patterns.html |only rsample-1.1.0/rsample/inst/doc/Working_with_rsets.R | 5 rsample-1.1.0/rsample/inst/doc/Working_with_rsets.Rmd | 9 rsample-1.1.0/rsample/inst/doc/Working_with_rsets.html | 38 rsample-1.1.0/rsample/inst/doc/rsample.html | 10 rsample-1.1.0/rsample/inst/generate_vctrs.R |only rsample-1.1.0/rsample/inst/vctrs_template.R |only rsample-1.1.0/rsample/man/bootstraps.Rd | 4 rsample-1.1.0/rsample/man/group_bootstraps.Rd |only rsample-1.1.0/rsample/man/group_mc_cv.Rd |only rsample-1.1.0/rsample/man/group_vfold_cv.Rd | 40 rsample-1.1.0/rsample/man/initial_split.Rd | 17 rsample-1.1.0/rsample/man/int_pctl.Rd | 2 rsample-1.1.0/rsample/man/make_groups.Rd | 24 rsample-1.1.0/rsample/man/mc_cv.Rd | 2 rsample-1.1.0/rsample/man/reg_intervals.Rd | 2 rsample-1.1.0/rsample/man/reshuffle_rset.Rd |only rsample-1.1.0/rsample/man/reverse_splits.Rd |only rsample-1.1.0/rsample/man/rolling_origin.Rd | 2 rsample-1.1.0/rsample/man/slide-resampling.Rd | 4 rsample-1.1.0/rsample/man/tidy.rsplit.Rd | 2 rsample-1.1.0/rsample/man/validation_split.Rd | 14 rsample-1.1.0/rsample/man/vfold_cv.Rd | 2 rsample-1.1.0/rsample/tests/testthat/_snaps/boot.md | 10 rsample-1.1.0/rsample/tests/testthat/_snaps/compat-vctrs.md | 270 +++ rsample-1.1.0/rsample/tests/testthat/_snaps/make_groups.md |only rsample-1.1.0/rsample/tests/testthat/_snaps/mc.md | 46 rsample-1.1.0/rsample/tests/testthat/_snaps/misc.md |only rsample-1.1.0/rsample/tests/testthat/_snaps/permutations.md | 3 rsample-1.1.0/rsample/tests/testthat/_snaps/vfold.md | 54 rsample-1.1.0/rsample/tests/testthat/helpers-rsample.R | 2 rsample-1.1.0/rsample/tests/testthat/test-boot.R | 37 rsample-1.1.0/rsample/tests/testthat/test-bootci.R | 7 rsample-1.1.0/rsample/tests/testthat/test-compat-dplyr.R | 4 rsample-1.1.0/rsample/tests/testthat/test-compat-vctrs.R | 1 rsample-1.1.0/rsample/tests/testthat/test-initial.R | 19 rsample-1.1.0/rsample/tests/testthat/test-make_groups.R |only rsample-1.1.0/rsample/tests/testthat/test-mc.R | 100 + rsample-1.1.0/rsample/tests/testthat/test-misc.R |only rsample-1.1.0/rsample/tests/testthat/test-nesting.R | 2 rsample-1.1.0/rsample/tests/testthat/test-validation.R | 43 rsample-1.1.0/rsample/tests/testthat/test-vfold.R | 164 ++ rsample-1.1.0/rsample/vignettes/Applications/Intervals.Rmd | 7 rsample-1.1.0/rsample/vignettes/Applications/Recipes_and_rsample.Rmd | 3 rsample-1.1.0/rsample/vignettes/Common_Patterns.Rmd |only rsample-1.1.0/rsample/vignettes/Working_with_rsets.Rmd | 9 93 files changed, 1946 insertions(+), 899 deletions(-)
Title: R2 Statistic
Description: R2 statistic for significance test. Variance and covariance of R2 values used to assess the 95% CI and p-value of the R2 difference.
Author: Hong Lee [aut, cph],
Moksedul Momin [aut, cre, cph]
Maintainer: Moksedul Momin <cvasu.momin@gmail.com>
Diff between r2redux versions 1.0.9 dated 2022-06-21 and 1.0.10 dated 2022-08-08
r2redux-1.0.10/r2redux/DESCRIPTION | 6 r2redux-1.0.10/r2redux/MD5 | 35 - r2redux-1.0.10/r2redux/NAMESPACE | 3 r2redux-1.0.10/r2redux/R/aoa_beta1_2.r | 218 +++---- r2redux-1.0.10/r2redux/R/aoa_beta_inf.r | 218 +++---- r2redux-1.0.10/r2redux/R/aoa_beta_ratio.r |only r2redux-1.0.10/r2redux/R/r2_beta_var.r |only r2redux-1.0.10/r2redux/R/r2_diff2.r | 715 ++++++++++++------------- r2redux-1.0.10/r2redux/R/r2_enrich_beta3.r |only r2redux-1.0.10/r2redux/R/r2_var2.r | 240 ++++---- r2redux-1.0.10/r2redux/R/r_aoa12_1.r |only r2redux-1.0.10/r2redux/R/r_aoa12_13.r |only r2redux-1.0.10/r2redux/R/r_aoa12_3.r |only r2redux-1.0.10/r2redux/R/r_aoa12_34.r |only r2redux-1.0.10/r2redux/R/r_aoa1_2.r |only r2redux-1.0.10/r2redux/R/r_diff.r |only r2redux-1.0.10/r2redux/man/olkin_beta1_2.Rd | 16 r2redux-1.0.10/r2redux/man/olkin_beta_inf.Rd | 2 r2redux-1.0.10/r2redux/man/olkin_beta_ratio.Rd |only r2redux-1.0.10/r2redux/man/r2_beta_var.Rd |only r2redux-1.0.10/r2redux/man/r2_diff.Rd | 22 r2redux-1.0.10/r2redux/man/r2_enrich_beta.Rd | 103 ++- r2redux-1.0.10/r2redux/man/r2_var.Rd | 19 r2redux-1.0.10/r2redux/man/r_diff.Rd |only r2redux-1.0.9/r2redux/R/r2_enrich_beta.r |only 25 files changed, 825 insertions(+), 772 deletions(-)
Title: Easily Apply Formats to Data
Description: Contains a set of functions that can be used to apply
formats to data frames or vectors. The package aims to provide to
functionality similar to that of SAS® formats. Formats are assigned to
the format attribute on data frame columns. Then when the fdata()
function is called, a new data frame is created with the column data
formatted as specified. The package also contains a value() function
to create a user-defined format, similar to a SAS® user-defined format.
Author: David Bosak
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between fmtr versions 1.5.7 dated 2022-06-25 and 1.5.8 dated 2022-08-08
fmtr-1.5.7/fmtr/R/labels.R |only fmtr-1.5.7/fmtr/man/labels.data.frame.Rd |only fmtr-1.5.7/fmtr/tests/testthat/test-labels.R |only fmtr-1.5.8/fmtr/DESCRIPTION | 8 +- fmtr-1.5.8/fmtr/MD5 | 57 +++++++------- fmtr-1.5.8/fmtr/NAMESPACE | 4 - fmtr-1.5.8/fmtr/NEWS.md | 18 ++++ fmtr-1.5.8/fmtr/R/descriptions.R | 4 - fmtr-1.5.8/fmtr/R/fapply.R | 98 ++++++++++++++++++++++--- fmtr-1.5.8/fmtr/R/formats.R | 5 - fmtr-1.5.8/fmtr/R/helpers.R | 28 ++++++- fmtr-1.5.8/fmtr/R/justification.R | 4 - fmtr-1.5.8/fmtr/R/widths.R | 4 - fmtr-1.5.8/fmtr/build/vignette.rds |binary fmtr-1.5.8/fmtr/inst/doc/fmtr-convenience.Rmd | 10 +- fmtr-1.5.8/fmtr/inst/doc/fmtr-convenience.html | 17 ++-- fmtr-1.5.8/fmtr/inst/doc/fmtr-fapply.html | 4 - fmtr-1.5.8/fmtr/inst/doc/fmtr-faq.Rmd | 18 ++++ fmtr-1.5.8/fmtr/inst/doc/fmtr-faq.html | 21 +++++ fmtr-1.5.8/fmtr/inst/doc/fmtr-fcat.html | 4 - fmtr-1.5.8/fmtr/inst/doc/fmtr-fdata.html | 4 - fmtr-1.5.8/fmtr/inst/doc/fmtr-helpers.html | 4 - fmtr-1.5.8/fmtr/man/fapply2.Rd |only fmtr-1.5.8/fmtr/man/fmt_cnt_pct.Rd | 18 ++++ fmtr-1.5.8/fmtr/man/images/fmtr2.png |binary fmtr-1.5.8/fmtr/man/images/fmtr2_back.png |only fmtr-1.5.8/fmtr/tests/testthat/test-fapply.R | 35 ++++++++ fmtr-1.5.8/fmtr/tests/testthat/test-fmt.R | 32 ++++---- fmtr-1.5.8/fmtr/tests/testthat/test-formats.R | 27 ++++++ fmtr-1.5.8/fmtr/tests/testthat/test-helpers.R | 3 fmtr-1.5.8/fmtr/vignettes/fmtr-convenience.Rmd | 10 +- fmtr-1.5.8/fmtr/vignettes/fmtr-faq.Rmd | 18 ++++ 32 files changed, 364 insertions(+), 91 deletions(-)
Title: Statistical Framework to Define Subgroups in Complex Datasets
Description: High-dimensional datasets that do not exhibit a clear intrinsic clustered structure pose a challenge to conventional clustering algorithms. For this reason, we developed an unsupervised framework that helps scientists to better subgroup their datasets based on visual cues, please see Gao S, Mutter S, Casey A, Makinen V-P (2019) Numero: a statistical framework to define multivariable subgroups in complex population-based datasets, Int J Epidemiology, 48:369-37, <doi:10.1093/ije/dyy113>. The framework includes the necessary functions to construct a self-organizing map of the data, to evaluate the statistical significance of the observed data patterns, and to visualize the results.
Author: Song Gao [aut],
Stefan Mutter [aut],
Aaron E. Casey [aut],
Ville-Petteri Makinen [aut, cre]
Maintainer: Ville-Petteri Makinen <vpmakine@gmail.com>
Diff between Numero versions 1.9.0 dated 2022-02-16 and 1.9.3 dated 2022-08-08
DESCRIPTION | 10 ++++---- MD5 | 14 +++++------ R/nroPlot.R | 3 +- R/nroPostprocess.R | 7 ++++- R/numero.clean.R | 14 ++++++++++- R/numero.quality.R | 29 ++++++++++++------------ build/vignette.rds |binary inst/doc/intro.html | 62 ++++++++++++++++++++++++++-------------------------- 8 files changed, 78 insertions(+), 61 deletions(-)