Title: Preprocessing and Feature Engineering Steps for Modeling
Description: A recipe prepares your data for modeling. We provide an
extensible framework for pipeable sequences of feature engineering
steps provides preprocessing tools to be applied to data. Statistical
parameters for the steps can be estimated from an initial data set and
then applied to other data sets. The resulting processed output can
then be used as inputs for statistical or machine learning models.
Author: Max Kuhn [aut, cre],
Hadley Wickham [aut],
RStudio [cph]
Maintainer: Max Kuhn <max@rstudio.com>
Diff between recipes versions 0.1.17 dated 2021-09-27 and 0.2.0 dated 2022-02-18
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recipes-0.2.0/recipes/tests/testthat/test_interact.R | 32 recipes-0.2.0/recipes/tests/testthat/test_inverse.R | 40 recipes-0.2.0/recipes/tests/testthat/test_invlogit.R | 38 recipes-0.2.0/recipes/tests/testthat/test_isomap.R | 42 recipes-0.2.0/recipes/tests/testthat/test_kpca.R | 64 recipes-0.2.0/recipes/tests/testthat/test_kpca_poly.R | 65 recipes-0.2.0/recipes/tests/testthat/test_kpca_rbf.R | 59 recipes-0.2.0/recipes/tests/testthat/test_lag.R | 44 recipes-0.2.0/recipes/tests/testthat/test_lincomb.R | 38 recipes-0.2.0/recipes/tests/testthat/test_log.R | 38 recipes-0.2.0/recipes/tests/testthat/test_logit.R | 38 recipes-0.2.0/recipes/tests/testthat/test_missing.R | 38 recipes-0.2.0/recipes/tests/testthat/test_mutate.R | 38 recipes-0.2.0/recipes/tests/testthat/test_naindicate.R | 36 recipes-0.2.0/recipes/tests/testthat/test_naomit.R | 38 recipes-0.2.0/recipes/tests/testthat/test_newvalues.R | 41 recipes-0.2.0/recipes/tests/testthat/test_novel.R | 36 recipes-0.2.0/recipes/tests/testthat/test_ns.R | 38 recipes-0.2.0/recipes/tests/testthat/test_num2factor.R | 36 recipes-0.2.0/recipes/tests/testthat/test_nzv.R | 53 recipes-0.2.0/recipes/tests/testthat/test_ordinalscore.R | 39 recipes-0.2.0/recipes/tests/testthat/test_other.R | 51 recipes-0.2.0/recipes/tests/testthat/test_pca.R | 43 recipes-0.2.0/recipes/tests/testthat/test_percentile.R |only recipes-0.2.0/recipes/tests/testthat/test_pls_new.R | 48 recipes-0.2.0/recipes/tests/testthat/test_pls_old.R | 5 recipes-0.2.0/recipes/tests/testthat/test_poly.R | 37 recipes-0.2.0/recipes/tests/testthat/test_profile.R | 44 recipes-0.2.0/recipes/tests/testthat/test_range.R | 41 recipes-0.2.0/recipes/tests/testthat/test_range_check.R | 39 recipes-0.2.0/recipes/tests/testthat/test_ratio.R | 38 recipes-0.2.0/recipes/tests/testthat/test_regex.R | 40 recipes-0.2.0/recipes/tests/testthat/test_relevel.R | 38 recipes-0.2.0/recipes/tests/testthat/test_relu.R | 38 recipes-0.2.0/recipes/tests/testthat/test_rename.R | 75 + recipes-0.2.0/recipes/tests/testthat/test_rm.R | 47 recipes-0.2.0/recipes/tests/testthat/test_roll.R | 44 recipes-0.2.0/recipes/tests/testthat/test_shuffle.R | 38 recipes-0.2.0/recipes/tests/testthat/test_skipping.R | 1 recipes-0.2.0/recipes/tests/testthat/test_slice.R | 37 recipes-0.2.0/recipes/tests/testthat/test_spatialsign.R | 36 recipes-0.2.0/recipes/tests/testthat/test_sqrt.R | 37 recipes-0.2.0/recipes/tests/testthat/test_string2factor.R | 37 recipes-0.2.0/recipes/tests/testthat/test_tidy.R | 13 recipes-0.2.0/recipes/tests/testthat/test_unknown.R | 36 recipes-0.2.0/recipes/tests/testthat/test_unorder.R | 39 recipes-0.2.0/recipes/tests/testthat/test_zv.R | 79 + recipes-0.2.0/recipes/vignettes/Dummies.Rmd | 15 recipes-0.2.0/recipes/vignettes/Ordering.Rmd | 12 recipes-0.2.0/recipes/vignettes/Roles.Rmd | 11 recipes-0.2.0/recipes/vignettes/Selecting_Variables.Rmd | 12 recipes-0.2.0/recipes/vignettes/Skipping.Rmd | 13 recipes-0.2.0/recipes/vignettes/recipes.Rmd |only 408 files changed, 6571 insertions(+), 2940 deletions(-)
Title: Update and Manipulate Rd Documentation Objects
Description: Functions for manipulation of R documentation objects,
including functions reprompt() and ereprompt() for updating 'Rd'
documentation for functions, methods and classes; 'Rd' macros for
citations and import of references from 'bibtex' files for use in
'Rd' files and 'roxygen2' comments; 'Rd' macros for evaluating and
inserting snippets of 'R' code and the results of its evaluation or
creating graphics on the fly; and many functions for manipulation of
references and Rd files.
Author: Georgi N. Boshnakov [aut, cre],
Duncan Murdoch [ctb]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between Rdpack versions 2.1.3 dated 2021-12-08 and 2.1.4 dated 2022-02-18
DESCRIPTION | 8 MD5 | 44 +- NEWS.md | 20 - R/bib.R | 24 + README.md | 176 +++++----- build/partial.rdb |binary inst/REFERENCES.bib | 2 inst/doc/Inserting_bibtex_references.R | 2 inst/doc/Inserting_bibtex_references.Rnw | 84 +++- inst/doc/Inserting_bibtex_references.pdf |binary inst/doc/Inserting_figures_and_evaluated_examples.pdf |binary inst/examples/Rdpack-package.Rd |only inst/examples/reprompt.Rd |only man/Rdo2Rdf.Rd | 2 man/insert_all_ref.Rd | 8 man/insert_citeOnly.Rd |only man/insert_ref.Rd | 310 ++++++++++-------- man/viewRd.Rd | 5 tests/testthat/StructureClasses.Rd |only tests/testthat/as.character.f_usage.Rd |only tests/testthat/classRepresentation-class.Rd |only tests/testthat/initialize-methods.Rd |only tests/testthat/myshow-methods.Rd |only tests/testthat/show.Rd |only tests/testthat/test-bib.R | 79 ++++ tests/testthat/test-reprompt.R |only vignettes/Inserting_bibtex_references.Rnw | 84 +++- vignettes/Inserting_bibtex_references.org | 68 ++- 28 files changed, 570 insertions(+), 346 deletions(-)
Title: The Reinert Method for Textual Data Clustering
Description: An R implementation of the Reinert text clustering method. For more
details about the algorithm see the included vignettes or Reinert (1990)
<doi:10.1177/075910639002600103>.
Author: Julien Barnier [aut, cre],
Florian Privé [ctb]
Maintainer: Julien Barnier <julien.barnier@cnrs.fr>
Diff between rainette versions 0.2.1 dated 2021-10-06 and 0.3.0 dated 2022-02-18
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Title: Cache 'CRAN'-Like Metadata and R Packages
Description: Metadata and package cache for CRAN-like repositories.
This is a utility package to be used by package management tools
that want to take advantage of caching.
Author: Gábor Csárdi [aut, cre]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between pkgcache versions 2.0.0 dated 2022-02-16 and 2.0.1 dated 2022-02-18
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ tests/test-async.R | 4 ++-- tests/testthat.R | 8 +++++--- 5 files changed, 18 insertions(+), 12 deletions(-)
Title: Boilerplate Code for 'Tidymodels' Analyses
Description: Code snippets to fit models using the tidymodels framework
can be easily created for a given data set.
Author: Max Kuhn [aut, cre] (<https://orcid.org/0000-0003-2402-136X>),
RStudio [cph]
Maintainer: Max Kuhn <max@rstudio.com>
Diff between usemodels versions 0.1.0 dated 2020-11-17 and 0.2.0 dated 2022-02-18
DESCRIPTION | 38 MD5 | 24 NAMESPACE | 8 NEWS.md | 10 R/0_imports.R | 11 R/messages.R | 5 R/misc.R | 53 R/use.R | 271 ++- man/templates.Rd | 66 tests/testthat/_snaps/basics.md |only tests/testthat/_snaps/clipboard.md |only tests/testthat/_snaps/templates.md | 3066 +++++++++++++++++++++---------------- tests/testthat/test-basics.R |only tests/testthat/test-clipboard.R |only tests/testthat/test-templates.R | 13 15 files changed, 2171 insertions(+), 1394 deletions(-)
Title: Create ToxPi Prioritization Models
Description: Enables users to build 'ToxPi' prioritization models and provides
functionality within the grid framework for plotting ToxPi graphs.
'toxpiR' allows for more customization than the 'ToxPi GUI'
(<https://toxpi.org>) and integration into existing workflows for greater
ease-of-use, reproducibility, and transparency.
toxpiR package behaves nearly identically to the GUI; the package
documentation includes notes about all differences.
The vignettes download example files from
<https://github.com/ToxPi/ToxPi-example-files>.
Author: Dayne L Filer [aut, cre, fnd] (<https://orcid.org/0000-0002-3443-5315>),
Dillon T Lloyd [aut],
Preethi Thunga [aut] (<https://orcid.org/0000-0001-5447-0129>),
Skylar W Marvel [aut],
Alison A Motsinger-Reif [fnd] (<https://orcid.org/0000-0003-1346-2493>),
David M Reif [aut, fnd] (<https://orcid.org/0000-0001-7815-6767>)
Maintainer: Dayne L Filer <dayne.filer@gmail.com>
Diff between toxpiR versions 1.0.2 dated 2022-02-07 and 1.0.3 dated 2022-02-18
toxpiR-1.0.2/toxpiR/man/figures |only toxpiR-1.0.3/toxpiR/DESCRIPTION | 20 ++++++---- toxpiR-1.0.3/toxpiR/MD5 | 18 +++------ toxpiR-1.0.3/toxpiR/inst/doc/importFromGui.html | 2 - toxpiR-1.0.3/toxpiR/inst/doc/introduction.Rmd | 4 +- toxpiR-1.0.3/toxpiR/inst/doc/introduction.html | 4 +- toxpiR-1.0.3/toxpiR/man/toxpiR-package.Rd | 9 +++- toxpiR-1.0.3/toxpiR/vignettes/embeddedFigures/toxpiR-flowchart.svg | 2 - toxpiR-1.0.3/toxpiR/vignettes/introduction.Rmd | 4 +- 9 files changed, 34 insertions(+), 29 deletions(-)
Title: Temporal Sensory Data Analysis
Description: Analysis and visualization of data from temporal sensory methods, including for temporal check-all-that-apply (TCATA) and temporal dominance of sensations (TDS).
Author: J.C. Castura [aut, cre, ctb] (<https://orcid.org/0000-0002-1640-833X>)
Maintainer: J.C. Castura <jcastura@compusense.com>
Diff between tempR versions 0.9.9.19 dated 2021-12-09 and 0.9.9.20 dated 2022-02-18
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/tds.R | 8 ++++---- build/partial.rdb |binary data/bars.rda |binary inst/CITATION | 2 +- man/get.differences.Rd | 4 ++-- man/tds.plot.Rd | 4 ++-- 8 files changed, 20 insertions(+), 20 deletions(-)
More information about clustAnalytics at CRAN
Permanent link
Title: Vis-NIR Spectral Analysis Wrapper
Description: Originally designed application in the context of
resource-limited plant research and breeding programs, 'waves'
provides an open-source solution to spectral data processing and model
development by bringing useful packages together into a streamlined
pipeline. This package is wrapper for functions related to the
analysis of point visible and near-infrared reflectance measurements.
It includes visualization, filtering, aggregation, preprocessing,
cross-validation set formation, model training, and prediction
functions to enable open-source association of spectral and reference
data. This package is documented in a peer-reviewed manuscript in the
Plant Phenome Journal <doi:10.1002/ppj2.20012>. Specialized
cross-validation schemes are described in detail in Jarquín et al.
(2017) <doi:10.3835/plantgenome2016.12.0130>. Example data is from
Ikeogu et al. (2017) <doi:10.1371/journal.pone.0188918>.
Author: Jenna Hershberger [aut, cre] (<https://orcid.org/0000-0002-3147-6867>),
Michael Gore [ths],
NSF BREAD IOS-1543958 [fnd]
Maintainer: Jenna Hershberger <jmh579@cornell.edu>
Diff between waves versions 0.2.1 dated 2022-02-03 and 0.2.2 dated 2022-02-18
DESCRIPTION | 6 ++--- MD5 | 8 +++---- NEWS.md | 5 ++++ R/train_spectra.R | 4 ++- inst/doc/waves.html | 54 +++++++++++++++++++++++++++------------------------- 5 files changed, 44 insertions(+), 33 deletions(-)
Title: Analysis of Oceanographic Data
Description: Supports the analysis of Oceanographic data, including 'ADCP'
measurements, measurements made with 'argo' floats, 'CTD' measurements,
sectional data, sea-level time series, coastline and topographic data, etc.
Provides specialized functions for calculating seawater properties such as
potential temperature in either the 'UNESCO' or 'TEOS-10' equation of state.
Produces graphical displays that conform to the conventions of the
Oceanographic literature. This package is discussed extensively by
Kelley (2018) "Oceanographic Analysis with R" <doi:10.1007/978-1-4939-8844-0>.
Author: Dan Kelley [aut, cre] (<https://orcid.org/0000-0001-7808-5911>),
Clark Richards [aut] (<https://orcid.org/0000-0002-7833-206X>),
Chantelle Layton [ctb] (<https://orcid.org/0000-0002-3199-5763>, curl()
coauthor),
British Geological Survey [ctb, cph] (magnetic-field subroutine)
Maintainer: Dan Kelley <Dan.Kelley@Dal.Ca>
Diff between oce versions 1.5-0 dated 2022-01-08 and 1.6-1 dated 2022-02-18
oce-1.5-0/oce/inst/doc/adp.R |only oce-1.5-0/oce/inst/doc/adp.Rmd |only oce-1.5-0/oce/inst/doc/adp.html |only oce-1.5-0/oce/inst/doc/ctd.R |only oce-1.5-0/oce/inst/doc/ctd.Rmd |only oce-1.5-0/oce/inst/doc/ctd.html |only oce-1.5-0/oce/inst/doc/flags.R |only oce-1.5-0/oce/inst/doc/flags.Rmd |only oce-1.5-0/oce/inst/doc/flags.html |only oce-1.5-0/oce/inst/doc/map_projections.R |only oce-1.5-0/oce/inst/doc/map_projections.Rmd |only oce-1.5-0/oce/inst/doc/map_projections.html |only oce-1.5-0/oce/inst/doc/oce.R |only oce-1.5-0/oce/inst/doc/oce.Rmd |only oce-1.5-0/oce/inst/doc/oce.html |only oce-1.5-0/oce/inst/doc/subclassing.R |only oce-1.5-0/oce/inst/doc/subclassing.Rmd |only oce-1.5-0/oce/inst/doc/subclassing.html |only oce-1.5-0/oce/vignettes/adp.Rmd |only oce-1.5-0/oce/vignettes/ctd.Rmd |only oce-1.5-0/oce/vignettes/flags.Rmd |only oce-1.5-0/oce/vignettes/map_projections.Rmd |only oce-1.5-0/oce/vignettes/oce.Rmd |only oce-1.5-0/oce/vignettes/subclassing.Rmd |only oce-1.6-1/oce/DESCRIPTION | 6 - oce-1.6-1/oce/MD5 | 104 +++++++++++++------------- oce-1.6-1/oce/NEWS.md | 10 ++ oce-1.6-1/oce/R/AllClass.R | 77 ++++++++++--------- oce-1.6-1/oce/R/adp.R | 60 ++++++++------- oce-1.6-1/oce/R/ctd.R | 50 ++++++------ oce-1.6-1/oce/R/landsat.R | 9 +- oce-1.6-1/oce/R/met.R | 92 ++++++++++++++++------- oce-1.6-1/oce/R/misc.R | 74 +++++++++++++----- oce-1.6-1/oce/R/moon.R | 2 oce-1.6-1/oce/R/oce.R | 4 - oce-1.6-1/oce/R/section.R | 38 ++++----- oce-1.6-1/oce/R/sun.R | 2 oce-1.6-1/oce/build/partial.rdb |binary oce-1.6-1/oce/build/vignette.rds |binary oce-1.6-1/oce/inst/WORDLIST | 1 oce-1.6-1/oce/inst/doc/A_oce.R |only oce-1.6-1/oce/inst/doc/A_oce.Rmd |only oce-1.6-1/oce/inst/doc/A_oce.html |only oce-1.6-1/oce/inst/doc/B_ctd.R |only oce-1.6-1/oce/inst/doc/B_ctd.Rmd |only oce-1.6-1/oce/inst/doc/B_ctd.html |only oce-1.6-1/oce/inst/doc/C_adp.R |only oce-1.6-1/oce/inst/doc/C_adp.Rmd |only oce-1.6-1/oce/inst/doc/C_adp.html |only oce-1.6-1/oce/inst/doc/D_map_projections.R |only oce-1.6-1/oce/inst/doc/D_map_projections.Rmd |only oce-1.6-1/oce/inst/doc/D_map_projections.html |only oce-1.6-1/oce/inst/doc/E_flags.R |only oce-1.6-1/oce/inst/doc/E_flags.Rmd |only oce-1.6-1/oce/inst/doc/E_flags.html |only oce-1.6-1/oce/inst/doc/F_subclassing.R |only oce-1.6-1/oce/inst/doc/F_subclassing.Rmd |only oce-1.6-1/oce/inst/doc/F_subclassing.html |only oce-1.6-1/oce/inst/extdata/drifter.rda |only oce-1.6-1/oce/inst/extdata/test_met_vsn3.csv |only oce-1.6-1/oce/man/adp-class.Rd | 4 - oce-1.6-1/oce/man/handleFlags-adp-method.Rd | 9 +- oce-1.6-1/oce/man/handleFlags-ctd-method.Rd | 2 oce-1.6-1/oce/man/landsat-class.Rd | 2 oce-1.6-1/oce/man/moonAngle.Rd | 2 oce-1.6-1/oce/man/oce.Rd | 2 oce-1.6-1/oce/man/read.landsat.Rd | 5 - oce-1.6-1/oce/man/read.met.Rd | 41 +++++++--- oce-1.6-1/oce/man/sunAngle.Rd | 2 oce-1.6-1/oce/man/vectorShow.Rd | 38 ++++++++- oce-1.6-1/oce/tests/testthat/test_flags.R | 23 +++++ oce-1.6-1/oce/tests/testthat/test_met.R | 53 +++++++++++-- oce-1.6-1/oce/vignettes/A_oce.Rmd |only oce-1.6-1/oce/vignettes/B_ctd.Rmd |only oce-1.6-1/oce/vignettes/C_adp.Rmd |only oce-1.6-1/oce/vignettes/D_map_projections.Rmd |only oce-1.6-1/oce/vignettes/E_flags.Rmd |only oce-1.6-1/oce/vignettes/F_subclassing.Rmd |only 78 files changed, 458 insertions(+), 254 deletions(-)
Title: Less Code, More Results
Description: Each function accomplishes the work of several or more standard R functions. For example, two function calls, Read() and CountAll(), read the data and generate summary statistics for all variables in the data frame, plus histograms and bar charts as appropriate. Other functions provide for descriptive statistics, a comprehensive regression analysis, analysis of variance and t-test, visualizations including the introduced here Violin/Box/Scatter plot for a numerical variable, bar chart, histogram, box plot, density curves, calibrated power curve, reading multiple data formats with the same function call, variable labels, color themes, Trellis graphics, and comprehensive summary statistics via pivot tables. Also includes a confirmatory factor analysis of multiple indicator measurement models, pedagogical routines for data simulation such as for the Central Limit Theorem, and generation and rendering of R markdown instructions for interpretative output.
Author: David Gerbing, The School of Business, Portland State University
Maintainer: David W. Gerbing <gerbing@pdx.edu>
Diff between lessR versions 4.1.5 dated 2022-01-30 and 4.1.6 dated 2022-02-18
DESCRIPTION | 8 MD5 | 82 ++++---- NEWS | 51 +++++ R/ANOVA.R | 9 R/ANOVAz1.R | 18 + R/Logit.R | 33 ++- R/Plot.R | 4 R/Read.R | 6 R/details.R | 5 R/logit.z3Residual.R | 2 R/logit.z4Pred.R | 145 ++++++++++----- R/logit.z5Confuse.R | 88 ++++----- R/pc.zmain.R | 2 R/pivot.R | 6 R/plt.zlattice.R | 4 R/plt.ztxt.R | 6 R/reg.z1anvBasic.R | 4 R/reg.z1fitBasic.R | 2 R/reg.z1modelBasic.R | 4 R/reg.z2Relations.R | 6 R/ss.zfactor.R | 2 R/zzz.R | 37 +++ inst/doc/BarChart.html | 7 inst/doc/Customize.html | 6 inst/doc/Extract.html | 18 - inst/doc/FactorAnalysis.html | 7 inst/doc/Histogram.html | 17 - inst/doc/Means.html | 17 - inst/doc/Plot.R | 4 inst/doc/Plot.Rmd | 7 inst/doc/Plot.html | 156 +++++++--------- inst/doc/ReadWrite.html | 7 inst/doc/Regression.R | 10 - inst/doc/Regression.Rmd | 18 + inst/doc/Regression.html | 404 ++++++++++++++++++++++--------------------- inst/doc/Time.html | 26 +- inst/doc/utilities.html | 18 - man/Logit.Rd | 17 + man/details.Rd | 10 - man/pivot.Rd | 6 vignettes/Plot.Rmd | 7 vignettes/Regression.Rmd | 18 + 42 files changed, 715 insertions(+), 589 deletions(-)
Title: Retrieval Functions for USGS and EPA Hydrologic and Water
Quality Data
Description: Collection of functions to help retrieve U.S. Geological Survey
(USGS) and U.S. Environmental Protection Agency (EPA) water quality and
hydrology data from web services. USGS web services are discovered from
National Water Information System (NWIS) <https://waterservices.usgs.gov/> and <https://waterdata.usgs.gov/nwis>.
Both EPA and USGS water quality data are obtained from the Water Quality Portal <https://www.waterqualitydata.us/>.
Author: Laura DeCicco [aut, cre] (<https://orcid.org/0000-0002-3915-9487>),
Robert Hirsch [aut] (<https://orcid.org/0000-0002-4534-075X>),
David Lorenz [aut],
Jordan Read [ctb],
Jordan Walker [ctb],
Lindsay Carr [ctb],
David Watkins [aut] (<https://orcid.org/0000-0002-7544-0700>),
David Blodgett [ctb],
Mike Johnson [aut] (<https://orcid.org/0000-0002-5288-8350>)
Maintainer: Laura DeCicco <ldecicco@usgs.gov>
Diff between dataRetrieval versions 2.7.10 dated 2021-09-14 and 2.7.11 dated 2022-02-18
DESCRIPTION | 6 MD5 | 76 ++++----- NAMESPACE | 1 NEWS | 9 - R/checkWQPdates.r | 5 R/findNLDI.R | 3 R/getWebServiceData.R | 24 ++ R/importRDB1.r | 1 R/importWQP.R | 68 ++------ R/importWaterML1.r | 33 +++ R/readNWISdata.r | 23 +- R/readNWISpCode.r | 88 ++++++---- R/readNWISqw.r | 6 R/readWQPdata.R | 89 +++++++--- R/readWQPdots.R | 19 ++ R/setAccess.R | 6 R/sysdata.rda |binary R/tabbedDataRetrievals.R | 62 ++++++- R/whatWQPsites.R | 79 ++++++++- inst/CITATION | 6 inst/doc/dataRetrieval.Rmd | 2 inst/doc/dataRetrieval.html | 261 ++++++++++++++++++++++++++----- inst/doc/qwdata_changes.html | 212 +++++++++++++++++++++++-- inst/extdata/state_county.json |only man/checkWQPdates.Rd | 5 man/countyCd.Rd | 5 man/default_ua.Rd |only man/has_internet_2.Rd |only man/importWaterML1.Rd | 3 man/pCodeToName.Rd | 4 man/parameterCdFile.Rd | 2 man/readNWISpCode.Rd | 4 man/readWQPdata.Rd | 50 +++++ man/readWQPsummary.Rd |only man/stateCd.Rd | 5 man/wqpSpecials.Rd | 11 - tests/testthat/tests_general.R | 155 ++++++++++++++++-- tests/testthat/tests_imports.R | 26 +++ tests/testthat/tests_nldi.R | 3 tests/testthat/tests_userFriendly_fxns.R | 18 -- vignettes/dataRetrieval.Rmd | 2 41 files changed, 1074 insertions(+), 298 deletions(-)
Title: Parsing and Evaluation Tools that Provide More Details than the
Default
Description: Parsing and evaluation tools that make it easy to recreate the
command line behaviour of R.
Author: Hadley Wickham [aut],
Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
Michael Lawrence [ctb],
Thomas Kluyver [ctb],
Jeroen Ooms [ctb],
Barret Schloerke [ctb],
Adam Ryczkowski [ctb],
Hiroaki Yutani [ctb],
Michel Lang [ctb],
Karolis Koncevičius [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between evaluate versions 0.14 dated 2019-05-28 and 0.15 dated 2022-02-18
DESCRIPTION | 10 +++++----- MD5 | 20 ++++++++++---------- NEWS.md | 7 +++++++ R/eval.r | 33 +++++++++++++++++++++++++++++---- R/graphics.r | 2 +- R/output.r | 37 +++++++++++++++++++++++++++++++++++-- man/create_traceback.Rd | 2 +- man/evaluate.Rd | 16 +++++++++++++--- man/inject_funs.Rd | 2 +- man/new_output_handler.Rd | 16 ++++++++++++++-- tests/testthat/test-evaluate.r | 36 ++++++++++++++++++++++++++++++++++++ 11 files changed, 152 insertions(+), 29 deletions(-)
Title: Miscellaneous Functions for Processing and Sample Selection of
Spectroscopic Data
Description: Functions to preprocess spectroscopic data
and conduct (representative) sample selection/calibration sampling.
Author: Antoine Stevens [aut, cre] (<https://orcid.org/0000-0002-1588-7519>),
Leonardo Ramirez-Lopez [aut, cre] (<https://orcid.org/0000-0002-5369-5120>),
Guillaume Hans [ctb] (<https://orcid.org/0000-0002-6503-5760>)
Maintainer: Leonardo Ramirez-Lopez <ramirez.lopez.leo@gmail.com>
Diff between prospectr versions 0.2.2 dated 2021-11-27 and 0.2.3 dated 2022-02-18
DESCRIPTION | 8 MD5 | 125 ++++++------ NAMESPACE | 1 NEWS | 47 ++++ R/AAA.R | 16 + R/RcppExports.R | 6 R/baseline.R | 82 ++++---- R/binning.R | 44 +++- R/blockNorm.R | 15 - R/blockScale.R | 9 R/cochranTest.R | 25 +- R/continuumRemoval.R | 40 ++-- R/detrend.R | 3 R/duplex.R | 43 ++-- R/gapDer.R | 85 +++++--- R/honigs.R | 41 ++-- R/kenstone.R | 68 +++++- R/movav.R | 1 R/msc.R | 44 +++- R/naes.R | 9 R/prospectr.R | 2 R/puchwein.R | 53 ++--- R/readASD.R | 10 - R/read_nircal.R | 410 +++++++++++++++++++++-------------------- R/resample.R | 13 - R/resample2.R | 15 - R/savitzkyGolay.R | 21 +- R/shenkWest.R | 27 +- R/spliceCorrection.R | 82 +++++--- R/standardNormalVariate.R | 5 README.md | 12 - build/prospectr.pdf |binary inst/doc/prospectr.R | 48 ++++ inst/doc/prospectr.Rmd | 62 +++++- inst/doc/prospectr.html | 186 +++++++++++------- man/baseline.Rd | 12 - man/binning.Rd | 1 man/blockNorm.Rd | 1 man/blockScale.Rd | 1 man/cochranTest.Rd | 2 man/continuumRemoval.Rd | 5 man/detrend.Rd | 1 man/duplex.Rd | 17 - man/gapDer.Rd | 24 +- man/get_msc_coeff.Rd | 4 man/honigs.Rd | 1 man/kenStone.Rd | 18 + man/movav.Rd | 1 man/msc.Rd | 26 ++ man/naes.Rd | 5 man/puchwein.Rd | 17 - man/resample.Rd | 1 man/resample2.Rd | 1 man/savitzkyGolay.Rd | 13 - man/shenkWest.Rd | 13 - man/spliceCorrection.Rd | 23 +- man/standardNormalVariate.Rd | 1 src/RcppExports.cpp | 8 src/processing_helpers.cpp | 6 tests/testthat/test-baseline.R | 6 tests/testthat/test-kenStone.R | 18 + tests/testthat/test-msc.R |only vignettes/prospectr.Rmd | 62 +++++- vignettes/prospectr.bib | 26 ++ 64 files changed, 1202 insertions(+), 770 deletions(-)
Title: Airborne LiDAR Data Manipulation and Visualization for Forestry
Applications
Description: Airborne LiDAR (Light Detection and Ranging) interface for data
manipulation and visualization. Read/write 'las' and 'laz' files, computation
of metrics in area based approach, point filtering, artificial point reduction,
classification from geographic data, normalization, individual tree segmentation
and other manipulations.
Author: Jean-Romain Roussel [aut, cre, cph],
David Auty [aut, ctb] (Reviews the documentation),
Florian De Boissieu [ctb] (Fixed bugs and improved catalog features),
Andrew Sánchez Meador [ctb] (Implemented wing2015() for
segment_snags()),
Bourdon Jean-François [ctb] (Contributed to Roussel2020() for
track_sensor()),
Gatziolis Demetrios [ctb] (Implemented Gatziolis2019() for
track_sensor()),
Leon Steinmeier [ctb] (Contributed to parallelization management),
Stanislaw Adaszewski [cph] (Author of the C++ concaveman code)
Maintainer: Jean-Romain Roussel <jean-romain.roussel.1@ulaval.ca>
Diff between lidR versions 3.2.3 dated 2021-11-13 and 4.0.0 dated 2022-02-18
lidR-3.2.3/lidR/R/Class-LASheader.R |only lidR-3.2.3/lidR/R/algorithm-spi.R |only lidR-3.2.3/lidR/R/catalog_index.R |only lidR-3.2.3/lidR/R/catalog_makecluster.R |only lidR-3.2.3/lidR/R/catalog_merge_results.R |only lidR-3.2.3/lidR/R/cloud_metrics.R |only lidR-3.2.3/lidR/R/clusters_apply.R |only lidR-3.2.3/lidR/R/concaveman.R |only lidR-3.2.3/lidR/R/delineate_crowns.R |only lidR-3.2.3/lidR/R/filter_duplicates.R |only lidR-3.2.3/lidR/R/filter_poi.R |only lidR-3.2.3/lidR/R/filter_roi.R |only lidR-3.2.3/lidR/R/filter_surfacepoints.R |only lidR-3.2.3/lidR/R/find_localmaxima.R |only lidR-3.2.3/lidR/R/find_trees.R |only lidR-3.2.3/lidR/R/grid_canopy.R |only lidR-3.2.3/lidR/R/grid_density.R |only lidR-3.2.3/lidR/R/grid_metrics.R |only lidR-3.2.3/lidR/R/grid_terrain.R |only lidR-3.2.3/lidR/R/io_writeANY.R |only lidR-3.2.3/lidR/R/merge_las.R |only lidR-3.2.3/lidR/R/plot_metrics.R |only lidR-3.2.3/lidR/R/point_metrics.R |only lidR-3.2.3/lidR/R/projection.R |only lidR-3.2.3/lidR/R/sensor_tracking.R |only lidR-3.2.3/lidR/R/tree_metrics.R |only lidR-3.2.3/lidR/R/utils_catalog_options.R |only lidR-3.2.3/lidR/R/utils_define_constant.R |only lidR-3.2.3/lidR/R/utils_metrics.R |only lidR-3.2.3/lidR/R/utils_typecast.R |only lidR-3.2.3/lidR/R/voxel_metrics.R |only lidR-3.2.3/lidR/man/Gatziolis2019.Rd |only lidR-3.2.3/lidR/man/LAD.Rd |only lidR-3.2.3/lidR/man/Roussel2020.Rd |only lidR-3.2.3/lidR/man/VCI.Rd |only lidR-3.2.3/lidR/man/area.Rd |only lidR-3.2.3/lidR/man/as.list.LASheader.Rd |only lidR-3.2.3/lidR/man/as.spatial.Rd |only lidR-3.2.3/lidR/man/catalog_intersect.Rd |only lidR-3.2.3/lidR/man/catalog_makechunks.Rd |only lidR-3.2.3/lidR/man/catalog_options_tools.Rd |only lidR-3.2.3/lidR/man/catalog_select.Rd |only lidR-3.2.3/lidR/man/classify_ground.Rd |only lidR-3.2.3/lidR/man/classify_noise.Rd |only lidR-3.2.3/lidR/man/classify_poi.Rd |only lidR-3.2.3/lidR/man/cloud_metrics.Rd |only lidR-3.2.3/lidR/man/concaveman.Rd |only lidR-3.2.3/lidR/man/csf.Rd |only lidR-3.2.3/lidR/man/dalponte2016.Rd |only lidR-3.2.3/lidR/man/delineate_crowns.Rd |only lidR-3.2.3/lidR/man/dsmtin.Rd |only lidR-3.2.3/lidR/man/entropy.Rd |only lidR-3.2.3/lidR/man/extent.Rd |only lidR-3.2.3/lidR/man/filter_duplicates.Rd |only lidR-3.2.3/lidR/man/filter_poi.Rd |only lidR-3.2.3/lidR/man/filter_surfacepoints.Rd |only lidR-3.2.3/lidR/man/find_localmaxima.Rd |only lidR-3.2.3/lidR/man/find_trees.Rd |only lidR-3.2.3/lidR/man/gap_fraction_profile.Rd |only lidR-3.2.3/lidR/man/grid_canopy.Rd |only lidR-3.2.3/lidR/man/grid_density.Rd |only lidR-3.2.3/lidR/man/grid_metrics.Rd |only lidR-3.2.3/lidR/man/grid_terrain.Rd |only lidR-3.2.3/lidR/man/homogenize.Rd |only lidR-3.2.3/lidR/man/ivf.Rd |only lidR-3.2.3/lidR/man/knnidw.Rd |only lidR-3.2.3/lidR/man/kriging.Rd |only lidR-3.2.3/lidR/man/li2012.Rd |only lidR-3.2.3/lidR/man/lidrpalettes.Rd |only lidR-3.2.3/lidR/man/lmf.Rd |only lidR-3.2.3/lidR/man/manual.Rd |only lidR-3.2.3/lidR/man/maxima.Rd |only lidR-3.2.3/lidR/man/normalize_height.Rd |only lidR-3.2.3/lidR/man/normalize_intensity.Rd |only lidR-3.2.3/lidR/man/p2r.Rd |only lidR-3.2.3/lidR/man/pitfree.Rd |only lidR-3.2.3/lidR/man/plot_metrics.Rd |only lidR-3.2.3/lidR/man/pmf.Rd |only lidR-3.2.3/lidR/man/point_eigenvalues.Rd |only lidR-3.2.3/lidR/man/print.Rd |only lidR-3.2.3/lidR/man/projection.Rd |only lidR-3.2.3/lidR/man/random.Rd |only lidR-3.2.3/lidR/man/random_per_voxel.Rd |only lidR-3.2.3/lidR/man/rbind.Rd |only lidR-3.2.3/lidR/man/redefined_behaviors.Rd |only lidR-3.2.3/lidR/man/rumple_index.Rd |only lidR-3.2.3/lidR/man/segment_snags.Rd |only lidR-3.2.3/lidR/man/segment_trees.Rd |only lidR-3.2.3/lidR/man/set.colors.Rd |only lidR-3.2.3/lidR/man/silva2016.Rd |only lidR-3.2.3/lidR/man/sor.Rd |only lidR-3.2.3/lidR/man/tin.Rd |only lidR-3.2.3/lidR/man/tree_metrics.Rd |only lidR-3.2.3/lidR/man/util_makeZhangParam.Rd |only lidR-3.2.3/lidR/man/voxel_metrics.Rd |only lidR-3.2.3/lidR/man/watershed.Rd |only lidR-3.2.3/lidR/man/wing2015.Rd |only lidR-3.2.3/lidR/src/gcc_4_9_patch |only lidR-3.2.3/lidR/tests/testthat/test-catalog-engine-automerge.R |only lidR-3.2.3/lidR/tests/testthat/test-catalog-engine-autoread.R |only lidR-3.2.3/lidR/tests/testthat/test-catalog-engine-discontinuous.R |only lidR-3.2.3/lidR/tests/testthat/test-catalog-engine-errors.R |only lidR-3.2.3/lidR/tests/testthat/test-catalog-engine-generic.R |only lidR-3.2.3/lidR/tests/testthat/test-catalog-engine-ondisk.R |only lidR-3.2.3/lidR/tests/testthat/test-catalog_engine_restart.R |only lidR-3.2.3/lidR/tests/testthat/test-catalog_makeclusters.R |only lidR-3.2.3/lidR/tests/testthat/test-cloud_metrics.R |only lidR-3.2.3/lidR/tests/testthat/test-delineate_crowns.R |only lidR-3.2.3/lidR/tests/testthat/test-efi_metrics.R |only lidR-3.2.3/lidR/tests/testthat/test-find_trees.R |only lidR-3.2.3/lidR/tests/testthat/test-grid_canopy.R |only lidR-3.2.3/lidR/tests/testthat/test-grid_density.R |only lidR-3.2.3/lidR/tests/testthat/test-grid_generic.R |only lidR-3.2.3/lidR/tests/testthat/test-grid_metrics.R |only lidR-3.2.3/lidR/tests/testthat/test-grid_terrain.R |only lidR-3.2.3/lidR/tests/testthat/test-las_updateheader.R |only lidR-3.2.3/lidR/tests/testthat/test-local_maximum.R |only lidR-3.2.3/lidR/tests/testthat/test-merges_patial.R |only lidR-3.2.3/lidR/tests/testthat/test-metrics.R |only lidR-3.2.3/lidR/tests/testthat/test-point_metrics.R |only lidR-3.2.3/lidR/tests/testthat/test-spTransform.R |only lidR-3.2.3/lidR/tests/testthat/test-stdmetric.R |only lidR-3.2.3/lidR/tests/testthat/test-tree_metrics.R |only lidR-3.2.3/lidR/tests/testthat/test-voxel_metrics.R |only lidR-4.0.0/lidR/DESCRIPTION | 55 lidR-4.0.0/lidR/MD5 | 546 +++---- lidR-4.0.0/lidR/NAMESPACE | 178 +- lidR-4.0.0/lidR/NEWS.md | 495 +----- lidR-4.0.0/lidR/R/Class-LAS.R | 131 - lidR-4.0.0/lidR/R/Class-LAScatalog.R | 173 +- lidR-4.0.0/lidR/R/Class-LAScluster.R | 39 lidR-4.0.0/lidR/R/RcppExports.R | 4 lidR-4.0.0/lidR/R/add_attribute.R | 32 lidR-4.0.0/lidR/R/algorithm-dec.R | 61 lidR-4.0.0/lidR/R/algorithm-dsm.R | 231 +-- lidR-4.0.0/lidR/R/algorithm-dtm.R |only lidR-4.0.0/lidR/R/algorithm-gnd.R | 163 +- lidR-4.0.0/lidR/R/algorithm-itd.R | 134 - lidR-4.0.0/lidR/R/algorithm-its.R | 592 +++---- lidR-4.0.0/lidR/R/algorithm-noi.R | 61 lidR-4.0.0/lidR/R/algorithm-out.R | 6 lidR-4.0.0/lidR/R/algorithm-shp.R | 152 +- lidR-4.0.0/lidR/R/algorithm-snag.R | 32 lidR-4.0.0/lidR/R/algorithm-trk.R | 8 lidR-4.0.0/lidR/R/backward_compatibility.R |only lidR-4.0.0/lidR/R/catalog_apply.R | 280 ++- lidR-4.0.0/lidR/R/catalog_boundaries.R | 68 lidR-4.0.0/lidR/R/catalog_intersect.R | 72 lidR-4.0.0/lidR/R/catalog_laxindex.R | 3 lidR-4.0.0/lidR/R/catalog_overlaps.R | 12 lidR-4.0.0/lidR/R/catalog_retile.R | 114 - lidR-4.0.0/lidR/R/catalog_select.R | 57 lidR-4.0.0/lidR/R/classify.R |only lidR-4.0.0/lidR/R/classify_ground.R | 91 - lidR-4.0.0/lidR/R/classify_noise.R | 83 - lidR-4.0.0/lidR/R/classify_poi.R | 63 lidR-4.0.0/lidR/R/clip_roi.R | 177 -- lidR-4.0.0/lidR/R/decimate_points.R | 64 lidR-4.0.0/lidR/R/deprecated.R | 58 lidR-4.0.0/lidR/R/doc-drivers.R | 58 lidR-4.0.0/lidR/R/doc-lidR.R | 16 lidR-4.0.0/lidR/R/doc-parallelism.R | 46 lidR-4.0.0/lidR/R/doc-spatialindex.R |only lidR-4.0.0/lidR/R/engine.R |only lidR-4.0.0/lidR/R/engine_apply.R |only lidR-4.0.0/lidR/R/engine_chunks.R |only lidR-4.0.0/lidR/R/engine_crop.R |only lidR-4.0.0/lidR/R/engine_index.R |only lidR-4.0.0/lidR/R/engine_merge.R |only lidR-4.0.0/lidR/R/engine_options.R |only lidR-4.0.0/lidR/R/engine_write.R |only lidR-4.0.0/lidR/R/fasterize.R |only lidR-4.0.0/lidR/R/filters.R |only lidR-4.0.0/lidR/R/fullwaveform.R | 2 lidR-4.0.0/lidR/R/io_readLAS.R | 43 lidR-4.0.0/lidR/R/io_readLAScatalog.R | 55 lidR-4.0.0/lidR/R/io_readXLAS.R | 2 lidR-4.0.0/lidR/R/io_writeLAS.R | 29 lidR-4.0.0/lidR/R/las_check.R | 151 + lidR-4.0.0/lidR/R/las_tools.R | 87 - lidR-4.0.0/lidR/R/locate_localmaxima.R |only lidR-4.0.0/lidR/R/locate_trees.R |only lidR-4.0.0/lidR/R/merge_spatial.R | 179 -- lidR-4.0.0/lidR/R/methods-LAS.R | 230 +-- lidR-4.0.0/lidR/R/methods-LAScatalog.R | 94 - lidR-4.0.0/lidR/R/methods-LAScluster.R | 31 lidR-4.0.0/lidR/R/methods-LASheader.R | 79 - lidR-4.0.0/lidR/R/metrics_cloud.R |only lidR-4.0.0/lidR/R/metrics_crowns.R |only lidR-4.0.0/lidR/R/metrics_hexagons.R |only lidR-4.0.0/lidR/R/metrics_pixels.R |only lidR-4.0.0/lidR/R/metrics_plot.R |only lidR-4.0.0/lidR/R/metrics_point.R |only lidR-4.0.0/lidR/R/metrics_polygon.R |only lidR-4.0.0/lidR/R/metrics_stdmetrics.R |only lidR-4.0.0/lidR/R/metrics_template.R |only lidR-4.0.0/lidR/R/metrics_voxels.R |only lidR-4.0.0/lidR/R/normalize.R |only lidR-4.0.0/lidR/R/normalize_height.R | 288 +-- lidR-4.0.0/lidR/R/normalize_intensity.R | 56 lidR-4.0.0/lidR/R/plot.R | 329 ++-- lidR-4.0.0/lidR/R/plot.s3.R | 103 - lidR-4.0.0/lidR/R/plugins.R |only lidR-4.0.0/lidR/R/print.R | 349 ++-- lidR-4.0.0/lidR/R/rasterize.R |only lidR-4.0.0/lidR/R/rasterize_canopy.R |only lidR-4.0.0/lidR/R/rasterize_density.R |only lidR-4.0.0/lidR/R/rasterize_terrain.R |only lidR-4.0.0/lidR/R/retrieve_info.R | 37 lidR-4.0.0/lidR/R/segment.R |only lidR-4.0.0/lidR/R/segment_shapes.R | 136 - lidR-4.0.0/lidR/R/segment_snags.R | 90 - lidR-4.0.0/lidR/R/segment_trees.R | 76 - lidR-4.0.0/lidR/R/smooth_height.R | 12 lidR-4.0.0/lidR/R/st_area.R |only lidR-4.0.0/lidR/R/st_as_sf.R |only lidR-4.0.0/lidR/R/st_bbox.R |only lidR-4.0.0/lidR/R/st_coordinates.R |only lidR-4.0.0/lidR/R/st_crs.R |only lidR-4.0.0/lidR/R/st_hull.R |only lidR-4.0.0/lidR/R/st_misc.R |only lidR-4.0.0/lidR/R/st_transform.R |only lidR-4.0.0/lidR/R/track_sensor.R |only lidR-4.0.0/lidR/R/utils_assertive.R | 7 lidR-4.0.0/lidR/R/utils_base.R |only lidR-4.0.0/lidR/R/utils_colors.R | 55 lidR-4.0.0/lidR/R/utils_constant.R |only lidR-4.0.0/lidR/R/utils_delaunay.R | 8 lidR-4.0.0/lidR/R/utils_geometry.R | 186 -- lidR-4.0.0/lidR/R/utils_is.R | 35 lidR-4.0.0/lidR/R/utils_misc.R | 80 - lidR-4.0.0/lidR/R/utils_raster.R | 758 ++++++++-- lidR-4.0.0/lidR/R/utils_spatial_index.R | 209 -- lidR-4.0.0/lidR/R/utils_threads.R | 9 lidR-4.0.0/lidR/R/voxelize_points.R | 41 lidR-4.0.0/lidR/R/zzz.R | 6 lidR-4.0.0/lidR/README.md | 12 lidR-4.0.0/lidR/build/vignette.rds |binary lidR-4.0.0/lidR/inst/doc/lidR-LAS-class.R | 5 lidR-4.0.0/lidR/inst/doc/lidR-LAS-class.Rmd | 31 lidR-4.0.0/lidR/inst/doc/lidR-LAS-class.html | 53 lidR-4.0.0/lidR/inst/doc/lidR-LAScatalog-class.R | 21 lidR-4.0.0/lidR/inst/doc/lidR-LAScatalog-class.Rmd | 73 lidR-4.0.0/lidR/inst/doc/lidR-LAScatalog-class.html | 79 - lidR-4.0.0/lidR/inst/doc/lidR-LAScatalog-engine.R | 90 - lidR-4.0.0/lidR/inst/doc/lidR-LAScatalog-engine.Rmd | 153 -- lidR-4.0.0/lidR/inst/doc/lidR-LAScatalog-engine.html | 142 - lidR-4.0.0/lidR/inst/doc/lidR-catalog-apply-examples.Rmd | 94 - lidR-4.0.0/lidR/inst/doc/lidR-catalog-apply-examples.html | 130 - lidR-4.0.0/lidR/inst/doc/lidR-computation-speed-LAScatalog.R | 17 lidR-4.0.0/lidR/inst/doc/lidR-computation-speed-LAScatalog.Rmd | 21 lidR-4.0.0/lidR/inst/doc/lidR-computation-speed-LAScatalog.html | 4 lidR-4.0.0/lidR/man/Extract.Rd |only lidR-4.0.0/lidR/man/LAS-class.Rd | 39 lidR-4.0.0/lidR/man/LAScatalog-class.Rd | 65 lidR-4.0.0/lidR/man/LASheader-class.Rd | 9 lidR-4.0.0/lidR/man/LASheader.Rd | 7 lidR-4.0.0/lidR/man/add_attribute.Rd | 22 lidR-4.0.0/lidR/man/aggregate.Rd |only lidR-4.0.0/lidR/man/as.Rd |only lidR-4.0.0/lidR/man/asprs.Rd | 4 lidR-4.0.0/lidR/man/catalog_apply.Rd | 213 +- lidR-4.0.0/lidR/man/catalog_boundaries.Rd | 29 lidR-4.0.0/lidR/man/catalog_retile.Rd | 95 - lidR-4.0.0/lidR/man/catalog_subset.Rd |only lidR-4.0.0/lidR/man/classify.Rd |only lidR-4.0.0/lidR/man/clip.Rd | 90 - lidR-4.0.0/lidR/man/decimate_points.Rd | 48 lidR-4.0.0/lidR/man/deprecated.Rd | 25 lidR-4.0.0/lidR/man/dsm_pitfree.Rd |only lidR-4.0.0/lidR/man/dsm_point2raster.Rd |only lidR-4.0.0/lidR/man/dsm_tin.Rd |only lidR-4.0.0/lidR/man/dtm_idw.Rd |only lidR-4.0.0/lidR/man/dtm_kriging.Rd |only lidR-4.0.0/lidR/man/dtm_tin.Rd |only lidR-4.0.0/lidR/man/engine.Rd |only lidR-4.0.0/lidR/man/engine_options.Rd |only lidR-4.0.0/lidR/man/filters.Rd | 86 - lidR-4.0.0/lidR/man/gnd_csf.Rd |only lidR-4.0.0/lidR/man/gnd_mcc.Rd |only lidR-4.0.0/lidR/man/gnd_pmf.Rd |only lidR-4.0.0/lidR/man/interpret_waveform.Rd | 8 lidR-4.0.0/lidR/man/itd_lmf.Rd |only lidR-4.0.0/lidR/man/itd_manual.Rd |only lidR-4.0.0/lidR/man/its_dalponte2016.Rd |only lidR-4.0.0/lidR/man/its_li2012.Rd |only lidR-4.0.0/lidR/man/its_silva2016.Rd |only lidR-4.0.0/lidR/man/its_watershed.Rd |only lidR-4.0.0/lidR/man/las_check.Rd | 2 lidR-4.0.0/lidR/man/las_utilities.Rd | 15 lidR-4.0.0/lidR/man/lidR-LAScatalog-drivers.Rd | 49 lidR-4.0.0/lidR/man/lidR-package.Rd | 19 lidR-4.0.0/lidR/man/lidR-parallelism.Rd | 39 lidR-4.0.0/lidR/man/lidR-spatial-index.Rd | 52 lidR-4.0.0/lidR/man/locate_trees.Rd |only lidR-4.0.0/lidR/man/merge_spatial.Rd | 27 lidR-4.0.0/lidR/man/noise_ivf.Rd |only lidR-4.0.0/lidR/man/noise_sor.Rd |only lidR-4.0.0/lidR/man/normalize.Rd |only lidR-4.0.0/lidR/man/nstdmetrics.Rd |only lidR-4.0.0/lidR/man/old_spatial_packages.Rd |only lidR-4.0.0/lidR/man/plot.Rd | 55 lidR-4.0.0/lidR/man/plot.lasmetrics3d.Rd | 2 lidR-4.0.0/lidR/man/plot_3d.Rd | 34 lidR-4.0.0/lidR/man/plugins.Rd |only lidR-4.0.0/lidR/man/point_metrics.Rd | 70 lidR-4.0.0/lidR/man/range_correction.Rd | 12 lidR-4.0.0/lidR/man/rasterize.Rd |only lidR-4.0.0/lidR/man/readLAS.Rd | 10 lidR-4.0.0/lidR/man/readLAScatalog.Rd | 60 lidR-4.0.0/lidR/man/sample_homogenize.Rd |only lidR-4.0.0/lidR/man/sample_maxima.Rd |only lidR-4.0.0/lidR/man/sample_per_voxel.Rd |only lidR-4.0.0/lidR/man/sample_random.Rd |only lidR-4.0.0/lidR/man/segment.Rd |only lidR-4.0.0/lidR/man/shape_detection.Rd | 84 - lidR-4.0.0/lidR/man/smooth_height.Rd | 6 lidR-4.0.0/lidR/man/snag_wing2015.Rd |only lidR-4.0.0/lidR/man/st_area.Rd |only lidR-4.0.0/lidR/man/st_bbox.Rd |only lidR-4.0.0/lidR/man/st_coordinates.Rd |only lidR-4.0.0/lidR/man/st_crs.Rd |only lidR-4.0.0/lidR/man/st_hull.Rd |only lidR-4.0.0/lidR/man/st_transform.Rd |only lidR-4.0.0/lidR/man/stdmetrics.Rd | 63 lidR-4.0.0/lidR/man/tools.Rd |only lidR-4.0.0/lidR/man/track_sensor.Rd | 58 lidR-4.0.0/lidR/man/track_sensor_gatziolis2019.Rd |only lidR-4.0.0/lidR/man/track_sensor_roussel2020.Rd |only lidR-4.0.0/lidR/man/voxelize_points.Rd | 39 lidR-4.0.0/lidR/src/LAS.cpp | 151 - lidR-4.0.0/lidR/src/LAS.h | 9 lidR-4.0.0/lidR/src/RcppExports.cpp | 23 lidR-4.0.0/lidR/src/RcppFunction.cpp | 13 lidR-4.0.0/lidR/tests/testthat/Rplots.pdf |binary lidR-4.0.0/lidR/tests/testthat/setup-testthat.R | 7 lidR-4.0.0/lidR/tests/testthat/test-LAS.R | 14 lidR-4.0.0/lidR/tests/testthat/test-LAScatalog.R | 49 lidR-4.0.0/lidR/tests/testthat/test-LASheader.R |only lidR-4.0.0/lidR/tests/testthat/test-algorithm-dispatch.R | 6 lidR-4.0.0/lidR/tests/testthat/test-apply_automerge.R |only lidR-4.0.0/lidR/tests/testthat/test-apply_autoread.R |only lidR-4.0.0/lidR/tests/testthat/test-apply_errors.R |only lidR-4.0.0/lidR/tests/testthat/test-apply_generic.R |only lidR-4.0.0/lidR/tests/testthat/test-apply_independent.R |only lidR-4.0.0/lidR/tests/testthat/test-apply_ondisk.R |only lidR-4.0.0/lidR/tests/testthat/test-apply_restart.R |only lidR-4.0.0/lidR/tests/testthat/test-catalog_index.R | 35 lidR-4.0.0/lidR/tests/testthat/test-catalog_intersect.R | 33 lidR-4.0.0/lidR/tests/testthat/test-classify_ground.R | 12 lidR-4.0.0/lidR/tests/testthat/test-classify_noise.R | 6 lidR-4.0.0/lidR/tests/testthat/test-clip.R | 138 + lidR-4.0.0/lidR/tests/testthat/test-cluster_apply.R | 2 lidR-4.0.0/lidR/tests/testthat/test-concaveman.R | 103 - lidR-4.0.0/lidR/tests/testthat/test-engine_chunks.R |only lidR-4.0.0/lidR/tests/testthat/test-extensive_broad_areas.R |only lidR-4.0.0/lidR/tests/testthat/test-fullwaveform.R |only lidR-4.0.0/lidR/tests/testthat/test-generic_local_maximum.R |only lidR-4.0.0/lidR/tests/testthat/test-las_addattribute.R | 6 lidR-4.0.0/lidR/tests/testthat/test-las_check.R | 22 lidR-4.0.0/lidR/tests/testthat/test-las_merge.R | 4 lidR-4.0.0/lidR/tests/testthat/test-las_update.R |only lidR-4.0.0/lidR/tests/testthat/test-locate_trees.R |only lidR-4.0.0/lidR/tests/testthat/test-merges_spatial.R |only lidR-4.0.0/lidR/tests/testthat/test-metrics_cloud.R |only lidR-4.0.0/lidR/tests/testthat/test-metrics_crowns.R |only lidR-4.0.0/lidR/tests/testthat/test-metrics_hexagon.R |only lidR-4.0.0/lidR/tests/testthat/test-metrics_pixels.R |only lidR-4.0.0/lidR/tests/testthat/test-metrics_plots.R |only lidR-4.0.0/lidR/tests/testthat/test-metrics_points.R |only lidR-4.0.0/lidR/tests/testthat/test-metrics_standard.R |only lidR-4.0.0/lidR/tests/testthat/test-metrics_template.R |only lidR-4.0.0/lidR/tests/testthat/test-metrics_tools.R |only lidR-4.0.0/lidR/tests/testthat/test-metrics_voxels.R |only lidR-4.0.0/lidR/tests/testthat/test-normalize_height.R | 12 lidR-4.0.0/lidR/tests/testthat/test-normalize_intensity.R | 41 lidR-4.0.0/lidR/tests/testthat/test-plot.R | 29 lidR-4.0.0/lidR/tests/testthat/test-print.R | 12 lidR-4.0.0/lidR/tests/testthat/test-projection.R | 120 - lidR-4.0.0/lidR/tests/testthat/test-rasterize_canopy.R |only lidR-4.0.0/lidR/tests/testthat/test-rasterize_density.R |only lidR-4.0.0/lidR/tests/testthat/test-rasterize_terrain.R |only lidR-4.0.0/lidR/tests/testthat/test-readLAS.R | 16 lidR-4.0.0/lidR/tests/testthat/test-retrieve.R | 6 lidR-4.0.0/lidR/tests/testthat/test-segment_shape.R | 18 lidR-4.0.0/lidR/tests/testthat/test-segment_snags.R | 2 lidR-4.0.0/lidR/tests/testthat/test-segment_trees.R | 318 ++-- lidR-4.0.0/lidR/tests/testthat/test-st_transform.R |only lidR-4.0.0/lidR/tests/testthat/test-track_sensor.R | 59 lidR-4.0.0/lidR/tests/testthat/test-utils_raster.R |only lidR-4.0.0/lidR/vignettes/lidR-LAS-class.Rmd | 31 lidR-4.0.0/lidR/vignettes/lidR-LAScatalog-class.Rmd | 73 lidR-4.0.0/lidR/vignettes/lidR-LAScatalog-engine.Rmd | 153 -- lidR-4.0.0/lidR/vignettes/lidR-catalog-apply-examples.Rmd | 94 - lidR-4.0.0/lidR/vignettes/lidR-computation-speed-LAScatalog.Rmd | 21 395 files changed, 5495 insertions(+), 6711 deletions(-)
Title: Calculate the NLTT Statistic
Description: Provides functions to calculate the normalised Lineage-Through-
Time (nLTT) statistic, given two phylogenetic trees. The nLTT statistic measures
the difference between two Lineage-Through-Time curves, where each curve is
normalised both in time and in number of lineages.
Author: Thijs Janzen [aut, cre],
Richèl J.C. Bilderbeek [aut] (<https://orcid.org/0000-0003-1107-7049>),
Pedro Neves [ctb]
Maintainer: Thijs Janzen <thijsjanzen@gmail.com>
Diff between nLTT versions 1.4.3 dated 2020-01-13 and 1.4.6 dated 2022-02-18
nLTT-1.4.3/nLTT/man/MCMC_nLTT.Rd |only nLTT-1.4.6/nLTT/DESCRIPTION | 20 nLTT-1.4.6/nLTT/MD5 | 127 +-- nLTT-1.4.6/nLTT/NAMESPACE | 6 nLTT-1.4.6/nLTT/R/ABC_SMC.R | 128 ++- nLTT-1.4.6/nLTT/R/check_phylogenies.R |only nLTT-1.4.6/nLTT/R/check_step_type.R |only nLTT-1.4.6/nLTT/R/check_time_unit.R |only nLTT-1.4.6/nLTT/R/default_params_doc.R |only nLTT-1.4.6/nLTT/R/get_average_nltt_matrix.R | 16 nLTT-1.4.6/nLTT/R/get_branching_times.R | 4 nLTT-1.4.6/nLTT/R/get_n_lineages.R | 8 nLTT-1.4.6/nLTT/R/get_nltt_values.R | 2 nLTT-1.4.6/nLTT/R/get_norm_brts.R | 2 nLTT-1.4.6/nLTT/R/get_norm_n.R | 4 nLTT-1.4.6/nLTT/R/get_phylogeny_nltt_matrix.R | 2 nLTT-1.4.6/nLTT/R/nLTTDiff.R | 72 - nLTT-1.4.6/nLTT/R/nltt_diff_exact_extinct.R |only nLTT-1.4.6/nLTT/R/nltts_plot.R | 18 nLTT-1.4.6/nLTT/R/plot_nLTT.R | 8 nLTT-1.4.6/nLTT/R/stretch_nltt_matrix.R | 9 nLTT-1.4.6/nLTT/build/vignette.rds |binary nLTT-1.4.6/nLTT/inst/doc/get_nltt_values.html | 405 +++++----- nLTT-1.4.6/nLTT/inst/doc/nltt_diff.R | 42 - nLTT-1.4.6/nLTT/inst/doc/nltt_diff.Rmd | 45 - nLTT-1.4.6/nLTT/inst/doc/nltt_diff.html | 252 +++--- nLTT-1.4.6/nLTT/inst/doc/nltts_plot.html | 205 +++-- nLTT-1.4.6/nLTT/inst/doc/stretch_nltt_matrix.html | 263 +++--- nLTT-1.4.6/nLTT/inst/doc/trees_with_root_edge.html | 161 ++- nLTT-1.4.6/nLTT/inst/doc/walkthrough.R | 45 - nLTT-1.4.6/nLTT/inst/doc/walkthrough.Rmd | 45 - nLTT-1.4.6/nLTT/inst/doc/walkthrough.html | 354 ++++---- nLTT-1.4.6/nLTT/man/abc_smc_nltt.Rd | 3 nLTT-1.4.6/nLTT/man/check_input_event_times.Rd |only nLTT-1.4.6/nLTT/man/check_phylogenies.Rd |only nLTT-1.4.6/nLTT/man/check_step_type.Rd |only nLTT-1.4.6/nLTT/man/check_time_unit.Rd |only nLTT-1.4.6/nLTT/man/default_params_doc.Rd |only nLTT-1.4.6/nLTT/man/get_average_nltt_matrix.Rd | 2 nLTT-1.4.6/nLTT/man/get_branching_times.Rd | 4 nLTT-1.4.6/nLTT/man/get_n_lineages.Rd | 6 nLTT-1.4.6/nLTT/man/get_nltt_values.Rd | 2 nLTT-1.4.6/nLTT/man/get_norm_brts.Rd | 2 nLTT-1.4.6/nLTT/man/get_norm_n.Rd | 4 nLTT-1.4.6/nLTT/man/get_phylogeny_nltt_matrix.Rd | 2 nLTT-1.4.6/nLTT/man/mcmc_nltt.Rd |only nLTT-1.4.6/nLTT/man/nLTT-package.Rd | 6 nLTT-1.4.6/nLTT/man/nLTTstat.Rd | 3 nLTT-1.4.6/nLTT/man/nltt_diff.Rd | 15 nLTT-1.4.6/nLTT/man/nltt_diff_exact.Rd | 9 nLTT-1.4.6/nLTT/man/nltt_diff_exact_brts.Rd | 12 nLTT-1.4.6/nLTT/man/nltt_diff_exact_calc_extinct.Rd |only nLTT-1.4.6/nLTT/man/nltt_diff_exact_extinct.Rd |only nLTT-1.4.6/nLTT/man/nltt_diff_exact_norm_brts.Rd | 11 nLTT-1.4.6/nLTT/man/nltts_diff.Rd | 12 nLTT-1.4.6/nLTT/man/nltts_plot.Rd | 23 nLTT-1.4.6/nLTT/man/stretch_nltt_matrix.Rd | 10 nLTT-1.4.6/nLTT/tests/testthat/Rplots.pdf |binary nLTT-1.4.6/nLTT/tests/testthat/test-abc_smc_nltt.R | 26 nLTT-1.4.6/nLTT/tests/testthat/test-check_phylogenies.R |only nLTT-1.4.6/nLTT/tests/testthat/test-check_step_type.R |only nLTT-1.4.6/nLTT/tests/testthat/test-check_time_unit.R |only nLTT-1.4.6/nLTT/tests/testthat/test-get_average_nltt.R | 8 nLTT-1.4.6/nLTT/tests/testthat/test-get_branching_times.R | 16 nLTT-1.4.6/nLTT/tests/testthat/test-get_n_lineages.R | 4 nLTT-1.4.6/nLTT/tests/testthat/test-get_nltt_values.R | 20 nLTT-1.4.6/nLTT/tests/testthat/test-get_norm_brts.R |only nLTT-1.4.6/nLTT/tests/testthat/test-get_norm_n.R |only nLTT-1.4.6/nLTT/tests/testthat/test-mcmc_nltt.R | 60 - nLTT-1.4.6/nLTT/tests/testthat/test-nLTTDiff.R |only nLTT-1.4.6/nLTT/tests/testthat/test-nLTTstat.R | 9 nLTT-1.4.6/nLTT/tests/testthat/test-nltt_diff_exact_brts.R |only nLTT-1.4.6/nLTT/tests/testthat/test-nltt_diff_exact_extinct.R |only nLTT-1.4.6/nLTT/tests/testthat/test-style.R |only nLTT-1.4.6/nLTT/vignettes/nltt_diff.Rmd | 45 - nLTT-1.4.6/nLTT/vignettes/walkthrough.Rmd | 45 - 76 files changed, 1479 insertions(+), 1123 deletions(-)
Title: Missing Person Identification Tools
Description: Open-source software for computing Likelihood ratios thresholds and error rates in DNA kinship testing. Marsico FL. et al (2021) <doi:10.1016/j.fsigen.2021.102519>.
Author: Franco Marsico [aut, cre] (<https://orcid.org/0000-0002-0740-5516>)
Maintainer: Franco Marsico <franco.lmarsico@gmail.com>
Diff between mispitools versions 0.1.5 dated 2022-01-03 and 0.1.9 dated 2022-02-18
mispitools-0.1.5/mispitools/R/makeMPprelim.R |only mispitools-0.1.5/mispitools/R/makePOIprelim.R |only mispitools-0.1.5/mispitools/man/makeMPprelim.Rd |only mispitools-0.1.5/mispitools/man/makePOIprelim.Rd |only mispitools-0.1.9/mispitools/DESCRIPTION | 11 +++-- mispitools-0.1.9/mispitools/MD5 | 45 +++++++++++++++++------ mispitools-0.1.9/mispitools/NAMESPACE | 4 +- mispitools-0.1.9/mispitools/R/Argentina.R |only mispitools-0.1.9/mispitools/R/Asia.R |only mispitools-0.1.9/mispitools/R/Austria.R |only mispitools-0.1.9/mispitools/R/BosniaHerz.R |only mispitools-0.1.9/mispitools/R/China.R |only mispitools-0.1.9/mispitools/R/Europe.R |only mispitools-0.1.9/mispitools/R/Japan.R |only mispitools-0.1.9/mispitools/R/USA.R |only mispitools-0.1.9/mispitools/R/getfreqs.R | 37 ++---------------- mispitools-0.1.9/mispitools/R/makePOIgen.R |only mispitools-0.1.9/mispitools/R/makePrelim.R |only mispitools-0.1.9/mispitools/R/makeRefgen.R |only mispitools-0.1.9/mispitools/README.md | 4 +- mispitools-0.1.9/mispitools/data |only mispitools-0.1.9/mispitools/man/Argentina.Rd |only mispitools-0.1.9/mispitools/man/Asia.Rd |only mispitools-0.1.9/mispitools/man/Austria.Rd |only mispitools-0.1.9/mispitools/man/BosniaHerz.Rd |only mispitools-0.1.9/mispitools/man/China.Rd |only mispitools-0.1.9/mispitools/man/Europe.Rd |only mispitools-0.1.9/mispitools/man/Japan.Rd |only mispitools-0.1.9/mispitools/man/USA.Rd |only mispitools-0.1.9/mispitools/man/getfreqs.Rd | 7 ++- mispitools-0.1.9/mispitools/man/makeLRsims.Rd | 14 ++++++- mispitools-0.1.9/mispitools/man/makePOIgen.Rd |only mispitools-0.1.9/mispitools/man/makePrelim.Rd |only 33 files changed, 67 insertions(+), 55 deletions(-)
Title: Administrative Boundaries of Spain
Description: Administrative Boundaries of Spain at several levels
(Autonomous Communities, Provinces, Municipalities) based on the
'GISCO' 'Eurostat' database <https://ec.europa.eu/eurostat/web/gisco>
and 'CartoBase SIANE' from 'Instituto Geografico Nacional'
<https://www.ign.es/>. It also provides a 'leaflet' plugin and the
ability of downloading and processing static tiles.
Author: Diego Hernangómez [aut, cre, cph]
(<https://orcid.org/0000-0001-8457-4658>, rOpenSpain)
Maintainer: Diego Hernangómez <diego.hernangomezherrero@gmail.com>
Diff between mapSpain versions 0.5.0 dated 2022-01-25 and 0.6.0 dated 2022-02-18
DESCRIPTION | 6 MD5 | 60 ++++---- NEWS.md | 209 +++++++++++++++++-------------- R/addProviderEspTiles.R | 2 R/data.R | 4 R/esp_getTiles.R | 43 ++++-- R/esp_get_capimun.R | 2 R/esp_get_grid_EEA.R | 2 R/esp_get_grid_ESDAC.R | 2 R/esp_get_munic.R | 4 R/utils_tiles.R | 121 +++++++++++++++-- README.md | 2 build/partial.rdb |binary data/esp_codelist.rda |binary data/leaflet.providersESP.df.rda |binary inst/doc/mapSpain.html | 12 - man/addProviderEspTiles.Rd | 2 man/esp_getTiles.Rd | 10 + man/esp_get_grid_EEA.Rd | 2 man/esp_get_grid_ESDAC.Rd | 2 man/leaflet.providersESP.df.Rd | 7 - man/mapSpain-package.Rd | 2 tests/testthat/test-esp_getTiles.R | 2 tests/testthat/test-esp_get_grid_EEA.R | 2 tests/testthat/test-esp_get_grid_ESDAC.R | 2 vignettes/basic-1.png |binary vignettes/basic-2.png |binary vignettes/basic-3.png |binary vignettes/choro-1.png |binary vignettes/giscoR-1.png |binary vignettes/thematic-1.png |binary 31 files changed, 324 insertions(+), 176 deletions(-)
Title: Bayesian Logistic Regression for Oncology Dose-Escalation Trials
Description: Bayesian logistic regression model with optional
EXchangeability-NonEXchangeability parameter modelling for flexible
borrowing from historical or concurrent data-sources. The safety model
can guide dose-escalation decisions for adaptive oncology Phase I
dose-escalation trials which involve an arbitrary number of
drugs. Please refer to Neuenschwander et al. (2008)
<doi:10.1002/sim.3230> and Neuenschwander et al. (2016)
<doi:10.1080/19466315.2016.1174149> for details on the methodology.
Author: Novartis Pharma AG [cph],
Sebastian Weber [aut, cre],
Lukas A. Widmer [aut],
Andrew Bean [aut],
Trustees of Columbia University [cph] (R/stanmodels.R, configure,
configure.win)
Maintainer: Sebastian Weber <sebastian.weber@novartis.com>
Diff between OncoBayes2 versions 0.8-2 dated 2021-09-14 and 0.8-4 dated 2022-02-18
DESCRIPTION | 8 MD5 | 93 +-- NAMESPACE | 4 R/OncoBayes2-package.R | 2 R/critical_quantile.R |only R/nsamples.R | 2 R/plot_blrm.R | 369 ++++++------- R/posterior_interval.R | 2 R/posterior_linpred.R | 2 R/posterior_predict.R | 2 R/predictive_interval.R | 2 R/prior_summary.R | 2 R/summary.R | 2 R/sysdata.rda |binary R/update.R | 2 build/vignette.rds |binary data/codata_combo2.rda |binary data/dose_info_combo2.rda |binary data/drug_info_combo2.rda |binary data/hist_SA.rda |binary data/hist_combo2.rda |binary data/hist_combo3.rda |binary inst/NEWS | 13 inst/doc/OncoBayes2.pdf |binary inst/doc/introduction.html | 873 +++++++++++++------------------- inst/extra/run-oq.R | 4 inst/sbc/calibration.md5 | 6 inst/sbc/make_reference_rankhist.R | 291 ++++------ inst/sbc/sbc_example_models.R | 2 inst/sbc/sbc_report.R | 20 inst/sbc/sbc_report.html | 788 ++++++++++------------------ inst/sbc/sbc_tools.R | 101 ++- inst/stan/blrm_exnex.stan | 28 - man/critical_quantile.Rd |only man/nsamples.blrmfit.Rd | 2 man/plot_blrm.Rd | 97 +-- man/posterior_interval.blrmfit.Rd | 2 man/posterior_linpred.blrmfit.Rd | 2 man/posterior_predict.blrmfit.Rd | 2 man/predictive_interval.blrmfit.Rd | 2 man/prior_summary.blrmfit.Rd | 2 man/summary.blrmfit.Rd | 2 man/update.blrmfit.Rd | 2 src/RcppExports.cpp | 5 src/stanExports_blrm_exnex.h | 60 +- tests/testthat/test-critical_quantile.R |only tests/testthat/test-sbc.R | 4 tools/custom_covr_report.R |only tools/deploy-doc.R |only tools/make-ds.R | 4 50 files changed, 1236 insertions(+), 1568 deletions(-)
Title: MAP-Bayesian Estimation of PK Parameters
Description: Performs maximum a posteriori Bayesian estimation of individual pharmacokinetic parameters from a model defined in `mrgsolve`, typically for model-based therapeutic drug monitoring. Internally computes an objective function value from model and data, performs optimization and returns predictions in a convenient format.
Author: Felicien Le Louedec [aut, cre]
(<https://orcid.org/0000-0003-3699-2729>),
Kyle T Baron [ctb] (<https://orcid.org/0000-0001-7252-5656>)
Maintainer: Felicien Le Louedec <lelouedec.felicien@iuct-oncopole.fr>
Diff between mapbayr versions 0.5.0 dated 2021-07-27 and 0.6.0 dated 2022-02-18
DESCRIPTION | 29 - MD5 | 80 ++- NAMESPACE | 26 - NEWS.md | 186 +++++--- R/data.R |only R/get.R | 404 ++++++++++-------- R/mapbayest.R | 56 ++ R/mapbayest_check_and_preprocess.R | 25 - R/mapbayest_optimization.R | 10 R/mapbayest_postprocess.R | 49 +- R/mapbayests.R | 657 ++++++++++++++++-------------- R/mrgmod.R | 50 +- R/use_posterior.R |only R/vs_nonmem.R |only R/zzz_utils.R | 23 - README.md | 175 +++---- data |only inst/WORDLIST | 6 inst/nm001 |only man/augment.Rd | 2 man/augment.mapbayests.Rd | 43 + man/data_helpers.Rd | 41 + man/est001.Rd |only man/get_cov.mapbayests.Rd |only man/get_data.mapbayests.Rd | 4 man/get_phi.mapbayests.Rd |only man/get_x.Rd | 8 man/hist.mapbayests.Rd | 10 man/mapbayest.Rd | 55 ++ man/plot.mapbayests.Rd | 17 man/postprocess.Rd | 6 man/use_posterior.Rd | 36 + man/vs_nonmem.Rd |only tests/testthat/test-augment.R |only tests/testthat/test-covariance.R |only tests/testthat/test-get_data.R | 5 tests/testthat/test-get_phi.R |only tests/testthat/test-methods.R | 50 -- tests/testthat/test-newini2.R | 42 - tests/testthat/test-output.R | 41 + tests/testthat/test-read_mrgsolve_model.R | 44 +- tests/testthat/test-reset-conditions.R | 8 tests/testthat/test-use_posterior.R | 90 +++- tests/testthat/test-valid_dataset.R | 15 tests/testthat/test-verbose.R | 11 tests/testthat/test-vs_nonmem.R |only 46 files changed, 1454 insertions(+), 850 deletions(-)
Title: Bioclimatic Analysis and Classification
Description: Using numeric or raster data, this package contains functions to
calculate: complete water balance, bioclimatic balance, bioclimatic
intensities, reports for individual locations, multi-layered rasters for
spatial analysis.
Author: Roberto Serrano-Notivoli
Maintainer: Roberto Serrano-Notivoli <roberto.serrano@uam.es>
Diff between bioclim versions 0.1.0 dated 2022-02-07 and 0.2.0 dated 2022-02-18
DESCRIPTION | 6 - MD5 | 26 ++++---- NAMESPACE | 1 R/f_biobal_raster.R | 44 ++------------ R/f_bioclim_report.R | 7 +- R/f_bioint_raster.R | 12 ++- R/f_biotype_raster.R | 153 +++++++++++++++++++++++++++++++------------------- R/f_ith_raster.R | 19 ++---- R/f_watbal_raster.R | 12 ++- man/biobalRaster.Rd | 6 - man/bioclim_report.Rd | 6 + man/biointRaster.Rd | 6 - man/biotypeRaster.Rd | 4 - man/watbalRaster.Rd | 6 - 14 files changed, 164 insertions(+), 144 deletions(-)
Title: R Speaks 'Simulx'
Description: Provide useful tools which supplement the use of Simulx software and R connectors (Monolix Suite). 'Simulx' is an easy, efficient and flexible application for clinical trial simulations. You need 'Simulx' software to be installed in order to use 'RsSimulx' package. Among others tasks, 'RsSimulx' provides the same functions as package 'mlxR' does with a compatibility with 'Simulx' software.
Author: Clemence Pinaud [aut, cre],
Jonathan Chauvin [aut],
Marc Lavielle [ctb]
Maintainer: Clemence Pinaud <clemence.pinaud@lixoft.com>
Diff between RsSimulx versions 1.0.1 dated 2021-04-08 and 2.0.0 dated 2022-02-18
DESCRIPTION | 14 MD5 | 30 NAMESPACE | 1 R/catplotmlx.R | 230 +-- R/prctilemlx.R | 2 R/simpop.R | 41 R/simulxR.R | 741 ++++++---- R/smlx-checks.R | 449 +++++- R/smlx-project.R | 16 R/smlx-tools.R | 1021 +++++++++----- R/writeData.R | 2 man/inlineModel.Rd | 2 man/simulx.Rd | 168 +- tests/testthat/test-simpop.R | 7 tests/testthat/test-simulation-mlxproject.R |only tests/testthat/test-simulation-model.R |only tests/testthat/test-simulation.R | 1968 ++++++++++++++++++++-------- 17 files changed, 3250 insertions(+), 1442 deletions(-)
Title: 'Rcpp' Bindings for the 'simdjson' Header-Only Library for
'JSON' Parsing
Description: The 'JSON' format is ubiquitous for data interchange, and the
'simdjson' library written by Daniel Lemire (and many contributors) provides
a high-performance parser for these files which by relying on parallel 'SIMD'
instruction manages to parse these files as faster than disk speed. See the
<arXiv:1902.08318> paper for more details about 'simdjson'. This package
parses 'JSON' from string, file, or remote URLs under a variety of settings.
Author: Dirk Eddelbuettel, Brendan Knapp, Daniel Lemire
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppSimdJson versions 0.1.6 dated 2021-09-08 and 0.1.7 dated 2022-02-18
ChangeLog | 12 ++++++++++++ DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- README.md | 5 ++--- build/partial.rdb |binary inst/tinytest/test_simdjson_utils.R | 4 ++-- 6 files changed, 25 insertions(+), 14 deletions(-)
Title: Utility Functions for Open Systems Pharmacology R Packages
Description: A collection of utility functions for R packages in the Open
Systems Pharmacology ecosystem. Contains helper functions for working
with R6 objects, enumerated lists, and text formatting. Additionally,
it provides functions to validate argument inputs.
Author: Open-Systems-Pharmacology Community [cph, fnd],
Michael Sevestre [aut],
Pavel Balazki [aut],
Juri Solodenko [aut],
Indrajeet Patil [aut, cre] (<https://orcid.org/0000-0003-1995-6531>,
@patilindrajeets)
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between ospsuite.utils versions 1.1.0 dated 2022-02-09 and 1.2.0 dated 2022-02-18
DESCRIPTION | 9 +- MD5 | 58 +++++++------ NAMESPACE | 6 + NEWS.md | 29 ++++++ R/enum.R | 3 R/error-checks.R | 125 ++++++++++++++++++---------- R/formatNumerics.R | 2 R/messages.R | 122 +++++++++++++++++++++++++++ R/ospsuite.utils-env.R |only R/utilities.R | 34 ++++--- R/validation-helpers.R | 33 ++++++- README.md | 6 - man/enum.Rd | 1 man/enumHasKey.Rd | 1 man/enumKeys.Rd | 1 man/formatNumerics.Rd | 6 + man/getOSPSuiteUtilsSetting.Rd |only man/hasOnlyDistinctValues.Rd | 56 ++++++------ man/ifNotNull.Rd | 7 - man/isEmpty.Rd |only man/isFileExtension.Rd | 13 +- man/isOfLength.Rd | 4 man/isOfType.Rd | 5 - man/messages.Rd |only man/op-null-default.Rd | 1 man/ospsuiteUtilsSettingNames.Rd |only man/toList.Rd | 6 - man/validateIsIncluded.Rd | 1 man/validateIsNotEmpty.Rd |only man/validatePathIsAbsolute.Rd | 1 tests/testthat/_snaps/global-settings.md |only tests/testthat/test-error-checks.R | 137 ++++++++++++++++++++++++++----- tests/testthat/test-global-settings.R |only tests/testthat/test-validation-helpers.R | 9 +- 34 files changed, 507 insertions(+), 169 deletions(-)
More information about ospsuite.utils at CRAN
Permanent link
Title: Estimation of Optimal Size for a Holdout Set for Updating a
Predictive Score
Description: Predictive scores must be updated with care, because actions taken on the basis of existing risk scores causes bias in risk estimates from the updated score. A holdout set is a straightforward way to manage this problem: a proportion of the population is 'held-out' from computation of the previous risk score. This package provides tools to estimate a size for this holdout set and associated errors. Comprehensive vignettes are included. Please see: Haidar-Wehbe S, Emerson SR, Aslett LJM, Liley J (2022) <arXiv:2202.06374> for details of methods.
Author: Sami Haidar-Wehbe [aut],
Sam Emerson [aut] (<https://orcid.org/0000-0002-8379-2781>),
Louis Aslett [aut] (<https://orcid.org/0000-0003-2211-233X>),
James Liley [cre, aut] (<https://orcid.org/0000-0002-0049-8238>)
Maintainer: James Liley <james.liley@durham.ac.uk>
Diff between OptHoldoutSize versions 0.0.0.1 dated 2022-02-09 and 0.1.0.0 dated 2022-02-18
DESCRIPTION | 8 - MD5 | 12 +- NEWS.md | 6 + inst/doc/comparison_of_algorithms.R | 180 ++++++++++++++++++++++--------- inst/doc/comparison_of_algorithms.Rmd | 186 ++++++++++++++++++++++----------- inst/doc/comparison_of_algorithms.html | 85 ++++++++++----- vignettes/comparison_of_algorithms.Rmd | 186 ++++++++++++++++++++++----------- 7 files changed, 460 insertions(+), 203 deletions(-)
More information about OptHoldoutSize at CRAN
Permanent link
Title: Tensors and Neural Networks with 'GPU' Acceleration
Description: Provides functionality to define and train neural networks similar to
'PyTorch' by Paszke et al (2019) <arXiv:1912.01703> but written entirely in R
using the 'libtorch' library. Also supports low-level tensor operations and
'GPU' acceleration.
Author: Daniel Falbel [aut, cre, cph],
Javier Luraschi [aut],
Dmitriy Selivanov [ctb],
Athos Damiani [ctb],
Christophe Regouby [ctb],
Krzysztof Joachimiak [ctb],
Hamada S. Badr [ctb],
RStudio [cph]
Maintainer: Daniel Falbel <daniel@rstudio.com>
Diff between torch versions 0.6.0 dated 2021-10-07 and 0.7.0 dated 2022-02-18
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torch-0.7.0/torch/R/lantern_sync.R | 33 torch-0.7.0/torch/R/layout.R | 4 torch-0.7.0/torch/R/linalg.R | 619 torch-0.7.0/torch/R/memory_format.R | 12 torch-0.7.0/torch/R/nn-activation.R | 475 torch-0.7.0/torch/R/nn-batchnorm.R | 125 torch-0.7.0/torch/R/nn-conv.R | 487 torch-0.7.0/torch/R/nn-distance.R | 25 torch-0.7.0/torch/R/nn-dropout.R | 55 torch-0.7.0/torch/R/nn-flatten.R |only torch-0.7.0/torch/R/nn-init.R | 246 torch-0.7.0/torch/R/nn-linear.R | 74 torch-0.7.0/torch/R/nn-loss.R | 583 torch-0.7.0/torch/R/nn-normalization.R | 74 torch-0.7.0/torch/R/nn-pooling.R | 623 torch-0.7.0/torch/R/nn-rnn.R | 388 torch-0.7.0/torch/R/nn-sparse.R | 50 torch-0.7.0/torch/R/nn-upsampling.R |only torch-0.7.0/torch/R/nn-utils-clip-grad.R | 49 torch-0.7.0/torch/R/nn-utils-rnn.R | 108 torch-0.7.0/torch/R/nn-utils.R | 22 torch-0.7.0/torch/R/nn.R | 389 torch-0.7.0/torch/R/nn_adaptive.R | 47 torch-0.7.0/torch/R/nnf-activation.R | 429 torch-0.7.0/torch/R/nnf-batchnorm.R | 14 torch-0.7.0/torch/R/nnf-conv.R | 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++++++---- torch-0.7.0/torch/src/allocator.cpp | 9 torch-0.7.0/torch/src/autograd.cpp | 617 torch-0.7.0/torch/src/backends.cpp | 19 torch-0.7.0/torch/src/codegen.cpp | 221 torch-0.7.0/torch/src/contrib.cpp | 15 torch-0.7.0/torch/src/cuda.cpp | 27 torch-0.7.0/torch/src/device.cpp | 18 torch-0.7.0/torch/src/dimname_list.cpp | 25 torch-0.7.0/torch/src/dtype.cpp | 35 torch-0.7.0/torch/src/gen-namespace.cpp | 4607 +++-- torch-0.7.0/torch/src/generator.cpp | 20 torch-0.7.0/torch/src/indexing.cpp | 375 torch-0.7.0/torch/src/ivalue.cpp | 8 torch-0.7.0/torch/src/jit-compile.cpp | 26 torch-0.7.0/torch/src/lantern.cpp | 11 torch-0.7.0/torch/src/layout.cpp | 7 torch-0.7.0/torch/src/memory_format.cpp | 9 torch-0.7.0/torch/src/nn_utils_rnn.cpp | 85 torch-0.7.0/torch/src/qscheme.cpp | 12 torch-0.7.0/torch/src/quantization.cpp | 7 torch-0.7.0/torch/src/reduction.cpp | 15 torch-0.7.0/torch/src/save.cpp | 36 torch-0.7.0/torch/src/scalar.cpp | 64 torch-0.7.0/torch/src/script_module.cpp | 131 torch-0.7.0/torch/src/stack.cpp | 8 torch-0.7.0/torch/src/storage.cpp | 13 torch-0.7.0/torch/src/tensor.cpp | 392 torch-0.7.0/torch/src/tensor_list.cpp | 41 torch-0.7.0/torch/src/tensor_options.cpp | 32 torch-0.7.0/torch/src/torch_api.cpp |only torch-0.7.0/torch/src/torch_exports.cpp |only torch-0.7.0/torch/src/trace.cpp | 115 torch-0.7.0/torch/src/translate_messages.h | 161 torch-0.7.0/torch/src/utils.cpp | 125 torch-0.7.0/torch/src/variable_list.cpp | 22 torch-0.7.0/torch/src/xptr.cpp | 8 torch-0.7.0/torch/tests/testthat.R | 3 torch-0.7.0/torch/tests/testthat/_snaps/script_module.md | 42 torch-0.7.0/torch/tests/testthat/_snaps/tensor.md | 2 torch-0.7.0/torch/tests/testthat/helper-distributions.R | 12 torch-0.7.0/torch/tests/testthat/helper-optim.R | 29 torch-0.7.0/torch/tests/testthat/helper-tensor.R | 20 torch-0.7.0/torch/tests/testthat/test-0-threads.R | 6 torch-0.7.0/torch/tests/testthat/test-R7.R | 12 torch-0.7.0/torch/tests/testthat/test-allocator.R | 17 torch-0.7.0/torch/tests/testthat/test-autograd.R | 448 torch-0.7.0/torch/tests/testthat/test-backends.R |only torch-0.7.0/torch/tests/testthat/test-call_torch_function.R |only torch-0.7.0/torch/tests/testthat/test-contrib.R | 9 torch-0.7.0/torch/tests/testthat/test-creation-ops.R | 129 torch-0.7.0/torch/tests/testthat/test-cuda.R | 18 torch-0.7.0/torch/tests/testthat/test-device.R | 38 torch-0.7.0/torch/tests/testthat/test-dim-error-messages.R | 92 torch-0.7.0/torch/tests/testthat/test-dimname_list.R | 2 torch-0.7.0/torch/tests/testthat/test-distribution-chi2.R | 31 torch-0.7.0/torch/tests/testthat/test-distribution-gamma.R | 16 torch-0.7.0/torch/tests/testthat/test-distribution-normal.R | 35 torch-0.7.0/torch/tests/testthat/test-distribution-poisson.R | 12 torch-0.7.0/torch/tests/testthat/test-distributions-bernoulli.R | 68 torch-0.7.0/torch/tests/testthat/test-distributions-categorical.R | 18 torch-0.7.0/torch/tests/testthat/test-distributions-constraints.R | 34 torch-0.7.0/torch/tests/testthat/test-distributions-mixture_same_family.R | 28 torch-0.7.0/torch/tests/testthat/test-distributions-multivariate_normal.R | 58 torch-0.7.0/torch/tests/testthat/test-dtype.R | 8 torch-0.7.0/torch/tests/testthat/test-gen-method.R | 47 torch-0.7.0/torch/tests/testthat/test-gen-namespace.R | 196 torch-0.7.0/torch/tests/testthat/test-generator.R | 14 torch-0.7.0/torch/tests/testthat/test-indexing.R | 269 torch-0.7.0/torch/tests/testthat/test-install.R | 2 torch-0.7.0/torch/tests/testthat/test-ivalue.R | 21 torch-0.7.0/torch/tests/testthat/test-jit-compile.R | 31 torch-0.7.0/torch/tests/testthat/test-linalg.R | 93 torch-0.7.0/torch/tests/testthat/test-nn-activation.R | 28 torch-0.7.0/torch/tests/testthat/test-nn-batchnorm.R | 24 torch-0.7.0/torch/tests/testthat/test-nn-conv.R | 55 torch-0.7.0/torch/tests/testthat/test-nn-flatten.R |only torch-0.7.0/torch/tests/testthat/test-nn-init.R | 4 torch-0.7.0/torch/tests/testthat/test-nn-linear.R | 14 torch-0.7.0/torch/tests/testthat/test-nn-loss.R | 77 torch-0.7.0/torch/tests/testthat/test-nn-multihead-attention.R | 88 torch-0.7.0/torch/tests/testthat/test-nn-normalization.R | 36 torch-0.7.0/torch/tests/testthat/test-nn-rnn.R | 238 torch-0.7.0/torch/tests/testthat/test-nn-sparse.R | 17 torch-0.7.0/torch/tests/testthat/test-nn-upsampling.R |only torch-0.7.0/torch/tests/testthat/test-nn-utils-clip-grad.R | 34 torch-0.7.0/torch/tests/testthat/test-nn-utils-rnn.R | 44 torch-0.7.0/torch/tests/testthat/test-nn.R | 251 torch-0.7.0/torch/tests/testthat/test-nnf-embedding.R | 6 torch-0.7.0/torch/tests/testthat/test-nnf-loss.R | 25 torch-0.7.0/torch/tests/testthat/test-nnf-normalization.R | 27 torch-0.7.0/torch/tests/testthat/test-nnf-padding.R | 48 torch-0.7.0/torch/tests/testthat/test-nnf-pooling.R | 25 torch-0.7.0/torch/tests/testthat/test-nnf-upsampling.R | 6 torch-0.7.0/torch/tests/testthat/test-operators.R | 209 torch-0.7.0/torch/tests/testthat/test-optim-adagrad.R | 6 torch-0.7.0/torch/tests/testthat/test-optim-adam.R | 44 torch-0.7.0/torch/tests/testthat/test-optim-asgd.R | 4 torch-0.7.0/torch/tests/testthat/test-optim-lbfgs.R | 101 torch-0.7.0/torch/tests/testthat/test-optim-lr_scheduler.R | 33 torch-0.7.0/torch/tests/testthat/test-optim-rmsprop.R | 2 torch-0.7.0/torch/tests/testthat/test-optim-rprop.R | 4 torch-0.7.0/torch/tests/testthat/test-quantization.R | 7 torch-0.7.0/torch/tests/testthat/test-save.R | 153 torch-0.7.0/torch/tests/testthat/test-scalar.R | 2 torch-0.7.0/torch/tests/testthat/test-script_module.R | 53 torch-0.7.0/torch/tests/testthat/test-stack.R | 22 torch-0.7.0/torch/tests/testthat/test-storage.R | 6 torch-0.7.0/torch/tests/testthat/test-tensor.R | 246 torch-0.7.0/torch/tests/testthat/test-tensor_options.R | 4 torch-0.7.0/torch/tests/testthat/test-trace.R | 237 torch-0.7.0/torch/tests/testthat/test-utils-data-dataloader.R | 274 torch-0.7.0/torch/tests/testthat/test-utils-data-enum.R | 28 torch-0.7.0/torch/tests/testthat/test-utils-data-sampler.R | 33 torch-0.7.0/torch/tests/testthat/test-utils-data.R | 81 torch-0.7.0/torch/tests/testthat/test-variable_list.R | 3 torch-0.7.0/torch/tests/testthat/test-with-indices.R | 81 torch-0.7.0/torch/tests/testthat/test-wrapers.R | 238 torch-0.7.0/torch/tests/testthat/tracedmodule.pt |binary torch-0.7.0/torch/tools/buildlantern.R | 31 torch-0.7.0/torch/tools/create-decls.R | 16 torch-0.7.0/torch/tools/document.R | 4 torch-0.7.0/torch/tools/fixlanternh.R | 12 torch-0.7.0/torch/tools/renameinit.R |only torch-0.7.0/torch/tools/renamelib.R | 4 torch-0.7.0/torch/tools/revdep.R | 4 torch-0.7.0/torch/tools/style.sh |only torch-0.7.0/torch/tools/torchgen/DESCRIPTION | 6 torch-0.7.0/torch/tools/torchgen/R/cpp.R | 133 torch-0.7.0/torch/tools/torchgen/R/r.R | 24 torch-0.7.0/torch/tools/torchgen/R/utils.R | 2 torch-0.7.0/torch/tools/torchgen/inst/declaration/Declarations-1.10.2.yaml |only torch-0.7.0/torch/vignettes/distributions.Rmd | 3 torch-0.7.0/torch/vignettes/extending-autograd.Rmd | 3 torch-0.7.0/torch/vignettes/indexing.Rmd | 3 torch-0.7.0/torch/vignettes/installation.Rmd | 19 torch-0.7.0/torch/vignettes/loading-data.Rmd | 173 torch-0.7.0/torch/vignettes/python-to-r.Rmd | 3 torch-0.7.0/torch/vignettes/serialization.Rmd | 3 torch-0.7.0/torch/vignettes/tensor-creation.Rmd | 3 torch-0.7.0/torch/vignettes/tensor/index.Rmd | 3 torch-0.7.0/torch/vignettes/torchscript.Rmd | 3 torch-0.7.0/torch/vignettes/using-autograd.Rmd | 3 482 files changed, 25326 insertions(+), 18434 deletions(-)
Title: Small Area Estimation Evaluation
Description: Allows users to produce diagnostic procedures and graphic tools for the evaluation of Small Area estimators.
Author: Andrea Fasulo [aut, cre]
Maintainer: Andrea Fasulo <fasulo@istat.it>
Diff between SAEval versions 0.1.0 dated 2021-12-06 and 0.1.1 dated 2022-02-18
SAEval-0.1.0/SAEval/man/SAEval_example_shp.Rd |only SAEval-0.1.1/SAEval/DESCRIPTION | 6 +++--- SAEval-0.1.1/SAEval/MD5 | 10 +++++----- SAEval-0.1.1/SAEval/R/map_sae.R | 4 +++- SAEval-0.1.1/SAEval/man/SAEval-package.Rd | 2 +- SAEval-0.1.1/SAEval/man/map_sae.Rd | 9 +++++---- SAEval-0.1.1/SAEval/man/sa_shp.Rd |only 7 files changed, 17 insertions(+), 14 deletions(-)
Title: A Shiny Interface for Simple Data Management
Description: Launches a shiny application generating code to
view tables in several ways,
import/export tables,
modify tables,
make some basic graphics.
'IGoR' is a graphic user interface designed to help beginners
using simple functions around table management and exploration.
Inspired by 'Rcmdr', 'IGoR' is a code generator that, with simple inputs under a Shiny application,
provides R code mainly built around the 'tidyverse' or some packages in the direct line of the Mosaic project:
the 'rio' and 'ggformula' packages.
The generated code doesn't depend on IGoR and can be manually modified by the user or copied elsewhere.
Author: Jean-Luc Lipatz [aut, cre], Bernard Gestin [ctb]
Maintainer: Jean-Luc Lipatz <jean-luc.lipatz@insee.fr>
Diff between IGoRRR versions 0.2.0 dated 2022-02-11 and 0.2.1 dated 2022-02-18
DESCRIPTION | 11 ++-- MD5 | 62 +++++++++++++-------------- NAMESPACE | 44 +++++-------------- R/common.R | 112 +++++++++++++++++++++++++------------------------- R/go.R | 35 ++++++++------- R/init.R | 21 ++++----- R/page_bar.R | 2 R/page_boxplot.R | 4 - R/page_browse.R | 2 R/page_contents.R | 3 - R/page_create.R | 15 ++---- R/page_filter.R | 3 - R/page_gather.R | 20 +++++--- R/page_histogram.R | 2 R/page_import.R | 5 +- R/page_line.R | 6 +- R/page_maps.R | 2 R/page_mutate2.R | 4 - R/page_pie.R | 2 R/page_points.R | 4 - R/page_reclass.R | 19 ++++---- R/page_select.R | 2 R/page_skim.R | 4 - R/page_spread.R | 9 +++- R/page_summarise.R | 2 R/page_tables.R | 22 +++++---- R/page_view.R | 6 +- R/utilities.R | 1 inst/misc/news.txt | 45 +++++++++++++------- inst/text/FR.json | 5 +- inst/text/config.json | 2 man/go.Rd | 41 ++++++++++++++++-- 32 files changed, 283 insertions(+), 234 deletions(-)
Title: Simple Fisheries Stock Assessment Methods
Description: A variety of simple fish stock assessment methods.
Detailed vignettes are available on the fishR website <http://derekogle.com/fishR/>.
Author: Derek Ogle [aut, cre] (<https://orcid.org/0000-0002-0370-9299>),
Jason Doll [aut],
Powell Wheeler [aut],
Alexis Dinno [aut] (Provided base functionality of dunnTest())
Maintainer: Derek Ogle <derek@derekogle.com>
Diff between FSA versions 0.9.2 dated 2022-02-12 and 0.9.3 dated 2022-02-18
FSA-0.9.2/FSA/tests/testthat/Rplots.pdf |only FSA-0.9.3/FSA/DESCRIPTION | 18 FSA-0.9.3/FSA/MD5 | 141 ++--- FSA-0.9.3/FSA/NEWS.md | 188 +++--- FSA-0.9.3/FSA/R/FSA.R | 4 FSA-0.9.3/FSA/R/FSAUtils.R | 2 FSA-0.9.3/FSA/inst/helpers/installTester.R | 2 FSA-0.9.3/FSA/man/BluegillJL.Rd | 92 +-- FSA-0.9.3/FSA/man/BrookTroutTH.Rd | 80 +- FSA-0.9.3/FSA/man/ChinookArg.Rd | 84 +-- FSA-0.9.3/FSA/man/CodNorwegian.Rd | 86 +-- FSA-0.9.3/FSA/man/CutthroatAL.Rd | 114 ++-- FSA-0.9.3/FSA/man/FSA.Rd | 48 - FSA-0.9.3/FSA/man/PSDlit.Rd | 114 ++-- FSA-0.9.3/FSA/man/PikeNY.Rd | 94 +-- FSA-0.9.3/FSA/man/PikeNYPartial1.Rd | 100 +-- FSA-0.9.3/FSA/man/SMBassLS.Rd | 94 +-- FSA-0.9.3/FSA/man/SMBassWB.Rd | 124 ++-- FSA-0.9.3/FSA/man/Schnute.Rd | 148 ++--- FSA-0.9.3/FSA/man/SchnuteRichards.Rd | 102 +-- FSA-0.9.3/FSA/man/SpotVA1.Rd | 84 +-- FSA-0.9.3/FSA/man/Summarize.Rd | 236 ++++---- FSA-0.9.3/FSA/man/WR79.Rd | 90 +-- FSA-0.9.3/FSA/man/WSlit.Rd | 126 ++-- FSA-0.9.3/FSA/man/WhitefishLC.Rd | 104 +-- FSA-0.9.3/FSA/man/ageBias.Rd | 694 ++++++++++++------------- FSA-0.9.3/FSA/man/agePrecision.Rd | 318 +++++------ FSA-0.9.3/FSA/man/binCI.Rd | 142 ++--- FSA-0.9.3/FSA/man/capHistConvert.Rd | 622 +++++++++++----------- FSA-0.9.3/FSA/man/capHistSum.Rd | 196 +++---- FSA-0.9.3/FSA/man/col2rgbt.Rd | 72 +- FSA-0.9.3/FSA/man/depletion.Rd | 366 ++++++------- FSA-0.9.3/FSA/man/dunnTest.Rd | 240 ++++---- FSA-0.9.3/FSA/man/expandCounts.Rd | 268 ++++----- FSA-0.9.3/FSA/man/expandLenFreq.Rd | 172 +++--- FSA-0.9.3/FSA/man/extraTests.Rd | 214 +++---- FSA-0.9.3/FSA/man/fact2num.Rd | 74 +- FSA-0.9.3/FSA/man/fishR.Rd | 76 +- FSA-0.9.3/FSA/man/geomean.Rd | 108 +-- FSA-0.9.3/FSA/man/growthModels.Rd | 692 ++++++++++++------------ FSA-0.9.3/FSA/man/headtail.Rd | 118 ++-- FSA-0.9.3/FSA/man/hist.formula.Rd | 238 ++++---- FSA-0.9.3/FSA/man/histFromSum.Rd | 158 ++--- FSA-0.9.3/FSA/man/hyperCI.Rd | 74 +- FSA-0.9.3/FSA/man/knitUtil.Rd | 254 ++++----- FSA-0.9.3/FSA/man/ksTest.Rd | 150 ++--- FSA-0.9.3/FSA/man/lagratio.Rd | 124 ++-- FSA-0.9.3/FSA/man/lencat.Rd | 446 ++++++++-------- FSA-0.9.3/FSA/man/logbtcf.Rd | 106 +-- FSA-0.9.3/FSA/man/lwCompPreds.Rd | 226 ++++---- FSA-0.9.3/FSA/man/metaM.Rd | 354 ++++++------ FSA-0.9.3/FSA/man/mrClosed.Rd | 570 ++++++++++---------- FSA-0.9.3/FSA/man/mrOpen.Rd | 326 +++++------ FSA-0.9.3/FSA/man/peek.Rd | 116 ++-- FSA-0.9.3/FSA/man/perc.Rd | 110 +-- FSA-0.9.3/FSA/man/plotAB.Rd | 252 ++++----- FSA-0.9.3/FSA/man/poiCI.Rd | 108 +-- FSA-0.9.3/FSA/man/psdCI.Rd | 202 +++---- FSA-0.9.3/FSA/man/psdCalc.Rd | 256 ++++----- FSA-0.9.3/FSA/man/psdPlot.Rd | 250 ++++----- FSA-0.9.3/FSA/man/psdVal.Rd | 164 ++--- FSA-0.9.3/FSA/man/rSquared.Rd | 92 +-- FSA-0.9.3/FSA/man/rcumsum.Rd | 142 ++--- FSA-0.9.3/FSA/man/removal.Rd | 514 +++++++++--------- FSA-0.9.3/FSA/man/se.Rd | 82 +- FSA-0.9.3/FSA/man/srStarts.Rd | 230 ++++---- FSA-0.9.3/FSA/man/sumTable.Rd | 126 ++-- FSA-0.9.3/FSA/man/tictactoe.Rd | 188 +++--- FSA-0.9.3/FSA/man/validn.Rd | 88 +-- FSA-0.9.3/FSA/man/vbStarts.Rd | 330 +++++------ FSA-0.9.3/FSA/man/wsVal.Rd | 126 ++-- FSA-0.9.3/FSA/tests/testthat/testthat_ksTest.R | 42 - 72 files changed, 6548 insertions(+), 6543 deletions(-)
Title: Rendering Parameterized SQL and Translation to Dialects
Description: A rendering tool for parameterized SQL that also translates into
different SQL dialects. These dialects include 'Microsoft Sql Server', 'Oracle',
'PostgreSql', 'Amazon RedShift', 'Apache Impala', 'IBM Netezza', 'Google BigQuery', 'Microsoft PDW', 'Apache Spark', and 'SQLite'.
Author: Martijn Schuemie [aut, cre],
Marc Suchard [aut]
Maintainer: Martijn Schuemie <schuemie@ohdsi.org>
Diff between SqlRender versions 1.8.3 dated 2022-01-07 and 1.9.0 dated 2022-02-18
DESCRIPTION | 8 MD5 | 78 NAMESPACE | 3 NEWS.md | 14 R/HelperFunctions.R | 262 +- R/RenderSql.R | 70 R/ShinyApps.R | 6 R/SparkSql.R |only R/SqlRender.R | 18 README.md | 6 inst/csv/jarChecksum.txt | 2 inst/csv/replacementPatterns.csv | 38 inst/doc/UsingSqlRender.Rmd | 38 inst/doc/UsingSqlRender.pdf |binary inst/java/SqlRender.jar |binary java/org/ohdsi/sql/BigQuerySparkTranslate.java | 256 +- java/org/ohdsi/sql/SqlTranslate.java | 90 man/camelCaseToSnakeCase.Rd | 1 man/camelCaseToSnakeCaseNames.Rd |only man/camelCaseToTitleCase.Rd | 1 man/getTempTablePrefix.Rd | 39 man/launchSqlRenderDeveloper.Rd | 38 man/listSupportedDialects.Rd | 5 man/loadRenderTranslateSql.Rd | 7 man/render.Rd | 25 man/snakeCaseToCamelCase.Rd | 1 man/snakeCaseToCamelCaseNames.Rd |only man/sparkHandleInsert.Rd |only man/splitSql.Rd | 49 man/supportsJava8.Rd | 1 man/translate.Rd | 3 man/translateSingleStatement.Rd | 1 man/translateSqlFile.Rd | 5 tests/testthat/test-helperFunctions.R | 28 tests/testthat/test-renderSql.R | 1 tests/testthat/test-splitSql.R | 25 tests/testthat/test-translate-bigquery.R | 311 ++- tests/testthat/test-translate-spark.R | 242 +- tests/testthat/test-translate-sqlite-extended.R | 59 tests/testthat/test-translate-sqlite.R | 114 - tests/testthat/test-translateSql.R | 2423 +++++++++++++++--------- vignettes/UsingSqlRender.Rmd | 38 42 files changed, 2694 insertions(+), 1612 deletions(-)
Title: Latent Trait Models under IRT
Description: Analysis of multivariate dichotomous and polytomous data using latent trait models under the Item Response Theory approach. It includes the Rasch, the Two-Parameter Logistic, the Birnbaum's Three-Parameter, the Graded Response, and the Generalized Partial Credit Models.
Author: Dimitris Rizopoulos <d.rizopoulos@erasmusmc.nl>
Maintainer: Dimitris Rizopoulos <d.rizopoulos@erasmusmc.nl>
Diff between ltm versions 1.1-1 dated 2018-04-17 and 1.2-0 dated 2022-02-18
DESCRIPTION | 8 ++--- MD5 | 46 +++++++++++++++-------------- R/GoF.rasch.R | 5 +-- R/fitted.ltm.R | 4 +- R/ltm.R | 2 - R/plot.gpcm.R | 39 ++++++++++++------------ R/plot.grm.R | 39 ++++++++++++------------ R/plot.ltm.R | 27 ++++++++--------- R/plot.rasch.R | 18 +++++------ R/start.val.ltm.R | 5 +-- R/start.val.rasch.R | 4 +- R/start.val.tpm.R | 2 - R/summary.tpm.R | 4 +- R/sysdata.rda |only build |only inst/CITATION | 4 +- man/factor.scores.Rd | 2 - man/grm.Rd | 2 - man/ltm-package.Rd | 6 +-- man/ltm.Rd | 2 - man/margins.Rd | 2 - man/plot.Rd | 75 ++++++++++++++++++++++++------------------------ man/rasch.Rd | 2 - man/testEquatingData.Rd | 5 +-- man/tpm.Rd | 2 - 25 files changed, 156 insertions(+), 149 deletions(-)
Title: Isotopic Tracer Analysis Using MCMC
Description: Implements Bayesian models to analyze data from tracer addition
experiments. The implemented method was originally described in the article
"A New Method to Reconstruct Quantitative Food Webs and Nutrient Flows from
Isotope Tracer Addition Experiments" by López-Sepulcre et al. (2020)
<doi:10.1086/708546>.
Author: Andrés López-Sepulcre [aut] (<https://orcid.org/0000-0001-9708-0788>),
Matthieu Bruneaux [aut, cre] (<https://orcid.org/0000-0001-6997-192X>)
Maintainer: Matthieu Bruneaux <matthieu.bruneaux@gmail.com>
Diff between isotracer versions 1.1.0 dated 2021-12-19 and 1.1.2 dated 2022-02-18
isotracer-1.1.0/isotracer/configure |only isotracer-1.1.0/isotracer/configure.win |only isotracer-1.1.2/isotracer/DESCRIPTION | 10 isotracer-1.1.2/isotracer/MD5 | 54 isotracer-1.1.2/isotracer/NEWS.md | 7 isotracer-1.1.2/isotracer/build/vignette.rds |binary isotracer-1.1.2/isotracer/data/aquarium_mod.rda |binary isotracer-1.1.2/isotracer/data/aquarium_run.rda |binary isotracer-1.1.2/isotracer/data/eelgrass.rda |binary isotracer-1.1.2/isotracer/data/lalaja.rda |binary isotracer-1.1.2/isotracer/data/li2017.rda |binary isotracer-1.1.2/isotracer/data/li2017_counts.rda |binary isotracer-1.1.2/isotracer/data/li2017_prots.rda |binary isotracer-1.1.2/isotracer/data/trini_mod.rda |binary isotracer-1.1.2/isotracer/inst/doc/case-study-collins-2016.html | 538 +++++++-- isotracer-1.1.2/isotracer/inst/doc/tutorial-010-quick-start.html | 454 ++++++-- isotracer-1.1.2/isotracer/inst/doc/tutorial-020-replication.html | 464 ++++++-- isotracer-1.1.2/isotracer/inst/doc/tutorial-030-steady-state-comps.html | 490 ++++++-- isotracer-1.1.2/isotracer/inst/doc/tutorial-040-pulse-drip-events.html | 550 +++++++--- isotracer-1.1.2/isotracer/inst/doc/tutorial-050-fixed-effects.html | 496 ++++++--- isotracer-1.1.2/isotracer/inst/doc/tutorial-060-units-priors.html | 336 +++++- isotracer-1.1.2/isotracer/inst/doc/tutorial-070-prior-predictive-checks.html | 213 +++ isotracer-1.1.2/isotracer/inst/doc/tutorial-080-mcmc-output-format.html | 374 +++++- isotracer-1.1.2/isotracer/inst/doc/tutorial-090-post-run-analyses.html | 400 +++++-- isotracer-1.1.2/isotracer/inst/doc/tutorial-100-posterior-predictive-checks.html | 426 ++++++- isotracer-1.1.2/isotracer/inst/doc/tutorial-110-derived-parameters.html | 416 +++++-- isotracer-1.1.2/isotracer/inst/doc/tutorial-120-howto-simulations.html | 454 ++++++-- isotracer-1.1.2/isotracer/inst/doc/tutorial-130-parameter-identifiability.html | 450 ++++++-- isotracer-1.1.2/isotracer/tests/testthat/test-integration.R | 22 29 files changed, 4726 insertions(+), 1428 deletions(-)
Title: Calculation and Visualization of the Impact Effect Size Measure
Description: A non-parametric effect size measure capturing changes in central tendency or shape of data distributions. The package provides the necessary functions to calculate and plot the Impact effect size measure between two groups.
Author: Jorn Lotsch[aut,cre], Alfred Ultsch[aut]
Maintainer: Jorn Lotsch <j.loetsch@em.uni-frankfurt.de>
Diff between ImpactEffectsize versions 0.6.1 dated 2020-09-25 and 0.6.2 dated 2022-02-18
ImpactEffectsize-0.6.1/ImpactEffectsize/man/plot2Densities.Rd |only ImpactEffectsize-0.6.2/ImpactEffectsize/DESCRIPTION | 8 +-- ImpactEffectsize-0.6.2/ImpactEffectsize/MD5 | 13 ++--- ImpactEffectsize-0.6.2/ImpactEffectsize/NAMESPACE | 1 ImpactEffectsize-0.6.2/ImpactEffectsize/R/Impact.R | 24 ++++++---- ImpactEffectsize-0.6.2/ImpactEffectsize/R/plot2Densities.R | 14 +++-- ImpactEffectsize-0.6.2/ImpactEffectsize/man/Impact.Rd | 6 +- ImpactEffectsize-0.6.2/ImpactEffectsize/src/RcppExports.cpp | 5 ++ 8 files changed, 43 insertions(+), 28 deletions(-)
More information about ImpactEffectsize at CRAN
Permanent link
Title: Functions Related to ICES Advice
Description: A collection of functions that facilitate computational steps
related to advice for fisheries management, according to ICES guidelines.
These include methods for calculating reference points and model diagnostics.
Author: Arni Magnusson [aut],
Colin Millar [aut, cre],
Anne Cooper [aut],
Ruben Verkempynck [ctb],
Raphael Girardin [ctb]
Maintainer: Colin Millar <colin.millar@ices.dk>
Diff between icesAdvice versions 2.0-0 dated 2018-12-07 and 2.1.1 dated 2022-02-18
icesAdvice-2.0-0/icesAdvice/NEWS |only icesAdvice-2.0-0/icesAdvice/data/shake.rda |only icesAdvice-2.1.1/icesAdvice/DESCRIPTION | 35 +-- icesAdvice-2.1.1/icesAdvice/MD5 | 59 ++--- icesAdvice-2.1.1/icesAdvice/NAMESPACE | 36 +-- icesAdvice-2.1.1/icesAdvice/NEWS.md |only icesAdvice-2.1.1/icesAdvice/R/Bpa.R | 91 +++----- icesAdvice-2.1.1/icesAdvice/R/DLS3.2.R | 200 ++++++++--------- icesAdvice-2.1.1/icesAdvice/R/Fpa.R | 97 ++++---- icesAdvice-2.1.1/icesAdvice/R/agesFbar.R |only icesAdvice-2.1.1/icesAdvice/R/gss.R |only icesAdvice-2.1.1/icesAdvice/R/icesAdvice-package.R | 97 ++++---- icesAdvice-2.1.1/icesAdvice/R/icesRound.R | 182 ++++++++-------- icesAdvice-2.1.1/icesAdvice/R/mohn.R | 203 +++++++++--------- icesAdvice-2.1.1/icesAdvice/R/read.dls.R | 99 ++++---- icesAdvice-2.1.1/icesAdvice/R/shake.R | 82 +++---- icesAdvice-2.1.1/icesAdvice/R/sigmaCI.R | 82 +++---- icesAdvice-2.1.1/icesAdvice/R/sigmaPA.R | 102 ++++----- icesAdvice-2.1.1/icesAdvice/R/unix2dos.R |only icesAdvice-2.1.1/icesAdvice/R/write.dls.R | 101 ++++---- icesAdvice-2.1.1/icesAdvice/build |only icesAdvice-2.1.1/icesAdvice/data/gss.R |only icesAdvice-2.1.1/icesAdvice/data/shake.R |only icesAdvice-2.1.1/icesAdvice/man/Bpa.Rd | 103 ++++----- icesAdvice-2.1.1/icesAdvice/man/DLS3.2.Rd | 176 +++++++-------- icesAdvice-2.1.1/icesAdvice/man/Fpa.Rd | 109 ++++----- icesAdvice-2.1.1/icesAdvice/man/agesFbar.Rd |only icesAdvice-2.1.1/icesAdvice/man/gss.Rd |only icesAdvice-2.1.1/icesAdvice/man/icesAdvice-package.Rd | 96 ++++---- icesAdvice-2.1.1/icesAdvice/man/icesRound.Rd | 150 ++++++------- icesAdvice-2.1.1/icesAdvice/man/mohn.Rd | 162 +++++++------- icesAdvice-2.1.1/icesAdvice/man/read.dls.Rd | 79 +++---- icesAdvice-2.1.1/icesAdvice/man/shake.Rd | 80 +++---- icesAdvice-2.1.1/icesAdvice/man/sigmaCI.Rd | 86 +++---- icesAdvice-2.1.1/icesAdvice/man/sigmaPA.Rd | 110 ++++----- icesAdvice-2.1.1/icesAdvice/man/write.dls.Rd | 81 +++---- 36 files changed, 1366 insertions(+), 1332 deletions(-)
Title: A Graphical User Interface for Dexter
Description: Classical Test and Item analysis,
Item Response analysis and data management for educational and psychological tests.
Author: Jesse Koops [aut, cre],
Eva de Schipper [aut],
Ivailo Partchev [aut, ctb],
Gunter Maris [aut, ctb],
Timo Bechger [aut, ctb],
Gareth Watts [cph] (author of jquery.sparkline),
Hakim El Hattab [cph] (author of zoom.js)
Maintainer: Jesse Koops <jesse.koops@cito.nl>
Diff between dextergui versions 0.2.4 dated 2022-01-24 and 0.2.5 dated 2022-02-18
DESCRIPTION | 8 ++--- MD5 | 22 +++++++-------- NEWS.md | 4 ++ R/gui.R | 64 ++++++++++++++++++++++----------------------- R/misc.R | 5 +++ R/serve.R | 66 +++++++++++++++++++++++++++++------------------ R/tags.R | 9 ++++-- build/vignette.rds |binary inst/doc/dextergui.Rmd | 38 +++++++++++++-------------- inst/doc/dextergui.html | 18 ++++++------ inst/extdata/manual.html | 18 ++++++------ vignettes/dextergui.Rmd | 38 +++++++++++++-------------- 12 files changed, 160 insertions(+), 130 deletions(-)
Title: Session Reconstruction and Analysis
Description: Functions to reconstruct sessions from web log or other user trace data
and calculate various metrics around them, producing tabular,
output that is compatible with 'dplyr' or 'data.table' centered processes.
Author: Os Keyes
Maintainer: Os Keyes <ironholds@gmail.com>
Diff between reconstructr versions 2.0.3 dated 2022-02-16 and 2.0.4 dated 2022-02-18
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS | 3 +++ R/metrics.R | 4 ++-- inst/doc/Introduction.html | 4 ++-- 5 files changed, 15 insertions(+), 12 deletions(-)
Title: Create a Spatial Raster from Plain Images
Description: Create a spatial raster, as the ones provided by 'terra',
from regular pictures.
Author: Diego Hernangómez [aut, cre, cph]
(<https://orcid.org/0000-0001-8457-4658>)
Maintainer: Diego Hernangómez <diego.hernangomezherrero@gmail.com>
Diff between rasterpic versions 0.1.0 dated 2022-01-27 and 0.2.0 dated 2022-02-18
DESCRIPTION | 8 MD5 | 55 +-- NAMESPACE | 9 NEWS.md | 17 + R/rasterpic-package.R | 13 R/rasterpic_img.R | 533 ++++++++++++++++----------------- R/test_helpers.R |only R/utils.R | 113 ++++++ README.md | 42 ++ inst/CITATION | 9 inst/WORDLIST | 21 + inst/doc/rasterpic.R | 2 inst/doc/rasterpic.Rmd | 203 ++++++------ inst/doc/rasterpic.html | 53 ++- man/figures/logo.png |binary man/rasterpic-package.Rd | 52 +-- man/rasterpic_img.Rd | 367 ++++++++++++---------- tests/testthat/test-asp_ratio.R | 100 +++--- tests/testthat/test-bbox.R |only tests/testthat/test-crop_mask.R | 183 +++++++++++ tests/testthat/test-errors_messages.R | 33 +- tests/testthat/test-fileformat.R | 265 ++++++++++------ tests/testthat/test-online.R |only tests/testthat/test-plots_at.R | 7 tests/testthat/test-plots_bbox.R |only tests/testthat/test-plots_raster.R | 124 +++---- tests/testthat/test-plots_spatextent.R |only tests/testthat/test-plots_spatvector.R |only tests/testthat/test-plots_uk.R | 4 tests/testthat/test-sfg.R |only tests/testthat/test-spatextent.R |only tests/testthat/test-vector.R |only vignettes/rasterpic.Rmd | 203 ++++++------ 33 files changed, 1468 insertions(+), 948 deletions(-)
Title: Visualizing Panel Data
Description: Visualizes panel data. It has three main functionalities: (1) it visualizes treatment status and missing values in a panel dataset; (2) it plots an outcome variable (or any variable) in a time-series fashion; (3) it visualizes bivariate relationships of two variables by unit or in aggregate.
Author: Hongyu Mou [aut],
Licheng Liu [aut],
Yiqing Xu [aut, cre] (<https://orcid.org/0000-0003-2041-6671>)
Maintainer: Yiqing Xu <yiqingxu@stanford.edu>
Diff between panelView versions 1.1.5 dated 2021-07-21 and 1.1.9 dated 2022-02-18
panelView-1.1.5/panelView/README.md |only panelView-1.1.5/panelView/man/panelView.Rd |only panelView-1.1.9/panelView/DESCRIPTION | 21 panelView-1.1.9/panelView/LICENSE | 4 panelView-1.1.9/panelView/MD5 | 19 panelView-1.1.9/panelView/NAMESPACE | 13 panelView-1.1.9/panelView/R/panelView.R | 3996 ++++++++++++--------- panelView-1.1.9/panelView/man/capacity.Rd | 26 panelView-1.1.9/panelView/man/panelView-package.Rd | 16 panelView-1.1.9/panelView/man/panelview.Rd |only panelView-1.1.9/panelView/man/simdata.Rd | 2 panelView-1.1.9/panelView/man/turnout.Rd | 34 12 files changed, 2453 insertions(+), 1678 deletions(-)
Title: Regression with Multiple Change Points
Description: Flexible and informed regression with Multiple Change Points. 'mcp' can infer change points in means, variances, autocorrelation structure, and any combination of these, as well as the parameters of the segments in between. All parameters are estimated with uncertainty and prediction intervals are supported - also near the change points. 'mcp' supports hypothesis testing via Savage-Dickey density ratio, posterior contrasts, and cross-validation. 'mcp' is described in Lindeløv (submitted) <doi:10.31219/osf.io/fzqxv> and generalizes the approach described in Carlin, Gelfand, & Smith (1992) <doi:10.2307/2347570> and Stephens (1994) <doi:10.2307/2986119>.
Author: Jonas Kristoffer Lindeløv [aut, cre]
(<https://orcid.org/0000-0003-4565-0595>)
Maintainer: Jonas Kristoffer Lindeløv <jonas@lindeloev.dk>
Diff between mcp versions 0.3.1 dated 2021-11-17 and 0.3.2 dated 2022-02-18
DESCRIPTION | 8 +++---- MD5 | 8 +++---- NEWS.md | 6 +++++ man/mcmclist_samples.Rd | 48 +++++++++++++++++++++---------------------- tests/testthat/helper-runs.R | 21 +++++++++--------- 5 files changed, 49 insertions(+), 42 deletions(-)
Title: Tools and Statistical Procedures in Plant Science
Description: The 'inti' package is part of the 'inkaverse' project for developing
different procedures and tools used in plant science and experimental designs.
The mean aim of the package is to support researchers during the planning of
experiments and data collection (tarpuy()), data analysis and graphics (yupana())
, and technical writing.
Learn more about the 'inkaverse' project at <https://inkaverse.com/>.
Author: Flavio Lozano-Isla [aut, cre] (<https://orcid.org/0000-0002-0714-669X>),
QuipoLab [ctb],
Inkaverse [cph]
Maintainer: Flavio Lozano-Isla <flavjack@gmail.com>
Diff between inti versions 0.5.2 dated 2021-12-18 and 0.5.3 dated 2022-02-18
DESCRIPTION | 10 - MD5 | 65 ++++---- NAMESPACE | 1 NEWS.md | 38 +++- R/H2cal.R | 131 ++++++++++------- R/plot_diag.R | 131 ++++++++++++----- R/plot_raw.R | 79 +++++++--- R/plot_smr.R | 43 ++--- R/tarpuy_plex.R | 2 R/utils.R | 4 R/yupana_analysis.R | 13 - build/partial.rdb |binary inst/doc/apps.html | 2 inst/doc/heritability.Rmd | 20 +- inst/doc/heritability.html | 50 +++++- inst/doc/rticles.html | 2 inst/doc/yupana.R | 12 - inst/doc/yupana.Rmd | 28 ++- inst/doc/yupana.html | 45 +++-- inst/js |only inst/tarpuy/auth.R |only inst/tarpuy/rsconnect/shinyapps.io/flavjack/tarpuy.dcf | 6 inst/tarpuy/server.R | 6 inst/yupana/auth.R |only inst/yupana/pkgs.R | 2 inst/yupana/rsconnect/shinyapps.io/flavjack/yupana.dcf | 6 inst/yupana/server.R | 41 ++--- inst/yupana/ui.R | 2 man/H2cal.Rd | 18 +- man/plot_diag.Rd | 29 +++ man/plot_raw.Rd | 13 + man/plot_smr.Rd | 15 - man/yupana_analysis.Rd | 9 - vignettes/heritability.Rmd | 20 +- vignettes/yupana.Rmd | 28 ++- 35 files changed, 555 insertions(+), 316 deletions(-)
Title: Fixed Rank Kriging
Description: Fixed Rank Kriging is a tool for spatial/spatio-temporal modelling and prediction with large datasets. The approach models the field, and hence the covariance function, using a set of r basis functions, where r is typically much smaller than the number of data points (or polygons) m. This low-rank basis-function representation facilitates the modelling of 'big' spatial/spatio-temporal data. The method naturally allows for non-stationary, anisotropic covariance functions. Discretisation of the spatial domain into so-called basic areal units (BAUs) facilitates the use of observations with varying support (i.e., both point-referenced and areal supports, potentially simultaneously), and prediction over arbitrary user-specified regions. `FRK` also supports inference over various manifolds, including the 2D plane and 3D sphere, and it provides helper functions to model, fit, predict, and plot with relative ease. Version 2.0.0 and above of the package `FRK` also supports modelling of non-Gaussian data, by employing a spatial generalised linear mixed model (GLMM) framework to cater for Poisson, binomial, negative-binomial, gamma, and inverse-Gaussian distributions. Zammit-Mangion and Cressie <doi:10.18637/jss.v098.i04> describe `FRK` in a Gaussian setting, and detail its use of basis functions and BAUs.
Author: Andrew Zammit-Mangion [aut, cre],
Matthew Sainsbury-Dale [aut]
Maintainer: Andrew Zammit-Mangion <andrewzm@gmail.com>
Diff between FRK versions 2.0.3 dated 2022-01-10 and 2.0.4 dated 2022-02-18
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ R/SRE.R | 19 ++++++++----------- build/vignette.rds |binary data/AIRS_05_2003.rda |binary data/Am_data.rda |binary data/MODIS_cloud_df.rda |binary data/NOAA_df_1990.rda |binary data/isea3h.rda |binary data/worldmap.rda |binary inst/doc/FRK_intro.pdf |binary inst/doc/FRK_non-Gaussian.pdf |binary man/SRE.Rd | 14 +++++++------- 13 files changed, 31 insertions(+), 34 deletions(-)
Title: Decorrelated Local Linear Estimator
Description: Implementation of the Decorrelated Local Linear estimator proposed
in <arxiv:1907.12732>. It constructs the confidence interval for the derivative
of the function of interest under the high-dimensional sparse additive model.
Author: Wei Yuan, Zhenyu Wang, Zijian Guo, Cun-Hui Zhang
Maintainer: Zijian Guo <zijguo@stat.rutgers.edu>
Diff between DLL versions 0.1.0 dated 2022-02-14 and 1.0.0 dated 2022-02-18
DESCRIPTION | 11 +++++++---- MD5 | 6 +++--- R/main.R | 19 +++++++++++++------ README.md | 13 ++++--------- 4 files changed, 27 insertions(+), 22 deletions(-)
Title: Calculates Disproportionate Impact When Binary Success Data are
Disaggregated by Subgroups
Description: Implements methods for calculating disproportionate impact: the percentage point gap, proportionality index, and the 80% index.
California Community Colleges Chancellor's Office (2017). Percentage Point Gap Method. <https://www.cccco.edu/-/media/CCCCO-Website/About-Us/Divisions/Digital-Innovation-and-Infrastructure/Research/Files/PercentagePointGapMethod2017.ashx>.
California Community Colleges Chancellor's Office (2014). Guidelines for Measuring Disproportionate Impact in Equity Plans. <https://www.cccco.edu/-/media/CCCCO-Website/Files/DII/guidelines-for-measuring-disproportionate-impact-in-equity-plans-tfa-ada.pdf>.
Author: Vinh Nguyen [aut, cre]
Maintainer: Vinh Nguyen <nguyenvq714@gmail.com>
Diff between DisImpact versions 0.0.15 dated 2021-09-02 and 0.0.16 dated 2022-02-18
DESCRIPTION | 6 MD5 | 27 + NAMESPACE | 1 NEWS | 4 R/data_ssm_cohort.R |only R/di_iterate_on_long.R |only README.md | 1 build/vignette.rds |binary data/ssm_cohort.rda |only inst/doc/DI-On-Long-Summarized-Data.R |only inst/doc/DI-On-Long-Summarized-Data.Rmd |only inst/doc/DI-On-Long-Summarized-Data.html |only inst/doc/Intersectionality.html | 212 ++++++-------- inst/doc/Multi-Ethnicity.html | 27 - inst/doc/Scaling-DI-Calculations.html | 458 +++++++++++++++---------------- inst/doc/Tutorial.html | 57 +-- man/di_iterate_on_long.Rd |only man/ssm_cohort.Rd |only vignettes/DI-On-Long-Summarized-Data.Rmd |only 19 files changed, 398 insertions(+), 395 deletions(-)
Title: Quantitative Support of Decision Making under Uncertainty
Description: Supporting the quantitative analysis of binary welfare based
decision making processes using Monte Carlo simulations. Decision support
is given on two levels: (i) The actual decision level is to choose between
two alternatives under probabilistic uncertainty. This package calculates
the optimal decision based on maximizing expected welfare. (ii) The meta
decision level is to allocate resources to reduce the uncertainty in the
underlying decision problem, i.e to increase the current information to
improve the actual decision making process. This problem is dealt with
using the Value of Information Analysis. The Expected Value of
Information for arbitrary prospective estimates can be calculated as
well as Individual Expected Value of Perfect Information.
The probabilistic calculations are done via Monte Carlo
simulations. This Monte Carlo functionality can be used on its own.
Author: Eike Luedeling [cre, aut] (University of Bonn),
Lutz Goehring [aut] (ICRAF and Lutz Goehring Consulting),
Katja Schiffers [aut] (University of Bonn),
Cory Whitney [aut] (University of Bonn),
Eduardo Fernandez [aut] (University of Bonn)
Maintainer: Eike Luedeling <eike@eikeluedeling.com>
Diff between decisionSupport versions 1.109 dated 2021-11-19 and 1.110 dated 2022-02-18
DESCRIPTION | 8 +- MD5 | 12 +-- R/decisionSupport-package.R | 10 +- build/partial.rdb |binary inst/doc/example_decision_function.html | 18 ++-- inst/doc/wildfire_example.html | 121 ++++++++++++++++---------------- man/decisionSupport-package.Rd | 10 +- 7 files changed, 94 insertions(+), 85 deletions(-)
More information about decisionSupport at CRAN
Permanent link
Title: Manual Tours, Manual Control of Dynamic Projections of Numeric
Multivariate Data
Description: Data visualization tours animates linear projection
of multivariate data as its basis (ie. orientation) changes. The 'spinifex'
packages generates paths for manual tours by manipulating the contribution of
a single variable at a time Cook & Buja (1997)
<doi:10.1080/10618600.1997.10474754>. Other types of tours, such as grand
(random walk) and guided (optimizing some objective function) are available
in the 'tourr' package Wickham et al. <doi:10.18637/jss.v040.i02>.
'spinifex' builds on 'tourr' and can render tours with 'gganimate' and
'plotly' graphics, and allows for exporting as an .html widget and as an .gif,
respectively. This work is fully discussed in Spyrison & Cook (2020)
<doi:10.32614/RJ-2020-027>.
Author: Nicholas Spyrison [aut, cre] (<https://orcid.org/0000-0002-8417-0212>),
Dianne Cook [aut, ths] (<https://orcid.org/0000-0002-3813-7155>)
Maintainer: Nicholas Spyrison <spyrison@gmail.com>
Diff between spinifex versions 0.3.3 dated 2022-02-01 and 0.3.4 dated 2022-02-18
DESCRIPTION | 6 MD5 | 63 ++++--- NAMESPACE | 1 NEWS.md | 43 +++-- R/0_util.r | 172 ++++++++++++-------- R/2_ggproto_visualize.r | 163 ++++++++++--------- R/zDepricated_2_render.r | 8 R/zDepricated_3_visualize.r | 23 +- README.md | 4 build/partial.rdb |binary inst/WORDLIST | 10 + inst/doc/getting_started_with_spinifex.R | 132 ++++++++++++---- inst/doc/getting_started_with_spinifex.Rmd | 157 ++++++++++++------- inst/doc/getting_started_with_spinifex.html | 187 +++++++++++----------- inst/doc/ggproto_api.R | 213 +++++++++++++++++--------- inst/doc/ggproto_api.Rmd | 155 ++++++++++++++---- inst/doc/ggproto_api.html | 170 +++++++++++--------- inst/shiny_apps/radial_tour/ui.R | 6 man/draw_basis.Rd | 10 - man/filmstrip.Rd | 4 man/is_any_layer_class.Rd |only man/proto_basis.Rd | 12 - man/proto_text.Rd | 2 man/render_.Rd | 8 man/theme_spinifex.Rd | 3 man/view_manip_space.Rd | 18 -- tests/testthat/test-zDepricated_3_visualize.r | 13 - vignettes/getting_started_with_spinifex.Rmd | 157 ++++++++++++------- vignettes/ggproto_api.Rmd | 155 ++++++++++++++---- vignettes/gt_penguins.gif |only vignettes/holes_penguins.gif |only vignettes/mt_penguins.gif |only vignettes/proto_facet_penguins.gif |only vignettes/proto_gt_penguins.gif |only vignettes/proto_guided1d_interop_penguins.gif |only vignettes/proto_guided1d_penguins.gif |only vignettes/proto_mt_penguins.gif |only 37 files changed, 1200 insertions(+), 695 deletions(-)