Title: Confidence Intervals
Description: Calculates classic and/or bootstrap confidence intervals for
many parameters such as the population mean, variance, interquartile
range (IQR), median absolute deviation (MAD), skewness, kurtosis,
Cramer's V, odds ratio, R-squared, quantiles (incl. median),
proportions, different types of correlation measures, difference in
means, quantiles and medians. Many of the classic confidence intervals
are described in Smithson, M. (2003, ISBN: 978-0761924999). Bootstrap
confidence intervals are calculated with the R package 'boot'. Both
one- and two-sided intervals are supported.
Author: Michael Mayer [aut, cre]
Maintainer: Michael Mayer <mayermichael79@gmail.com>
Diff between confintr versions 0.2.0 dated 2022-09-29 and 1.0.0 dated 2023-04-15
confintr-0.2.0/confintr/R/ci_IQR.R |only confintr-0.2.0/confintr/R/ci_boot.R |only confintr-0.2.0/confintr/R/ci_chisq_ncp.R |only confintr-0.2.0/confintr/R/ci_f_ncp.R |only confintr-0.2.0/confintr/R/ci_kurtosis.R |only confintr-0.2.0/confintr/R/ci_mad.R |only confintr-0.2.0/confintr/R/ci_mean.R |only confintr-0.2.0/confintr/R/ci_mean_diff.R |only confintr-0.2.0/confintr/R/ci_median.R |only confintr-0.2.0/confintr/R/ci_median_diff.R |only confintr-0.2.0/confintr/R/ci_quantile.R |only confintr-0.2.0/confintr/R/ci_quantile_diff.R |only confintr-0.2.0/confintr/R/ci_sd.R |only confintr-0.2.0/confintr/R/ci_skewness.R |only confintr-0.2.0/confintr/R/ci_var.R |only confintr-0.2.0/confintr/R/cramersv.R |only confintr-0.2.0/confintr/R/internal_helpers.R |only confintr-0.2.0/confintr/R/is_cint.R |only confintr-0.2.0/confintr/R/moments.R |only confintr-0.2.0/confintr/R/oddsratio.R |only confintr-0.2.0/confintr/R/print_cint.R |only confintr-0.2.0/confintr/man/moments.Rd |only confintr-0.2.0/confintr/tests/testthat/test-boot-only.R |only confintr-0.2.0/confintr/tests/testthat/test-cor.R |only confintr-0.2.0/confintr/tests/testthat/test-meandiff.R |only confintr-0.2.0/confintr/tests/testthat/test-noncentral.R |only confintr-0.2.0/confintr/tests/testthat/test-or.R |only confintr-0.2.0/confintr/tests/testthat/test-other.R |only confintr-0.2.0/confintr/tests/testthat/test-univariate.R |only confintr-1.0.0/confintr/DESCRIPTION | 8 confintr-1.0.0/confintr/MD5 | 131 +- confintr-1.0.0/confintr/NAMESPACE | 22 confintr-1.0.0/confintr/NEWS.md | 93 + confintr-1.0.0/confintr/R/ci_cor.R | 96 + confintr-1.0.0/confintr/R/ci_cramersv.R | 282 ++++- confintr-1.0.0/confintr/R/ci_location_shift.R |only confintr-1.0.0/confintr/R/ci_measures_of_location.R |only confintr-1.0.0/confintr/R/ci_measures_of_scale.R |only confintr-1.0.0/confintr/R/ci_oddsratio.R | 95 + confintr-1.0.0/confintr/R/ci_proportion.R | 215 ++-- confintr-1.0.0/confintr/R/ci_rsquared.R | 191 ++- confintr-1.0.0/confintr/R/ci_skew_and_kurtosis.R |only confintr-1.0.0/confintr/R/standard_errors.R | 27 confintr-1.0.0/confintr/R/utils_boot.R |only confintr-1.0.0/confintr/R/utils_general.R |only confintr-1.0.0/confintr/README.md | 253 ++-- confintr-1.0.0/confintr/build/vignette.rds |binary confintr-1.0.0/confintr/inst/doc/confintr.R | 11 confintr-1.0.0/confintr/inst/doc/confintr.Rmd | 226 +--- confintr-1.0.0/confintr/inst/doc/confintr.html | 533 ++++------ confintr-1.0.0/confintr/man/ci_IQR.Rd | 43 confintr-1.0.0/confintr/man/ci_boot.Rd | 17 confintr-1.0.0/confintr/man/ci_chisq_ncp.Rd | 58 - confintr-1.0.0/confintr/man/ci_cor.Rd | 50 confintr-1.0.0/confintr/man/ci_cramersv.Rd | 77 - confintr-1.0.0/confintr/man/ci_f_ncp.Rd | 43 confintr-1.0.0/confintr/man/ci_kurtosis.Rd | 49 confintr-1.0.0/confintr/man/ci_mad.Rd | 46 confintr-1.0.0/confintr/man/ci_mean.Rd | 42 confintr-1.0.0/confintr/man/ci_mean_diff.Rd | 56 - confintr-1.0.0/confintr/man/ci_median.Rd | 33 confintr-1.0.0/confintr/man/ci_median_diff.Rd | 34 confintr-1.0.0/confintr/man/ci_oddsratio.Rd | 25 confintr-1.0.0/confintr/man/ci_proportion.Rd | 45 confintr-1.0.0/confintr/man/ci_quantile.Rd | 47 confintr-1.0.0/confintr/man/ci_quantile_diff.Rd | 47 confintr-1.0.0/confintr/man/ci_rsquared.Rd | 39 confintr-1.0.0/confintr/man/ci_sd.Rd | 38 confintr-1.0.0/confintr/man/ci_skewness.Rd | 47 confintr-1.0.0/confintr/man/ci_var.Rd | 44 confintr-1.0.0/confintr/man/cramersv.Rd | 18 confintr-1.0.0/confintr/man/is.cint.Rd | 5 confintr-1.0.0/confintr/man/kurtosis.Rd |only confintr-1.0.0/confintr/man/moment.Rd |only confintr-1.0.0/confintr/man/oddsratio.Rd | 12 confintr-1.0.0/confintr/man/print.cint.Rd | 10 confintr-1.0.0/confintr/man/se.Rd | 13 confintr-1.0.0/confintr/man/skewness.Rd |only confintr-1.0.0/confintr/tests/testthat/test-ci_cor.R |only confintr-1.0.0/confintr/tests/testthat/test-ci_location_shift.R |only confintr-1.0.0/confintr/tests/testthat/test-ci_measures_of_location.R |only confintr-1.0.0/confintr/tests/testthat/test-ci_measures_of_scale.R |only confintr-1.0.0/confintr/tests/testthat/test-ci_oddsratio.R |only confintr-1.0.0/confintr/tests/testthat/test-ci_proportion.R |only confintr-1.0.0/confintr/tests/testthat/test-ci_rsquared.R |only confintr-1.0.0/confintr/tests/testthat/test-ci_skew_and_kurtosis.R |only confintr-1.0.0/confintr/tests/testthat/test-cramersv.R | 124 ++ confintr-1.0.0/confintr/tests/testthat/test-standard-errors.R |only confintr-1.0.0/confintr/tests/testthat/test-utils_boot.R |only confintr-1.0.0/confintr/tests/testthat/test-utils_general.R |only confintr-1.0.0/confintr/vignettes/confintr.Rmd | 226 +--- 91 files changed, 1957 insertions(+), 1514 deletions(-)
Title: Wrapper Functions Collection Used in Data Pipelines
Description: The goal of this package is to provide wrapper functions in the
data cleaning and cleansing processes. These function helps in messages and
interaction with the user, keep track of information in pipelines, help in
the wrangling, munging, assessment and visualization of data frame-like
material.
Author: Guillaume Fabre [aut, cre],
Maelstrom-Research [fnd]
Maintainer: Guillaume Fabre <guijoseph.fabre@gmail.com>
Diff between fabR versions 1.1.0.1003 dated 2023-03-09 and 1.1.1 dated 2023-04-15
fabR-1.1.0.1003/fabR/inst/WORDLIST |only fabR-1.1.1/fabR/DESCRIPTION | 11 fabR-1.1.1/fabR/MD5 | 103 fabR-1.1.1/fabR/NAMESPACE | 99 fabR-1.1.1/fabR/R/00-utils.R | 1562 ++++++------- fabR-1.1.1/fabR/R/01-file_index.R | 605 ++--- fabR-1.1.1/fabR/R/02-dates.R | 675 +++-- fabR-1.1.1/fabR/R/03-viz.R | 2938 ++++++++++++-------------- fabR-1.1.1/fabR/R/04-check_table_values.R | 641 +++-- fabR-1.1.1/fabR/R/fabR-package.R | 12 fabR-1.1.1/fabR/README.md | 70 fabR-1.1.1/fabR/build/vignette.rds |binary fabR-1.1.1/fabR/inst/doc/fabR-vignette.R | 28 fabR-1.1.1/fabR/inst/doc/fabR-vignette.Rmd | 88 fabR-1.1.1/fabR/inst/doc/fabR-vignette.html | 772 +++--- fabR-1.1.1/fabR/man/add_index.Rd | 82 fabR-1.1.1/fabR/man/as_any_boolean.Rd | 88 fabR-1.1.1/fabR/man/as_any_date.Rd | 158 - fabR-1.1.1/fabR/man/as_any_symbol.Rd | 54 fabR-1.1.1/fabR/man/collect_roxygen.Rd | 66 fabR-1.1.1/fabR/man/fabR-package.Rd | 56 fabR-1.1.1/fabR/man/fabR_help.Rd | 50 fabR-1.1.1/fabR/man/file_index_create.Rd | 86 fabR-1.1.1/fabR/man/file_index_read.Rd | 148 - fabR-1.1.1/fabR/man/file_index_search.Rd | 110 fabR-1.1.1/fabR/man/get_all_na_cols.Rd | 68 fabR-1.1.1/fabR/man/get_all_na_rows.Rd | 75 fabR-1.1.1/fabR/man/get_duplicated_cols.Rd | 68 fabR-1.1.1/fabR/man/get_duplicated_rows.Rd | 78 fabR-1.1.1/fabR/man/get_path_list.Rd | 78 fabR-1.1.1/fabR/man/get_unique_value_cols.Rd | 66 fabR-1.1.1/fabR/man/guess_date_format.Rd | 172 - fabR-1.1.1/fabR/man/make_name_list.Rd | 119 - fabR-1.1.1/fabR/man/message_on_prompt.Rd | 56 fabR-1.1.1/fabR/man/parceval.Rd | 144 - fabR-1.1.1/fabR/man/plot_bar.Rd | 136 - fabR-1.1.1/fabR/man/plot_box.Rd | 136 - fabR-1.1.1/fabR/man/plot_date.Rd | 164 - fabR-1.1.1/fabR/man/plot_density.Rd | 136 - fabR-1.1.1/fabR/man/plot_histogram.Rd | 136 - fabR-1.1.1/fabR/man/plot_main_word.Rd | 146 - fabR-1.1.1/fabR/man/plot_pie.Rd | 136 - fabR-1.1.1/fabR/man/plot_pie_valid_value.Rd | 146 - fabR-1.1.1/fabR/man/read_csv_any_formats.Rd | 53 fabR-1.1.1/fabR/man/read_excel_allsheets.Rd | 66 fabR-1.1.1/fabR/man/silently_run.Rd | 66 fabR-1.1.1/fabR/man/summary_category.Rd | 140 - fabR-1.1.1/fabR/man/summary_numerical.Rd | 140 - fabR-1.1.1/fabR/man/summary_text.Rd | 140 - fabR-1.1.1/fabR/man/template_visual_report.Rd | 60 fabR-1.1.1/fabR/man/which_any_date.Rd | 122 - fabR-1.1.1/fabR/man/write_excel_allsheets.Rd | 72 fabR-1.1.1/fabR/vignettes/fabR-vignette.Rmd | 88 53 files changed, 5814 insertions(+), 5695 deletions(-)
Title: Fast Kernel Sums
Description: Implements the method of Hofmeyr, D.P. (2021) <DOI:10.1109/TPAMI.2019.2930501> for fast evaluation of univariate kernel smoothers based on recursive computations.
Applications to the basic problems of density and regression function estimation are provided, as well as some projection pursuit methods
for which the objective is based on non-parametric functionals of the projected density, or conditional density of a response given projected
covariates.
The package is accompanied by an instructive paper in the Journal of Statistical Software <doi:10.18637/jss.v101.i03>.
Author: David P. Hofmeyr
Maintainer: David P. Hofmeyr <dhofmeyr@sun.ac.za>
Diff between FKSUM versions 1.0.0 dated 2022-01-27 and 1.0.1 dated 2023-04-15
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- build/partial.rdb |binary man/fk_regression.Rd | 2 +- src/mdh.cpp | 10 +++++----- 5 files changed, 13 insertions(+), 13 deletions(-)
Title: Operating on Integer-Bounded Intervals
Description: Manipulate integer-bounded intervals including finding overlaps, piling and merging.
Author: Daniel Greene
Maintainer: Daniel Greene <dg333@cam.ac.uk>
Diff between IntervalSurgeon versions 1.1 dated 2021-02-15 and 1.2 dated 2023-04-15
DESCRIPTION | 11 MD5 | 21 - NAMESPACE | 3 R/RcppExports.R | 38 +- R/functions.R | 27 + build/partial.rdb |binary build/vignette.rds |binary inst/doc/intro.R | 212 +++++++------- inst/doc/intro.html | 654 +++++++++++++++++++++++++++++++--------------- man/intersected.Rd | 8 man/proportion_overlap.Rd |only src/RcppExports.cpp | 5 12 files changed, 630 insertions(+), 349 deletions(-)
More information about IntervalSurgeon at CRAN
Permanent link
Title: R and C/C++ Wrappers to Run the Leiden find_partition() Function
Description: An R to C/C++ interface that runs the Leiden community
detection algorithm to find a basic partition (). It runs the
equivalent of the 'leidenalg' find_partition() function, which is
given in the 'leidenalg' distribution file
'leiden/src/functions.py'. This package includes the
required source code files from the official 'leidenalg'
distribution and functions from the R 'igraph'
package. The 'leidenalg' distribution is available from
<https://github.com/vtraag/leidenalg/>
and the R 'igraph' package is available from
<https://igraph.org/r/>.
The Leiden algorithm is described in the article by
Traag et al. (2019) <doi:10.1038/s41598-019-41695-z>.
Author: Brent Ewing [aut, cre],
Vincent Traag [ctb],
Gabor Csardi [ctb],
Tamas Nepusz [ctb],
Szabolcs Horvat [ctb],
Fabio Zanini [ctb]
Maintainer: Brent Ewing <bge@uw.edu>
Diff between leidenbase versions 0.1.17 dated 2023-04-12 and 0.1.18 dated 2023-04-15
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- configure | 18 +++++++++--------- configure.ac | 2 +- configure.win | 18 +++++++++--------- src/leidenFindPartitionR2C.cpp | 13 ++++++++++++- 6 files changed, 39 insertions(+), 28 deletions(-)
Title: Multilevel Joint Modelling Multiple Imputation
Description: Similarly to package 'pan', 'jomo' is a package for multilevel joint modelling multiple imputation (Carpenter and Kenward, 2013) <doi:10.1002/9781119942283>.
Novel aspects of 'jomo' are the possibility of handling binary and categorical data through latent normal variables, the option to use cluster-specific covariance matrices and to impute compatibly with the substantive model.
Author: Matteo Quartagno, James Carpenter
Maintainer: Matteo Quartagno <m.quartagno@ucl.ac.uk>
Diff between jomo versions 2.7-5 dated 2023-03-27 and 2.7-6 dated 2023-04-15
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/jomo.clmm.MCMCchain.R | 1 + R/jomo.clmm.R | 1 + R/jomo.polr.MCMCchain.R | 1 + R/jomo.polr.R | 3 ++- 6 files changed, 14 insertions(+), 10 deletions(-)
Title: Select and Download Climate Data from 'DWD' (German Weather
Service)
Description: Handle climate data from the 'DWD' ('Deutscher Wetterdienst', see
<https://www.dwd.de/EN/climate_environment/cdc/cdc_node_en.html> for more information).
Choose observational time series from meteorological stations with 'selectDWD()'.
Find raster data from radar and interpolation according to <https://bookdown.org/brry/rdwd/raster-data.html>.
Download (multiple) data sets with progress bars and no re-downloads through 'dataDWD()'.
Read both tabular observational data and binary gridded datasets with 'readDWD()'.
Author: Berry Boessenkool
Maintainer: Berry Boessenkool <berry-b@gmx.de>
Diff between rdwd versions 1.6.0 dated 2022-05-30 and 1.7.1 dated 2023-04-15
rdwd-1.6.0/rdwd/NEWS |only rdwd-1.7.1/rdwd/DESCRIPTION | 13 rdwd-1.7.1/rdwd/MD5 | 84 ++--- rdwd-1.7.1/rdwd/NAMESPACE | 1 rdwd-1.7.1/rdwd/NEWS.md |only rdwd-1.7.1/rdwd/R/addBorders.R | 184 +++++------ rdwd-1.7.1/rdwd/R/app.R |only rdwd-1.7.1/rdwd/R/createIndex.R | 149 +++++---- rdwd-1.7.1/rdwd/R/dataDWD.R | 18 - rdwd-1.7.1/rdwd/R/findID.R | 7 rdwd-1.7.1/rdwd/R/index.R | 131 +++----- rdwd-1.7.1/rdwd/R/indexFTP.R | 9 rdwd-1.7.1/rdwd/R/nearbyStations.R | 2 rdwd-1.7.1/rdwd/R/readDWD.R | 91 ++++- rdwd-1.7.1/rdwd/R/readVars.R | 62 +-- rdwd-1.7.1/rdwd/R/runLocalTests.R | 208 +++++++----- rdwd-1.7.1/rdwd/R/selectDWD.R | 57 ++- rdwd-1.7.1/rdwd/R/updateIndexes.R | 11 rdwd-1.7.1/rdwd/README.md | 16 rdwd-1.7.1/rdwd/build/vignette.rds |binary rdwd-1.7.1/rdwd/data/datalist | 10 rdwd-1.7.1/rdwd/data/fileIndex.rda |binary rdwd-1.7.1/rdwd/data/formatIndex.rda |binary rdwd-1.7.1/rdwd/data/geoIndex.rda |binary rdwd-1.7.1/rdwd/data/gridIndex.rda |binary rdwd-1.7.1/rdwd/data/metaIndex.rda |binary rdwd-1.7.1/rdwd/inst/doc/rdwd.html | 562 +++++++++++++++++------------------ rdwd-1.7.1/rdwd/inst/shinyapps |only rdwd-1.7.1/rdwd/man/DEU.Rd | 6 rdwd-1.7.1/rdwd/man/EUR.Rd | 6 rdwd-1.7.1/rdwd/man/app.Rd |only rdwd-1.7.1/rdwd/man/createIndex.Rd | 4 rdwd-1.7.1/rdwd/man/dataDWD.Rd | 16 rdwd-1.7.1/rdwd/man/dwdparams.Rd | 2 rdwd-1.7.1/rdwd/man/findID.Rd | 14 rdwd-1.7.1/rdwd/man/index.Rd | 11 rdwd-1.7.1/rdwd/man/indexFTP.Rd | 6 rdwd-1.7.1/rdwd/man/readDWD.Rd | 10 rdwd-1.7.1/rdwd/man/readDWD.data.Rd | 13 rdwd-1.7.1/rdwd/man/readDWD.grib2.Rd | 7 rdwd-1.7.1/rdwd/man/readDWD.rklim.Rd | 11 rdwd-1.7.1/rdwd/man/readDWD.stand.Rd | 4 rdwd-1.7.1/rdwd/man/runLocalTests.Rd | 25 - rdwd-1.7.1/rdwd/man/selectDWD.Rd | 27 + rdwd-1.7.1/rdwd/man/updateIndexes.Rd | 6 45 files changed, 999 insertions(+), 784 deletions(-)
Title: A Handbook of Statistical Analyses Using R (3rd Edition)
Description: Functions, data sets, analyses and examples from the
third edition of the book
''A Handbook of Statistical Analyses Using R'' (Torsten Hothorn and Brian S.
Everitt, Chapman & Hall/CRC, 2014). The first chapter
of the book, which is entitled ''An Introduction to R'',
is completely included in this package, for all other chapters,
a vignette containing all data analyses is available. In addition,
Sweave source code for slides of selected chapters is included in
this package (see HSAUR3/inst/slides). The publishers web page is
'<http://www.crcpress.com/product/isbn/9781482204582>'.
Author: Torsten Hothorn and Brian S. Everitt
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between HSAUR3 versions 1.0-13 dated 2022-04-26 and 1.0-14 dated 2023-04-15
DESCRIPTION | 20 ++-- MD5 | 116 +++++++++++++------------- R/tools.R | 2 build/vignette.rds |binary data/BCG.rda |binary data/CYGOB1.rda |binary data/Lanza.rda |binary data/birthdeathrates.rda |binary data/bladdercancer.rda |binary data/epilepsy.rda |binary data/foster.rda |binary data/heptathlon.rda |binary data/meteo.rda |binary data/orallesions.rda |binary data/phosphate.rda |binary data/pistonrings.rda |binary data/planets.rda |binary data/plasma.rda |binary data/polyps.rda |binary data/rearrests.rda |binary data/roomwidth.rda |binary data/schizophrenia.rda |binary data/schizophrenia2.rda |binary data/smoking.rda |binary data/students.rda |binary data/suicides.rda |binary data/toothpaste.rda |binary data/voting.rda |binary data/water.rda |binary data/watervoles.rda |binary data/waves.rda |binary data/weightgain.rda |binary inst/NEWS | 4 inst/doc/Ch_analysing_longitudinal_dataI.pdf |binary inst/doc/Ch_analysing_longitudinal_dataII.pdf |binary inst/doc/Ch_analysis_of_variance.pdf |binary inst/doc/Ch_bayesian_inference.pdf |binary inst/doc/Ch_cluster_analysis.pdf |binary inst/doc/Ch_conditional_inference.pdf |binary inst/doc/Ch_density_estimation.pdf |binary inst/doc/Ch_errata.pdf |binary inst/doc/Ch_gam.pdf |binary inst/doc/Ch_graphical_display.R | 7 - inst/doc/Ch_graphical_display.Rnw | 9 -- inst/doc/Ch_graphical_display.pdf |binary inst/doc/Ch_introduction_to_R.pdf |binary inst/doc/Ch_logistic_regression_glm.pdf |binary inst/doc/Ch_meta_analysis.pdf |binary inst/doc/Ch_missing_values.pdf |binary inst/doc/Ch_multidimensional_scaling.pdf |binary inst/doc/Ch_multiple_linear_regression.pdf |binary inst/doc/Ch_principal_components_analysis.pdf |binary inst/doc/Ch_quantile_regression.pdf |binary inst/doc/Ch_recursive_partitioning.pdf |binary inst/doc/Ch_simple_inference.pdf |binary inst/doc/Ch_simultaneous_inference.pdf |binary inst/doc/Ch_survival_analysis.pdf |binary vignettes/Ch_graphical_display.Rnw | 9 -- vignettes/tables/rec.tex | 2 59 files changed, 85 insertions(+), 84 deletions(-)
Title: Gene Analysis Toolkit
Description: An analysis toolkit focused on genes. It mainly includes five
features (search, convert, analysis, plot, and export).
The user just needs to input feature id ('entrez', 'symbol', 'ensembl' or
'uniprot') to retrieve feature information and 'PubMed'<https://pubmed.ncbi.nlm.nih.gov/> records,
to convert id types, to easily handle gene enrichment analysis and publication-level figures,
to plot group interaction and export results as sheets in one 'excel'
file to easily share and communicate with others.
Author: Yunze Liu [aut, cre]
Maintainer: Yunze Liu <jieandze1314@gmail.com>
Diff between genekitr versions 1.1.5 dated 2023-03-23 and 1.1.9 dated 2023-04-15
DESCRIPTION | 6 +-- MD5 | 22 +++++------ R/genInfo.R | 103 ++++++++++++++++++++++++++++++++------------------------ R/plotGSEA.R | 1 R/plotVenn.R | 18 ++++++++- R/transID.R | 26 +++++++++++--- R/transProbe.R | 2 - R/utilities.R | 73 +++++++++++++++++++++++++++------------ README.md | 18 ++++++++- man/genInfo.Rd | 17 ++++++++- man/plotVenn.Rd | 14 ++++++- man/transId.Rd | 14 +++++++ 12 files changed, 221 insertions(+), 93 deletions(-)
Title: Visualization of Viral Protein Sequence Diversity Dynamics
Description: To ease the visualization of outputs from Diversity Motif Analyser ('DiMA';
<https://github.com/PU-SDS/DiMA>). 'vDiveR' allows visualization of the diversity
motifs (index and its variants – major, minor and unique) for elucidation of
the underlying inherent dynamics. Please refer <https://vdiver-manual.readthedocs.io/en/latest/>
for more information.
Author: Pendy Tok [aut, cre],
Li Chuin Chong [aut],
Evgenia Chikina [aut],
Yin Cheng Chen [aut],
Mohammad Asif Khan [aut]
Maintainer: Pendy Tok <pendytok0518@gmail.com>
Diff between vDiveR versions 1.0.0 dated 2023-01-23 and 1.1.0 dated 2023-04-15
vDiveR-1.0.0/vDiveR/R/plot_incidence.R |only vDiveR-1.0.0/vDiveR/data/JSONsample.rda |only vDiveR-1.0.0/vDiveR/man/JSONsample.Rd |only vDiveR-1.0.0/vDiveR/man/plot_incidence.Rd |only vDiveR-1.1.0/vDiveR/DESCRIPTION | 17 + vDiveR-1.1.0/vDiveR/MD5 | 51 +++-- vDiveR-1.1.0/vDiveR/NAMESPACE | 14 + vDiveR-1.1.0/vDiveR/NEWS.md |only vDiveR-1.1.0/vDiveR/R/concat_conserved_kmer.R | 14 - vDiveR-1.1.0/vDiveR/R/json2csv.R | 18 - vDiveR-1.1.0/vDiveR/R/metadata_extraction.R |only vDiveR-1.1.0/vDiveR/R/plot_conservationLevel.R | 24 +- vDiveR-1.1.0/vDiveR/R/plot_dynamics_protein.R | 14 - vDiveR-1.1.0/vDiveR/R/plot_entropy.R | 182 +++++++++---------- vDiveR-1.1.0/vDiveR/R/plot_time.R |only vDiveR-1.1.0/vDiveR/R/plot_worldmap.R |only vDiveR-1.1.0/vDiveR/R/sample_data.R | 14 + vDiveR-1.1.0/vDiveR/data/JSON_sample.rda |only vDiveR-1.1.0/vDiveR/data/metadata.rda |only vDiveR-1.1.0/vDiveR/inst |only vDiveR-1.1.0/vDiveR/man/JSON_sample.Rd |only vDiveR-1.1.0/vDiveR/man/concat_conserved_kmer.Rd | 72 +++---- vDiveR-1.1.0/vDiveR/man/extract_from_GISAID.Rd |only vDiveR-1.1.0/vDiveR/man/extract_from_NCBI.Rd |only vDiveR-1.1.0/vDiveR/man/json2csv.Rd | 12 - vDiveR-1.1.0/vDiveR/man/metadata.Rd |only vDiveR-1.1.0/vDiveR/man/metadata_extraction.Rd |only vDiveR-1.1.0/vDiveR/man/plot_conservationLevel.Rd | 90 ++++----- vDiveR-1.1.0/vDiveR/man/plot_dynamics_protein.Rd | 76 +++---- vDiveR-1.1.0/vDiveR/man/plot_entropy.Rd | 19 + vDiveR-1.1.0/vDiveR/man/plot_time.Rd |only vDiveR-1.1.0/vDiveR/man/plot_worldmap.Rd |only vDiveR-1.1.0/vDiveR/man/vDiveR-package.Rd | 44 ++-- vDiveR-1.1.0/vDiveR/tests/testthat/test-concat-seq.R | 4 vDiveR-1.1.0/vDiveR/tests/testthat/test-json2csv.R | 8 35 files changed, 360 insertions(+), 313 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-03-01 0.4.6
2021-06-10 0.4.5
2021-04-13 0.4.4
2021-04-08 0.4.3
Title: A Modular Platform for Reproducible Modeling of Species Niches
and Distributions
Description: The 'shiny' application Wallace is a modular platform for
reproducible modeling of species niches and distributions. Wallace
guides users through a complete analysis, from the acquisition of species
occurrence and environmental data to visualizing model predictions on an
interactive map, thus bundling complex workflows into a single,
streamlined interface. An extensive vignette, which guides users through
most package functionality can be found on the package's GitHub Pages
website: <https://wallaceecomod.github.io/wallace/articles/tutorial-v2.html>.
Author: Jamie M. Kass [aut],
Gonzalo E. Pinilla-Buitrago [aut, cre],
Andrea Paz [aut],
Bethany A. Johnson [aut],
Valentina Grisales-Betancur [aut],
Dean Attali [aut],
Matthew E. Aiello-Lammens [aut],
Cory Merow [aut],
Mary E. Blair [aut],
Robert P. Anderson [...truncated...]
Maintainer: Gonzalo E. Pinilla-Buitrago <gpinillabuitrago@gradcenter.cuny.edu>
Diff between wallace versions 2.0.4 dated 2023-03-14 and 2.0.5 dated 2023-04-15
DESCRIPTION | 8 +- MD5 | 96 +++++++++++++++---------------- NEWS.md | 6 + R/poccs_thinOccs.R | 2 README.md | 4 - inst/CITATION | 2 inst/shiny/Rmd/gtext_envs.Rmd | 12 +-- inst/shiny/Rmd/gtext_espace.Rmd | 2 inst/shiny/Rmd/gtext_model.Rmd | 24 +++---- inst/shiny/Rmd/gtext_occs.Rmd | 6 - inst/shiny/Rmd/gtext_part.Rmd | 4 - inst/shiny/Rmd/gtext_penvs.Rmd | 24 +++---- inst/shiny/Rmd/gtext_poccs.Rmd | 2 inst/shiny/Rmd/gtext_rep.Rmd | 16 ++--- inst/shiny/Rmd/gtext_vis.Rmd | 4 - inst/shiny/Rmd/gtext_xfer.Rmd | 4 - inst/shiny/Rmd/text_about.Rmd | 24 +++---- inst/shiny/Rmd/text_how_to_use.Rmd | 16 ++--- inst/shiny/Rmd/text_intro_tab.Rmd | 2 inst/shiny/Rmd/userReport_intro.Rmd | 2 inst/shiny/modules/envs_ecoclimate.md | 10 +-- inst/shiny/modules/envs_worldclim.md | 6 - inst/shiny/modules/espace_nicheOv.md | 12 +-- inst/shiny/modules/espace_occDens.md | 8 +- inst/shiny/modules/espace_pca.md | 12 +-- inst/shiny/modules/model_bioclim.md | 6 - inst/shiny/modules/model_maxent.md | 26 ++++---- inst/shiny/modules/occs_paleoDb.md | 4 - inst/shiny/modules/occs_queryDb.md | 12 +-- inst/shiny/modules/part_nonSpat.md | 6 - inst/shiny/modules/part_spat.md | 2 inst/shiny/modules/penvs_bgExtent.md | 20 +++--- inst/shiny/modules/penvs_drawBgExtent.md | 6 - inst/shiny/modules/poccs_removeByID.md | 2 inst/shiny/modules/poccs_selectOccs.md | 2 inst/shiny/modules/poccs_thinOccs.md | 14 ++-- inst/shiny/modules/rep_markdown.md | 16 ++--- inst/shiny/modules/rep_refPackages.md | 20 +++--- inst/shiny/modules/rep_rmms.md | 18 ++--- inst/shiny/modules/vis_bioclimPlot.md | 4 - inst/shiny/modules/vis_mapPreds.md | 12 +-- inst/shiny/modules/vis_maxentEvalPlot.md | 6 - inst/shiny/modules/vis_responsePlot.md | 2 inst/shiny/modules/xfer_area.md | 8 +- inst/shiny/modules/xfer_mess.md | 12 +-- inst/shiny/modules/xfer_time.md | 12 +-- inst/shiny/modules/xfer_user.md | 6 - man/poccs_thinOccs.Rd | 2 tests/testthat/test_envs_worldclim.R | 6 + 49 files changed, 272 insertions(+), 260 deletions(-)
Title: Utilities for Working with Google APIs
Description: Provides utilities for working with Google APIs
<https://developers.google.com/apis-explorer>. This includes
functions and classes for handling common credential types and for
preparing, executing, and processing HTTP requests.
Author: Jennifer Bryan [aut, cre] ,
Craig Citro [aut],
Hadley Wickham [aut] ,
Google Inc [cph],
Posit Software, PBC [cph, fnd]
Maintainer: Jennifer Bryan <jenny@posit.co>
Diff between gargle versions 1.3.0 dated 2023-01-30 and 1.4.0 dated 2023-04-15
gargle-1.3.0/gargle/R/compat-obj-type.R |only gargle-1.3.0/gargle/R/compat-purrr.R |only gargle-1.3.0/gargle/R/compat-types-check.R |only gargle-1.3.0/gargle/R/credential-function-registry.R |only gargle-1.3.0/gargle/R/field-mask.R |only gargle-1.3.0/gargle/R/gargle-api-key.R |only gargle-1.3.0/gargle/R/gargle-oauth-client.R |only gargle-1.3.0/gargle/R/gargle-oauth-endpoint.R |only gargle-1.3.0/gargle/R/request-develop.R |only gargle-1.3.0/gargle/R/request-make.R |only gargle-1.3.0/gargle/R/token-fetch.R |only gargle-1.3.0/gargle/tests/testthat/_snaps/credential-function-registry.md |only gargle-1.3.0/gargle/tests/testthat/_snaps/gargle-oauth-client.md |only gargle-1.3.0/gargle/tests/testthat/_snaps/gargle-oauth-endpoint.md |only gargle-1.3.0/gargle/tests/testthat/_snaps/request-develop.md |only gargle-1.3.0/gargle/tests/testthat/test-credential-function-registry.R |only gargle-1.3.0/gargle/tests/testthat/test-credentials-byo-oauth2.R |only gargle-1.3.0/gargle/tests/testthat/test-fetch.R |only gargle-1.3.0/gargle/tests/testthat/test-field-mask.R |only gargle-1.3.0/gargle/tests/testthat/test-gargle-oauth-client.R |only gargle-1.3.0/gargle/tests/testthat/test-gargle-oauth-endpoint.R |only gargle-1.3.0/gargle/tests/testthat/test-request-develop.R |only gargle-1.3.0/gargle/tests/testthat/test-request-make.R |only gargle-1.3.0/gargle/vignettes/articles |only gargle-1.4.0/gargle/DESCRIPTION | 20 gargle-1.4.0/gargle/MD5 | 203 ++-- gargle-1.4.0/gargle/NAMESPACE | 2 gargle-1.4.0/gargle/NEWS.md | 52 + gargle-1.4.0/gargle/R/AuthState-class.R | 4 gargle-1.4.0/gargle/R/Gargle-class.R | 28 gargle-1.4.0/gargle/R/cred_funs.R |only gargle-1.4.0/gargle/R/credentials_byo_oauth2.R | 57 - gargle-1.4.0/gargle/R/credentials_external_account.R | 2 gargle-1.4.0/gargle/R/credentials_gce.R | 184 ++- gargle-1.4.0/gargle/R/field_mask.R |only gargle-1.4.0/gargle/R/gargle-package.R | 46 gargle-1.4.0/gargle/R/gargle_api_key.R |only gargle-1.4.0/gargle/R/gargle_oauth_client.R |only gargle-1.4.0/gargle/R/gargle_oauth_endpoint.R |only gargle-1.4.0/gargle/R/import-standalone-obj-type.R |only gargle-1.4.0/gargle/R/import-standalone-purrr.R |only gargle-1.4.0/gargle/R/import-standalone-types-check.R |only gargle-1.4.0/gargle/R/oauth-cache.R | 35 gargle-1.4.0/gargle/R/oauth-init.R | 8 gargle-1.4.0/gargle/R/request_develop.R |only gargle-1.4.0/gargle/R/request_make.R |only gargle-1.4.0/gargle/R/roxygen-templates.R | 29 gargle-1.4.0/gargle/R/secret.R | 4 gargle-1.4.0/gargle/R/token-info.R | 8 gargle-1.4.0/gargle/R/token_fetch.R |only gargle-1.4.0/gargle/R/utils-ui.R | 138 +- gargle-1.4.0/gargle/R/utils.R | 34 gargle-1.4.0/gargle/README.md | 4 gargle-1.4.0/gargle/build/vignette.rds |binary gargle-1.4.0/gargle/inst/WORDLIST | 1 gargle-1.4.0/gargle/inst/doc/auth-from-web.R | 6 gargle-1.4.0/gargle/inst/doc/auth-from-web.Rmd | 77 - gargle-1.4.0/gargle/inst/doc/auth-from-web.html | 104 +- gargle-1.4.0/gargle/inst/doc/gargle-auth-in-client-package.R | 43 gargle-1.4.0/gargle/inst/doc/gargle-auth-in-client-package.Rmd | 154 ++- gargle-1.4.0/gargle/inst/doc/gargle-auth-in-client-package.html | 292 +++-- gargle-1.4.0/gargle/inst/doc/get-api-credentials.Rmd | 2 gargle-1.4.0/gargle/inst/doc/get-api-credentials.html | 2 gargle-1.4.0/gargle/inst/doc/how-gargle-gets-tokens.R | 30 gargle-1.4.0/gargle/inst/doc/how-gargle-gets-tokens.Rmd | 87 + gargle-1.4.0/gargle/inst/doc/how-gargle-gets-tokens.html | 137 +- gargle-1.4.0/gargle/inst/doc/non-interactive-auth.R | 50 gargle-1.4.0/gargle/inst/doc/non-interactive-auth.Rmd | 264 +++-- gargle-1.4.0/gargle/inst/doc/non-interactive-auth.html | 505 +++++----- gargle-1.4.0/gargle/inst/doc/troubleshooting.Rmd | 4 gargle-1.4.0/gargle/inst/doc/troubleshooting.html | 2 gargle-1.4.0/gargle/man/GceToken.Rd | 101 +- gargle-1.4.0/gargle/man/cred_funs.Rd | 2 gargle-1.4.0/gargle/man/credentials_byo_oauth2.Rd | 27 gargle-1.4.0/gargle/man/field_mask.Rd | 4 gargle-1.4.0/gargle/man/figures/lifecycle-superseded.svg | 2 gargle-1.4.0/gargle/man/gargle-package.Rd | 2 gargle-1.4.0/gargle/man/gargle_api_key.Rd | 2 gargle-1.4.0/gargle/man/gargle_client.Rd | 2 gargle-1.4.0/gargle/man/gargle_oauth_client_from_json.Rd | 2 gargle-1.4.0/gargle/man/gargle_options.Rd | 28 gargle-1.4.0/gargle/man/gce_access_token.Rd |only gargle-1.4.0/gargle/man/internal-assets.Rd | 2 gargle-1.4.0/gargle/man/oauth_app_from_json.Rd | 2 gargle-1.4.0/gargle/man/oauth_external_token.Rd | 4 gargle-1.4.0/gargle/man/request_develop.Rd | 2 gargle-1.4.0/gargle/man/request_make.Rd | 2 gargle-1.4.0/gargle/man/token-info.Rd | 2 gargle-1.4.0/gargle/man/token_fetch.Rd | 2 gargle-1.4.0/gargle/tests/testthat/_snaps/AuthState-class.md | 32 gargle-1.4.0/gargle/tests/testthat/_snaps/Gargle-class.md | 24 gargle-1.4.0/gargle/tests/testthat/_snaps/cred_funs.md |only gargle-1.4.0/gargle/tests/testthat/_snaps/credentials_byo_oauth2.md |only gargle-1.4.0/gargle/tests/testthat/_snaps/gargle_oauth_client.md |only gargle-1.4.0/gargle/tests/testthat/_snaps/gargle_oauth_endpoint.md |only gargle-1.4.0/gargle/tests/testthat/_snaps/oauth-cache.md | 24 gargle-1.4.0/gargle/tests/testthat/_snaps/oauth-init.md | 2 gargle-1.4.0/gargle/tests/testthat/_snaps/request_develop.md |only gargle-1.4.0/gargle/tests/testthat/_snaps/request_make.md |only gargle-1.4.0/gargle/tests/testthat/_snaps/request_retry.md | 13 gargle-1.4.0/gargle/tests/testthat/_snaps/roxygen-templates.md |only gargle-1.4.0/gargle/tests/testthat/_snaps/utils-ui.md | 125 ++ gargle-1.4.0/gargle/tests/testthat/helper.R | 16 gargle-1.4.0/gargle/tests/testthat/test-AuthState-class.R | 13 gargle-1.4.0/gargle/tests/testthat/test-Gargle-class.R | 12 gargle-1.4.0/gargle/tests/testthat/test-aaa.R | 2 gargle-1.4.0/gargle/tests/testthat/test-assets.R | 10 gargle-1.4.0/gargle/tests/testthat/test-cred_funs.R |only gargle-1.4.0/gargle/tests/testthat/test-credentials_app_default.R | 48 gargle-1.4.0/gargle/tests/testthat/test-credentials_byo_oauth2.R |only gargle-1.4.0/gargle/tests/testthat/test-field_mask.R |only gargle-1.4.0/gargle/tests/testthat/test-gargle_oauth_client.R |only gargle-1.4.0/gargle/tests/testthat/test-gargle_oauth_endpoint.R |only gargle-1.4.0/gargle/tests/testthat/test-inside-the-house.R | 2 gargle-1.4.0/gargle/tests/testthat/test-oauth-cache.R | 55 - 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Title: Simplified Statistics for PA 606
Description: Simplifies functions assess normality for bivariate and multivariate statistical techniques. Includes functions designed to replicate plots and tables that would result from similar calls in 'SPSS', including hst(), box(), qq(), tab(), cormat(), and residplot(). Also includes simplified formulae, such as mode(), scatter(), p.corr(), ow.anova(), and rm.anova().
Author: Burrel Vann Jr [aut, cre]
Maintainer: Burrel Vann Jr <bvannjr@sdsu.edu>
Diff between vannstats versions 1.3.1.30 dated 2023-01-31 and 1.3.4.14 dated 2023-04-15
DESCRIPTION | 8 +-- MD5 | 14 +++--- NAMESPACE | 1 R/crosstabs.R | 14 ++++-- R/ow.anova.R | 7 ++- R/qq.R | 120 +++++++++++++++++++++++++++++++++++++++++++++++++++++++--- R/z.calc.R | 4 - man/z.calc.Rd | 4 - 8 files changed, 146 insertions(+), 26 deletions(-)