Title: Download and Parse Public Data Released by B3 Exchange
Description: Download and parse public files released by B3 and convert them
into useful formats and data structures common to data analysis
practitioners.
Author: Wilson Freitas [aut, cre],
Marcelo Perlin [aut]
Maintainer: Wilson Freitas <wilson.freitas@gmail.com>
Diff between rb3 versions 0.0.7 dated 2022-12-14 and 0.0.8 dated 2023-03-05
DESCRIPTION | 15 MD5 | 38 NAMESPACE | 7 NEWS.md | 5 R/fields.R | 2 R/rb3-package.R | 2 R/scraper-company.R |only R/transmute.R | 5 README.md | 232 inst/CITATION | 31 inst/doc/B3-Indexes.html | 134 inst/doc/Fetching-historical-future-rates.html | 4 inst/doc/Fetching-historical-yield-curve.html | 6 man/company_cash_dividends_get.Rd |only man/company_info_get.Rd |only man/company_stock_dividends_get.Rd |only man/company_subscriptions_get.Rd |only man/figures/README-setup-1.png |binary tests/fixtures/NegociosBTB.yml | 9002 ++++++++++++++++++++++++- tests/testthat/setup.R | 2 tests/testthat/test-company.R |only tests/testthat/test-downloaders.R | 7 tests/testthat/test-indexes.R | 4 23 files changed, 9258 insertions(+), 238 deletions(-)
Title: Random Forest with Canonical Correlation Analysis
Description: Random Forest with Canonical Correlation Analysis (RFCCA) is a
random forest method for estimating the canonical correlations between two
sets of variables depending on the subject-related covariates. The trees are
built with a splitting rule specifically designed to partition the data to
maximize the canonical correlation heterogeneity between child nodes. The
method is described in Alakus et al. (2021) <doi:10.1093/bioinformatics/btab158>. RFCCA uses
'randomForestSRC' package (Ishwaran and Kogalur, 2020) by freezing at the
version 2.9.3. The custom splitting rule feature is utilised to apply the
proposed splitting rule.
Author: Cansu Alakus [aut, cre],
Denis Larocque [aut],
Aurelie Labbe [aut],
Hemant Ishwaran [ctb] ,
Udaya B. Kogalur [ctb]
Maintainer: Cansu Alakus <cansu.alakus@hec.ca>
Diff between RFCCA versions 1.0.9 dated 2022-04-19 and 1.0.10 dated 2023-03-05
DESCRIPTION | 8 MD5 | 38 +- NEWS.md | 4 R/global.significance.R | 2 R/plot.vimp.rfcca.R | 9 README.md | 2 build/vignette.rds |binary configure | 18 - configure.ac | 2 inst/CITATION | 6 inst/doc/RFCCA.html | 458 +++++++++++++++++++------------- inst/include/lapacke.h | 2 inst/include/lapacke/lapacke_nancheck.h | 2 man/global.significance.Rd | 2 man/plot.vimp.rfcca.Rd | 9 man/rfcca.Rd | 8 src/randomForestSRC.c | 38 +- src/randomForestSRC.h | 38 +- src/splitCustom.c | 2 src/splitCustom.h | 2 20 files changed, 374 insertions(+), 276 deletions(-)
Title: Unified Framework for Numerical Optimizers
Description: Provides a unified framework for numerical optimizers in R,
particularly for their inputs and outputs.
Author: Lennart Oelschlaeger [aut, cre]
,
Marius Ötting [ctb]
Maintainer: Lennart Oelschlaeger <oelschlaeger.lennart@gmail.com>
Diff between optimizeR versions 0.3.0 dated 2023-01-22 and 0.3.1 dated 2023-03-05
DESCRIPTION | 12 +- MD5 | 20 ++-- NEWS.md | 4 R/optimizer.R | 75 +++++++-------- R/package.R | 6 - R/utils.R | 8 - README.md | 31 ++---- man/define_optimizer.Rd | 16 +-- man/optimizeR.Rd | 2 man/validate_optimizer.Rd | 4 tests/testthat/test-optimizer.R | 197 +++++++++++++++++++++++++--------------- 11 files changed, 216 insertions(+), 159 deletions(-)
Title: Parallel Use of Statistical Packages in Teaching
Description: When teaching statistics, it can often be desirable to
uncouple the content from specific software packages. To ease such
efforts, the Rosetta Stats website (<https://rosettastats.com>) allows
comparing analyses in different packages. This package is the companion
to the Rosetta Stats website, aiming to provide functions that produce
output that is similar to output from other statistical packages, thereby
facilitating 'software-agnostic' teaching of statistics.
Author: Gjalt-Jorn Peters [aut, cre] ,
Peter Verboon [aut, ctb] ,
Ron Pat-El [ctb] ,
Melissa Gordon Wolf [ctb]
Maintainer: Gjalt-Jorn Peters <rosetta@opens.science>
Diff between rosetta versions 0.3.10 dated 2022-11-03 and 0.3.12 dated 2023-03-05
rosetta-0.3.10/rosetta/man/rosettaDataReduction.Rd |only rosetta-0.3.10/rosetta/tests/testthat/Rplots.pdf |only rosetta-0.3.12/rosetta/DESCRIPTION | 34 - rosetta-0.3.12/rosetta/MD5 | 28 rosetta-0.3.12/rosetta/R/dataReduction.R | 126 ++-- rosetta-0.3.12/rosetta/R/descr.R | 8 rosetta-0.3.12/rosetta/R/dlvPlot.R | 2 rosetta-0.3.12/rosetta/R/fanova.R | 290 +++++----- rosetta-0.3.12/rosetta/R/in_pkgdown_example.R |only rosetta-0.3.12/rosetta/R/logRegr.R | 6 rosetta-0.3.12/rosetta/R/opts.R | 9 rosetta-0.3.12/rosetta/inst/partials/_rosettaDataReduction_partial.Rmd | 69 +- rosetta-0.3.12/rosetta/man/dataReduction.Rd |only rosetta-0.3.12/rosetta/man/dlvPlot.Rd | 2 rosetta-0.3.12/rosetta/man/fanova.Rd | 19 rosetta-0.3.12/rosetta/man/rosettaDescr.Rd | 8 rosetta-0.3.12/rosetta/man/rosettaLogRegr.Rd | 6 17 files changed, 364 insertions(+), 243 deletions(-)
Title: Decentralized Unequivocality in Psychological Science
Description: The constructs used to study the human psychology have
many definitions and corresponding instructions for eliciting
and coding qualitative data pertaining to constructs' content and
for measuring the constructs. This plethora of definitions and
instructions necessitates unequivocal reference to specific
definitions and instructions in empirical and secondary research.
This package implements a human- and machine-readable standard for
specifying construct definitions and instructions for measurement
and qualitative research based on 'YAML'. This standard facilitates
systematic unequivocal reference to specific construct definitions
and corresponding instructions in a decentralized manner (i.e.
without requiring central curation; Peters (2020)
<doi:10.31234/osf.io/xebhn>).
Author: Gjalt-Jorn Peters [aut, cre, ctb]
,
Rik Crutzen [ctb]
Maintainer: Gjalt-Jorn Peters <psyverse@opens.science>
Diff between psyverse versions 0.2.4 dated 2022-11-22 and 0.2.6 dated 2023-03-05
DESCRIPTION | 10 - MD5 | 18 +-- R/generate_construct_overview.R | 11 + R/msg.R | 2 build/vignette.rds |binary inst/doc/decentralized-construct-taxonomies.html | 4 man/dct_from_spreadsheet.Rd | 98 ++++++++--------- man/dct_object_to_html.Rd | 106 +++++++++--------- man/read_spreadsheet.Rd | 130 +++++++++++------------ man/viewHTML.Rd | 58 +++++----- 10 files changed, 219 insertions(+), 218 deletions(-)
Title: Specify (Pre)Registrations and Export Them Human- And
Machine-Readably
Description: Preregistrations, or more generally, registrations, enable
explicit timestamped and (often but not necessarily publicly) frozen
documentation of plans and expectations as well as decisions and
justifications. In research, preregistrations are commonly used to
clearly document plans and facilitate justifications of deviations from
those plans, as well as decreasing the effects of publication bias by
enabling identification of research that was conducted but not published.
Like reporting guidelines, (pre)registration forms often have specific
structures that facilitate systematic reporting of important items. The
'preregr' package facilitates specifying (pre)registrations in R and
exporting them to a human-readable format (using R Markdown partials or
exporting to an 'HTML' file) as well as human-readable embedded data
(using 'JSON'), as well as importing such exported (pre)registration
specifications from such embedded 'JSON'.
Author: Gjalt-Jorn Peters [aut, cre] ,
Szilvia Zoergő [ctb] ,
Olmo den Akker [ctb] ,
Aleksandra Lazic [ctb] ,
Thomas Gueltzow [ctb]
Maintainer: Gjalt-Jorn Peters <preregr@opens.science>
Diff between preregr versions 0.2.5 dated 2022-08-22 and 0.2.8 dated 2023-03-05
preregr-0.2.5/preregr/inst/doc/preregr_intro.Rmd |only preregr-0.2.5/preregr/inst/doc/preregr_intro.html |only preregr-0.2.5/preregr/man/form_preregQE_v0_94.Rd |only preregr-0.2.5/preregr/vignettes/preregr_intro.Rmd |only preregr-0.2.8/preregr/DESCRIPTION | 23 - preregr-0.2.8/preregr/MD5 | 190 ++++---- preregr-0.2.8/preregr/R/form_create.R | 2 preregr-0.2.8/preregr/R/form_fromSpreadsheet.R | 13 preregr-0.2.8/preregr/R/form_to_rmd_template.R | 4 preregr-0.2.8/preregr/R/forms_that_are_included.R | 80 +++ preregr-0.2.8/preregr/R/heading.R | 4 preregr-0.2.8/preregr/R/msg.R | 2 preregr-0.2.8/preregr/R/opts.R | 3 preregr-0.2.8/preregr/R/prereg_initialize.R | 4 preregr-0.2.8/preregr/R/prereg_spec_to_pdf.R | 13 preregr-0.2.8/preregr/R/serialize_df.R | 11 preregr-0.2.8/preregr/R/verify_identifier_uniqueness.R |only preregr-0.2.8/preregr/README.md | 32 - preregr-0.2.8/preregr/build/vignette.rds |binary preregr-0.2.8/preregr/data/form_OSFqual1_v1.rda |binary preregr-0.2.8/preregr/data/form_inclDivAddon_v0_1.rda |only preregr-0.2.8/preregr/data/form_preregQE_v0_95.rda |only preregr-0.2.8/preregr/inst/doc/creating_form_from_spreadsheet.Rmd | 12 preregr-0.2.8/preregr/inst/doc/creating_form_from_spreadsheet.html | 125 ++--- preregr-0.2.8/preregr/inst/doc/creating_prereg_form.html | 199 ++++---- preregr-0.2.8/preregr/inst/doc/form_OSFprereg_v1.R | 15 preregr-0.2.8/preregr/inst/doc/form_OSFprereg_v1.Rmd | 14 preregr-0.2.8/preregr/inst/doc/form_OSFprereg_v1.html | 200 +++++--- preregr-0.2.8/preregr/inst/doc/form_OSFqual1_v1.R | 15 preregr-0.2.8/preregr/inst/doc/form_OSFqual1_v1.Rmd | 14 preregr-0.2.8/preregr/inst/doc/form_OSFqual1_v1.html | 214 +++++---- preregr-0.2.8/preregr/inst/doc/form_generalPurpose_v1.R | 15 preregr-0.2.8/preregr/inst/doc/form_generalPurpose_v1.Rmd | 14 preregr-0.2.8/preregr/inst/doc/form_generalPurpose_v1.html | 194 +++++--- preregr-0.2.8/preregr/inst/doc/form_generalPurpose_v1_1.R | 15 preregr-0.2.8/preregr/inst/doc/form_generalPurpose_v1_1.Rmd | 20 preregr-0.2.8/preregr/inst/doc/form_generalPurpose_v1_1.html | 196 +++++--- preregr-0.2.8/preregr/inst/doc/form_inclDivAddon_v0_1.R |only preregr-0.2.8/preregr/inst/doc/form_inclDivAddon_v0_1.Rmd |only preregr-0.2.8/preregr/inst/doc/form_inclDivAddon_v0_1.html |only preregr-0.2.8/preregr/inst/doc/form_inclSysRev_v0_92.R | 15 preregr-0.2.8/preregr/inst/doc/form_inclSysRev_v0_92.Rmd | 14 preregr-0.2.8/preregr/inst/doc/form_inclSysRev_v0_92.html | 207 +++++---- preregr-0.2.8/preregr/inst/doc/form_prereg2D_v1.R | 15 preregr-0.2.8/preregr/inst/doc/form_prereg2D_v1.Rmd | 14 preregr-0.2.8/preregr/inst/doc/form_prereg2D_v1.html | 202 +++++--- preregr-0.2.8/preregr/inst/doc/form_preregQE_v0_93.R | 15 preregr-0.2.8/preregr/inst/doc/form_preregQE_v0_93.Rmd | 14 preregr-0.2.8/preregr/inst/doc/form_preregQE_v0_93.html | 207 +++++---- preregr-0.2.8/preregr/inst/doc/form_preregQE_v0_94.R | 15 preregr-0.2.8/preregr/inst/doc/form_preregQE_v0_94.Rmd | 16 preregr-0.2.8/preregr/inst/doc/form_preregQE_v0_94.html | 213 +++++---- preregr-0.2.8/preregr/inst/doc/form_preregQE_v0_95.R |only preregr-0.2.8/preregr/inst/doc/form_preregQE_v0_95.Rmd |only preregr-0.2.8/preregr/inst/doc/form_preregQE_v0_95.html |only preregr-0.2.8/preregr/inst/doc/form_prpQuant_v1.R | 15 preregr-0.2.8/preregr/inst/doc/form_prpQuant_v1.Rmd | 14 preregr-0.2.8/preregr/inst/doc/form_prpQuant_v1.html | 228 ++++++---- preregr-0.2.8/preregr/inst/doc/importing_form_from_url.R | 4 preregr-0.2.8/preregr/inst/doc/importing_form_from_url.Rmd | 4 preregr-0.2.8/preregr/inst/doc/importing_form_from_url.html | 156 +++--- preregr-0.2.8/preregr/inst/doc/importing_pregistration_from_url.R | 2 preregr-0.2.8/preregr/inst/doc/importing_pregistration_from_url.Rmd | 2 preregr-0.2.8/preregr/inst/doc/importing_pregistration_from_url.html | 142 +++--- preregr-0.2.8/preregr/inst/doc/preregr.Rmd |only preregr-0.2.8/preregr/inst/doc/preregr.html |only preregr-0.2.8/preregr/inst/doc/rmd_template_from_form.Rmd | 2 preregr-0.2.8/preregr/inst/doc/rmd_template_from_form.html | 119 ++--- preregr-0.2.8/preregr/inst/doc/specifying_prereg_content.Rmd | 2 preregr-0.2.8/preregr/inst/doc/specifying_prereg_content.html | 142 +++--- preregr-0.2.8/preregr/inst/extdata/preregr-form_InclDivAddon_v0_1.xlsx |only preregr-0.2.8/preregr/inst/extdata/preregr-form_OSFqual1_v1.xlsx |binary preregr-0.2.8/preregr/inst/extdata/preregr-form_preregQE_v0_95.xlsx |only preregr-0.2.8/preregr/inst/partials/_preregr_form_clean_partial.Rmd | 2 preregr-0.2.8/preregr/inst/partials/_preregr_spec_full_partial.Rmd | 2 preregr-0.2.8/preregr/man/form_OSFprereg_v1.Rd | 69 +-- preregr-0.2.8/preregr/man/form_OSFqual1_v1.Rd | 45 + preregr-0.2.8/preregr/man/form_create.Rd | 124 ++--- preregr-0.2.8/preregr/man/form_fromSpreadsheet.Rd | 94 ++-- preregr-0.2.8/preregr/man/form_generalPurpose_v1_1.Rd | 58 +- preregr-0.2.8/preregr/man/form_inclDivAddon_v0_1.Rd |only preregr-0.2.8/preregr/man/form_inclSysRev_v0_92.Rd | 55 +- preregr-0.2.8/preregr/man/form_prereg2D_v1.Rd | 35 - preregr-0.2.8/preregr/man/form_preregQE_v0_95.Rd |only preregr-0.2.8/preregr/man/form_prpQuant_v1.Rd | 51 +- preregr-0.2.8/preregr/man/heading.Rd | 70 +-- preregr-0.2.8/preregr/man/prereg_initialize.Rd | 70 +-- preregr-0.2.8/preregr/man/prereg_spec_to_pdf.Rd | 11 preregr-0.2.8/preregr/man/preregr-package.Rd | 65 +- preregr-0.2.8/preregr/man/rmd_templates.Rd | 178 +++---- preregr-0.2.8/preregr/vignettes/creating_form_from_spreadsheet.Rmd | 12 preregr-0.2.8/preregr/vignettes/form_OSFprereg_v1.Rmd | 14 preregr-0.2.8/preregr/vignettes/form_OSFqual1_v1.Rmd | 14 preregr-0.2.8/preregr/vignettes/form_generalPurpose_v1.Rmd | 14 preregr-0.2.8/preregr/vignettes/form_generalPurpose_v1_1.Rmd | 20 preregr-0.2.8/preregr/vignettes/form_inclDivAddon_v0_1.Rmd |only preregr-0.2.8/preregr/vignettes/form_inclSysRev_v0_92.Rmd | 14 preregr-0.2.8/preregr/vignettes/form_prereg2D_v1.Rmd | 14 preregr-0.2.8/preregr/vignettes/form_preregQE_v0_93.Rmd | 14 preregr-0.2.8/preregr/vignettes/form_preregQE_v0_94.Rmd | 16 preregr-0.2.8/preregr/vignettes/form_preregQE_v0_95.Rmd |only preregr-0.2.8/preregr/vignettes/form_prpQuant_v1.Rmd | 14 preregr-0.2.8/preregr/vignettes/importing_form_from_url.Rmd | 4 preregr-0.2.8/preregr/vignettes/importing_pregistration_from_url.Rmd | 2 preregr-0.2.8/preregr/vignettes/preregr.Rmd |only preregr-0.2.8/preregr/vignettes/rmd_template_from_form.Rmd | 2 preregr-0.2.8/preregr/vignettes/specifying_prereg_content.Rmd | 2 107 files changed, 2579 insertions(+), 1928 deletions(-)
Title: Multi Environment Trials Analysis
Description: Performs stability analysis of multi-environment trial data
using parametric and non-parametric methods. Parametric methods
includes Additive Main Effects and Multiplicative Interaction (AMMI)
analysis by Gauch (2013) <doi:10.2135/cropsci2013.04.0241>, Ecovalence
by Wricke (1965), Genotype plus Genotype-Environment (GGE) biplot
analysis by Yan & Kang (2003) <doi:10.1201/9781420040371>, geometric
adaptability index by Mohammadi & Amri (2008)
<doi:10.1007/s10681-007-9600-6>, joint regression analysis by Eberhart
& Russel (1966) <doi:10.2135/cropsci1966.0011183X000600010011x>,
genotypic confidence index by Annicchiarico (1992), Murakami & Cruz's
(2004) method, power law residuals (POLAR) statistics by Doring et al.
(2015) <doi:10.1016/j.fcr.2015.08.005>, scale-adjusted coefficient of
variation by Doring & Reckling (2018) <doi:10.1016/j.eja.2018.06.007>,
stability variance by Shukla (1972) <doi:10.1038/hdy.1972.87>,
weighted ave [...truncated...]
Author: Tiago Olivoto [aut, cre, cph]
Maintainer: Tiago Olivoto <tiagoolivoto@gmail.com>
Diff between metan versions 1.17.0 dated 2022-06-10 and 1.18.0 dated 2023-03-05
metan-1.17.0/metan/man/set_wd_here.Rd |only metan-1.18.0/metan/DESCRIPTION | 8 metan-1.18.0/metan/MD5 | 158 - metan-1.18.0/metan/NAMESPACE | 8 metan-1.18.0/metan/NEWS.md | 23 metan-1.18.0/metan/R/Annicchiarico.R | 2 metan-1.18.0/metan/R/Schmildt.R | 2 metan-1.18.0/metan/R/Shukla.R | 4 metan-1.18.0/metan/R/Smith_Hazel.R | 8 metan-1.18.0/metan/R/blup_indexes.R | 6 metan-1.18.0/metan/R/can_cor.R | 2 metan-1.18.0/metan/R/clustering.R | 4 metan-1.18.0/metan/R/corr_coef.R | 885 +++++++--- metan-1.18.0/metan/R/corr_plot.R | 9 metan-1.18.0/metan/R/covcor_design.R | 2 metan-1.18.0/metan/R/cv_ammi.R | 4 metan-1.18.0/metan/R/cv_ammif.R | 8 metan-1.18.0/metan/R/cv_blup.R | 6 metan-1.18.0/metan/R/ecovalence.R | 2 metan-1.18.0/metan/R/env_stratification.R | 2 metan-1.18.0/metan/R/fai_blup.R | 4 metan-1.18.0/metan/R/gafem.R | 8 metan-1.18.0/metan/R/gamem.R | 4 metan-1.18.0/metan/R/gamem_met.R | 22 metan-1.18.0/metan/R/ge_details.R | 4 metan-1.18.0/metan/R/ge_effects.R | 2 metan-1.18.0/metan/R/ge_means.R | 6 metan-1.18.0/metan/R/ge_plot.R | 153 + metan-1.18.0/metan/R/ge_reg.R | 8 metan-1.18.0/metan/R/ge_winners.R | 8 metan-1.18.0/metan/R/get_corvars.R | 2 metan-1.18.0/metan/R/get_dist.R | 2 metan-1.18.0/metan/R/get_model_data.R | 12 metan-1.18.0/metan/R/gge.R | 131 + metan-1.18.0/metan/R/gtb.R | 2 metan-1.18.0/metan/R/gytb.R | 2 metan-1.18.0/metan/R/mahala.R | 2 metan-1.18.0/metan/R/mahala_design.R | 2 metan-1.18.0/metan/R/mgidi.R | 11 metan-1.18.0/metan/R/mps.R | 9 metan-1.18.0/metan/R/mtmps.R | 6 metan-1.18.0/metan/R/mtsi.R | 10 metan-1.18.0/metan/R/path_coeff.R | 27 metan-1.18.0/metan/R/performs_ammi.R | 6 metan-1.18.0/metan/R/plot_blup.R | 2 metan-1.18.0/metan/R/plot_scores.R | 4 metan-1.18.0/metan/R/resca.R | 2 metan-1.18.0/metan/R/superiority.R | 2 metan-1.18.0/metan/R/utilities.R | 269 ++- metan-1.18.0/metan/R/utils_sample.R |only metan-1.18.0/metan/R/waas_means.R | 10 metan-1.18.0/metan/R/waasb.R | 1703 ++++++++++---------- metan-1.18.0/metan/R/wsmp.R | 6 metan-1.18.0/metan/R/zzz.R | 4 metan-1.18.0/metan/build/metan.pdf |binary metan-1.18.0/metan/build/vignette.rds |binary metan-1.18.0/metan/inst/CITATION | 29 metan-1.18.0/metan/inst/doc/metan_start.html | 154 - metan-1.18.0/metan/man/clustering.Rd | 2 metan-1.18.0/metan/man/corr_coef.Rd | 72 metan-1.18.0/metan/man/corr_focus.Rd |only metan-1.18.0/metan/man/corr_plot.Rd | 7 metan-1.18.0/metan/man/figures/README-AMMI-1.png |binary metan-1.18.0/metan/man/figures/README-GGE-1.png |binary metan-1.18.0/metan/man/figures/README-INSPECT-1.png |binary metan-1.18.0/metan/man/ge_plot.Rd | 27 metan-1.18.0/metan/man/get_corvars.Rd | 2 metan-1.18.0/metan/man/get_dist.Rd | 2 metan-1.18.0/metan/man/mahala.Rd | 2 metan-1.18.0/metan/man/mps.Rd | 2 metan-1.18.0/metan/man/network_plot.Rd |only metan-1.18.0/metan/man/plot.can_cor.Rd | 2 metan-1.18.0/metan/man/plot.clustering.Rd | 2 metan-1.18.0/metan/man/plot.corr_coef.Rd | 13 metan-1.18.0/metan/man/plot.gge.Rd | 19 metan-1.18.0/metan/man/plot.waasb.Rd | 30 metan-1.18.0/metan/man/plot_scores.Rd | 4 metan-1.18.0/metan/man/print.waas_means.Rd | 2 metan-1.18.0/metan/man/resca.Rd | 2 metan-1.18.0/metan/man/utils_samples.Rd |only metan-1.18.0/metan/man/utils_stats.Rd | 30 metan-1.18.0/metan/man/utils_wd.Rd |only metan-1.18.0/metan/man/waas_means.Rd | 2 83 files changed, 2440 insertions(+), 1553 deletions(-)
Title: Automatically Search Errors or Warnings
Description: Provides environment hooks that obtain errors and warnings which
occur during the execution of code to automatically search for solutions.
Author: James Balamuta [aut, cre, cph]
Maintainer: James Balamuta <balamut2@illinois.edu>
Diff between errorist versions 0.1.0 dated 2020-02-24 and 0.1.1 dated 2023-03-05
DESCRIPTION | 9 - MD5 | 22 ++-- NEWS.md | 21 ++++ R/handlers.R | 6 - README.md | 49 ++++----- build/vignette.rds |binary inst/doc/working-with-errorist.Rmd | 2 inst/doc/working-with-errorist.html | 178 ++++++++++++++++++++++-------------- man/errorist-package.Rd | 3 man/errorist_init.Rd | 8 - man/shims.Rd | 6 - vignettes/working-with-errorist.Rmd | 2 12 files changed, 181 insertions(+), 125 deletions(-)
Title: Factor, Bi-Factor, Second-Order and Factor Tree Copula Models
Description: Estimation, model selection and goodness-of-fit of (1) factor copula models for mixed continuous and discrete data in Kadhem and Nikoloulopoulos (2021) <doi:10.1111/bmsp.12231>; (2) bi-factor and second-order copula models for item response data in Kadhem and Nikoloulopoulos (2023) <doi:10.1007/s11336-022-09894-2>; (3) factor tree copula models for item response data in Kadhem and Nikoloulopoulos (2022) <arXiv:2201.00339>.
Author: Sayed H. Kadhem [aut],
Aristidis K. Nikoloulopoulos [aut, cre]
Maintainer: Aristidis K. Nikoloulopoulos <a.nikoloulopoulos@uea.ac.uk>
Diff between FactorCopula versions 0.9.2 dated 2022-12-06 and 0.9.3 dated 2023-03-05
DESCRIPTION | 10 +++++----- MD5 | 20 ++++++++++---------- R/Wrapper-functions_factortree.R | 4 ++-- R/transformation.R | 2 ++ build/partial.rdb |binary man/FactorCopula-package.Rd | 20 ++++++++++---------- man/M2_structured.Rd | 4 ++-- man/MLE_structured.Rd | 4 ++-- man/rfactor_structured.Rd | 4 ++-- man/select_structured.Rd | 4 ++-- man/vuong_structured.Rd | 4 ++-- 11 files changed, 39 insertions(+), 37 deletions(-)
Title: SHAP Visualizations
Description: Visualizations for SHAP (SHapley Additive exPlanations), such
as waterfall plots, force plots, various types of importance plots,
dependence plots, and interaction plots. These plots act on a
'shapviz' object created from a matrix of SHAP values and a
corresponding feature dataset. Wrappers for the R packages 'xgboost',
'lightgbm', 'fastshap', 'shapr', 'h2o', 'treeshap', and 'kernelshap'
are added for convenience. By separating visualization and
computation, it is possible to display factor variables in graphs,
even if the SHAP values are calculated by a model that requires
numerical features. The plots are inspired by those provided by the
'shap' package in Python, but there is no dependency on it.
Author: Michael Mayer [aut, cre]
Maintainer: Michael Mayer <mayermichael79@gmail.com>
Diff between shapviz versions 0.5.0 dated 2023-02-03 and 0.6.0 dated 2023-03-05
shapviz-0.5.0/shapviz/man/figures/README-dep.png |only shapviz-0.5.0/shapviz/man/figures/README-dep2.png |only shapviz-0.6.0/shapviz/DESCRIPTION | 6 +-- shapviz-0.6.0/shapviz/MD5 | 32 +++++++++--------- shapviz-0.6.0/shapviz/NEWS.md | 7 +++ shapviz-0.6.0/shapviz/R/shapviz.R | 2 - shapviz-0.6.0/shapviz/R/sv_dependence.R | 29 ++++++---------- shapviz-0.6.0/shapviz/R/sv_importance.R | 7 ++- shapviz-0.6.0/shapviz/README.md | 8 ++-- shapviz-0.6.0/shapviz/inst/doc/shapviz.R | 6 +-- shapviz-0.6.0/shapviz/inst/doc/shapviz.Rmd | 23 +++++++----- shapviz-0.6.0/shapviz/inst/doc/shapviz.html | 28 +++++++-------- shapviz-0.6.0/shapviz/man/figures/README-dep.svg |only shapviz-0.6.0/shapviz/man/figures/README-dep2.svg |only shapviz-0.6.0/shapviz/man/shapviz.Rd | 2 - shapviz-0.6.0/shapviz/man/sv_dependence.Rd | 23 ++++-------- shapviz-0.6.0/shapviz/tests/testthat/test-interface.R | 19 +--------- shapviz-0.6.0/shapviz/tests/testthat/test-plots.R | 10 ++--- shapviz-0.6.0/shapviz/vignettes/shapviz.Rmd | 23 +++++++----- 19 files changed, 104 insertions(+), 121 deletions(-)
Title: Tidy RSS for R
Description: With the objective of including data from RSS feeds into your analysis,
'tidyRSS' parses RSS, Atom and JSON feeds and returns a tidy data frame.
Author: Robert Myles McDonnell [aut, cre],
Jonathan Carroll [ctb],
Mike Smith [ctb],
Joseph Stachelek [ctb],
Andrew Frasier [ctb],
Tom Broekel [ctb],
Jeremy Gerdes [ctb],
Chung-hong Chan [ctb]
Maintainer: Robert Myles McDonnell <robertmylesmcdonnell@gmail.com>
Diff between tidyRSS versions 2.0.6 dated 2022-08-25 and 2.0.7 dated 2023-03-05
DESCRIPTION | 12 +++++++++--- MD5 | 12 ++++++------ NEWS.md | 8 +++++++- R/atom_parse.R | 20 +++++++++++++++----- R/json_parse.R | 10 +++++++--- R/rss_parse.R | 20 +++++++++++++++++--- R/utils.R | 7 +++++++ 7 files changed, 68 insertions(+), 21 deletions(-)
Title: Build a Metric Subspaces Data Model for a Data Source
Description: Neural networks are applied to create a density value function which approximates density values for a data source. The trained neural network is analyzed for different levels. For each level metric subspaces with density values above a level are determined. The obtained set of metric subspaces and the trained neural network are assembled into a data model. A prerequisite is the definition of a data source, the generation of generative data and the calculation of density values. These tasks are executed using package 'ganGenerativeData' <https://cran.r-project.org/package=ganGenerativeData>.
Author: Werner Mueller
Maintainer: Werner Mueller <werner.mueller5@chello.at>
Diff between ganDataModel versions 1.1.1 dated 2022-12-19 and 1.1.2 dated 2023-03-05
ganDataModel-1.1.1/ganDataModel/src/density.h |only ganDataModel-1.1.2/ganDataModel/DESCRIPTION | 11 ganDataModel-1.1.2/ganDataModel/MD5 | 43 - ganDataModel-1.1.2/ganDataModel/R/dmBuildMetricSubspaces.R | 15 ganDataModel-1.1.2/ganDataModel/R/dmEvaluate.R | 3 ganDataModel-1.1.2/ganDataModel/R/dmPlotMetricSubspaces.R | 2 ganDataModel-1.1.2/ganDataModel/R/dmTrain.R | 23 - ganDataModel-1.1.2/ganDataModel/man/dmBuildMetricSubspaces.Rd | 2 ganDataModel-1.1.2/ganDataModel/man/ganDataModel-package.Rd | 88 +++ ganDataModel-1.1.2/ganDataModel/src/CopyOfvolumeElementGraph.h |only ganDataModel-1.1.2/ganDataModel/src/Makevars | 6 ganDataModel-1.1.2/ganDataModel/src/RcppExports.cpp | 5 ganDataModel-1.1.2/ganDataModel/src/column.h | 5 ganDataModel-1.1.2/ganDataModel/src/dataModel.h | 16 ganDataModel-1.1.2/ganDataModel/src/dataSource.h | 224 ++++------ ganDataModel-1.1.2/ganDataModel/src/dmInt.cpp | 22 ganDataModel-1.1.2/ganDataModel/src/generativeData.h | 28 - ganDataModel-1.1.2/ganDataModel/src/inOut.h | 55 -- ganDataModel-1.1.2/ganDataModel/src/normalizeData.h | 47 +- ganDataModel-1.1.2/ganDataModel/src/numberColumn.h | 9 ganDataModel-1.1.2/ganDataModel/src/progress.h | 8 ganDataModel-1.1.2/ganDataModel/src/utils.h |only ganDataModel-1.1.2/ganDataModel/src/volumeElementGraph.h | 58 +- ganDataModel-1.1.2/ganDataModel/src/vpTree.h | 39 - 24 files changed, 365 insertions(+), 344 deletions(-)
Title: Hierarchical Partitioning of Marginal R2 for Generalized
Mixed-Effect Models
Description: Conducts hierarchical partitioning to calculate individual contributions of each fixed effects towards marginal R2 for generalized mixed-effect model based on output of r.squaredGLMM() in 'MuMIn', applying the algorithm of Lai J.,Zou Y., Zhang S.,Zhang X.,Mao L.(2022)glmm.hp: an R package for computing individual effect of predictors in generalized linear mixed models.Journal of Plant Ecology,15(6)1302-1307<doi:10.1093/jpe/rtac096>.
Author: Jiangshan Lai [aut, cre] ,
Kim Nimon [aut]
Maintainer: Jiangshan Lai <lai@njfu.edu.cn>
Diff between glmm.hp versions 0.0-6 dated 2022-12-16 and 0.0-7 dated 2023-03-05
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/glmm.hp.r | 4 +++- inst/CITATION | 8 ++------ 4 files changed, 12 insertions(+), 14 deletions(-)
Title: Simulate the Extent of Host Switching by Consumers
Description: Using a simulation-based approach, the 'HostSwitch' package provides functions to investigate host switches by consumers.
The individual-based model is based on the concept of ecological fitting.
The mockup model is published by Araujo et al. 2015. Understanding Host-Switching by Ecological Fitting (<doi:10.1371/journal.pone.0139225>).
The package provides an R-friendly and modified version of this model which can be applied to different consumer-resource scenarios.
Author: Valeria Trivellone [aut] ,
Sabrina B.L. Araujo [aut] ,
Bernd Panassiti [cre, aut]
Maintainer: Bernd Panassiti <bernd.panassiti@gmail.com>
Diff between HostSwitch versions 0.1.2 dated 2022-08-09 and 0.1.3 dated 2023-03-05
DESCRIPTION | 10 - MD5 | 10 - R/startup.R | 2 build/vignette.rds |binary inst/doc/HostSwitch.html | 65 +++++------ vignettes/HostSwitch_files/figure-html/unnamed-chunk-7-1.png |binary 6 files changed, 45 insertions(+), 42 deletions(-)
Title: Human and Machine-Readable Justifications and Justified
Decisions Based on 'YAML'
Description: Leverages the 'yum' package to
implement a 'YAML' ('YAML Ain't Markup Language', a human
friendly standard for data serialization; see <https:yaml.org>)
standard for documenting justifications, such as for decisions
taken during the planning, execution and analysis of a study
or during the development of a behavior change intervention
as illustrated by Marques & Peters (2019)
<doi:10.17605/osf.io/ndxha>. These justifications are both
human- and machine-readable, facilitating efficient extraction
and organisation.
Author: Gjalt-Jorn Peters [aut, cre] ,
Szilvia Zorgo [ctb]
Maintainer: Gjalt-Jorn Peters <justifier@opens.science>
Diff between justifier versions 0.2.4 dated 2022-06-09 and 0.2.6 dated 2023-03-05
DESCRIPTION | 15 +- MD5 | 20 +-- R/load_justifications.R | 4 R/msg.R | 2 inst/doc/general-introduction-to-justifier.Rmd | 2 inst/doc/general-introduction-to-justifier.html | 20 +-- inst/doc/justifier-in-intervention-development.Rmd | 2 inst/doc/justifier-in-intervention-development.html | 119 +++++++++---------- inst/doc/justifier-in-study-design.html | 123 +++++++++----------- vignettes/general-introduction-to-justifier.Rmd | 2 vignettes/justifier-in-intervention-development.Rmd | 2 11 files changed, 154 insertions(+), 157 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-22 0.2.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-11-11 0.0-3
2022-08-22 0.0-2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-05 0.2.1
2020-01-23 0.1.1
Title: A Calculator for Single-Case Effect Sizes
Description: Provides R functions for calculating basic effect size indices for
single-case designs, including several non-overlap measures and parametric
effect size measures, and for estimating the gradual effects model developed
by Swan and Pustejovsky (2018) <DOI:10.1080/00273171.2018.1466681>.
Standard errors and confidence intervals (based on the assumption that the outcome
measurements are mutually independent) are provided for the subset of effect sizes
indices with known sampling distributions.
Author: James E. Pustejovsky [aut, cre],
Man Chen [aut],
Daniel M. Swan [aut],
Paulina Grekov [ctb]
Maintainer: James E. Pustejovsky <jepusto@gmail.com>
Diff between SingleCaseES versions 0.6.1 dated 2022-07-06 and 0.7.1 dated 2023-03-05
DESCRIPTION | 8 MD5 | 107 NAMESPACE | 1 NEWS.md | 13 R/calculate-effect-sizes.R | 143 R/data-documentation.R | 290 + R/non-overlap-measures.R | 2 R/parametric-measures.R | 94 build/partial.rdb |binary build/vignette.rds |binary data/Byiers2014.RData |only data/Casey1978.RData |only data/Crozier2005.RData |only data/Dennis2021.RData |only data/English1997.RData |only data/Facon2008.RData |only data/Kelley2015.RData |only data/Olszewski2017.RData |only data/Peters2020.RData |only data/Spencer2012.RData |only data/Strasberger2014.RData |only inst/WORDLIST | 150 inst/doc/Effect-size-definitions.Rmd | 30 inst/doc/Effect-size-definitions.html | 112 inst/doc/Using-SingleCaseES.Rmd | 2 inst/doc/Using-SingleCaseES.html | 1772 ---------- inst/shiny-examples/SCD-effect-sizes/code-chunks/bcalc-aggregate-inputdata.R | 1 inst/shiny-examples/SCD-effect-sizes/code-chunks/bcalc-noaggregate-inputdata.R | 1 inst/shiny-examples/SCD-effect-sizes/code-chunks/load-excel.R | 2 inst/shiny-examples/SCD-effect-sizes/mappings.R | 15 inst/shiny-examples/SCD-effect-sizes/markdown/About.Rmd |only inst/shiny-examples/SCD-effect-sizes/markdown/About.md | 17 inst/shiny-examples/SCD-effect-sizes/markdown/LOR.md | 10 inst/shiny-examples/SCD-effect-sizes/markdown/LRR.md | 11 inst/shiny-examples/SCD-effect-sizes/markdown/PoGO.md |only inst/shiny-examples/SCD-effect-sizes/markdown/example-data.md | 6 inst/shiny-examples/SCD-effect-sizes/markdown/using_multiple_series.md | 16 inst/shiny-examples/SCD-effect-sizes/markdown/using_single_series.md | 6 inst/shiny-examples/SCD-effect-sizes/server.R | 94 inst/shiny-examples/SCD-effect-sizes/ui.R | 14 man/Byiers2014.Rd |only man/Casey1978.Rd |only man/Crozier2005.Rd |only man/Dennis2021.Rd |only man/English1997.Rd |only man/Facon2008.Rd |only man/Kelley2015.Rd |only man/McKissick.Rd | 2 man/NAP.Rd | 2 man/Olszewski2017.Rd |only man/Peters2020.Rd |only man/PoGO.Rd |only man/Shogren.Rd | 4 man/Spencer2012.Rd |only man/Strasberger2014.Rd |only man/batch_calc_ES.Rd | 39 man/calc_ES.Rd | 10 tests/testdata/CSESdata.csv |only tests/testdata/CSESdata.xlsx |only tests/testthat/test-Bonett-Price-2020.R | 2 tests/testthat/test-POGO_data.R |only tests/testthat/test-PoGO.R |only tests/testthat/test-SCD-effect-sizes.R | 219 + tests/testthat/test-format.R | 18 tests/testthat/test-short-phase-behavior.R | 6 tests/testthat/test-tarlow-2017.R | 9 vignettes/Effect-size-definitions.Rmd | 30 vignettes/Using-SingleCaseES.Rmd | 2 vignettes/references.bibtex | 88 69 files changed, 1439 insertions(+), 1909 deletions(-)
Title: Spatial Objects of the Czech Republic
Description: Administrative regions and other spatial objects of the Czech Republic.
Author: Jindra Lacko [aut, cre] ,
Nick Bearman [rev]
Maintainer: Jindra Lacko <jindra.lacko@gmail.com>
Diff between RCzechia versions 1.11 dated 2023-03-03 and 1.11.1 dated 2023-03-05
DESCRIPTION | 8 +-- MD5 | 21 +++++---- NAMESPACE | 1 NEWS.md | 5 ++ R/RCzechia.R | 84 ++++++++++++++++++++++++++++---------- R/downloader.R | 4 + R/geomorfo.R |only R/ok_to_proceed.R | 5 ++ README.md | 1 man/RCzechia-package.Rd | 85 ++++++++++++++++++++++++++++----------- man/dot-downloader.Rd | 2 man/geomorfo.Rd |only tests/testthat/test-1-geomorfo.R |only 13 files changed, 157 insertions(+), 59 deletions(-)
Title: Clustering of Datasets
Description: Hierarchical and partitioning algorithms of blocks of variables. The partitioning algorithm includes an option called noise cluster to set aside atypical blocks of variables. The CLUSTATIS method (for quantitative blocks) (Llobell, Cariou, Vigneau, Labenne & Qannari (2020) <doi:10.1016/j.foodqual.2018.05.013>, Llobell, Vigneau & Qannari (2019) <doi:10.1016/j.foodqual.2019.02.017>) and the CLUSCATA method (for Check-All-That-Apply data) (Llobell, Cariou, Vigneau, Labenne & Qannari (2019) <doi:10.1016/j.foodqual.2018.09.006>, Llobell, Giacalone, Labenne & Qannari (2019) <doi:10.1016/j.foodqual.2019.05.017>) are the core of this package. The CATATIS methods allows to compute some indices and tests to control the quality of CATA data. Multivariate analysis and clustering of subjects for quantitative multiblock data, CATA, RATA, Free Sorting and JAR experiments are available.
Author: Fabien Llobell [aut, cre] ,
Evelyne Vigneau [ctb] ,
Veronique Cariou [ctb] ,
El Mostafa Qannari [ctb]
Maintainer: Fabien Llobell <fllobell@hotmail.fr>
Diff between ClustBlock versions 3.0.0 dated 2022-09-07 and 3.1.0 dated 2023-03-05
ClustBlock-3.0.0/ClustBlock/R/PB_tuna.R |only ClustBlock-3.0.0/ClustBlock/data/PB_tuna.rda |only ClustBlock-3.0.0/ClustBlock/man/PB_tuna.Rd |only ClustBlock-3.1.0/ClustBlock/DESCRIPTION | 12 +- ClustBlock-3.1.0/ClustBlock/MD5 | 65 +++++++------- ClustBlock-3.1.0/ClustBlock/NEWS | 9 - ClustBlock-3.1.0/ClustBlock/R/RATAchoc.R |only ClustBlock-3.1.0/ClustBlock/R/catatis.R | 21 +++- ClustBlock-3.1.0/ClustBlock/R/change_cata_format2.R | 8 - ClustBlock-3.1.0/ClustBlock/R/cluscata.R | 3 ClustBlock-3.1.0/ClustBlock/R/cluscata_kmeans.R | 5 - ClustBlock-3.1.0/ClustBlock/R/clustatis_kmeans.R | 5 - ClustBlock-3.1.0/ClustBlock/R/consistency_cata.R | 2 ClustBlock-3.1.0/ClustBlock/R/consistency_cata_panel.R | 4 ClustBlock-3.1.0/ClustBlock/R/fish.R |only ClustBlock-3.1.0/ClustBlock/R/plot.catatis.R | 2 ClustBlock-3.1.0/ClustBlock/R/print.catatis.R | 2 ClustBlock-3.1.0/ClustBlock/R/summary.catatis.R | 2 ClustBlock-3.1.0/ClustBlock/data/RATAchoc.rda |only ClustBlock-3.1.0/ClustBlock/data/fish.rda |only ClustBlock-3.1.0/ClustBlock/inst/CITATION | 6 - ClustBlock-3.1.0/ClustBlock/man/ClustBlock-package.Rd | 8 + ClustBlock-3.1.0/ClustBlock/man/RATAchoc.Rd |only ClustBlock-3.1.0/ClustBlock/man/catatis.Rd | 20 +++- ClustBlock-3.1.0/ClustBlock/man/change_cata_format2.Rd | 7 - ClustBlock-3.1.0/ClustBlock/man/cheese.Rd | 4 ClustBlock-3.1.0/ClustBlock/man/choc.Rd | 6 - ClustBlock-3.1.0/ClustBlock/man/cluscata.Rd | 3 ClustBlock-3.1.0/ClustBlock/man/cluscata_kmeans.Rd | 5 - ClustBlock-3.1.0/ClustBlock/man/clustatis_kmeans.Rd | 5 - ClustBlock-3.1.0/ClustBlock/man/consistency_cata.Rd | 1 ClustBlock-3.1.0/ClustBlock/man/consistency_cata_panel.Rd | 3 ClustBlock-3.1.0/ClustBlock/man/fish.Rd |only ClustBlock-3.1.0/ClustBlock/man/plot.catatis.Rd | 1 ClustBlock-3.1.0/ClustBlock/man/print.catatis.Rd | 1 ClustBlock-3.1.0/ClustBlock/man/smoo.Rd | 6 - ClustBlock-3.1.0/ClustBlock/man/straw.Rd | 6 - ClustBlock-3.1.0/ClustBlock/man/summary.catatis.Rd | 1 38 files changed, 130 insertions(+), 93 deletions(-)
Title: Automatic Structural Time Series Models
Description: Automatic model selection for structural time series decomposition into trend, cycle, and seasonal components, plus optionality for structural interpolation, using the Kalman filter.
Koopman, Siem Jan and Marius Ooms (2012) "Forecasting Economic Time Series Using Unobserved Components Time Series Models" <doi:10.1093/oxfordhb/9780195398649.013.0006>.
Kim, Chang-Jin and Charles R. Nelson (1999) "State-Space Models with Regime Switching: Classical and Gibbs-Sampling Approaches with Applications" <doi:10.7551/mitpress/6444.001.0001><http://econ.korea.ac.kr/~cjkim/>.
Author: Alex Hubbard [aut, cre]
Maintainer: Alex Hubbard <hubbard.alex@gmail.com>
Diff between autostsm versions 3.0.4 dated 2023-02-23 and 3.1.0 dated 2023-03-05
DESCRIPTION | 8 +++---- MD5 | 12 +++++------ NEWS.md | 6 +++++ R/stsm_detect_breaks.R | 8 +++++-- R/stsm_estimate.R | 51 +++++++++++++++++++++++++++++++++++-------------- R/stsm_forecast.R | 37 +++++++++++++++++++++++------------ R/stsm_init_pars.R | 6 +++-- 7 files changed, 87 insertions(+), 41 deletions(-)
Title: Generating Various Numerical Representation Schemes for Protein
Sequences
Description: Comprehensive toolkit for generating various numerical
features of protein sequences described in Xiao et al. (2015)
<DOI:10.1093/bioinformatics/btv042>. For full functionality,
the software 'ncbi-blast+' is needed, see
<https://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE_TYPE=BlastDocs&DOC_TYPE=Download>
for more information.
Author: Nan Xiao [aut, cre] ,
Qing-Song Xu [aut],
Dong-Sheng Cao [aut]
Maintainer: Nan Xiao <me@nanx.me>
Diff between protr versions 1.6-2 dated 2019-05-18 and 1.6-3 dated 2023-03-05
DESCRIPTION | 8 MD5 | 75 - NEWS.md | 195 ++- R/desc-04-MoreauBroto.R | 2 R/desc-05-Moran.R | 2 R/desc-06-Geary.R | 2 R/misc-02-readPDB.R | 2 R/pcm-03-extractProtFP.R | 4 R/pcm-03-extractProtFPGap.R | 4 R/protr-datalist.R | 6 README.md | 35 build/partial.rdb |only build/vignette.rds |binary inst/CITATION | 23 inst/doc/protr.R | 100 - inst/doc/protr.Rmd | 113 +- inst/doc/protr.html | 2415 ++++++++++++++++++++++++++------------------ inst/logo |only man/AAindex.Rd | 6 man/extractAPAAC.Rd | 9 man/extractBLOSUM.Rd | 3 man/extractDescScales.Rd | 11 man/extractFAScales.Rd | 11 man/extractGeary.Rd | 12 man/extractMoran.Rd | 12 man/extractMoreauBroto.Rd | 12 man/extractPAAC.Rd | 9 man/extractPSSM.Rd | 39 man/extractProtFPGap.Rd | 3 man/figures |only man/parGOSim.Rd | 10 man/parSeqSim.Rd | 13 man/parSeqSimDisk.Rd | 14 man/protr-package.Rd | 11 man/protseg.Rd | 8 man/readFASTA.Rd | 7 man/readPDB.Rd | 2 man/twoGOSim.Rd | 11 man/twoSeqSim.Rd | 10 vignettes/protr.Rmd | 113 +- 40 files changed, 1974 insertions(+), 1338 deletions(-)