Title: Taxonomic Classes
Description: Provides taxonomic classes for
groupings of taxonomic names without data, and those
with data. Methods provided are "taxonomically aware", in
that they know about ordering of ranks, and methods that
filter based on taxonomy also filter associated data.
Author: Scott Chamberlain [aut, cre],
Zachary Foster [aut]
Maintainer: Scott Chamberlain <myrmecocystus+r@gmail.com>
Diff between taxa versions 0.1.0 dated 2017-07-16 and 0.2.0 dated 2017-12-18
taxa-0.1.0/taxa/man/name_classifications.Rd |only taxa-0.2.0/taxa/DESCRIPTION | 6 taxa-0.2.0/taxa/MD5 | 144 - taxa-0.2.0/taxa/NAMESPACE | 27 taxa-0.2.0/taxa/NEWS.md | 30 taxa-0.2.0/taxa/R/hierarchy.R | 16 taxa-0.2.0/taxa/R/taxa.R | 31 taxa-0.2.0/taxa/R/taxmap--class.R | 55 taxa-0.2.0/taxa/R/taxmap--docs.R | 10 taxa-0.2.0/taxa/R/taxmap--parsers.R | 220 + taxa-0.2.0/taxa/R/taxon.R | 19 taxa-0.2.0/taxa/R/taxon_id.R | 5 taxa-0.2.0/taxa/R/taxon_name.R | 5 taxa-0.2.0/taxa/R/taxon_rank.R | 5 taxa-0.2.0/taxa/R/taxonomy--class.R | 197 + taxa-0.2.0/taxa/R/taxonomy--docs.R | 304 ++ taxa-0.2.0/taxa/R/taxonomy--s3.R | 123 + taxa-0.2.0/taxa/R/temp.R |only taxa-0.2.0/taxa/README.md | 185 + taxa-0.2.0/taxa/build/vignette.rds |binary taxa-0.2.0/taxa/data/ex_taxmap.rda |binary taxa-0.2.0/taxa/data/ex_taxonomy.rda |binary taxa-0.2.0/taxa/inst/doc/taxa-vignette.R | 5 taxa-0.2.0/taxa/inst/doc/taxa-vignette.Rmd | 11 taxa-0.2.0/taxa/inst/doc/taxa-vignette.html | 2036 ++++++++++-------- taxa-0.2.0/taxa/man/all_names.Rd | 3 taxa-0.2.0/taxa/man/branches.Rd |only taxa-0.2.0/taxa/man/classifications.Rd |only taxa-0.2.0/taxa/man/data_used.Rd | 3 taxa-0.2.0/taxa/man/filter_taxa.Rd | 6 taxa-0.2.0/taxa/man/get_data.Rd | 3 taxa-0.2.0/taxa/man/get_data_frame.Rd |only taxa-0.2.0/taxa/man/hierarchy.Rd | 6 taxa-0.2.0/taxa/man/id_classifications.Rd | 17 taxa-0.2.0/taxa/man/internodes.Rd |only taxa-0.2.0/taxa/man/is_branch.Rd | 11 taxa-0.2.0/taxa/man/is_internode.Rd |only taxa-0.2.0/taxa/man/is_leaf.Rd | 11 taxa-0.2.0/taxa/man/is_root.Rd | 11 taxa-0.2.0/taxa/man/is_stem.Rd | 11 taxa-0.2.0/taxa/man/leaves.Rd | 8 taxa-0.2.0/taxa/man/lookup_tax_data.Rd | 8 taxa-0.2.0/taxa/man/map_data.Rd | 15 taxa-0.2.0/taxa/man/map_data_.Rd |only taxa-0.2.0/taxa/man/n_subtaxa.Rd | 11 taxa-0.2.0/taxa/man/n_subtaxa_1.Rd | 11 taxa-0.2.0/taxa/man/n_supertaxa.Rd | 11 taxa-0.2.0/taxa/man/n_supertaxa_1.Rd |only taxa-0.2.0/taxa/man/names_used.Rd | 3 taxa-0.2.0/taxa/man/obs.Rd | 5 taxa-0.2.0/taxa/man/obs_apply.Rd | 5 taxa-0.2.0/taxa/man/remove_redundant_names.Rd |only taxa-0.2.0/taxa/man/roots.Rd | 8 taxa-0.2.0/taxa/man/stems.Rd | 11 taxa-0.2.0/taxa/man/subtaxa.Rd | 8 taxa-0.2.0/taxa/man/subtaxa_apply.Rd | 6 taxa-0.2.0/taxa/man/supertaxa.Rd | 9 taxa-0.2.0/taxa/man/supertaxa_apply.Rd | 6 taxa-0.2.0/taxa/man/taxa.Rd | 9 taxa-0.2.0/taxa/man/taxmap.Rd | 6 taxa-0.2.0/taxa/man/taxon.Rd | 16 taxa-0.2.0/taxa/man/taxon_id.Rd | 3 taxa-0.2.0/taxa/man/taxon_ids.Rd | 15 taxa-0.2.0/taxa/man/taxon_indexes.Rd | 15 taxa-0.2.0/taxa/man/taxon_name.Rd | 3 taxa-0.2.0/taxa/man/taxon_names.Rd | 15 taxa-0.2.0/taxa/man/taxon_rank.Rd | 3 taxa-0.2.0/taxa/man/taxon_ranks.Rd | 15 taxa-0.2.0/taxa/man/taxonomy.Rd | 4 taxa-0.2.0/taxa/tests/testthat/test--hierarchy.R | 15 taxa-0.2.0/taxa/tests/testthat/test--taxmap.R | 45 taxa-0.2.0/taxa/tests/testthat/test--taxmap_parsers.R | 56 taxa-0.2.0/taxa/tests/testthat/test--taxonomy.R | 49 taxa-0.2.0/taxa/tests/testthat/test-taxon.R | 7 taxa-0.2.0/taxa/tests/testthat/test-taxon_id.R | 8 taxa-0.2.0/taxa/tests/testthat/test-taxon_name.R | 8 taxa-0.2.0/taxa/tests/testthat/test-taxon_rank.R | 8 taxa-0.2.0/taxa/vignettes/taxa-vignette.Rmd | 11 78 files changed, 2673 insertions(+), 1279 deletions(-)
Title: Recurrent Event Data Analysis
Description: Functions for (1) simulating survival, recurrent event, and
multiple event data from stochastic process point of view, (2) exploring
and modeling recurrent event data through the mean cumulative function (MCF)
or also called the Nelson-Aalen estimator of the cumulative hazard rate
function, and gamma frailty model with spline rate function, and (3)
comparing two-sample recurrent event responses with the pseudo-score tests.
Author: Wenjie Wang [aut, cre],
Haoda Fu [aut],
Jun Yan [ctb]
Maintainer: Wenjie Wang <wenjie.2.wang@uconn.edu>
Diff between reda versions 0.3.1 dated 2016-12-16 and 0.4.0 dated 2017-12-18
reda-0.3.1/reda/R/dataCheck.R |only reda-0.3.1/reda/R/fit.R |only reda-0.3.1/reda/R/mcf.R |only reda-0.3.1/reda/inst/bib/reda-intro.bib |only reda-0.3.1/reda/man/baseRateReg-class.Rd |only reda-0.3.1/reda/man/rateRegMcf-class.Rd |only reda-0.3.1/reda/man/sampleMcf-class.Rd |only reda-0.3.1/reda/man/summaryRateReg-class.Rd |only reda-0.4.0/reda/DESCRIPTION | 34 reda-0.4.0/reda/MD5 | 109 - reda-0.4.0/reda/NAMESPACE | 36 reda-0.4.0/reda/NEWS.md | 67 reda-0.4.0/reda/R/RcppExports.R |only reda-0.4.0/reda/R/Survr.R |only reda-0.4.0/reda/R/aic.R | 51 reda-0.4.0/reda/R/baseline.R | 48 reda-0.4.0/reda/R/class.R | 483 ++++-- reda-0.4.0/reda/R/coef.R | 58 reda-0.4.0/reda/R/data.R | 2 reda-0.4.0/reda/R/mcf-formula.R |only reda-0.4.0/reda/R/mcf-generic.R |only reda-0.4.0/reda/R/mcf-rateReg.R |only reda-0.4.0/reda/R/mcfDiff.R |only reda-0.4.0/reda/R/misc.R |only reda-0.4.0/reda/R/plot.R | 222 +- reda-0.4.0/reda/R/rateReg.R |only reda-0.4.0/reda/R/reda.R | 32 reda-0.4.0/reda/R/show.R | 130 + reda-0.4.0/reda/R/simEvent.R |only reda-0.4.0/reda/R/summary.R | 14 reda-0.4.0/reda/README.md | 78 - reda-0.4.0/reda/build/vignette.rds |binary reda-0.4.0/reda/inst/CITATION | 10 reda-0.4.0/reda/inst/bib/reda.bib |only reda-0.4.0/reda/inst/doc/reda-intro.R | 101 - reda-0.4.0/reda/inst/doc/reda-intro.Rmd | 497 +++--- reda-0.4.0/reda/inst/doc/reda-intro.html | 1927 +++++++++++++++++++++++--- reda-0.4.0/reda/inst/doc/reda-simulate.R |only reda-0.4.0/reda/inst/doc/reda-simulate.Rmd |only reda-0.4.0/reda/inst/doc/reda-simulate.html |only reda-0.4.0/reda/man/AIC-rateReg-method.Rd | 24 reda-0.4.0/reda/man/BIC-rateReg-method.Rd | 3 reda-0.4.0/reda/man/Survr-class.Rd |only reda-0.4.0/reda/man/Survr.Rd | 41 reda-0.4.0/reda/man/baseRate.Rd | 4 reda-0.4.0/reda/man/baseRate.rateReg-class.Rd |only reda-0.4.0/reda/man/coef-rateReg-method.Rd | 10 reda-0.4.0/reda/man/confint-rateReg-method.Rd | 30 reda-0.4.0/reda/man/mcf.Rd | 300 ++-- reda-0.4.0/reda/man/mcf.formula-class.Rd |only reda-0.4.0/reda/man/mcf.rateReg-class.Rd |only reda-0.4.0/reda/man/mcfDiff-class.Rd |only reda-0.4.0/reda/man/mcfDiff.Rd |only reda-0.4.0/reda/man/mcfDiff.test-class.Rd |only reda-0.4.0/reda/man/parametrize.Rd |only reda-0.4.0/reda/man/plot-method.Rd | 72 reda-0.4.0/reda/man/rateReg-class.Rd | 14 reda-0.4.0/reda/man/rateReg.Rd | 114 - reda-0.4.0/reda/man/reda-package.Rd | 27 reda-0.4.0/reda/man/show-method.Rd | 45 reda-0.4.0/reda/man/simEvent-class.Rd |only reda-0.4.0/reda/man/simEvent.Rd |only reda-0.4.0/reda/man/simuDat.Rd | 1 reda-0.4.0/reda/man/summary-rateReg-method.Rd | 8 reda-0.4.0/reda/man/summary.rateReg-class.Rd |only reda-0.4.0/reda/man/valveSeats.Rd | 1 reda-0.4.0/reda/src |only reda-0.4.0/reda/tests |only reda-0.4.0/reda/vignettes/reda-intro.Rmd | 497 +++--- reda-0.4.0/reda/vignettes/reda-simulate.Rmd |only 70 files changed, 3604 insertions(+), 1486 deletions(-)
Title: Install Packages from Snapshots on the Checkpoint Server for
Reproducibility
Description: The goal of checkpoint is to solve the problem of package
reproducibility in R. Specifically, checkpoint allows you to install packages
as they existed on CRAN on a specific snapshot date as if you had a CRAN time
machine. To achieve reproducibility, the checkpoint() function installs the
packages required or called by your project and scripts to a local library
exactly as they existed at the specified point in time. Only those packages
are available to your project, thereby avoiding any package updates that came
later and may have altered your results. In this way, anyone using checkpoint's
checkpoint() can ensure the reproducibility of your scripts or projects at any
time. To create the snapshot archives, once a day (at midnight UTC) Microsoft
refreshes the Austria CRAN mirror on the "Microsoft R Archived Network"
server (<https://mran.microsoft.com/>). Immediately after completion
of the rsync mirror process, the process takes a snapshot, thus creating the
archive. Snapshot archives exist starting from 2014-09-17.
Author: Microsoft Corporation
Maintainer: Rich Calaway <richcala@microsoft.com>
Diff between checkpoint versions 0.4.2 dated 2017-10-19 and 0.4.3 dated 2017-12-18
checkpoint-0.4.2/checkpoint/inst/doc/using-checkpoint-with-knitr.R |only checkpoint-0.4.2/checkpoint/inst/doc/using-checkpoint-with-knitr.Rmd |only checkpoint-0.4.2/checkpoint/inst/doc/using-checkpoint-with-knitr.html |only checkpoint-0.4.2/checkpoint/tests/testthat/framed.sty |only checkpoint-0.4.3/checkpoint/DESCRIPTION | 10 checkpoint-0.4.3/checkpoint/MD5 | 14 checkpoint-0.4.3/checkpoint/R/checkpoint_paths.R | 6 checkpoint-0.4.3/checkpoint/inst/doc/checkpoint.html | 244 ++++------ checkpoint-0.4.3/checkpoint/inst/doc/managing-checkpoint-archives.html | 223 ++++----- checkpoint-0.4.3/checkpoint/tests/test-all.R | 1 10 files changed, 234 insertions(+), 264 deletions(-)
Title: Quantile-Quantile Plot Extensions for 'ggplot2'
Description: Extensions of 'ggplot2' Q-Q plot functionalities.
Author: Alexandre Almeida [aut, cre],
Adam Loy [aut],
Heike Hofmann [aut]
Maintainer: Alexandre Almeida <almeida.xan@gmail.com>
Diff between qqplotr versions 0.0.1 dated 2017-07-25 and 0.0.2 dated 2017-12-18
DESCRIPTION | 16 LICENSE | 1348 +++++++++++++++--------------- MD5 | 73 + NAMESPACE | 37 NEWS.md | 45 - R/data.R |only R/geom_qq_band.R |only R/qqplotr.R |only R/runShinyExample.R |only R/stat_pp_band.R |only R/stat_pp_line.R |only R/stat_pp_point.R |only R/stat_qq_band.R | 797 +++++++++-------- R/stat_qq_line.R | 409 +++++---- R/stat_qq_point.R | 405 +++++---- README.md | 366 +++++--- build |only data |only inst |only man/GeomQqBand.Rd |only man/StatPpBand.Rd |only man/StatPpLine.Rd |only man/StatPpPoint.Rd |only man/StatQqBand.Rd | 22 man/StatQqLine.Rd | 22 man/StatQqPoint.Rd | 22 man/figures/README-unnamed-chunk-10-1.png |only man/figures/README-unnamed-chunk-11-1.png |only man/figures/README-unnamed-chunk-12-1.png |only man/figures/README-unnamed-chunk-13-1.png |only man/figures/README-unnamed-chunk-14-1.png |only man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-6-1.png |binary man/figures/README-unnamed-chunk-6-2.png |only man/figures/README-unnamed-chunk-7-1.png |binary man/figures/README-unnamed-chunk-8-1.png |binary man/figures/README-unnamed-chunk-9-1.png |only man/figures/devBadge.svg |only man/iowa.Rd |only man/longjump.Rd |only man/qqplotr.Rd |only man/runShinyExample.Rd |only man/stat_pp_band.Rd |only man/stat_pp_line.Rd |only man/stat_pp_point.Rd |only man/stat_qq_band.Rd | 369 ++++---- man/stat_qq_line.Rd | 247 ++--- man/stat_qq_point.Rd | 229 ++--- vignettes |only 49 files changed, 2485 insertions(+), 1922 deletions(-)
Title: Exploratory Data Analysis and Data Preparation Tool-Box Book
Description: Around 10% of almost any predictive modeling project is spent in predictive modeling, 'funModeling' and the book Data Science Live Book (<http://livebook.datascienceheroes.com/>) are intended to cover remaining 90%: data preparation, profiling, selecting best variables 'dataViz', assessing model performance and other functions.
Author: Pablo Casas
Maintainer: Pablo Casas <pcasas.biz@gmail.com>
Diff between funModeling versions 1.6.5 dated 2017-07-09 and 1.6.6 dated 2017-12-18
funModeling-1.6.5/funModeling/R/bayesian_plot.R |only funModeling-1.6.5/funModeling/R/numbers.R |only funModeling-1.6.5/funModeling/man/bayesian_plot.Rd |only funModeling-1.6.6/funModeling/DESCRIPTION | 12 - funModeling-1.6.6/funModeling/MD5 | 82 +++++---- funModeling-1.6.6/funModeling/NAMESPACE | 12 + funModeling-1.6.6/funModeling/R/cross_plot.R | 9 - funModeling-1.6.6/funModeling/R/data.R | 8 funModeling-1.6.6/funModeling/R/data_preparation.R | 21 ++ funModeling-1.6.6/funModeling/R/discretize.R |only funModeling-1.6.6/funModeling/R/exploratory_data_analysis.R |only funModeling-1.6.6/funModeling/R/information_theory.R |only funModeling-1.6.6/funModeling/R/models_lib.R | 97 +---------- funModeling-1.6.6/funModeling/R/outliers.R | 6 funModeling-1.6.6/funModeling/data/data_golf.rda |only funModeling-1.6.6/funModeling/man/auto_grouping.Rd | 5 funModeling-1.6.6/funModeling/man/categ_analysis.Rd | 1 funModeling-1.6.6/funModeling/man/compare_df.Rd |only funModeling-1.6.6/funModeling/man/concatenate_n_vars.Rd |only funModeling-1.6.6/funModeling/man/convert_df_to_categoric.Rd |only funModeling-1.6.6/funModeling/man/coord_plot.Rd | 1 funModeling-1.6.6/funModeling/man/correlation_table.Rd | 3 funModeling-1.6.6/funModeling/man/cross_plot.Rd | 1 funModeling-1.6.6/funModeling/man/data_country.Rd | 1 funModeling-1.6.6/funModeling/man/data_golf.Rd |only funModeling-1.6.6/funModeling/man/desc_groups.Rd | 1 funModeling-1.6.6/funModeling/man/desc_groups_rank.Rd | 1 funModeling-1.6.6/funModeling/man/df_status.Rd | 3 funModeling-1.6.6/funModeling/man/discretize_df.Rd |only funModeling-1.6.6/funModeling/man/discretize_get_bins.Rd |only funModeling-1.6.6/funModeling/man/entropy_2.Rd |only funModeling-1.6.6/funModeling/man/equal_freq.Rd | 1 funModeling-1.6.6/funModeling/man/fibonacci.Rd | 1 funModeling-1.6.6/funModeling/man/filter_vars.Rd | 1 funModeling-1.6.6/funModeling/man/freq.Rd | 3 funModeling-1.6.6/funModeling/man/gain_lift.Rd | 11 - funModeling-1.6.6/funModeling/man/gain_ratio.Rd |only funModeling-1.6.6/funModeling/man/get_sample.Rd | 1 funModeling-1.6.6/funModeling/man/hampel_outlier.Rd | 3 funModeling-1.6.6/funModeling/man/heart_disease.Rd | 1 funModeling-1.6.6/funModeling/man/infor_magic.Rd |only funModeling-1.6.6/funModeling/man/information_gain.Rd |only funModeling-1.6.6/funModeling/man/model_performance.Rd | 3 funModeling-1.6.6/funModeling/man/plot_num.Rd | 5 funModeling-1.6.6/funModeling/man/plotar.Rd | 1 funModeling-1.6.6/funModeling/man/prep_outliers.Rd | 3 funModeling-1.6.6/funModeling/man/profiling_num.Rd | 3 funModeling-1.6.6/funModeling/man/range01.Rd | 3 funModeling-1.6.6/funModeling/man/tukey_outlier.Rd | 3 funModeling-1.6.6/funModeling/man/v_compare.Rd | 3 funModeling-1.6.6/funModeling/man/var_rank_info.Rd |only 51 files changed, 132 insertions(+), 178 deletions(-)
Title: Functions for Systems Factorial Technology Analysis of Data
Description: This package contains a series of tools for analyzing Systems Factorial Technology data. This includes functions for plotting and statistically testing capacity coefficient functions and survivor interaction contrast functions. Houpt, Blaha, McIntire, Havig, and Townsend (2013) <doi:10.3758/s13428-013-0377-3> provide a basic introduction to Systems Factorial Technology along with examples using the sft R package.
Author: Joe Houpt <joseph.houpt@wright.edu>, Leslie Blaha <Leslie.Blaha@wpafb.af.mil>
Maintainer: Joe Houpt <joseph.houpt@wright.edu>
Diff between sft versions 2.0-7 dated 2014-10-07 and 2.2-0 dated 2017-12-18
DESCRIPTION | 13 +++++++------ MD5 | 21 +++++++++++++-------- NAMESPACE | 13 ++++++++----- R/assessment.R | 6 ++++-- R/fPCAassessment.R |only R/fPCAcapacity.R | 5 ++++- R/resilience.R |only R/sftGenerator.R |only R/sic.R | 13 +++++++------ README.md |only inst/CITATION | 11 +++++------ man/fPCAassessment.Rd |only man/fPCAcapacity.Rd | 4 ++-- man/sicGroup.Rd | 5 ++++- 14 files changed, 54 insertions(+), 37 deletions(-)
Title: Automatic Item Generator
Description: A collection of Automatic Item Generators used mainly for
psychological research. This package can generate linear syllogistic reasoning,
arithmetic and 2D/3D/Double 3D spatial reasoning items. It is recommended for research
purpose only.
Author: Bao Sheng Loe (Aiden) [aut, cre, cph],
David Condon [ctb, cph],
Francis Smart [ctb, cph]
Maintainer: Bao Sheng Loe (Aiden) <bsl28@cam.ac.uk>
Diff between AIG versions 0.1.7 dated 2017-06-30 and 0.1.8 dated 2017-12-18
DESCRIPTION | 8 +- MD5 | 6 +- R/lisy.R | 179 ++++++++++++++++++++++++++++++++++++++++++++---------------- man/lisy.Rd | 18 +++--- 4 files changed, 149 insertions(+), 62 deletions(-)
Title: Finding Files in Project Subdirectories
Description: Robust, reliable and flexible paths to files below a
project root. The 'root' of a project is defined as a directory
that matches a certain criterion, e.g., it contains a certain
regular file.
Author: Kirill Müller [aut, cre]
Maintainer: Kirill Müller <krlmlr+r@mailbox.org>
Diff between rprojroot versions 1.2 dated 2017-01-16 and 1.3-1 dated 2017-12-18
DESCRIPTION | 12 +- MD5 | 41 +++++---- NAMESPACE | 6 + NEWS.md | 8 + R/criterion.R | 2 R/file.R | 2 R/has-file.R | 10 +- R/root.R | 2 R/thisfile.R |only build/vignette.rds |binary inst/doc/rprojroot.R | 71 ++++++++++++++++- inst/doc/rprojroot.Rmd | 146 +++++++++++++++++++++++++++++++--- inst/doc/rprojroot.html | 167 +++++++++++++++++++++++++++++++--------- man/find_root.Rd | 2 man/find_root_file.Rd | 2 man/root_criterion.Rd | 10 +- man/thisfile.Rd |only tests/testthat/scripts |only tests/testthat/startup.Rs |only tests/testthat/test-criterion.R | 13 +-- tests/testthat/test-root.R | 61 +++++++++++--- tests/testthat/test-thisfile.R |only vignettes/rprojroot.Rmd | 146 +++++++++++++++++++++++++++++++--- 23 files changed, 580 insertions(+), 121 deletions(-)
Title: Photobiological Calculations
Description: Definitions of classes, methods, operators and functions for use in
photobiology and radiation meteorology and climatology. Calculation of
effective (weighted) and not-weighted irradiances/doses, fluence rates,
transmittance, reflectance, absorptance, absorbance and diverse
ratios and other derived quantities from spectral data. Local maxima and
minima. Conversion between energy- and photon-based units. Wavelength
interpolation. Astronomical calculations related solar angles and day
length. Colours and vision.
Author: Pedro J. Aphalo [aut, cre],
Titta K. Kotilainen [ctb]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Diff between photobiology versions 0.9.17 dated 2017-08-27 and 0.9.18-1 dated 2017-12-18
photobiology-0.9.17/photobiology/R/as.energy.R |only photobiology-0.9.17/photobiology/R/as.quantum.R |only photobiology-0.9.17/photobiology/R/as.quantum.mol.R |only photobiology-0.9.17/photobiology/R/auto.hinges.R |only photobiology-0.9.17/photobiology/R/beesxyz.data.R |only photobiology-0.9.17/photobiology/R/calc.multipliers.R |only photobiology-0.9.17/photobiology/R/calc.source.output.R |only photobiology-0.9.17/photobiology/R/check.spectrum.R |only photobiology-0.9.17/photobiology/R/cieillum.data.R |only photobiology-0.9.17/photobiology/R/ciexyz.data.R |only photobiology-0.9.17/photobiology/R/d2.fel.data.R |only photobiology-0.9.17/photobiology/R/d2.spectrum.R |only photobiology-0.9.17/photobiology/R/div.spectra.R |only photobiology-0.9.17/photobiology/R/e2qmol.multipliers.R |only photobiology-0.9.17/photobiology/R/e2quantum.multipliers.R |only photobiology-0.9.17/photobiology/R/energy.irradiance.R |only photobiology-0.9.17/photobiology/R/energy.ratio.R |only 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photobiology-0.9.17/photobiology/R/spct.upgrade.R |only photobiology-0.9.17/photobiology/R/split.energy.irradiance.R |only photobiology-0.9.17/photobiology/R/split.irradiance.R |only photobiology-0.9.17/photobiology/R/split.photon.irradiance.R |only photobiology-0.9.17/photobiology/R/subt.spectra.R |only photobiology-0.9.17/photobiology/R/sum.spectra.R |only photobiology-0.9.17/photobiology/R/sun.data.R |only photobiology-0.9.17/photobiology/R/trim.waveband.R |only photobiology-0.9.17/photobiology/R/w.length.range2rgb.R |only photobiology-0.9.17/photobiology/R/w.length2rgb.R |only photobiology-0.9.17/photobiology/R/waveband.class.R |only photobiology-0.9.17/photobiology/R/waveband.new.R |only photobiology-0.9.17/photobiology/R/waveband.ratio.R |only photobiology-0.9.18-1/photobiology/DESCRIPTION | 18 photobiology-0.9.18-1/photobiology/MD5 | 528 ++++---- photobiology-0.9.18-1/photobiology/NAMESPACE | 16 photobiology-0.9.18-1/photobiology/NEWS | 25 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photobiology-0.9.18-1/photobiology/man/calc_multipliers.Rd | 2 photobiology-0.9.18-1/photobiology/man/calc_source_output.Rd | 2 photobiology-0.9.18-1/photobiology/man/ccd.spct.Rd | 6 photobiology-0.9.18-1/photobiology/man/check_spct.Rd | 13 photobiology-0.9.18-1/photobiology/man/check_spectrum.Rd | 2 photobiology-0.9.18-1/photobiology/man/check_w.length.Rd | 2 photobiology-0.9.18-1/photobiology/man/ciev10.spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/ciev2.spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/ciexyzCC10.spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/ciexyzCC2.spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/ciexyzCMF10.spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/ciexyzCMF2.spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/clean.Rd | 6 photobiology-0.9.18-1/photobiology/man/clean_spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/clear.spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/clear_photobio.cache.Rd | 2 photobiology-0.9.18-1/photobiology/man/clip_wl.Rd | 6 photobiology-0.9.18-1/photobiology/man/color_of.Rd | 9 photobiology-0.9.18-1/photobiology/man/day_night.Rd | 2 photobiology-0.9.18-1/photobiology/man/div_spectra.Rd | 2 photobiology-0.9.18-1/photobiology/man/e2qmol_multipliers.Rd | 2 photobiology-0.9.18-1/photobiology/man/e2quantum_multipliers.Rd | 2 photobiology-0.9.18-1/photobiology/man/e_fluence.Rd | 6 photobiology-0.9.18-1/photobiology/man/e_irrad.Rd | 28 photobiology-0.9.18-1/photobiology/man/e_ratio.Rd | 23 photobiology-0.9.18-1/photobiology/man/e_response.Rd | 20 photobiology-0.9.18-1/photobiology/man/energy_irradiance.Rd | 2 photobiology-0.9.18-1/photobiology/man/energy_ratio.Rd | 2 photobiology-0.9.18-1/photobiology/man/eq_ratio.Rd | 23 photobiology-0.9.18-1/photobiology/man/extract.Rd | 2 photobiology-0.9.18-1/photobiology/man/filter_cps.mspct.Rd | 2 photobiology-0.9.18-1/photobiology/man/find_peaks.Rd | 2 photobiology-0.9.18-1/photobiology/man/fluence.Rd | 6 photobiology-0.9.18-1/photobiology/man/fscale.Rd | 6 photobiology-0.9.18-1/photobiology/man/fscale_spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/fshift.Rd | 12 photobiology-0.9.18-1/photobiology/man/fshift_spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/generic_mspct.Rd | 5 photobiology-0.9.18-1/photobiology/man/getNormalized.Rd | 2 photobiology-0.9.18-1/photobiology/man/getScaled.Rd | 2 photobiology-0.9.18-1/photobiology/man/get_peaks.Rd | 2 photobiology-0.9.18-1/photobiology/man/insert_hinges.Rd | 2 photobiology-0.9.18-1/photobiology/man/insert_spct_hinges.Rd | 2 photobiology-0.9.18-1/photobiology/man/integrate_spct.Rd | 4 photobiology-0.9.18-1/photobiology/man/integrate_xy.Rd | 2 photobiology-0.9.18-1/photobiology/man/interpolate_spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/interpolate_spectrum.Rd | 2 photobiology-0.9.18-1/photobiology/man/interpolate_wl.Rd | 2 photobiology-0.9.18-1/photobiology/man/irrad.Rd | 29 photobiology-0.9.18-1/photobiology/man/irradiance.Rd | 2 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photobiology-0.9.18-1/photobiology/man/normalize_range_arg.Rd | 2 photobiology-0.9.18-1/photobiology/man/normalized_diff_ind.Rd | 2 photobiology-0.9.18-1/photobiology/man/opaque.spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/oper_spectra.Rd | 2 photobiology-0.9.18-1/photobiology/man/peaks.Rd | 4 photobiology-0.9.18-1/photobiology/man/photobiology-package.Rd | 2 photobiology-0.9.18-1/photobiology/man/photodiode.spct.Rd | 6 photobiology-0.9.18-1/photobiology/man/photon_irradiance.Rd | 2 photobiology-0.9.18-1/photobiology/man/photon_ratio.Rd | 2 photobiology-0.9.18-1/photobiology/man/photons_energy_ratio.Rd | 2 photobiology-0.9.18-1/photobiology/man/polyester.spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/print.Rd | 2 photobiology-0.9.18-1/photobiology/man/print.summary_generic_spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/prod_spectra.Rd | 2 photobiology-0.9.18-1/photobiology/man/q_fluence.Rd | 6 photobiology-0.9.18-1/photobiology/man/q_irrad.Rd | 28 photobiology-0.9.18-1/photobiology/man/q_ratio.Rd | 26 photobiology-0.9.18-1/photobiology/man/q_response.Rd | 20 photobiology-0.9.18-1/photobiology/man/qe_ratio.Rd | 23 photobiology-0.9.18-1/photobiology/man/range.Rd | 2 photobiology-0.9.18-1/photobiology/man/reflectance.Rd | 21 photobiology-0.9.18-1/photobiology/man/reflectance_spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/response.Rd | 22 photobiology-0.9.18-1/photobiology/man/rgb_spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/s_e_irrad2rgb.Rd | 2 photobiology-0.9.18-1/photobiology/man/setGenericSpct.Rd | 8 photobiology-0.9.18-1/photobiology/man/setNormalized.Rd | 2 photobiology-0.9.18-1/photobiology/man/setScaled.Rd | 2 photobiology-0.9.18-1/photobiology/man/smooth_spct.Rd | 6 photobiology-0.9.18-1/photobiology/man/source_spct.Rd | 10 photobiology-0.9.18-1/photobiology/man/split2mspct.Rd | 5 photobiology-0.9.18-1/photobiology/man/split_bands.Rd | 2 photobiology-0.9.18-1/photobiology/man/split_energy_irradiance.Rd | 2 photobiology-0.9.18-1/photobiology/man/split_irradiance.Rd | 2 photobiology-0.9.18-1/photobiology/man/split_photon_irradiance.Rd | 2 photobiology-0.9.18-1/photobiology/man/spread.Rd | 2 photobiology-0.9.18-1/photobiology/man/stepsize.Rd | 2 photobiology-0.9.18-1/photobiology/man/subt_spectra.Rd | 2 photobiology-0.9.18-1/photobiology/man/sum_spectra.Rd | 2 photobiology-0.9.18-1/photobiology/man/summary.Rd | 2 photobiology-0.9.18-1/photobiology/man/summary_spct_classes.Rd | 2 photobiology-0.9.18-1/photobiology/man/sun.daily.data.Rd | 2 photobiology-0.9.18-1/photobiology/man/sun.daily.spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/sun.data.Rd | 2 photobiology-0.9.18-1/photobiology/man/sun.spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/tag.Rd | 9 photobiology-0.9.18-1/photobiology/man/transmittance.Rd | 21 photobiology-0.9.18-1/photobiology/man/transmittance_spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/trim_spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/trim_waveband.Rd | 4 photobiology-0.9.18-1/photobiology/man/trim_wl.Rd | 7 photobiology-0.9.18-1/photobiology/man/tz_time_diff.Rd | 3 photobiology-0.9.18-1/photobiology/man/untag.Rd | 2 photobiology-0.9.18-1/photobiology/man/upgrade_spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/upgrade_spectra.Rd | 2 photobiology-0.9.18-1/photobiology/man/v_insert_hinges.Rd | 2 photobiology-0.9.18-1/photobiology/man/valleys.Rd | 4 photobiology-0.9.18-1/photobiology/man/w_length2rgb.Rd | 2 photobiology-0.9.18-1/photobiology/man/w_length_range2rgb.Rd | 2 photobiology-0.9.18-1/photobiology/man/waveband.Rd | 2 photobiology-0.9.18-1/photobiology/man/waveband_ratio.Rd | 2 photobiology-0.9.18-1/photobiology/man/wb2rect_spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/wb2spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/wb2tagged_spct.Rd | 2 photobiology-0.9.18-1/photobiology/man/yellow_gel.spct.Rd | 2 photobiology-0.9.18-1/photobiology/vignettes/userguide1-intro.Rmd | 2 photobiology-0.9.18-1/photobiology/vignettes/userguide2-radiation.Rmd | 195 ++- photobiology-0.9.18-1/photobiology/vignettes/userguide3-astronomy.Rmd | 2 330 files changed, 2290 insertions(+), 1094 deletions(-)
Title: A Toolkit for Recursive Partytioning
Description: A toolkit with infrastructure for representing, summarizing, and
visualizing tree-structured regression and classification models. This
unified infrastructure can be used for reading/coercing tree models from
different sources ('rpart', 'RWeka', 'PMML') yielding objects that share
functionality for print()/plot()/predict() methods. Furthermore, new and improved
reimplementations of conditional inference trees (ctree()) and model-based
recursive partitioning (mob()) from the 'party' package are provided based
on the new infrastructure. A description of this package was published
by Hothorn and Zeileis (2015) <http://jmlr.org/papers/v16/hothorn15a.html>.
Author: Torsten Hothorn [aut, cre] (0000-0001-8301-0471),
Heidi Seibold [ctb] (0000-0002-8960-9642),
Achim Zeileis [aut] (0000-0003-0918-3766)
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between partykit versions 1.1-1 dated 2016-09-20 and 1.2-0 dated 2017-12-18
partykit-1.1-1/partykit/R/palmtree.R |only partykit-1.1-1/partykit/man/palmtree.Rd |only partykit-1.1-1/partykit/src/ctree.h |only partykit-1.1-1/partykit/src/ctreecall.c |only partykit-1.1-1/partykit/src/ctreelinstat.c |only partykit-1.1-1/partykit/src/ctreelinstat.h |only partykit-1.1-1/partykit/src/ctreesplit.c |only partykit-1.1-1/partykit/src/ctreesplit.h |only partykit-1.1-1/partykit/src/ctreeteststat.c |only partykit-1.1-1/partykit/src/ctreeteststat.h |only partykit-1.1-1/partykit/src/ctreeutils.c |only partykit-1.1-1/partykit/src/ctreeutils.h |only partykit-1.1-1/partykit/tests/results-regtest.Rda |only partykit-1.2-0/partykit/DESCRIPTION | 36 partykit-1.2-0/partykit/MD5 | 130 + partykit-1.2-0/partykit/NAMESPACE | 43 partykit-1.2-0/partykit/R/as.party.R | 41 partykit-1.2-0/partykit/R/cforest.R | 206 +-- partykit-1.2-0/partykit/R/ctree.R | 782 ++++++----- partykit-1.2-0/partykit/R/extree.R |only partykit-1.2-0/partykit/R/glmtree.R | 4 partykit-1.2-0/partykit/R/lmtree.R | 4 partykit-1.2-0/partykit/R/mob-plot.R | 6 partykit-1.2-0/partykit/R/modelparty.R | 149 +- partykit-1.2-0/partykit/R/node.R | 14 partykit-1.2-0/partykit/R/party.R | 72 - partykit-1.2-0/partykit/R/plot.R | 48 partykit-1.2-0/partykit/R/prune.R |only partykit-1.2-0/partykit/R/split.R | 10 partykit-1.2-0/partykit/R/utils.R | 50 partykit-1.2-0/partykit/R/varimp.R |only partykit-1.2-0/partykit/build/vignette.rds |binary partykit-1.2-0/partykit/inst/NEWS.Rd | 61 partykit-1.2-0/partykit/inst/doc/constparty.R | 10 partykit-1.2-0/partykit/inst/doc/constparty.Rnw | 16 partykit-1.2-0/partykit/inst/doc/constparty.pdf |binary partykit-1.2-0/partykit/inst/doc/ctree.R | 189 ++ partykit-1.2-0/partykit/inst/doc/ctree.Rnw | 318 ++++ partykit-1.2-0/partykit/inst/doc/ctree.pdf |binary partykit-1.2-0/partykit/inst/doc/mob.R | 18 partykit-1.2-0/partykit/inst/doc/mob.Rnw | 20 partykit-1.2-0/partykit/inst/doc/mob.pdf |binary partykit-1.2-0/partykit/inst/doc/partykit.Rnw | 2 partykit-1.2-0/partykit/inst/doc/partykit.pdf |binary partykit-1.2-0/partykit/man/cforest.Rd | 35 partykit-1.2-0/partykit/man/ctree.Rd | 37 partykit-1.2-0/partykit/man/ctree_control.Rd | 87 + partykit-1.2-0/partykit/man/extree_data.Rd |only partykit-1.2-0/partykit/man/extree_fit.Rd |only partykit-1.2-0/partykit/man/model.frame.rpart.Rd | 8 partykit-1.2-0/partykit/man/nodeids.Rd | 11 partykit-1.2-0/partykit/man/panelfunctions.Rd | 6 partykit-1.2-0/partykit/man/party-plot.Rd | 4 partykit-1.2-0/partykit/man/partysplit.Rd | 2 partykit-1.2-0/partykit/man/prune.modelparty.Rd |only partykit-1.2-0/partykit/man/varimp.Rd |only partykit-1.2-0/partykit/src/partykit-init.c |only partykit-1.2-0/partykit/src/partykit-win.def |only partykit-1.2-0/partykit/src/rfweights.c |only partykit-1.2-0/partykit/src/rfweights.h |only partykit-1.2-0/partykit/tests/Examples |only partykit-1.2-0/partykit/tests/bugfixes.R | 90 + partykit-1.2-0/partykit/tests/bugfixes.Rout.save | 194 ++ partykit-1.2-0/partykit/tests/regtest-MIA.R |only partykit-1.2-0/partykit/tests/regtest-MIA.Rout.save |only partykit-1.2-0/partykit/tests/regtest-cforest.R |only partykit-1.2-0/partykit/tests/regtest-cforest.Rout.save |only partykit-1.2-0/partykit/tests/regtest-ctree.Rout.save | 30 partykit-1.2-0/partykit/tests/regtest-glmtree.R |only partykit-1.2-0/partykit/tests/regtest-lmtree.R |only partykit-1.2-0/partykit/tests/regtest-nmax.R |only partykit-1.2-0/partykit/tests/regtest-nmax.Rout.save |only partykit-1.2-0/partykit/tests/regtest-node.Rout.save | 11 partykit-1.2-0/partykit/tests/regtest-party.R | 50 partykit-1.2-0/partykit/tests/regtest-party.Rout.save | 116 - partykit-1.2-0/partykit/tests/regtest-split.Rout.save | 11 partykit-1.2-0/partykit/vignettes/constparty.Rnw | 16 partykit-1.2-0/partykit/vignettes/constparty.Rout.save | 16 partykit-1.2-0/partykit/vignettes/ctree.Rnw | 318 ++++ partykit-1.2-0/partykit/vignettes/ctree.Rout.save | 1060 +++++++++++++++- partykit-1.2-0/partykit/vignettes/mob.Rnw | 20 partykit-1.2-0/partykit/vignettes/mob.Rout.save |only partykit-1.2-0/partykit/vignettes/partykit.Rnw | 2 83 files changed, 3402 insertions(+), 951 deletions(-)
Title: Estimation and Projection of Age-Specific Mortality Rates
Description: Age-specific mortality rates are estimated and projected using
the Kannisto, Lee-Carter and related methods as described in Sevcikova et al. (2016) <doi:10.1007/978-3-319-26603-9_15>.
Author: Hana Sevcikova, Nan Li and Patrick Gerland
Maintainer: Hana Sevcikova <hanas@uw.edu>
Diff between MortCast versions 1.0-1 dated 2017-11-30 and 1.1-1 dated 2017-12-18
ChangeLog |only DESCRIPTION | 8 ++-- MD5 | 19 ++++++----- R/LC.R | 9 ++--- R/MortCast.R | 2 - R/kannisto.R | 75 +++++++++++++++++++++++++++++++-------------- man/MortCast-package.Rd | 2 - man/cokannisto.estimate.Rd | 8 +++- man/kannisto.estimate.Rd | 7 +++- man/kannisto.predict.Rd | 8 ++-- man/rotate.leecarter.Rd | 4 +- 11 files changed, 92 insertions(+), 50 deletions(-)
Title: Smoothed Bootstrap and Random Generation from Kernel Densities
Description: Smoothed bootstrap and functions for random generation from
univariate and multivariate kernel densities. It does not
estimate kernel densities.
Author: Tymoteusz Wolodzko
Maintainer: Tymoteusz Wolodzko <twolodzko+kernelboot@gmail.com>
Diff between kernelboot versions 0.1.2 dated 2017-09-20 and 0.1.3 dated 2017-12-18
DESCRIPTION | 9 MD5 | 44 +- NAMESPACE | 54 +- R/RcppExports.R | 22 - R/bandwidth.R | 182 ++++----- R/kernelboot-methods.R | 184 ++++----- R/onUnload.R | 8 R/other.R | 84 ++-- man/bw.silv.Rd | 124 +++--- man/kernelboot-class.Rd | 90 ++-- man/kernelboot.Rd | 572 +++++++++++++++---------------- man/rmvg.Rd | 202 +++++----- man/rmvk.Rd | 192 +++++----- man/ruvk.Rd | 182 ++++----- man/summary.kernelboot.Rd | 44 +- tests/test_parallel.R | 38 +- tests/testthat.R | 8 tests/testthat/test_bandwidth.R | 46 +- tests/testthat/test_kernelboot.R | 476 ++++++++++++------------- tests/testthat/test_multivar-gaussian.R | 146 +++---- tests/testthat/test_multivar-kd.R | 120 +++--- tests/testthat/test_univar-kd.R | 82 ++-- tests/testthat/test_univar_vs_multivar.R | 158 ++++---- 23 files changed, 1534 insertions(+), 1533 deletions(-)
Title: Accessing Intra-Tumor Heterogeneity and Tracking Longitudinal
and Spatial Clonal Evolutionary History by Next-Generation
Sequencing
Description: A statistical framework and computational procedure for identifying
the sub-populations within a tumor, determining the mutation profiles of each
subpopulation, and inferring the tumor's phylogenetic history. The input are
variant allele frequencies (VAFs) of somatic single nucleotide alterations
(SNAs) along with allele-specific coverage ratios between the tumor and matched
normal sample for somatic copy number alterations (CNAs). These quantities can
be directly taken from the output of existing software. Canopy provides a
general mathematical framework for pooling data across samples and sites to
infer the underlying parameters. For SNAs that fall within CNA regions, Canopy
infers their temporal ordering and resolves their phase. When there are
multiple evolutionary configurations consistent with the data, Canopy outputs
all configurations along with their confidence assessment.
Author: Yuchao Jiang, Nancy R. Zhang
Maintainer: Yuchao Jiang <yuchaoj@email.unc.edu>
Diff between Canopy versions 1.2.0 dated 2017-04-08 and 1.3.0 dated 2017-12-18
DESCRIPTION | 10 MD5 | 26 - NEWS | 3 R/canopy.cluster.R | 9 R/canopy.post.R | 202 +++++++------- R/canopy.sample.R | 478 +++++++++++++++++------------------ R/canopy.sample.cluster.R | 546 ++++++++++++++++++++-------------------- R/canopy.sample.cluster.nocna.R | 374 +++++++++++++-------------- R/canopy.sample.nocna.R | 282 ++++++++++---------- R/sampP.R | 9 build/vignette.rds |binary inst/doc/Canopy_vignettes.Rnw | 4 inst/doc/Canopy_vignettes.pdf |binary vignettes/Canopy_vignettes.Rnw | 4 14 files changed, 979 insertions(+), 968 deletions(-)
Title: Infrastructure for Computing with Basis Functions
Description: Some very simple infrastructure for basis functions.
Author: Torsten Hothorn [aut, cre] (0000-0001-8301-0471)
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between basefun versions 0.0-38 dated 2017-05-17 and 0.0-39 dated 2017-12-18
DESCRIPTION | 12 ++++++------ MD5 | 10 ++++++---- NAMESPACE | 4 +++- R/intercept.R |only R/methods.R | 3 +++ inst/NEWS.Rd | 7 +++++++ man/intercept_basis.Rd |only 7 files changed, 25 insertions(+), 11 deletions(-)
Title: Shiny Apps for Plotting and Exploratory Analysis
Description: Contains Shiny apps for Plotting and Exploratory Analysis.
The plotting app provides an automated interface for generating plots using the 'ggplot2' package.
Current version of this app supports 10 different plot types along with options to manipulate specific
aesthetics and controls related to each plot type.
Author: Anup Nair [aut, cre]
Maintainer: Anup Nair <nairanup50695@gmail.com>
Diff between RtutoR versions 0.3 dated 2016-05-10 and 1.0 dated 2017-12-18
RtutoR-0.3/RtutoR/R/InternalFunc.R |only RtutoR-0.3/RtutoR/R/tut_code.R |only RtutoR-0.3/RtutoR/man/launch_tutorial.Rd |only RtutoR-0.3/RtutoR/man/show_tutorial_datasets.Rd |only RtutoR-1.0/RtutoR/DESCRIPTION | 20 - RtutoR-1.0/RtutoR/MD5 | 20 - RtutoR-1.0/RtutoR/NAMESPACE | 16 + RtutoR-1.0/RtutoR/R/appUI.R |only RtutoR-1.0/RtutoR/R/gen_report_app.R |only RtutoR-1.0/RtutoR/R/generate_ppt.R |only RtutoR-1.0/RtutoR/R/launch_plotter.R | 155 +++---------- RtutoR-1.0/RtutoR/R/sysdata.rda |binary RtutoR-1.0/RtutoR/R/tutorial_markdown |only RtutoR-1.0/RtutoR/man/gen_exploratory_report_app.Rd |only RtutoR-1.0/RtutoR/man/generate_exploratory_analysis_ppt.Rd |only RtutoR-1.0/RtutoR/man/launch_plotter.Rd | 1 16 files changed, 73 insertions(+), 139 deletions(-)
Title: Visualization of Structures in High-Dimensional Data
Description: By gaining the property of emergence through self-organization, the enhancement of SOMs(self organizing maps) is called Emergent SOM (ESOM). The result of the projection by ESOM is a grid of neurons which can be visualised as a three dimensional landscape in form of the Umatrix. Further details can be found in the referenced publications (see url). This package offers tools for calculating and visualising the ESOM as well as Umatrix, Pmatrix and UStarMatrix. All the functionality is also available through graphical user interfaces implemented in 'shiny'.
Author: Florian Lerch[aut,cre], Michael Thrun[aut], Felix Pape[ctb], Raphael Paebst[ctb], Alfred Ultsch[aut]
Maintainer: Florian Lerch <lerch@mathematik.uni-marburg.de>
Diff between Umatrix versions 3.0 dated 2017-12-12 and 3.1 dated 2017-12-18
DESCRIPTION | 12 ++++++------ MD5 | 4 ++-- src/esomTrainedWeightVectorsGaussC.cpp | 4 ++-- 3 files changed, 10 insertions(+), 10 deletions(-)
Title: R Interface to 'TensorFlow'
Description: Interface to 'TensorFlow' <https://www.tensorflow.org/>,
an open source software library for numerical computation using data
flow graphs. Nodes in the graph represent mathematical operations,
while the graph edges represent the multidimensional data arrays
(tensors) communicated between them. The flexible architecture allows
you to deploy computation to one or more 'CPUs' or 'GPUs' in a desktop,
server, or mobile device with a single 'API'. 'TensorFlow' was originally
developed by researchers and engineers working on the Google Brain Team
within Google's Machine Intelligence research organization for the
purposes of conducting machine learning and deep neural networks research,
but the system is general enough to be applicable in a wide variety
of other domains as well.
Author: JJ Allaire [aut, cre],
RStudio [cph, fnd],
Yuan Tang [aut, cph],
Dirk Eddelbuettel [ctb, cph],
Nick Golding [ctb, cph],
Google Inc. [ctb, cph] (Examples and Tutorials)
Maintainer: JJ Allaire <jj@rstudio.com>
Diff between tensorflow versions 1.4.2 dated 2017-12-17 and 1.4.3 dated 2017-12-18
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/install.R | 3 +++ 3 files changed, 8 insertions(+), 5 deletions(-)
Title: Tools for Spell Checking in R
Description: Spell checking common document formats including latex, markdown, manual pages,
and description files. Includes utilities to automate checking of documentation and
vignettes as a unit test during 'R CMD check'. Both British and American English are
supported out of the box and other languages can be added. In addition, packages may
define a 'wordlist' to allow custom terminology without having to abuse punctuation.
Author: Jeroen Ooms [cre, aut],
Jim Hester [aut]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between spelling versions 1.0 dated 2017-08-28 and 1.1 dated 2017-12-18
DESCRIPTION | 14 ++++++--- MD5 | 20 +++++++------ NEWS |only R/check-files.R | 15 ++++++++-- R/language.R |only R/spell-check.R | 66 ++++++++++++++++++++++++++++++--------------- R/wordlist.R | 4 +- inst/WORDLIST | 1 man/spell_check_files.Rd | 8 ++--- man/spell_check_package.Rd | 26 ++++++++++------- man/wordlist.Rd | 7 +--- tests/spelling.R | 2 - 12 files changed, 102 insertions(+), 61 deletions(-)
Title: Some Additional Multiple Imputation Functions, Especially for
'mice'
Description: Contains some auxiliary functions for multiple
imputation which complements existing functionality
in R.
In addition to some utility functions, main features
include plausible value imputation, multilevel
imputation functions (arbitrary number of levels,
hierarchical and non-hierarchical datasets),
imputation using partial least squares (PLS) for
high dimensional predictors, and nested multiple
imputation.
Author: Alexander Robitzsch [aut, cre], Simon Grund [aut],
Thorsten Henke [aut]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between miceadds versions 2.8-24 dated 2017-11-20 and 2.9-15 dated 2017-12-18
DESCRIPTION | 12 - MD5 | 18 +- NAMESPACE | 1 R/Rfunction_include_argument_values.R | 5 R/ma_rmvnorm.R | 2 R/mice.impute.plausible.values.R | 270 ++++++++++++++++------------------ R/mice.impute.pmm6.R | 12 - inst/NEWS | 51 ++++-- man/ma_rmvnorm.Rd | 4 man/mice.impute.plausible.values.Rd | 48 +++++- 10 files changed, 237 insertions(+), 186 deletions(-)
Title: Kirill's Miscellaneous Functions
Description: A collection of useful functions not found anywhere else,
mainly for programming: Pretty intervals, generalized lagged
differences, checking containment in an interval, and an
alternative interface to assign().
Author: Kirill Müller [aut, cre]
Maintainer: Kirill Müller <krlmlr+r@mailbox.org>
Diff between kimisc versions 0.3 dated 2016-02-14 and 0.4 dated 2017-12-18
kimisc-0.3/kimisc/man/coalesce.na.Rd |only kimisc-0.3/kimisc/man/df_to_list.Rd |only kimisc-0.3/kimisc/man/hms.to.seconds.Rd |only kimisc-0.3/kimisc/man/list_to_df.Rd |only kimisc-0.3/kimisc/man/nc.Rd |only kimisc-0.3/kimisc/man/nlist.Rd |only kimisc-0.3/kimisc/man/ofactor.Rd |only kimisc-0.3/kimisc/man/sample-methos.Rd |only kimisc-0.3/kimisc/man/seconds.to.hms.Rd |only kimisc-0.3/kimisc/man/setMissingNames.Rd |only kimisc-0.3/kimisc/man/thisfile.Rd |only kimisc-0.3/kimisc/man/tll.Rd |only kimisc-0.3/kimisc/man/vswitch.Rd |only kimisc-0.4/kimisc/DESCRIPTION | 19 +--- kimisc-0.4/kimisc/MD5 | 81 ++++++++++----------- kimisc-0.4/kimisc/NAMESPACE | 3 kimisc-0.4/kimisc/NEWS.md | 16 ++++ kimisc-0.4/kimisc/R/coalesce_na.R | 9 +- kimisc-0.4/kimisc/R/cut.R | 19 ++-- kimisc-0.4/kimisc/R/deprecate.R |only kimisc-0.4/kimisc/R/export.R | 14 +-- kimisc-0.4/kimisc/R/gdiff.R | 14 +-- kimisc-0.4/kimisc/R/hms_to_seconds.R | 11 +- kimisc-0.4/kimisc/R/in_interval.R | 32 ++++---- kimisc-0.4/kimisc/R/list_to_df.R | 6 + kimisc-0.4/kimisc/R/nlist.R | 50 +++++++----- kimisc-0.4/kimisc/R/ofactor.R | 13 ++- kimisc-0.4/kimisc/R/sample_data_frame.R | 10 +- kimisc-0.4/kimisc/R/seconds_to_hms.R | 11 +- kimisc-0.4/kimisc/R/thisfile.R | 53 +++++++++++-- kimisc-0.4/kimisc/R/tll.R | 5 + kimisc-0.4/kimisc/R/vswitch.R | 22 +++-- kimisc-0.4/kimisc/man/coalesce.na-deprecated.Rd |only kimisc-0.4/kimisc/man/cut_format.Rd | 10 +- kimisc-0.4/kimisc/man/df_to_list-deprecated.Rd |only kimisc-0.4/kimisc/man/export.Rd | 11 +- kimisc-0.4/kimisc/man/export.list.Rd | 15 +-- kimisc-0.4/kimisc/man/gdiff.Rd | 17 ++-- kimisc-0.4/kimisc/man/hms.to.seconds-deprecated.Rd |only kimisc-0.4/kimisc/man/in.interval.lo.Rd | 9 +- kimisc-0.4/kimisc/man/in.interval.ro.Rd | 9 +- kimisc-0.4/kimisc/man/kimisc-deprecated.Rd |only kimisc-0.4/kimisc/man/kimisc-package.Rd | 18 ++-- kimisc-0.4/kimisc/man/list_to_df-deprecated.Rd |only kimisc-0.4/kimisc/man/nc-deprecated.Rd |only kimisc-0.4/kimisc/man/nin.interval.lo.Rd | 7 - kimisc-0.4/kimisc/man/nin.interval.ro.Rd | 9 +- kimisc-0.4/kimisc/man/nlist-deprecated.Rd |only kimisc-0.4/kimisc/man/ofactor-deprecated.Rd |only kimisc-0.4/kimisc/man/sample.rows-deprecated.Rd |only kimisc-0.4/kimisc/man/seconds.to.hms-deprecated.Rd |only kimisc-0.4/kimisc/man/thisfile-deprecated.Rd |only kimisc-0.4/kimisc/man/tll-deprecated.Rd |only kimisc-0.4/kimisc/man/vswitch-deprecated.Rd |only kimisc-0.4/kimisc/tests/test-all.R | 1 55 files changed, 286 insertions(+), 208 deletions(-)
Title: Lightning Fast Serialization of Data Frames for R
Description: Multithreaded serialization of compressed data frames using the 'fst' format.
The 'fst' format allows for random access of stored data and compression with the
LZ4 and ZSTD compressors created by Yann Collet. The ZSTD compression library is owned by
Facebook Inc.
Author: Mark Klik [aut, cre, cph],
Yann Collet [ctb, cph] (Yann Collet is author of the bundled LZ4 and
ZSTD code and copyright holder of LZ4),
Facebook, Inc. [cph] (Bundled ZSTD code)
Maintainer: Mark Klik <markklik@gmail.com>
Diff between fst versions 0.8.0 dated 2017-12-13 and 0.8.2 dated 2017-12-18
fst-0.8.0/fst/src/fstcore/ZSTD/common/xxhash.c |only fst-0.8.0/fst/src/fstcore/ZSTD/common/xxhash.h |only fst-0.8.2/fst/DESCRIPTION | 23 +++- fst-0.8.2/fst/MD5 | 28 +++--- fst-0.8.2/fst/R/fst.R | 2 fst-0.8.2/fst/R/package.R | 83 ++++++++++++++++++ fst-0.8.2/fst/man/fst-package.Rd |only fst-0.8.2/fst/src/Makevars | 4 fst-0.8.2/fst/src/fstcore/LZ4/xxhash.c |only fst-0.8.2/fst/src/fstcore/LZ4/xxhash.h |only fst-0.8.2/fst/src/fstcore/ZSTD/COPYING |only fst-0.8.2/fst/src/fstcore/character/character_v6.cpp | 1 fst-0.8.2/fst/src/fstcore/compression/compression.cpp | 1 fst-0.8.2/fst/src/fstcore/factor/factor_v7.cpp | 24 +++-- fst-0.8.2/fst/src/fstcore/interface/fstcompressor.h | 2 fst-0.8.2/fst/src/fstcore/interface/fsthash.h | 2 fst-0.8.2/fst/src/fstcore/interface/fststore.cpp | 2 fst-0.8.2/fst/tests/testthat/FactorStore/data1.fst |binary 18 files changed, 137 insertions(+), 35 deletions(-)
Title: Exploratory Analyses for the Phylogenetic Comparative Method
Description: Multivariate tools to analyze comparative data, i.e. a phylogeny
and some traits measured for each taxa.
Author: Thibaut Jombart <t.jombart@imperial.ac.uk>, Stéphane Dray
<stephane.dray@univ-lyon1.fr>, Anders Ellern Bilgrau <abilgrau@math.aau.dk>
Maintainer: Stéphane Dray <stephane.dray@univ-lyon1.fr>
Diff between adephylo versions 1.1-10 dated 2016-12-13 and 1.1-11 dated 2017-12-18
DESCRIPTION | 15 ++--- MD5 | 95 +++++++++++++++++---------------- build/vignette.rds |binary inst/doc/adephylo.R | 69 ++++++++++------------- inst/doc/adephylo.Rnw | 17 ----- inst/doc/adephylo.pdf |binary man/abouheif.Rd | 9 +-- man/adephylo-package.Rd | 9 +-- man/bullseye.Rd | 7 +- man/carni19.Rd | 1 man/carni70.Rd | 1 man/dibas.Rd | 13 ++-- man/distRoot.Rd | 7 +- man/distTips.Rd | 7 +- man/listDD.Rd | 7 +- man/listTips.Rd | 7 +- man/lizards.Rd | 1 man/maples.Rd | 1 man/miscUtils.Rd | 1 man/mjrochet.Rd | 1 man/moranIdx.Rd | 7 +- man/orthobasis.Rd | 9 +-- man/orthogram.Rd | 11 +-- man/palm.Rd | 1 man/ppca.Rd | 20 ++++-- man/procella.Rd | 1 man/proxTips.Rd | 7 +- man/sp.tips.Rd | 7 +- man/table.phylo4d.Rd | 7 +- man/tithonia.Rd | 1 man/treePart.Rd | 7 +- man/ungulates.Rd | 1 src/adesub.c | 24 ++++---- src/init.c |only vignettes/adephylo.Rnw | 17 ----- vignettes/figs/adephylo-011.pdf |only vignettes/figs/adephylo-012.pdf |binary vignettes/figs/adephylo-015.pdf |only vignettes/figs/adephylo-016.pdf |binary vignettes/figs/adephylo-017.pdf |binary vignettes/figs/adephylo-018.pdf |binary vignettes/figs/adephylo-aboutest.pdf |binary vignettes/figs/adephylo-figFourBas.pdf |binary vignettes/figs/adephylo-lm1.pdf |binary vignettes/figs/adephylo-loadings.pdf |binary vignettes/figs/adephylo-orthobas1.pdf |binary vignettes/figs/adephylo-pca1.pdf |binary vignettes/figs/adephylo-pca2.pdf |binary vignettes/figs/adephylo-phylo4d.pdf |binary vignettes/figs/adephylo-resid.pdf |binary 50 files changed, 166 insertions(+), 222 deletions(-)
Title: Import Surface Meteorological Data from NOAA Integrated Surface
Database (ISD)
Description: Functions to import data from more than 30,000 surface
meteorological sites around the world managed by the National Oceanic and Atmospheric Administration (NOAA) Integrated Surface
Database (ISD, see <https://www.ncdc.noaa.gov/isd>).
Author: David Carslaw [aut, cre]
Maintainer: David Carslaw <david.carslaw@york.ac.uk>
Diff between worldmet versions 0.7.5 dated 2017-01-26 and 0.8.0 dated 2017-12-18
DESCRIPTION | 13 ++- MD5 | 27 ++++--- NAMESPACE | 5 + R/getMeta.R | 13 +-- R/metNOAA.R | 178 ++++++++++++++++++++++++++++------------------------ R/sysdata.rda |binary README.md | 14 +--- data/meta.rda |binary inst |only man/exportADMS.Rd | 1 man/getMeta.Rd | 1 man/importNOAA.Rd | 86 ++++++++++++------------- man/meta.Rd | 1 man/weatherCodes.Rd | 1 man/worldmet.Rd | 7 -- 15 files changed, 179 insertions(+), 168 deletions(-)
Title: Wrapper for MUMPS Library
Description: Some basic features of MUMPS (Multifrontal Massively Parallel
sparse direct Solver) are wrapped in a class whose methods can be used
for sequentially solving a sparse linear system (symmetric or not)
with one or many right hand sides (dense or sparse).
There is a possibility to do separately symbolic analysis,
LU (or LDL^t) factorization and system solving.
Third part ordering libraries are included and can be used: PORD, METIS, SCOTCH.
Author: Serguei Sokol [aut, cre],
Emmanuel Agullo [ctb],
Patrick Amestoy [ctb],
Maurice Bremond [ctb],
Alfredo Buttari [ctb],
Philippe Combes [ctb],
Marie Durand [ctb],
Aurelia Fevre [ctb],
Abdou Guermouche [ctb],
Guillaume Joslin [ctb],
Jacko Koster [ctb],
Jean-Yves L'Excellent [ctb],
Stephane Pralet [ctb],
Chiara Puglisi [ctb],
Francois-Henry Rouet [ctb],
Wissam Sid-Lakhdar [ctb],
Tzvetomila Slavova [ctb],
Bora Ucar [ctb],
Clement Weisbecker [ctb],
Juergen Schulze [ctb],
George Karypis [ctb],
Douglas C. Schmidt [ctb],
Isamu Hasegawa [ctb],
Alexander Chemeris [ctb],
Makoto Matsumoto [ctb],
Takuji Nishimura [ctb],
Fran<c3><a7>ois Pellegrini [ctb],
David Goudin [ctb],
Pascal Henon [ctb],
Pierre Ramet [ctb],
Sebastien Fourestier [ctb],
Jun-Ho Her [ctb],
Cedric Chevalier [ctb],
Timothy A. Davis [ctb],
Iain S. Duff [ctb],
John K. Reid [ctb],
Richard Stallman [ctb],
Samuel Thibault [ctb]
Maintainer: Serguei Sokol <sokol@insa-toulouse.fr>
Diff between rmumps versions 5.1.1-3 dated 2017-09-19 and 5.1.2-2 dated 2017-12-18
rmumps-5.1.1-3/rmumps/src/lib/MUMPS_5.1.1 |only rmumps-5.1.2-2/rmumps/DESCRIPTION | 87 ++++ rmumps-5.1.2-2/rmumps/MD5 | 478 +++++++++++++-------------- rmumps-5.1.2-2/rmumps/NEWS | 13 rmumps-5.1.2-2/rmumps/R/inc_os.R |only rmumps-5.1.2-2/rmumps/inst/COPYRIGHTS |only rmumps-5.1.2-2/rmumps/man/rmumps-package.Rd | 2 rmumps-5.1.2-2/rmumps/src/Makevars | 4 rmumps-5.1.2-2/rmumps/src/Makevars.omp | 4 rmumps-5.1.2-2/rmumps/src/lib/MUMPS_5.1.2 |only rmumps-5.1.2-2/rmumps/src/lib/Makefile | 5 rmumps-5.1.2-2/rmumps/src/lib/warnings.patch |only 12 files changed, 337 insertions(+), 256 deletions(-)
Title: Multiple UniDimensional unFOLDing
Description: Nonparametric item response theory (IRT) model for nonmonotonic IRFs, which is fruitful for scale analysis of proximity items.
Author: Spyros Balafas [aut, cre],
Wim Krijnen [aut],
Wendy Post [ctr],
Ernst Wit [aut]
Maintainer: Spyros Balafas <s.balafas@rug.nl>
Diff between mudfold versions 1.0 dated 2017-03-30 and 1.1.0 dated 2017-12-18
mudfold-1.0/mudfold/data/MUDFOLData.RData |only mudfold-1.0/mudfold/man/MUDFOLData.Rd |only mudfold-1.1.0/mudfold/DESCRIPTION | 25 +-- mudfold-1.1.0/mudfold/MD5 | 73 +++++---- mudfold-1.1.0/mudfold/NAMESPACE | 4 mudfold-1.1.0/mudfold/R/ADJ.R | 11 - mudfold-1.1.0/mudfold/R/CADJ.R | 6 mudfold-1.1.0/mudfold/R/CAM_STAR.R |only mudfold-1.1.0/mudfold/R/DOM.R | 5 mudfold-1.1.0/mudfold/R/Err_exp.R | 9 - mudfold-1.1.0/mudfold/R/Err_exp_item.R | 13 - mudfold-1.1.0/mudfold/R/Err_exp_scale.R | 4 mudfold-1.1.0/mudfold/R/Err_obs.R | 7 mudfold-1.1.0/mudfold/R/Err_obs_item.R | 11 - mudfold-1.1.0/mudfold/R/Err_obs_scale.R | 6 mudfold-1.1.0/mudfold/R/Hitem.R | 15 - mudfold-1.1.0/mudfold/R/Hscale.R | 20 +- mudfold-1.1.0/mudfold/R/Htrip.R | 10 - mudfold-1.1.0/mudfold/R/ISO.R | 3 mudfold-1.1.0/mudfold/R/as.mudfold.R |only mudfold-1.1.0/mudfold/R/data_check.R |only mudfold-1.1.0/mudfold/R/data_info.R |only mudfold-1.1.0/mudfold/R/mudfold.R | 125 ++-------------- mudfold-1.1.0/mudfold/R/mudfold_fs.R |only mudfold-1.1.0/mudfold/R/mudfold_se.R |only mudfold-1.1.0/mudfold/R/mudfoldsim.R | 66 ++++++-- mudfold-1.1.0/mudfold/R/param_est.R | 5 mudfold-1.1.0/mudfold/R/pick.R |only mudfold-1.1.0/mudfold/R/plot.mdf.R | 71 +-------- mudfold-1.1.0/mudfold/R/plot_irf.R |only mudfold-1.1.0/mudfold/R/plot_scale.R |only mudfold-1.1.0/mudfold/R/print.mdf.R | 11 - mudfold-1.1.0/mudfold/R/summary.mdf.R | 2 mudfold-1.1.0/mudfold/data/Plato7.RData |only mudfold-1.1.0/mudfold/man/ANDRICH.Rd | 11 - mudfold-1.1.0/mudfold/man/EURPAR2.Rd | 7 mudfold-1.1.0/mudfold/man/Plato7.Rd |only mudfold-1.1.0/mudfold/man/as.mudfold.Rd |only mudfold-1.1.0/mudfold/man/mudfold-package.Rd | 38 +--- mudfold-1.1.0/mudfold/man/mudfold.Rd | 210 ++++++++++++++++++--------- mudfold-1.1.0/mudfold/man/mudfoldsim.Rd | 104 +++++++++---- mudfold-1.1.0/mudfold/man/pick.Rd |only mudfold-1.1.0/mudfold/man/plot.mdf.Rd | 28 ++- mudfold-1.1.0/mudfold/man/print.mdf.Rd | 6 mudfold-1.1.0/mudfold/man/summary.mdf.Rd | 18 +- 45 files changed, 447 insertions(+), 477 deletions(-)
Title: Testing for Change in C-Statistic
Description: Calculate the confidence interval and p value for change in C-statistic. The adjusted C-statistic is calculated by using formula as "Somers' Dxy rank correlation"/2+0.5. The confidence interval was calculated by using the bootstrap method. The p value was calculated by using the Z testing method. Please refer to the article of Peter Ganz et al. (2016) <doi:10.1001/jama.2016.5951>.
Author: Zhicheng Du, Yuantao Hao
Maintainer: Zhicheng Du<dgdzc@hotmail.com>
Diff between CsChange versions 0.1.0 dated 2017-12-05 and 0.1.1 dated 2017-12-18
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/CsChange.R | 14 +++++++++++--- man/CsChange.Rd | 4 +++- 4 files changed, 20 insertions(+), 10 deletions(-)
Title: Multivariate Multiscale Spatial Analysis
Description: Tools for the multiscale spatial analysis of multivariate data.
Several methods are based on the use of a spatial weighting matrix and its
eigenvector decomposition (Moran's Eigenvectors Maps, MEM).
Author: Stéphane Dray, Guillaume Blanchet, Daniel Borcard, Sylvie Clappe, Guillaume Guenard,
Thibaut Jombart, Guillaume Larocque, Pierre Legendre, Naima Madi, Helene H Wagner
Maintainer: Stéphane Dray <stephane.dray@univ-lyon1.fr>
Diff between adespatial versions 0.0-9 dated 2017-09-01 and 0.1-0 dated 2017-12-18
DESCRIPTION | 10 ++--- MD5 | 32 +++++++++--------- NAMESPACE | 4 ++ R/beta.div.R | 11 +++--- R/beta.div.comp.R | 11 +++++- R/dbmem.R | 86 +++++++++++++++++++++++++------------------------ R/dist.ldc.R | 2 - R/msr.mantelrtest.R |only R/scores.listw.R | 51 +++++++++++++++-------------- build/vignette.rds |binary inst/doc/tutorial.R | 9 ++--- inst/doc/tutorial.Rmd | 9 ++--- inst/doc/tutorial.html | 83 ++++++++++++++++++++++++----------------------- man/beta.div.Rd | 11 +++--- man/dbmem.Rd | 74 ++++++++++++++++++++++-------------------- man/mem.Rd | 41 +++++++++++++---------- man/msr.mantelrtest.Rd |only vignettes/tutorial.Rmd | 9 ++--- 18 files changed, 241 insertions(+), 202 deletions(-)
Title: Tools for Combinatorics and Computational Mathematics
Description: Provides optimized functions implemented in C++ with 'Rcpp'
for solving problems in combinatorics and computational mathematics.
There is a combination function and a permutation function that are
both flexible as well as efficient with respect to speed and memory.
There are optional contraint parameters that when utilized, generate
all combinations/permutations of a vector meeting a specific criteria
(E.g. finding all combinations such that the sum is less than a
bound). Both functions are capable of handling mulitsets as well.
Additionally, there are various sieving functions that quickly
generate essential components for problems common in computational
mathematics (E.g. number of comprime elements, divisors, prime
factorizations, and complete factorizations for many numbers as
well as primes numbers in a range).
Author: Joseph Wood
Maintainer: Joseph Wood <jwood000@gmail.com>
Diff between RcppAlgos versions 0.2.2 dated 2017-12-15 and 0.2.4 dated 2017-12-18
DESCRIPTION | 20 ++++++++++---------- MD5 | 6 +++--- NEWS | 12 ++++++++++++ src/CombinatoricsContainer.cpp | 23 +++++++++++++++++++++-- 4 files changed, 46 insertions(+), 15 deletions(-)
Title: Headers for the 'xtensor' Library
Description: The 'xtensor' C++ library for numerical analysis with
multi-dimensional array expressions is provided as a header-only
C++14 library. It offers an extensible expression system enabling
lazy broadcasting; an API following the idioms of the C++ standard
library; and tools to manipulate array expressions and build upon 'xtensor'.
Author: Johan Mabille, Sylvain Corlay and Wolf Vollprecht
Maintainer: Sylvain Corlay <sylvain.corlay@gmail.com>
Diff between xtensor versions 0.3.0-0 dated 2017-11-10 and 0.4.0-0 dated 2017-12-18
xtensor-0.3.0-0/xtensor/inst/include/xtensor/xfunctorview.hpp |only xtensor-0.3.0-0/xtensor/inst/include/xtensor/xindexview.hpp |only xtensor-0.3.0-0/xtensor/inst/include/xtensor/xoffsetview.hpp |only xtensor-0.3.0-0/xtensor/inst/include/xtensor/xstridedview.hpp |only xtensor-0.4.0-0/xtensor/DESCRIPTION | 6 xtensor-0.4.0-0/xtensor/MD5 | 93 - xtensor-0.4.0-0/xtensor/inst/include/xtensor-r/rvectorize.hpp | 2 xtensor-0.4.0-0/xtensor/inst/include/xtensor-r/xtensor_r_config.hpp | 2 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xaccumulator.hpp |only xtensor-0.4.0-0/xtensor/inst/include/xtensor/xadapt.hpp | 201 ++- xtensor-0.4.0-0/xtensor/inst/include/xtensor/xarray.hpp | 1 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xassign.hpp | 11 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xbroadcast.hpp | 16 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xcomplex.hpp | 6 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xcontainer.hpp | 55 - xtensor-0.4.0-0/xtensor/inst/include/xtensor/xexpression.hpp | 44 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xfunction.hpp | 191 ++- xtensor-0.4.0-0/xtensor/inst/include/xtensor/xfunctor_view.hpp |only xtensor-0.4.0-0/xtensor/inst/include/xtensor/xgenerator.hpp | 17 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xindex_view.hpp |only xtensor-0.4.0-0/xtensor/inst/include/xtensor/xinfo.hpp | 48 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xio.hpp | 29 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xlayout.hpp | 6 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xmath.hpp | 525 +++++----- xtensor-0.4.0-0/xtensor/inst/include/xtensor/xnoalias.hpp | 10 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xnpy.hpp | 10 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xoffset_view.hpp |only xtensor-0.4.0-0/xtensor/inst/include/xtensor/xoperation.hpp | 35 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xoptional.hpp | 464 ++------ xtensor-0.4.0-0/xtensor/inst/include/xtensor/xoptional_assembly.hpp | 3 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xoptional_assembly_base.hpp | 48 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xrandom.hpp | 55 - xtensor-0.4.0-0/xtensor/inst/include/xtensor/xreducer.hpp | 296 +++++ xtensor-0.4.0-0/xtensor/inst/include/xtensor/xscalar.hpp | 35 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xsemantic.hpp | 48 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xsort.hpp |only xtensor-0.4.0-0/xtensor/inst/include/xtensor/xstrided_view.hpp |only xtensor-0.4.0-0/xtensor/inst/include/xtensor/xtensor.hpp | 3 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xtensor_config.hpp | 13 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xtensor_forward.hpp | 31 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xutils.hpp | 62 - xtensor-0.4.0-0/xtensor/inst/include/xtensor/xvectorize.hpp | 1 xtensor-0.4.0-0/xtensor/inst/include/xtensor/xview.hpp | 39 xtensor-0.4.0-0/xtensor/inst/include/xtl/xclosure.hpp | 2 xtensor-0.4.0-0/xtensor/inst/include/xtl/xfunctional.hpp |only xtensor-0.4.0-0/xtensor/inst/include/xtl/xiterator_base.hpp | 123 ++ xtensor-0.4.0-0/xtensor/inst/include/xtl/xmeta_utils.hpp | 50 xtensor-0.4.0-0/xtensor/inst/include/xtl/xoptional.hpp | 74 + xtensor-0.4.0-0/xtensor/inst/include/xtl/xtl_config.hpp | 2 xtensor-0.4.0-0/xtensor/inst/lib/cmake/xtensor-r/xtensor-rConfigVersion.cmake | 2 xtensor-0.4.0-0/xtensor/inst/lib/cmake/xtensor/xtensorConfigVersion.cmake | 2 xtensor-0.4.0-0/xtensor/inst/lib/cmake/xtl/xtlConfigVersion.cmake | 2 xtensor-0.4.0-0/xtensor/inst/lib/pkgconfig/xtensor.pc | 2 53 files changed, 1732 insertions(+), 933 deletions(-)
Title: Spectral Data for Light-Emitting-Diodes
Description: Spectral emission data for some frequently used light emitting
diodes.
Author: Pedro J. Aphalo [aut, cre],
Shafiuddin Ahmed [ctb]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Diff between photobiologyLEDs versions 0.4.2 dated 2016-10-23 and 0.4.3 dated 2017-12-18
photobiologyLEDs-0.4.2/photobiologyLEDs/inst/doc/data-catalogue.R |only photobiologyLEDs-0.4.2/photobiologyLEDs/inst/doc/data-catalogue.Rmd |only photobiologyLEDs-0.4.2/photobiologyLEDs/inst/doc/data-catalogue.html |only photobiologyLEDs-0.4.2/photobiologyLEDs/inst/staticdocs |only photobiologyLEDs-0.4.2/photobiologyLEDs/vignettes/data-catalogue.Rmd |only photobiologyLEDs-0.4.3/photobiologyLEDs/DESCRIPTION | 18 photobiologyLEDs-0.4.3/photobiologyLEDs/MD5 | 93 -- photobiologyLEDs-0.4.3/photobiologyLEDs/NEWS | 9 photobiologyLEDs-0.4.3/photobiologyLEDs/R/colors.r | 16 photobiologyLEDs-0.4.3/photobiologyLEDs/R/generic.r | 13 photobiologyLEDs-0.4.3/photobiologyLEDs/R/hewlett-packard.r | 17 photobiologyLEDs-0.4.3/photobiologyLEDs/R/huey-jann.r | 13 photobiologyLEDs-0.4.3/photobiologyLEDs/R/led-engin.r | 16 photobiologyLEDs-0.4.3/photobiologyLEDs/R/leds-mspct.r | 56 + photobiologyLEDs-0.4.3/photobiologyLEDs/R/lumitronix.r | 15 photobiologyLEDs-0.4.3/photobiologyLEDs/R/marktech.r |only photobiologyLEDs-0.4.3/photobiologyLEDs/R/nichia.r |only photobiologyLEDs-0.4.3/photobiologyLEDs/R/norlux.r | 18 photobiologyLEDs-0.4.3/photobiologyLEDs/R/on-load.R |only photobiologyLEDs-0.4.3/photobiologyLEDs/R/oo-maya-leds.r | 13 photobiologyLEDs-0.4.3/photobiologyLEDs/R/osram.r | 21 photobiologyLEDs-0.4.3/photobiologyLEDs/R/photobiologyLEDs.r | 35 photobiologyLEDs-0.4.3/photobiologyLEDs/R/quantum-devices.r | 16 photobiologyLEDs-0.4.3/photobiologyLEDs/R/roithner-laser.r | 16 photobiologyLEDs-0.4.3/photobiologyLEDs/R/seti.r | 18 photobiologyLEDs-0.4.3/photobiologyLEDs/R/shenzhen-weili.r | 15 photobiologyLEDs-0.4.3/photobiologyLEDs/R/tao-yuan.r | 18 photobiologyLEDs-0.4.3/photobiologyLEDs/README.md | 2 photobiologyLEDs-0.4.3/photobiologyLEDs/build/vignette.rds |binary photobiologyLEDs-0.4.3/photobiologyLEDs/data/leds-mspct.rda |binary photobiologyLEDs-0.4.3/photobiologyLEDs/inst/doc/user-guide.R | 37 photobiologyLEDs-0.4.3/photobiologyLEDs/inst/doc/user-guide.Rmd | 124 ++ photobiologyLEDs-0.4.3/photobiologyLEDs/inst/doc/user-guide.html | 463 ++++++---- photobiologyLEDs-0.4.3/photobiologyLEDs/man/hewlett_packard.Rd | 29 photobiologyLEDs-0.4.3/photobiologyLEDs/man/huey_jann.Rd | 22 photobiologyLEDs-0.4.3/photobiologyLEDs/man/led_engin.Rd | 26 photobiologyLEDs-0.4.3/photobiologyLEDs/man/leds.mspct.Rd | 53 + photobiologyLEDs-0.4.3/photobiologyLEDs/man/leds_global.Rd | 27 photobiologyLEDs-0.4.3/photobiologyLEDs/man/lumitronix.Rd | 26 photobiologyLEDs-0.4.3/photobiologyLEDs/man/marktech.Rd |only photobiologyLEDs-0.4.3/photobiologyLEDs/man/nichia.Rd |only photobiologyLEDs-0.4.3/photobiologyLEDs/man/norlux.Rd | 28 photobiologyLEDs-0.4.3/photobiologyLEDs/man/oo_maya_leds.Rd | 14 photobiologyLEDs-0.4.3/photobiologyLEDs/man/osram.Rd | 28 photobiologyLEDs-0.4.3/photobiologyLEDs/man/photobiologyLEDs-package.Rd | 53 + photobiologyLEDs-0.4.3/photobiologyLEDs/man/quantum_devices.Rd | 26 photobiologyLEDs-0.4.3/photobiologyLEDs/man/roithner_laser.Rd | 26 photobiologyLEDs-0.4.3/photobiologyLEDs/man/seti.Rd | 29 photobiologyLEDs-0.4.3/photobiologyLEDs/man/tao_yuan.Rd | 27 photobiologyLEDs-0.4.3/photobiologyLEDs/man/unknown.Rd | 23 photobiologyLEDs-0.4.3/photobiologyLEDs/man/uv_leds.Rd | 25 photobiologyLEDs-0.4.3/photobiologyLEDs/vignettes/user-guide.Rmd | 124 ++ 52 files changed, 1101 insertions(+), 547 deletions(-)
More information about photobiologyLEDs at CRAN
Permanent link
Title: Summarize Text by Ranking Sentences and Finding Keywords
Description: The 'textrank' algorithm is an extension of the 'Pagerank' algorithm for text. The algorithm allows to summarize text by calculating how sentences are related to one another. This is done by looking at overlapping terminology used in sentences in order to set up links between sentences. The resulting sentence network is next plugged into the 'Pagerank' algorithm which identifies the most important sentences in your text and ranks them.
In a similar way 'textrank' can also be used to extract keywords. A word network is constructed by looking if words are following one another. On top of that network the 'Pagerank' algorithm is applied to extract relevant words after which relevant words which are following one another are combined to get keywords.
More information can be found in the paper from Mihalcea, Rada & Tarau, Paul (2004) <http://www.aclweb.org/anthology/W04-3252>.
Author: Jan Wijffels [aut, cre, cph], BNOSAC [cph]
Maintainer: Jan Wijffels <jwijffels@bnosac.be>
Diff between textrank versions 0.1.0 dated 2017-11-22 and 0.2.0 dated 2017-12-18
textrank-0.1.0/textrank/man/summary.textrank.Rd |only textrank-0.1.0/textrank/man/textrank.Rd |only textrank-0.2.0/textrank/DESCRIPTION | 12 textrank-0.2.0/textrank/MD5 | 28 +- textrank-0.2.0/textrank/NAMESPACE | 7 textrank-0.2.0/textrank/NEWS.md |only textrank-0.2.0/textrank/R/pkg.R | 2 textrank-0.2.0/textrank/R/textrank.R | 175 ++++++++++++-- textrank-0.2.0/textrank/README.md | 15 - textrank-0.2.0/textrank/inst/doc/textrank.R | 25 +- textrank-0.2.0/textrank/inst/doc/textrank.Rmd | 67 ++++- textrank-0.2.0/textrank/inst/doc/textrank.html | 79 ++++-- textrank-0.2.0/textrank/man/summary.textrank_sentences.Rd |only textrank-0.2.0/textrank/man/textrank_candidates_all.Rd | 4 textrank-0.2.0/textrank/man/textrank_candidates_lsh.Rd | 4 textrank-0.2.0/textrank/man/textrank_keywords.Rd |only textrank-0.2.0/textrank/man/textrank_sentences.Rd |only textrank-0.2.0/textrank/vignettes/textrank.Rmd | 67 ++++- 18 files changed, 386 insertions(+), 99 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-02-27 0.8.1
2016-08-15 0.7.1
2016-04-01 0.7
2015-11-22 0.6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-01-03 1.0.2-1
2013-11-12 1.0.2
2012-12-20 1.0.1
2012-11-16 1.0.0
2011-08-03 0.0.1
Title: The Pharmacokinetics (PK) of Multi-Component Drugs Using a
Metabolomics Approach
Description: Poly-PK strategy is a new strategy of pharmacokinetic analysis of multi-component drugs (Guoxiang Xie, Tianlu Chen, Wei Jia, et al. (2012)<doi:10.1021/pr300318m>; Ke Lan, Guoxiang Xie and Wei Jia. (2013)<doi:10.1155/2013/819147>). This package is the first implementation of the Poly-PK strategy with 10 easy-to-use functions.
Author: Mengci Li, Shouli Wang, Guoxiang Xie, Tianlu Chen and Wei Jia
Maintainer: Tianlu Chen <chentianlu@sjtu.edu.cn>
Diff between polyPK versions 2.0.0 dated 2017-10-22 and 3.0.0 dated 2017-12-18
DESCRIPTION | 8 MD5 | 22 - NAMESPACE | 5 NEWS | 8 R/PKs.R | 115 ++++++---- R/ScatPlot.R | 1 inst/doc/my-vignette.R | 22 - inst/doc/my-vignette.Rmd | 22 - inst/doc/my-vignette.html | 518 +++++++++------------------------------------- man/GetAbso.Rd | 2 man/PKs.Rd | 6 vignettes/my-vignette.Rmd | 22 - 12 files changed, 244 insertions(+), 507 deletions(-)