Title: Tools for Script Editing
Description: A collection of useful tools for programming and writing-scripts.
Several functions are simple wrappers around base R functions that extend
their functionality while also providing some convenient properties–regular
expression functions that automatically detect look-ahead and look-behind
statements, a read-line function that suppresses incomplete-final-line
warnings and automatically opens and closes connections, a version of
substrings that starts from the end of strings, etc. Other functions are
useful for working with hexadecimal colors, installing packages, omitting
missing data, and showing in-use connections.
Author: Michael W. Kearney [aut, cre] (<https://orcid.org/0000-0002-0730-4694>)
Maintainer: Michael W. Kearney <kearneymw@missouri.edu>
Diff between tfse versions 0.4.2 dated 2018-10-16 and 0.4.4 dated 2018-11-28
DESCRIPTION | 8 ++++---- MD5 | 31 +++++++++++++++++++++++++------ NAMESPACE | 11 +++++++++++ R/data_set.R |only R/desc.R |only R/emj.R |only R/github_raw.R |only R/lines.R | 8 +++++--- R/match_arg.R | 5 +++++ R/print-messages.R |only R/regmatches_.R | 1 + R/search_files.R | 33 ++++++++++++++++++++++++--------- R/search_function.R |only R/unzip.R |only data |only man/data_set.Rd |only man/desc_get_var.Rd |only man/emj.Rd |only man/github_raw.Rd |only man/n_uq.Rd |only man/print_as_col.Rd |only man/print_complete.Rd |only man/print_start.Rd |only man/search_function.Rd |only man/un_zip.Rd |only tests/testthat/test-data_set.R |only 26 files changed, 75 insertions(+), 22 deletions(-)
Title: Supporting Graphs for Analysing Time Series
Description: Provides 'ggplot2' graphics for analysing time
series data. It aims to fit into the 'tidyverse' and grammar of
graphics framework for handling temporal data.
Author: Earo Wang [aut, cre] (<https://orcid.org/0000-0001-6448-5260>),
Di Cook [aut, ths] (<https://orcid.org/0000-0002-3813-7155>),
Rob Hyndman [aut, ths] (<https://orcid.org/0000-0002-2140-5352>)
Maintainer: Earo Wang <earo.wang@gmail.com>
Diff between sugrrants versions 0.2.0 dated 2018-10-28 and 0.2.1 dated 2018-11-28
DESCRIPTION | 11 ++++++----- MD5 | 12 ++++++------ NEWS.md | 4 ++++ R/frame-calendar.R | 16 ++++++++++------ README.md | 3 ++- inst/doc/frame-calendar.html | 8 ++++---- man/frame-calendar.Rd | 2 +- 7 files changed, 33 insertions(+), 23 deletions(-)
Title: Calculate physiologic characteristics of awake and anesthetized
adults, children and infants
Description: A variety of formulae are provided for estimation
of physiologic characteristics of infants, children, and adults.
Calculations include: body surface area, ideal weight, airway
dead-space, the alveolar gas equation, and GFR. Each formula is
referenced to the original publication. Future functions will cover
more material with a focus on anaesthesia, critical care and
peri-operative medicine.
Author: Jack O. Wasey [aut, cre, cph] (<https://orcid.org/0000-0003-3738-4637>),
Bill Denney [ctb] (<https://orcid.org/0000-0002-5759-428X>)
Maintainer: Jack O. Wasey <jack@jackwasey.com>
Diff between physiology versions 1.0.1 dated 2018-07-16 and 1.2.1 dated 2018-11-28
physiology-1.0.1/physiology/R/ventilation.R |only physiology-1.0.1/physiology/man/bsa_adult.Rd |only physiology-1.0.1/physiology/man/getStandardTemperature.Rd |only physiology-1.0.1/physiology/vignettes/IdealWeightComparison.md |only physiology-1.2.1/physiology/DESCRIPTION | 54 +- physiology-1.2.1/physiology/MD5 | 110 +++-- physiology-1.2.1/physiology/NAMESPACE | 22 + physiology-1.2.1/physiology/NEWS.md | 10 physiology-1.2.1/physiology/R/RcppExports.R | 2 physiology-1.2.1/physiology/R/acidbase.R | 1 physiology-1.2.1/physiology/R/age.R | 20 - physiology-1.2.1/physiology/R/airway.R |only physiology-1.2.1/physiology/R/bmi.R | 31 - physiology-1.2.1/physiology/R/bsa.R |only physiology-1.2.1/physiology/R/datadocs.R |only physiology-1.2.1/physiology/R/deadspace.R |only physiology-1.2.1/physiology/R/eGFR.R |only physiology-1.2.1/physiology/R/physics.R | 5 physiology-1.2.1/physiology/R/physiology-package.R | 3 physiology-1.2.1/physiology/R/pulmonary.R | 1 physiology-1.2.1/physiology/R/units.R | 1 physiology-1.2.1/physiology/R/valid.R | 24 + physiology-1.2.1/physiology/README.md | 23 - physiology-1.2.1/physiology/build/vignette.rds |binary physiology-1.2.1/physiology/data |only physiology-1.2.1/physiology/inst/WORDLIST | 85 ++++ physiology-1.2.1/physiology/inst/doc/Everest.Rmd | 4 physiology-1.2.1/physiology/inst/doc/Everest.html | 22 - physiology-1.2.1/physiology/inst/doc/IdealWeightComparison.R | 18 physiology-1.2.1/physiology/inst/doc/IdealWeightComparison.Rmd | 18 physiology-1.2.1/physiology/inst/doc/IdealWeightComparison.html | 6 physiology-1.2.1/physiology/inst/doc/NeonatalVentilation.R | 49 ++ physiology-1.2.1/physiology/inst/doc/NeonatalVentilation.Rmd | 65 ++- physiology-1.2.1/physiology/inst/doc/NeonatalVentilation.html | 50 ++ physiology-1.2.1/physiology/man/Pa_to_torr.Rd | 5 physiology-1.2.1/physiology/man/age_from_dates.Rd | 16 physiology-1.2.1/physiology/man/alveolar_PAO2_mmHg.Rd | 4 physiology-1.2.1/physiology/man/bloodvol.Rd | 2 physiology-1.2.1/physiology/man/bsa.Rd |only physiology-1.2.1/physiology/man/creatinine_mgdl_to_uM.Rd |only physiology-1.2.1/physiology/man/deadspace_equipment_ml.Rd |only physiology-1.2.1/physiology/man/deadspace_things_ml.Rd |only physiology-1.2.1/physiology/man/deadspace_total.Rd | 17 physiology-1.2.1/physiology/man/egfr.Rd |only physiology-1.2.1/physiology/man/ett_size_by_age.Rd |only physiology-1.2.1/physiology/man/ett_vol_ml.Rd |only physiology-1.2.1/physiology/man/french_to_diameter_mm.Rd | 1 physiology-1.2.1/physiology/man/henderson_hasselbalch.Rd | 1 physiology-1.2.1/physiology/man/ideal_weight.Rd | 27 - physiology-1.2.1/physiology/man/is_adult.Rd | 6 physiology-1.2.1/physiology/man/physiology-package.Rd | 32 + physiology-1.2.1/physiology/man/pres_atm_kPa.Rd | 7 physiology-1.2.1/physiology/man/svp_sea_level.Rd | 5 physiology-1.2.1/physiology/man/temp_c_to_k.Rd | 5 physiology-1.2.1/physiology/man/valid_height.Rd | 49 +- physiology-1.2.1/physiology/src/atm-pressure.cpp | 13 physiology-1.2.1/physiology/tests/spelling.R | 4 physiology-1.2.1/physiology/tests/testthat/test-bmi.R | 6 physiology-1.2.1/physiology/tests/testthat/test-bsa.R |only physiology-1.2.1/physiology/tests/testthat/test-eGFR.R |only physiology-1.2.1/physiology/tests/testthat/test-lint.R |only physiology-1.2.1/physiology/tests/testthat/test-ventilation.R | 5 physiology-1.2.1/physiology/vignettes/Everest.Rmd | 4 physiology-1.2.1/physiology/vignettes/IdealWeightComparison.Rmd | 18 physiology-1.2.1/physiology/vignettes/NeonatalVentilation.Rmd | 65 ++- physiology-1.2.1/physiology/vignettes/altitude.bib | 195 +++++++--- 66 files changed, 811 insertions(+), 300 deletions(-)
Title: Global Charcoal Database
Description: Contains the Global Charcoal database data. Data include charcoal
series (age, depth, charcoal quantity, associated units and methods) and
information on sedimentary sites (localisation, depositional environment, biome,
etc.) as well as publications informations. Since 4.0.0 the GCD mirrors the online SQL database at <http://paleofire.org>.
Author: Global Paleofire Working Group <paleofire@univ-fcomte.fr>
Maintainer: Olivier Blarquez <blarquez@gmail.com>
Diff between GCD versions 4.0.3 dated 2018-08-20 and 4.0.4 dated 2018-11-28
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS | 8 ++++++++ data/paleofiredata.rda |binary data/paleofiresites.rda |binary data/pub.rda |binary data/pub_key.rda |binary data/release.rda |binary 8 files changed, 19 insertions(+), 11 deletions(-)
Title: Access Elevation Data from Various APIs
Description: Several web services are available that provide access to elevation
data. This package provides access to several of those services and
returns elevation data either as a SpatialPointsDataFrame from
point elevation services or as a raster object from raster
elevation services. Currently, the package supports access to the
Amazon Web Services Terrain Tiles <https://aws.amazon.com/public-datasets/terrain/>
and the USGS Elevation Point Query Service <http://ned.usgs.gov/epqs/>.
Author: Jeffrey Hollister [aut, cre],
Tarak Shah [ctb]
Maintainer: Jeffrey Hollister <hollister.jeff@epa.gov>
Diff between elevatr versions 0.1.4 dated 2018-01-09 and 0.2.0 dated 2018-11-28
elevatr-0.1.4/elevatr/man/get_api_key.Rd |only elevatr-0.1.4/elevatr/man/get_mapzen_elev.Rd |only elevatr-0.1.4/elevatr/man/get_mapzen_terrain.Rd |only elevatr-0.1.4/elevatr/man/set_api_key.Rd |only elevatr-0.1.4/elevatr/tests/testthat/key_file.rds |only elevatr-0.1.4/elevatr/tests/testthat/key_file.rds.enc |only elevatr-0.2.0/elevatr/DESCRIPTION | 20 elevatr-0.2.0/elevatr/MD5 | 52 elevatr-0.2.0/elevatr/NAMESPACE | 4 elevatr-0.2.0/elevatr/R/data.R | 66 elevatr-0.2.0/elevatr/R/elevatr.R | 14 elevatr-0.2.0/elevatr/R/get_elev_point.R | 251 - elevatr-0.2.0/elevatr/R/get_elev_raster.R | 154 - elevatr-0.2.0/elevatr/R/internal.R | 69 elevatr-0.2.0/elevatr/R/sysdata.rda |only elevatr-0.2.0/elevatr/README.md | 109 elevatr-0.2.0/elevatr/build/vignette.rds |binary elevatr-0.2.0/elevatr/inst/doc/introduction_to_elevatr.R | 61 elevatr-0.2.0/elevatr/inst/doc/introduction_to_elevatr.Rmd | 124 elevatr-0.2.0/elevatr/inst/doc/introduction_to_elevatr.html | 1569 ++++++++++-- elevatr-0.2.0/elevatr/man/bbox_to_sp.Rd |only elevatr-0.2.0/elevatr/man/clip_it.Rd |only elevatr-0.2.0/elevatr/man/get_aws_points.Rd |only elevatr-0.2.0/elevatr/man/get_aws_terrain.Rd | 13 elevatr-0.2.0/elevatr/man/get_elev_point.Rd | 64 elevatr-0.2.0/elevatr/man/get_elev_raster.Rd | 48 elevatr-0.2.0/elevatr/man/get_epqs.Rd | 6 elevatr-0.2.0/elevatr/tests/testthat.R | 8 elevatr-0.2.0/elevatr/tests/testthat/test-get_elev_point.R | 96 elevatr-0.2.0/elevatr/tests/testthat/test-get_elev_raster.R | 92 elevatr-0.2.0/elevatr/tests/testthat/test-internal.R | 34 elevatr-0.2.0/elevatr/vignettes/introduction_to_elevatr.Rmd | 124 32 files changed, 1909 insertions(+), 1069 deletions(-)
Title: Overfitting Bayesian Mixtures of Factor Analyzers with
Parsimonious Covariance and Unknown Number of Components
Description: Model-based clustering of multivariate continuous data using Bayesian mixtures of factor analyzers (Papastamoulis (2018) <DOI:10.1016/j.csda.2018.03.007>). The number of clusters is estimated using overfitting mixture models (Rousseau and Mengersen (2011) <DOI:10.1111/j.1467-9868.2011.00781.x>): suitable prior assumptions ensure that asymptotically the extra components will have zero posterior weight, therefore, the inference is based on the ``alive'' components. A Gibbs sampler is implemented in order to (approximately) sample from the posterior distribution of the overfitting mixture. A prior parallel tempering scheme is also available, which allows to run multiple parallel chains with different prior distributions on the mixture weights. These chains run in parallel and can swap states using a Metropolis-Hastings move. Eight different parameterizations give rise to parsimonious representations of the covariance per cluster (following Mc Nicholas and Murphy (2008) <DOI:10.1007/s11222-008-9056-0>). The model parameterization and number of factors is selected according to the Bayesian Information Criterion. Identifiability issues related to label switching are dealt by post-processing the simulated output with the Equivalence Classes Representatives algorithm (Papastamoulis and Iliopoulos (2010) <https://www.jstor.org/stable/25703571>, Papastamoulis (2016) <DOI:10.18637/jss.v069.c01>).
Author: Panagiotis Papastamoulis [aut, cre]
(<https://orcid.org/0000-0001-9468-7613>)
Maintainer: Panagiotis Papastamoulis <papapast@yahoo.gr>
Diff between fabMix versions 4.3 dated 2018-10-30 and 4.4 dated 2018-11-28
DESCRIPTION | 12 MD5 | 18 NAMESPACE | 8 R/fabMix.R | 1278 ++++++++++++++++++++++++++++++++++++------- build/partial.rdb |binary man/CorMat_mcmc_summary.Rd |only man/CovMat_mcmc_summary.Rd |only man/fabMix.Rd | 4 man/plot.fabMix.object.Rd | 13 man/print.fabMix.object.Rd | 5 man/simData2.Rd |only man/summary.fabMix.object.Rd |only 12 files changed, 1112 insertions(+), 226 deletions(-)
Title: Exploratory Chemometrics for Spectroscopy
Description: A collection of functions for top-down exploratory data analysis
of spectral data including nuclear magnetic resonance (NMR), infrared (IR),
Raman, X-ray fluorescence (XRF) and other similar types of spectroscopy.
Includes functions for plotting and inspecting spectra, peak alignment,
hierarchical cluster analysis (HCA), principal components analysis (PCA) and
model-based clustering. Robust methods appropriate for this type of
high-dimensional data are available. ChemoSpec is designed for structured
experiments, such as metabolomics investigations, where the samples fall into
treatment and control groups. Graphical output is formatted consistently for
publication quality plots. ChemoSpec is intended to be very user friendly and
to help you get usable results quickly. A vignette covering typical operations
is available.
Author: Bryan A. Hanson [aut, cre] (ORCID 0000-0003-3536-8246),
Mike Bostock [cph, ctb] (author of the d3.js library used by
plotSpectraJS, http://d3js.org),
Matt Keinsley [ctb] (author of initial AOV-PCA code)
Maintainer: Bryan A. Hanson <hanson@depauw.edu>
Diff between ChemoSpec versions 5.0.88 dated 2018-10-15 and 5.0.207 dated 2018-11-28
ChemoSpec-5.0.207/ChemoSpec/DESCRIPTION | 46 +-- ChemoSpec-5.0.207/ChemoSpec/MD5 | 237 ++++++++--------- ChemoSpec-5.0.207/ChemoSpec/NAMESPACE | 33 +- ChemoSpec-5.0.207/ChemoSpec/NEWS | 23 + ChemoSpec-5.0.207/ChemoSpec/NEWS.md |only ChemoSpec-5.0.207/ChemoSpec/R/ChemoSpec-package.R | 19 - ChemoSpec-5.0.207/ChemoSpec/R/LoopThruSpectra.R |only ChemoSpec-5.0.207/ChemoSpec/R/MUD.R | 5 ChemoSpec-5.0.207/ChemoSpec/R/Spectra.R | 6 ChemoSpec-5.0.207/ChemoSpec/R/SrE.R | 6 ChemoSpec-5.0.207/ChemoSpec/R/aovPCAloadings.R | 9 ChemoSpec-5.0.207/ChemoSpec/R/aovPCAscores.R | 43 --- ChemoSpec-5.0.207/ChemoSpec/R/aov_pcaSpectra.R | 11 ChemoSpec-5.0.207/ChemoSpec/R/avgFacLvls.R | 4 ChemoSpec-5.0.207/ChemoSpec/R/baselineSpectra.R | 5 ChemoSpec-5.0.207/ChemoSpec/R/binData.R | 11 ChemoSpec-5.0.207/ChemoSpec/R/binSpectra.R | 18 - ChemoSpec-5.0.207/ChemoSpec/R/c_pcaSpectra.R | 9 ChemoSpec-5.0.207/ChemoSpec/R/check4GapsStub.R |only ChemoSpec-5.0.207/ChemoSpec/R/clupaSpectra.R | 13 ChemoSpec-5.0.207/ChemoSpec/R/colorSymbol.R | 2 ChemoSpec-5.0.207/ChemoSpec/R/conColScheme.R | 12 ChemoSpec-5.0.207/ChemoSpec/R/coordProjCS.R | 7 ChemoSpec-5.0.207/ChemoSpec/R/cv_pcaSpectra.R | 15 - ChemoSpec-5.0.207/ChemoSpec/R/evalClusters.R | 16 - ChemoSpec-5.0.207/ChemoSpec/R/files2SpectraObject.R | 101 +++++-- ChemoSpec-5.0.207/ChemoSpec/R/hcaScoresStub.R |only ChemoSpec-5.0.207/ChemoSpec/R/hcaSpectra.R | 19 - ChemoSpec-5.0.207/ChemoSpec/R/hmapSpectra.R | 16 - ChemoSpec-5.0.207/ChemoSpec/R/hypTestScores.R | 20 - ChemoSpec-5.0.207/ChemoSpec/R/isWholeNo.R | 15 - ChemoSpec-5.0.207/ChemoSpec/R/labelExtremes3d.R | 11 ChemoSpec-5.0.207/ChemoSpec/R/makeEllipsoid.R | 9 ChemoSpec-5.0.207/ChemoSpec/R/matrix2SpectraObject.R | 19 + ChemoSpec-5.0.207/ChemoSpec/R/mclust3D.R | 20 - ChemoSpec-5.0.207/ChemoSpec/R/mclust3dSpectra.R | 12 ChemoSpec-5.0.207/ChemoSpec/R/mclustSpectra.R | 10 ChemoSpec-5.0.207/ChemoSpec/R/normSpectra.R | 5 ChemoSpec-5.0.207/ChemoSpec/R/normVec.R | 4 ChemoSpec-5.0.207/ChemoSpec/R/pcaDiag.R | 10 ChemoSpec-5.0.207/ChemoSpec/R/plot2Loadings.R | 9 ChemoSpec-5.0.207/ChemoSpec/R/plotLoadings.R | 14 - ChemoSpec-5.0.207/ChemoSpec/R/plotScores3D.R | 13 ChemoSpec-5.0.207/ChemoSpec/R/plotScoresRGL.R | 14 - ChemoSpec-5.0.207/ChemoSpec/R/plotScoresStub.R |only ChemoSpec-5.0.207/ChemoSpec/R/plotScree2.R | 59 +--- ChemoSpec-5.0.207/ChemoSpec/R/plotScreeStub.R |only ChemoSpec-5.0.207/ChemoSpec/R/plotSpectra.R | 9 ChemoSpec-5.0.207/ChemoSpec/R/plotSpectraDist.R | 14 - ChemoSpec-5.0.207/ChemoSpec/R/plotSpectraJS.R | 18 - ChemoSpec-5.0.207/ChemoSpec/R/q2rPCA.R | 8 ChemoSpec-5.0.207/ChemoSpec/R/r_pcaSpectra.R | 9 ChemoSpec-5.0.207/ChemoSpec/R/removeGroupStub.R | 7 ChemoSpec-5.0.207/ChemoSpec/R/removeSampleStub.R | 7 ChemoSpec-5.0.207/ChemoSpec/R/rowDistStub.R |only ChemoSpec-5.0.207/ChemoSpec/R/sPlotSpectra.R | 11 ChemoSpec-5.0.207/ChemoSpec/R/sampleDistSpectra.R | 13 ChemoSpec-5.0.207/ChemoSpec/R/seXy.R | 9 ChemoSpec-5.0.207/ChemoSpec/R/sgfSpectra.R | 11 ChemoSpec-5.0.207/ChemoSpec/R/splitSpectraGroups.R | 18 - ChemoSpec-5.0.207/ChemoSpec/R/surveySpectra.R | 10 ChemoSpec-5.0.207/ChemoSpec/R/surveySpectra2.R | 5 ChemoSpec-5.0.207/ChemoSpec/build/vignette.rds |binary ChemoSpec-5.0.207/ChemoSpec/data/SrE.IR.RData |binary ChemoSpec-5.0.207/ChemoSpec/data/SrE.NMR.RData |binary ChemoSpec-5.0.207/ChemoSpec/data/alignMUD.RData |binary ChemoSpec-5.0.207/ChemoSpec/data/metMUD1.RData |binary ChemoSpec-5.0.207/ChemoSpec/data/metMUD2.RData |binary ChemoSpec-5.0.207/ChemoSpec/inst/doc/ChemoSpec.R | 43 +-- ChemoSpec-5.0.207/ChemoSpec/inst/doc/ChemoSpec.Rmd | 75 ++--- ChemoSpec-5.0.207/ChemoSpec/inst/doc/ChemoSpec.pdf |binary ChemoSpec-5.0.207/ChemoSpec/man/ChemoSpec-package.Rd | 4 ChemoSpec-5.0.207/ChemoSpec/man/Spectra.Rd | 5 ChemoSpec-5.0.207/ChemoSpec/man/SrE.IR.Rd | 4 ChemoSpec-5.0.207/ChemoSpec/man/aovPCAloadings.Rd | 3 ChemoSpec-5.0.207/ChemoSpec/man/aovPCAscores.Rd | 3 ChemoSpec-5.0.207/ChemoSpec/man/aov_pcaSpectra.Rd | 3 ChemoSpec-5.0.207/ChemoSpec/man/baselineSpectra.Rd | 4 ChemoSpec-5.0.207/ChemoSpec/man/binSpectra.Rd | 4 ChemoSpec-5.0.207/ChemoSpec/man/c_pcaSpectra.Rd | 3 ChemoSpec-5.0.207/ChemoSpec/man/check4Gaps.Rd | 74 ----- ChemoSpec-5.0.207/ChemoSpec/man/clupaSpectra.Rd | 5 ChemoSpec-5.0.207/ChemoSpec/man/colorSymbol.Rd | 4 ChemoSpec-5.0.207/ChemoSpec/man/conColScheme.Rd | 6 ChemoSpec-5.0.207/ChemoSpec/man/cv_pcaSpectra.Rd | 3 ChemoSpec-5.0.207/ChemoSpec/man/evalClusters.Rd | 6 ChemoSpec-5.0.207/ChemoSpec/man/files2SpectraObject.Rd | 25 + ChemoSpec-5.0.207/ChemoSpec/man/hcaScores.Rd | 68 ---- ChemoSpec-5.0.207/ChemoSpec/man/hcaSpectra.Rd | 7 ChemoSpec-5.0.207/ChemoSpec/man/hmapSpectra.Rd | 6 ChemoSpec-5.0.207/ChemoSpec/man/hypTestScores.Rd | 6 ChemoSpec-5.0.207/ChemoSpec/man/loopThruSpectra.Rd | 11 ChemoSpec-5.0.207/ChemoSpec/man/mclust3dSpectra.Rd | 5 ChemoSpec-5.0.207/ChemoSpec/man/mclustSpectra.Rd | 4 ChemoSpec-5.0.207/ChemoSpec/man/metMUD1.Rd | 4 ChemoSpec-5.0.207/ChemoSpec/man/normSpectra.Rd | 5 ChemoSpec-5.0.207/ChemoSpec/man/pcaDiag.Rd | 4 ChemoSpec-5.0.207/ChemoSpec/man/plot2Loadings.Rd | 6 ChemoSpec-5.0.207/ChemoSpec/man/plotLoadings.Rd | 4 ChemoSpec-5.0.207/ChemoSpec/man/plotScores.Rd | 71 ----- ChemoSpec-5.0.207/ChemoSpec/man/plotScores3D.Rd | 6 ChemoSpec-5.0.207/ChemoSpec/man/plotScoresRGL.Rd | 7 ChemoSpec-5.0.207/ChemoSpec/man/plotScree.Rd | 60 ---- ChemoSpec-5.0.207/ChemoSpec/man/plotScree2.Rd |only ChemoSpec-5.0.207/ChemoSpec/man/plotSpectra.Rd | 4 ChemoSpec-5.0.207/ChemoSpec/man/plotSpectraDist.Rd | 4 ChemoSpec-5.0.207/ChemoSpec/man/plotSpectraJS.Rd | 10 ChemoSpec-5.0.207/ChemoSpec/man/r_pcaSpectra.Rd | 5 ChemoSpec-5.0.207/ChemoSpec/man/removeGroup.Rd | 7 ChemoSpec-5.0.207/ChemoSpec/man/removeSample.Rd | 7 ChemoSpec-5.0.207/ChemoSpec/man/rowDist.Rd | 37 -- ChemoSpec-5.0.207/ChemoSpec/man/sPlotSpectra.Rd | 5 ChemoSpec-5.0.207/ChemoSpec/man/sampleDistSpectra.Rd | 6 ChemoSpec-5.0.207/ChemoSpec/man/sgfSpectra.Rd | 4 ChemoSpec-5.0.207/ChemoSpec/man/splitSpectraGroups.Rd | 6 ChemoSpec-5.0.207/ChemoSpec/man/surveySpectra.Rd | 4 ChemoSpec-5.0.207/ChemoSpec/vignettes/ChemoSpec.Rmd | 75 ++--- ChemoSpec-5.0.207/ChemoSpec/vignettes/chemometrics.bib | 37 -- ChemoSpec-5.0.88/ChemoSpec/R/check4Gaps.R |only ChemoSpec-5.0.88/ChemoSpec/R/colLeaf.R |only ChemoSpec-5.0.88/ChemoSpec/R/hcaScores.R |only ChemoSpec-5.0.88/ChemoSpec/R/loopThruSpectra.R |only ChemoSpec-5.0.88/ChemoSpec/R/plotHCA.R |only ChemoSpec-5.0.88/ChemoSpec/R/plotScores.R |only ChemoSpec-5.0.88/ChemoSpec/R/plotScree.R |only ChemoSpec-5.0.88/ChemoSpec/R/rowDist.R |only ChemoSpec-5.0.88/ChemoSpec/R/shrinkLeaf.R |only ChemoSpec-5.0.88/ChemoSpec/man/mclust3D.Rd |only ChemoSpec-5.0.88/ChemoSpec/man/plotHCA.Rd |only 129 files changed, 694 insertions(+), 1144 deletions(-)
Title: Spatially Varying Change Points
Description: Implements a spatially varying change point model with
unique intercepts, slopes, variance intercepts and slopes, and
change points at each location. Inference is within the
Bayesian setting using Markov chain Monte Carlo (MCMC). The
response variable can be modeled as Gaussian (no nugget),
probit or Tobit link and the five spatially varying parameter
are modeled jointly using a multivariate conditional
autoregressive (MCAR) prior. The MCAR is a unique process that
allows for a dissimilarity metric to dictate the local spatial
dependencies. Full details of the package can be found in the accompanying vignette.
Furthermore, the details of the package can be found in the corresponding paper on arXiv
by Berchuck et al (2018): "A spatially varying change points model for monitoring glaucoma
progression using visual field data", <arXiv:1811.11038>.
Author: Samuel I. Berchuck [aut, cre]
Maintainer: Samuel I. Berchuck <sib2@duke.edu>
Diff between spCP versions 1.0 dated 2018-07-13 and 1.1 dated 2018-11-28
spCP-1.0/spCP/R/reg.spCP-data.R |only spCP-1.0/spCP/data/reg.spCP.RData |only spCP-1.0/spCP/man/reg.spCP.Rd |only spCP-1.1/spCP/DESCRIPTION | 16 +++--- spCP-1.1/spCP/MD5 | 55 +++++++++++------------ spCP-1.1/spCP/R/DIAG_diagnostics.R | 17 ------- spCP-1.1/spCP/R/HFAII_Queen-data.R | 2 spCP-1.1/spCP/R/HFAII_QueenHF-data.R | 2 spCP-1.1/spCP/R/HFAII_Rook-data.R | 2 spCP-1.1/spCP/R/MCMC_Utilities.R | 10 ---- spCP-1.1/spCP/R/MCMC_spCP.R | 63 --------------------------- spCP-1.1/spCP/R/PRED_predict.R | 9 --- spCP-1.1/spCP/R/Plot_CP.R | 17 ------- spCP-1.1/spCP/R/RcppExports.R | 8 +-- spCP-1.1/spCP/build/vignette.rds |binary spCP-1.1/spCP/inst/doc/spCP-example.R | 2 spCP-1.1/spCP/inst/doc/spCP-example.Rmd | 4 - spCP-1.1/spCP/inst/doc/spCP-example.html | 58 ++++++++++++------------ spCP-1.1/spCP/man/GarwayHeath.Rd | 1 spCP-1.1/spCP/man/HFAII_Queen.Rd | 3 - spCP-1.1/spCP/man/HFAII_QueenHF.Rd | 3 - spCP-1.1/spCP/man/HFAII_Rook.Rd | 3 - spCP-1.1/spCP/man/PlotCP.Rd | 28 +++--------- spCP-1.1/spCP/man/VFSeries.Rd | 1 spCP-1.1/spCP/man/diagnostics.Rd | 29 ++---------- spCP-1.1/spCP/man/is.spCP.Rd | 10 ---- spCP-1.1/spCP/man/predict.spCP.Rd | 10 ---- spCP-1.1/spCP/man/spCP.Rd | 72 ++----------------------------- spCP-1.1/spCP/src/RcppExports.cpp | 20 ++++---- spCP-1.1/spCP/vignettes/spCP-example.Rmd | 4 - 30 files changed, 112 insertions(+), 337 deletions(-)
Title: Functions Supporting Packages ChemoSpec and ChemoSpec2D
Description: Functions supporting the common needs of packages 'ChemoSpec' and 'ChemoSpec2D'.
Author: Bryan A. Hanson [aut, cre] (ORCID 0000-0003-3536-8246)
Maintainer: Bryan A. Hanson <hanson@depauw.edu>
Diff between ChemoSpecUtils versions 0.1.62 dated 2018-10-12 and 0.2.163 dated 2018-11-28
ChemoSpecUtils-0.1.62/ChemoSpecUtils/NEWS |only ChemoSpecUtils-0.1.62/ChemoSpecUtils/R/addAnnotation.R |only ChemoSpecUtils-0.1.62/ChemoSpecUtils/R/plotScoresCor.R |only ChemoSpecUtils-0.1.62/ChemoSpecUtils/R/plotScoresDecoration.R |only ChemoSpecUtils-0.1.62/ChemoSpecUtils/R/removeGroupSamples.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/DESCRIPTION | 16 - ChemoSpecUtils-0.2.163/ChemoSpecUtils/MD5 | 82 +++-- ChemoSpecUtils-0.2.163/ChemoSpecUtils/NAMESPACE | 41 ++ ChemoSpecUtils-0.2.163/ChemoSpecUtils/NEWS.md |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/addEllipseInfo.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/addLegend.R | 4 ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/addMethod.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/check4Gaps.R | 92 ++++-- ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/chkArgs.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/chkSpectra.Spectra.R | 1 ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/chkSpectra.Spectra2D.R | 3 ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/colLeaf.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/computeEllipses.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/drawPoints.R | 14 ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/extraData.R | 3 ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/findNA.R | 4 ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/getLimits.R | 5 ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/groupNcolor.R | 4 ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/hcaScores.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/hcaScores.Spectra.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/hcaScores.Spectra2D.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/plotHCA.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/plotScores.R | 150 ++-------- ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/plotScores.Spectra.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/plotScores.Spectra2D.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/plotScree.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/plotScree.mia.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/plotScree.prcomp.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/remGrpSam.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/removeFreq.Spectra.R | 4 ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/removeFreq.Spectra2D.R | 4 ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/removeGroup.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/removeGroup.Spectra.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/removeGroup.Spectra2D.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/removeSample.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/removeSample.Spectra.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/removeSample.Spectra2D.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/rowDist.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/scorePlot.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/shrinkLeaf.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/sumGroups.Spectra.R | 4 ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/sumGroups.Spectra2D.R | 4 ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/sumSpectra.R | 6 ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/sumSpectra.Spectra.R | 31 -- ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/sumSpectra.Spectra2D.R | 42 +- ChemoSpecUtils-0.2.163/ChemoSpecUtils/R/updateGroups.R |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/man/check4Gaps.Rd |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/man/hcaScores.Rd |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/man/plotScores.Rd |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/man/plotScree.Rd |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/man/removeGroup.Rd | 39 -- ChemoSpecUtils-0.2.163/ChemoSpecUtils/man/removeSample.Rd |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/man/rowDist.Rd |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/man/sumSpectra.Rd | 6 ChemoSpecUtils-0.2.163/ChemoSpecUtils/man/updateGroups.Rd |only ChemoSpecUtils-0.2.163/ChemoSpecUtils/tests |only 61 files changed, 288 insertions(+), 271 deletions(-)
More information about ChemoSpecUtils at CRAN
Permanent link
Title: Chandler-Bate Sandwich Loglikelihood Adjustment
Description: Performs adjustments of a user-supplied independence loglikelihood
function using a robust sandwich estimator of the parameter covariance
matrix, based on the methodology in Chandler and Bate (2007)
<doi:10.1093/biomet/asm015>. This can be used for cluster correlated data
when interest lies in the parameters of the marginal distributions or for
performing inferences that are robust to certain types of model
misspecification. Functions for profiling the adjusted loglikelihoods are
also provided, as are functions for calculating and plotting confidence
intervals, for single model parameters, and confidence regions, for pairs
of model parameters. Nested models can be compared using an adjusted
likelihood ratio test.
Author: Paul J. Northrop [aut, cre, cph],
Richard E. Chandler [aut, cph]
Maintainer: Paul J. Northrop <p.northrop@ucl.ac.uk>
Diff between chandwich versions 1.1.0 dated 2018-09-10 and 1.1.1 dated 2018-11-28
DESCRIPTION | 12 ++++++------ MD5 | 28 ++++++++++++++-------------- NEWS.md | 10 ++++++++++ R/adjust_loglik.R | 10 ++++++++-- R/compare_models.R | 2 ++ R/confidence_intervals.R | 2 +- R/methods.R | 1 + R/plot_summary_print.R | 34 +++++++++++++++++++++------------- README.md | 2 +- inst/doc/chandwich-vignette.html | 4 ++-- man/adjust_loglik.Rd | 10 ++++++++-- man/print.chandwich.Rd | 8 ++++---- man/print.compmod.Rd | 6 +++--- man/print.confint.Rd | 6 +++--- man/summary.chandwich.Rd | 2 +- 15 files changed, 85 insertions(+), 52 deletions(-)
Title: Network Structural Equation Modeling
Description: The network structural equation modeling conducts a network statistical analysis
on a data frame of coincident observations of multiple continuous variables [1].
It builds a pathway model by exploring a pool of domain knowledge guided candidate statistical
relationships between each of the variable pairs, selecting the 'best fit' on
the basis of a specific criteria such as adjusted r-squared value.
This work was funded under U. S. Dept. of Energy, Prime Award No. DE-E-0004946,
Award Agreement No. 60220829-51077-T.
[1] Bruckman, Laura S., Nicholas R. Wheeler, Junheng Ma, Ethan Wang, Carl K. Wang, Ivan Chou,
Jiayang Sun, and Roger H. French. (2013) <doi:10.1109/ACCESS.2013.2267611>.
Author: Wei-Heng Huang [aut, cre] (<https://orcid.org/0000-0002-6609-4981>),
Nicholas Wheeler [aut] (<https://orcid.org/0000-0003-2248-8919>),
Addison Klinke [aut] (<https://orcid.org/0000-0002-6985-7657>),
Yifan Xu [aut] (<https://orcid.org/0000-0003-1696-0228>),
Wenyu Du [aut] (<https://orcid.org/0000-0002-8672-9104>),
Amit K. Verma [aut] (<https://orcid.org/0000-0003-1580-3001>),
Abdulkerim Gok [aut] (<https://orcid.org/0000-0003-3433-7106>),
Devin Gordon [ctb] (<https://orcid.org/0000-0002-5919-0422>),
Yu Wang [ctb] (<https://orcid.org/0000-0003-1353-2578>),
Jiqi Liu [ctb] (<https://orcid.org/0000-0003-2016-4160>),
Alan Curran [ctb] (<https://orcid.org/0000-0002-4505-8359>),
Justin Fada [ctb] (<https://orcid.org/0000-0002-0029-5051>),
Xuan Ma [ctb] (<https://orcid.org/0000-0003-2361-2846>),
Jennifer Braid [ctb] (<https://orcid.org/0000-0002-0677-7756>),
Jennifer Carter [ctb] (<https://orcid.org/0000-0001-6702-729X>),
Laura Bruckman [aut] (<https://orcid.org/0000-0003-1271-1072>),
Roger French [aut, cph] (<https://orcid.org/0000-0002-6162-0532>)
Maintainer: Wei-Heng Huang <wxh272@case.edu>
Diff between netSEM versions 0.5.0 dated 2018-06-12 and 0.5.1 dated 2018-11-28
netSEM-0.5.0/netSEM/inst/doc/Backsheet.R |only netSEM-0.5.0/netSEM/inst/doc/Backsheet.Rmd |only netSEM-0.5.0/netSEM/inst/doc/Backsheet.html |only netSEM-0.5.0/netSEM/vignettes/Backsheet.Rmd |only netSEM-0.5.1/netSEM/DESCRIPTION | 12 +++++++--- netSEM-0.5.1/netSEM/MD5 | 32 +++++++++++++++++----------- netSEM-0.5.1/netSEM/R/metal.R |only netSEM-0.5.1/netSEM/build/vignette.rds |binary netSEM-0.5.1/netSEM/data/metal.rda |only netSEM-0.5.1/netSEM/inst/doc/Crack.html | 4 +-- netSEM-0.5.1/netSEM/inst/doc/IVfeature.html | 4 +-- netSEM-0.5.1/netSEM/inst/doc/backsheet.R |only netSEM-0.5.1/netSEM/inst/doc/backsheet.Rmd |only netSEM-0.5.1/netSEM/inst/doc/backsheet.html |only netSEM-0.5.1/netSEM/inst/doc/metal.R |only netSEM-0.5.1/netSEM/inst/doc/metal.Rmd |only netSEM-0.5.1/netSEM/inst/doc/metal.html |only netSEM-0.5.1/netSEM/inst/doc/netSEM.Rmd | 10 ++++---- netSEM-0.5.1/netSEM/inst/doc/netSEM.html | 14 ++++++------ netSEM-0.5.1/netSEM/inst/doc/pet.html | 4 +-- netSEM-0.5.1/netSEM/man/metal.Rd |only netSEM-0.5.1/netSEM/vignettes/backsheet.Rmd |only netSEM-0.5.1/netSEM/vignettes/metal.Rmd |only netSEM-0.5.1/netSEM/vignettes/metal.png |only netSEM-0.5.1/netSEM/vignettes/netSEM.Rmd | 10 ++++---- 25 files changed, 52 insertions(+), 38 deletions(-)
Title: Simulation of Diffusion Processes
Description: It provides users with a wide range of tools to simulate, estimate, analyze, and visualize the dynamics of stochastic differential systems in both forms Ito and Stratonovich. Statistical analysis with parallel Monte Carlo and moment equations methods of SDE's. Enabled many searchers in different domains to use these equations to modeling practical problems in financial and actuarial modeling and other areas of application, e.g., modeling and simulate of first passage time problem in shallow water using the attractive center (Boukhetala K, 1996) ISBN:1-56252-342-2.
Author: Arsalane Chouaib Guidoum [cre, aut],
Kamal Boukhetala [aut]
Maintainer: Arsalane Chouaib Guidoum <acguidoum@usthb.dz>
Diff between Sim.DiffProc versions 4.2 dated 2018-10-17 and 4.3 dated 2018-11-28
DESCRIPTION | 8 MD5 | 48 ++-- R/MCM.sde.R | 6 R/zzz.r | 2 README.md | 4 inst/NEWS.Rd | 10 inst/doc/bridgesde.Rmd | 2 inst/doc/bridgesde.html | 476 ++++++++++++++++++++++---------------------- inst/doc/fitsde.Rmd | 2 inst/doc/fitsde.html | 84 +++---- inst/doc/fptsde.Rmd | 2 inst/doc/fptsde.html | 336 +++++++++++++++---------------- inst/doc/mcmsde.Rmd | 2 inst/doc/mcmsde.html | 40 +-- inst/doc/sdetotex.Rmd | 2 inst/doc/sdetotex.html | 78 +++---- inst/doc/snssde.Rmd | 2 inst/doc/snssde.html | 456 +++++++++++++++++++++--------------------- man/Sim.DiffProc-package.Rd | 4 vignettes/bridgesde.Rmd | 2 vignettes/fitsde.Rmd | 2 vignettes/fptsde.Rmd | 2 vignettes/mcmsde.Rmd | 2 vignettes/sdetotex.Rmd | 2 vignettes/snssde.Rmd | 2 25 files changed, 792 insertions(+), 784 deletions(-)
Title: Estimation of Extreme Conditional Quantiles and Probabilities
Description: Extreme value theory, nonparametric kernel estimation, tail
conditional probabilities, extreme conditional quantile, adaptive estimation,
quantile regression, survival probabilities.
Author: Gilles Durrieu, Ion Grama, Kevin Jaunatre, Quang-Khoai Pham, Jean-Marie
Tricot
Maintainer: Kevin Jaunatre <kevin.jaunatre@univ-ubs.fr>
Diff between extremefit versions 0.2.3 dated 2017-11-17 and 0.2.4 dated 2018-11-28
DESCRIPTION | 11 MD5 | 42 - NAMESPACE | 1 R/PackageOxygen.R | 1317 ++++++++++++++++++++++++++++++++++++++------- man/Burr-Distribution.Rd | 2 man/CriticalValue.Rd | 4 man/Pareto-Distribution.Rd | 2 man/Pareto-mix.Rd | 2 man/bandwidth.CV.Rd | 5 man/bootCI.Rd | 8 man/bootCI.ts.Rd | 6 man/cox.adapt.Rd |only man/dataWind.Rd | 2 man/hill.adapt.Rd | 4 man/hill.ts.Rd | 7 man/plot.hill.Rd | 2 man/plot.hill.adapt.Rd | 2 man/pparetoCP.Rd | 2 man/predict.cox.adapt.Rd |only man/predict.hill.Rd | 10 man/predict.hill.adapt.Rd | 11 man/predict.hill.ts.Rd | 11 man/wecdf.Rd | 2 23 files changed, 1200 insertions(+), 253 deletions(-)
Title: Modeling Earthquake Data Using 'ETAS' Model
Description: Fits the space-time Epidemic Type Aftershock Sequence
('ETAS') model to earthquake catalogs using a stochastic 'declustering'
approach. The 'ETAS' model is a 'spatio-temporal' marked point process
model and a special case of the 'Hawkes' process. The package is based
on a Fortran program by 'Jiancang Zhuang'
(available at <http://bemlar.ism.ac.jp/zhuang/software.html>),
which is modified and translated into C++ and C such that it
can be called from R. Parallel computing with 'OpenMP' is possible
on supported platforms.
Author: Abdollah Jalilian [aut, cre] (<https://orcid.org/0000-0002-6573-0069>),
Jiancang Zhuang [ctb] (<https://orcid.org/0000-0002-9708-3871>)
Maintainer: Abdollah Jalilian <jalilian@razi.ac.ir>
Diff between ETAS versions 0.4.4 dated 2018-03-06 and 0.4.5 dated 2018-11-28
DESCRIPTION | 38 +++++++++++++++++++++++++------------- MD5 | 21 +++++++++++++-------- R/RcppExports.R | 18 +++++++++--------- README.md |only cleanup |only configure |only configure.ac |only data/iran.quakes.rda |binary data/italy.quakes.rda |binary data/japan.quakes.rda |binary src/Makevars.in | 2 +- src/Makevars.win |only src/RcppExports.cpp | 42 +++++++++++++++++++++--------------------- src/fitMP.cpp | 15 ++++++++------- 14 files changed, 77 insertions(+), 59 deletions(-)
Title: Photometry Tools
Description: Core package containing all the tools for simple and advanced source extraction. This is used to create inputs for 'ProFit', or for source detection, extraction and photometry in its own right.
Author: Aaron Robotham
Maintainer: Aaron Robotham <aaron.robotham@uwa.edu.au>
Diff between ProFound versions 1.1.0 dated 2018-07-31 and 1.3.4 dated 2018-11-28
DESCRIPTION | 17 +- MD5 | 101 ++++++------ NAMESPACE | 6 R/RcppExports.R |only R/profoundEllipse.R | 88 +++++----- R/profoundMakeStack.R | 56 ++++-- R/profoundMultiBand.R | 146 +++++++++++++---- R/profoundPixelCorrelation.R | 47 ++--- R/profoundProFound.R | 194 +++++++++++++++++------ R/profoundSegim.R | 253 +++++++++++++++++------------- R/profoundSky.R | 268 +++++++++++++++++++++++--------- R/profoundUtility.R | 109 +++++++++++-- build/partial.rdb |binary inst/CITATION | 2 inst/doc/ProFound-Colour.R | 23 ++ inst/doc/ProFound-Colour.Rmd | 47 +++++ inst/doc/ProFound-Colour.html | 28 +++ inst/doc/ProFound-Complex-Fit.html | 4 inst/doc/ProFound-Segim-Maps.html | 4 inst/doc/ProFound-Simulated-Images.html | 4 inst/doc/ProFound-Sky_Shenanigans.html | 10 - inst/doc/ProFound-Source-Finding.html | 4 inst/doc/ProFound-Stack-Images.html | 4 man/ProFound-package.Rd | 4 man/plot.profound.Rd | 11 - man/profoundCatMerge.Rd |only man/profoundDrawEllipse.Rd | 45 ----- man/profoundFluxDeblend.Rd |only man/profoundGainEst.Rd | 2 man/profoundGetEllipse.Rd | 4 man/profoundGetEllipses.Rd | 8 man/profoundGetEllipsesPlot.Rd | 8 man/profoundImBlur.Rd | 6 man/profoundMakeSegim.Rd | 22 +- man/profoundMakeSegimExpand.Rd | 17 +- man/profoundMakeSegimPropogate.Rd | 6 man/profoundMakeSigma.Rd | 6 man/profoundMakeSkyMap.Rd | 34 ++-- man/profoundMakeStack.Rd | 2 man/profoundMultiBand.Rd | 96 +++++------ man/profoundPixelCorrelation.Rd | 5 man/profoundProFound.Rd | 86 ++++++++-- man/profoundSegimGroup.Rd | 4 man/profoundSegimKeep.Rd |only man/profoundSegimMerge.Rd | 10 - man/profoundSegimNear.Rd | 4 man/profoundSegimStats.Rd | 14 - man/profoundSegimWarp.Rd | 4 man/profoundSkyEst.Rd | 4 man/profoundSkyEstLoc.Rd | 14 + man/water_cpp.Rd |only src |only vignettes/ProFound-Colour.Rmd | 47 +++++ 53 files changed, 1261 insertions(+), 617 deletions(-)
Title: Searching for Optimal Clustering Procedure for a Data Set
Description: Distance measures (GDM1, GDM2, Sokal-Michener, Bray-Curtis, for symbolic interval-valued data), cluster quality indices (Calinski-Harabasz, Baker-Hubert, Hubert-Levine, Silhouette, Krzanowski-Lai, Hartigan, Gap, Davies-Bouldin), data normalization formulas (metric data, interval-valued symbolic data), data generation (typical and non-typical data), HINoV method, replication analysis, linear ordering methods, spectral clustering, agreement indices between two partitions, plot functions (for categorical and symbolic interval-valued data).
(MILLIGAN, G.W., COOPER, M.C. (1985) <doi:10.1007/BF02294245>,
HUBERT, L., ARABIE, P. (1985) <doi:10.1007%2FBF01908075>,
RAND, W.M. (1971) <doi:10.1080/01621459.1971.10482356>,
JAJUGA, K., WALESIAK, M. (2000) <doi:10.1007/978-3-642-57280-7_11>,
MILLIGAN, G.W., COOPER, M.C. (1988) <doi:10.1007/BF01897163>,
JAJUGA, K., WALESIAK, M., BAK, A. (2003) <doi:10.1007/978-3-642-55721-7_12>,
DAVIES, D.L., BOULDIN, D.W. (1979) <doi:10.1109/TPAMI.1979.4766909>,
CALINSKI, T., HARABASZ, J. (1974) <doi:10.1080/03610927408827101>,
HUBERT, L. (1974) <doi:10.1080/01621459.1974.10480191>,
TIBSHIRANI, R., WALTHER, G., HASTIE, T. (2001) <doi:10.1111/1467-9868.00293>,
BRECKENRIDGE, J.N. (2000) <doi:10.1207/S15327906MBR3502_5>,
WALESIAK, M., DUDEK, A. (2008) <doi:10.1007/978-3-540-78246-9_11>).
Author: Marek Walesiak <marek.walesiak@ue.wroc.pl>, Andrzej Dudek <andrzej.dudek@ue.wroc.pl>
Maintainer: Andrzej Dudek <andrzej.dudek@ue.wroc.pl>
Diff between clusterSim versions 0.47-2 dated 2018-10-04 and 0.47-3 dated 2018-11-28
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- R/interval_normalization.r | 8 ++++++-- man/cluster.Sim.rd | 6 +++--- man/data_binary.rd | 8 ++++---- man/data_interval.rd | 6 +++--- man/data_nominal.rd | 8 ++++---- man/data_ordinal.rd | 8 ++++---- man/data_ratio.rd | 8 ++++---- man/data_symbolic_interval_polish_voivodships.rd | 2 +- 10 files changed, 42 insertions(+), 38 deletions(-)
Title: 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra
Library
Description: 'Armadillo' is a templated C++ linear algebra library (by Conrad
Sanderson) that aims towards a good balance between speed and ease of use. Integer,
floating point and complex numbers are supported, as well as a subset of
trigonometric and statistics functions. Various matrix decompositions are
provided through optional integration with LAPACK and ATLAS libraries.
The 'RcppArmadillo' package includes the header files from the templated
'Armadillo' library. Thus users do not need to install 'Armadillo' itself in
order to use 'RcppArmadillo'. From release 7.800.0 on, 'Armadillo' is
licensed under Apache License 2; previous releases were under licensed as
MPL 2.0 from version 3.800.0 onwards and LGPL-3 prior to that;
'RcppArmadillo' (the 'Rcpp' bindings/bridge to Armadillo) is licensed under
the GNU GPL version 2 or later, as is the rest of 'Rcpp'. Note that
Armadillo requires a fairly recent compiler; for the g++ family at least
version 4.6.* is required.
Author: Dirk Eddelbuettel, Romain Francois, Doug Bates and Binxiang Ni
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppArmadillo versions 0.9.200.4.0 dated 2018-11-10 and 0.9.200.5.0 dated 2018-11-28
ChangeLog | 11 DESCRIPTION | 8 MD5 | 22 - inst/NEWS.Rd | 7 inst/doc/RcppArmadillo-intro.pdf |binary inst/doc/RcppArmadillo-sparseMatrix.pdf |binary inst/include/armadillo_bits/Col_bones.hpp | 23 + inst/include/armadillo_bits/Mat_bones.hpp | 27 + inst/include/armadillo_bits/Row_bones.hpp | 23 + inst/include/armadillo_bits/arma_version.hpp | 2 inst/include/armadillo_bits/op_princomp_bones.hpp | 72 ---- inst/include/armadillo_bits/op_princomp_meat.hpp | 349 +--------------------- 12 files changed, 131 insertions(+), 413 deletions(-)
More information about riskPredictClustData at CRAN
Permanent link
Title: Fit Projected 2D Profiles to Galaxy Images
Description: Get data / Define model / ??? / Profit! 'ProFit' is a Bayesian galaxy fitting tool that uses a fast 'C++' image generation library and a flexible interface to a large number of likelihood samplers.
Author: Aaron Robotham, Dan Taranu, Rodrigo Tobar
Maintainer: Aaron Robotham <aaron.robotham@uwa.edu.au>
Diff between ProFit versions 1.2.3 dated 2018-08-14 and 1.2.4 dated 2018-11-28
DESCRIPTION | 8 - MD5 | 28 ++--- build/partial.rdb |binary configure | 6 - inst/doc/ProFit-Galaxy-Fit-Example.html | 10 +- inst/doc/ProFit-Isophotal-Ellipses.html | 4 inst/doc/ProFit-Make-Model-Image.html | 30 +++--- inst/doc/ProFit-OpenCL-OpenMP.html | 4 inst/doc/ProFit-PSF-Convolution-Can-Be-Convoluted.html | 6 - inst/doc/ProFit-PSF-Fit-Example.html | 10 +- inst/doc/ProFit-Sigma-Maps.html | 84 ++++++++--------- inst/doc/ProFit-The-Full-Monty.html | 6 - man/ProFit-package.Rd | 4 man/profitBenchmarkResultBest.Rd | 3 src/Makevars.in | 3 15 files changed, 104 insertions(+), 102 deletions(-)
Title: Collection of Utility Functions
Description: A handy collection of utility functions designed to aid in package development, plotting and scientific research.
Package development functionalities includes among others tools such as cross-referencing package imports with the description file,
analysis of redundant package imports, editing of the description file and the creation of package badges for GitHub.
Some of the other functionalities include automatic package installation and loading, plotting points without overlap,
creating nice breaks for plots, overview tables and many more handy utility functions.
Author: H.G. van den Boorn [aut, cre]
Maintainer: H.G. van den Boorn <hvdboorn@gmail.com>
Diff between hgutils versions 0.2.3 dated 2018-09-24 and 0.2.5 dated 2018-11-28
hgutils-0.2.3/hgutils/man/badge2text.Rd |only hgutils-0.2.3/hgutils/man/print.badge.Rd |only hgutils-0.2.5/hgutils/DESCRIPTION | 12 - hgutils-0.2.5/hgutils/MD5 | 44 ++++-- hgutils-0.2.5/hgutils/NAMESPACE | 12 - hgutils-0.2.5/hgutils/NEWS | 1 hgutils-0.2.5/hgutils/R/badge-utils.R | 102 +++++++-------- hgutils-0.2.5/hgutils/R/flowchart-utils.R |only hgutils-0.2.5/hgutils/R/misc-utils.R | 15 +- hgutils-0.2.5/hgutils/R/package-loading.R | 114 +++++++++++------ hgutils-0.2.5/hgutils/R/plot-utils.R | 10 - hgutils-0.2.5/hgutils/README.md |only hgutils-0.2.5/hgutils/inst |only hgutils-0.2.5/hgutils/man/inclusion_flowchart.Rd |only hgutils-0.2.5/hgutils/man/load_packages.Rd | 11 + hgutils-0.2.5/hgutils/man/print.patient_flowchart.Rd |only hgutils-0.2.5/hgutils/man/separate_values.Rd | 2 hgutils-0.2.5/hgutils/man/startup.Rd | 10 + hgutils-0.2.5/hgutils/tests/testthat/DESCRIPTION | 2 hgutils-0.2.5/hgutils/tests/testthat/test-plot-utils.R | 8 - hgutils-0.2.5/hgutils/tools/build_package.R | 2 hgutils-0.2.5/hgutils/tools/output |only hgutils-0.2.5/hgutils/tools/package-shields.R |only hgutils-0.2.5/hgutils/tools/shields.R | 40 ++--- 24 files changed, 222 insertions(+), 163 deletions(-)
Title: Extra Image Processing Library Based on 'imager'
Description: Providing advanced functions for image processing based on the package 'imager'.
Author: Shota Ochi [aut, cre],
Guoshen Yu [ctb, cph],
Guillermo Sapiro [ctb, cph],
Catalina Sbert [ctb, cph],
Image Processing On Line [cph],
Pascal Getreuer [ctb, cph]
Maintainer: Shota Ochi <shotaochi1990@gmail.com>
Diff between imagerExtra versions 1.2.0 dated 2018-07-22 and 1.3.0 dated 2018-11-28
DESCRIPTION | 27 MD5 | 103 +- NAMESPACE | 9 R/DCT_denoising.R | 6 R/OCR.R | 35 R/RcppExports.R | 52 + R/adaptive_double_plateaus_histogram_equalization.R |only R/chan_vese_segmentation.R |only R/fast_discrete_cosine_transoformation.R | 18 R/fuzzy_thresholding.R |only R/iterative_triclass_thresholding.R | 110 +- R/local_adaptive_thresholding.R | 16 R/misc.R | 4 R/multilevel_thresholding.R |only R/piecewize_equalization.R | 21 R/screened_poisson_equation.R | 16 R/simplest_color_balance.R | 42 R/utils.R | 424 +++++----- inst/doc/OCR_with_imagerExtra.R | 15 inst/doc/OCR_with_imagerExtra.Rmd | 42 inst/doc/OCR_with_imagerExtra.html | 50 - inst/doc/gettingstarted.R | 53 - inst/doc/gettingstarted.Rmd | 137 ++- inst/doc/gettingstarted.html | 152 ++- inst/doc/treat_colorimage.Rmd | 5 inst/doc/treat_colorimage.html | 9 man/EqualizeADP.Rd |only man/EqualizeDP.Rd |only man/EqualizePiecewise.Rd | 4 man/OCR.Rd | 11 man/SegmentCV.Rd |only man/ThresholdFuzzy.Rd |only man/ThresholdML.Rd |only man/ThresholdTriclass.Rd | 2 src/DCT_denoising.cpp | 160 +-- src/RcppExports.cpp | 193 ++++ src/adaptive_double_plateaus_histogram_equalization.cpp |only src/chan_vese_segmentation.cpp |only src/fuzzy_thresholding.cpp |only src/iterative_triclass_thresholding.cpp | 22 src/multilevel_thresholding.cpp |only src/piecewise_equalization.cpp | 50 - src/screened_poisson_equation.cpp | 55 - src/simplest_color_balance.cpp | 42 tests/testthat/test_DCTdenoising.R | 24 tests/testthat/test_OCR.R | 17 tests/testthat/test_adaptive_double_plateaus_histogram_equalization.R |only tests/testthat/test_chan_vese_segmentation.R |only tests/testthat/test_fast_discrete_cosine_transformation.R | 6 tests/testthat/test_fuzzy_thresholding.R |only tests/testthat/test_iterative_triclass_thresholding.R | 2 tests/testthat/test_local_adaptive_thresholding.R | 32 tests/testthat/test_multilevel_thresholding.R |only tests/testthat/test_piecewise_equalization.R | 20 tests/testthat/test_screened_poisson_equation.R | 26 tests/testthat/test_simplest_color_balance.R | 40 tests/testthat/test_treat_color_image.R | 4 tests/testthat/test_utils.R | 197 ++-- vignettes/OCR_with_imagerExtra.Rmd | 42 vignettes/gettingstarted.Rmd | 137 ++- vignettes/treat_colorimage.Rmd | 5 61 files changed, 1505 insertions(+), 932 deletions(-)