Title: Basic Tools for the Analysis of Disease Outbreaks
Diff between OutbreakTools versions 0.1-12 dated 2015-02-06 and 0.1-13 dated 2015-03-23
Description: Implements basic tools for storing, handling and visualizing disease outbreak data, as well as simple analysis tools. OutbreakTools defines the new formal class obkData which can be used to store any case-base outbreak data, and provides summaries for these objects, alongside a range of functions for subsetting and data manipulation. It implements a range of graphics for visualising timelines, maps, contact networks and genetic analyses. It also includes a simple case-base outbreak simulation tool.
Author: The Hackout team (In alphabetic order: David Aanensen, Marc Baguelin, Paul Birrell, Simon Cauchemez, Anton Camacho, Caroline Colijn, Anne Cori, Xavier Didelot, Ken Eames, Christophe Fraser, Simon Frost, Niel Hens, Joseph Hugues, Thibaut Jombart, Lulla Opatowski, Oliver Ratmann, Samuel Soubeyrand, Marc Suchard, Jacco Wallinga, Rolf Ypma)
Maintainer: Thibaut Jombart
ChangeLog | 5 +++++
DESCRIPTION | 12 ++++++------
MD5 | 22 +++++++++++-----------
build/vignette.rds |binary
data/FluH1N1pdm2009.RData |binary
data/HorseFlu.RData |binary
data/HorseFluRaw.RData |binary
data/ToyOutbreak.RData |binary
data/ToyOutbreakRaw.RData |binary
inst/doc/OutbreakTools.pdf |binary
man/obkContacts.Rd | 1 +
man/obkDataPlot.Rd | 1 +
12 files changed, 24 insertions(+), 17 deletions(-)
Title: Utilities for Producing Maps
Diff between mapmisc versions 1.1.3 dated 2015-02-21 and 1.2.0 dated 2015-03-23
Description: A minimal, light-weight set of tools for producing nice looking maps in R.
Author: Patrick Brown
Maintainer: Patrick Brown
DESCRIPTION | 12 ++--
MD5 | 60 ++++++++++++---------
NAMESPACE | 5 +
R/col2html.R |only
R/colourScale.R | 132 +++++++++++++++++++++++++++++++++++++----------
R/geonames.R | 2
R/getTiles.R | 17 ++----
R/insetMap.R | 2
R/legendBreaks.R | 103 ++++++++++++++++++++++++++++++++----
R/legendTable.R |only
R/omerc.R |only
R/openmap.R | 30 +++++++---
R/openmapAttribution.R |only
R/scaleBar.R | 68 +++++++++++++++++-------
R/tpeqd.R |only
R/utils.R | 60 +++++----------------
build/vignette.rds |binary
inst/doc/mapLayers.R | 9 +--
inst/doc/mapLayers.pdf |binary
inst/doc/mapLayers.rnw | 11 ++-
inst/doc/mapmisc.R | 16 ++---
inst/doc/mapmisc.pdf |binary
inst/doc/mapmisc.rnw | 18 ++----
inst/extdata/tiles.RData |binary
man/col2html.Rd |only
man/geonames.Rd | 2
man/legendBreaks.Rd | 13 +++-
man/legendTable.Rd |only
man/omerc.Rd |only
man/openmap.Rd | 60 +++++----------------
man/scaleBar.Rd | 2
man/tpeqd.Rd |only
tests/omerc.R |only
tests/openmap.R | 7 +-
vignettes/mapLayers.rnw | 11 ++-
vignettes/mapmisc.rnw | 18 ++----
36 files changed, 406 insertions(+), 252 deletions(-)
Title: Create Waffle Chart Visualizations in R
Diff between waffle versions 0.3 dated 2015-03-22 and 0.3.1 dated 2015-03-23
Description: Square pie charts (a.k.a. waffle charts) can be used
to communicate parts of a whole for categorical quantities. To emulate the
percentage view of a pie chart, a 10x10 grid should be used with each square
representing 1% of the total. Modern uses of waffle charts do not
necessarily adhere to this rule and can be created with a grid of any
rectangular shape. Best practices suggest keeping the number of categories
small, just as should be done when creating pie charts.
Author: Bob Rudis
Maintainer: Bob Rudis
DESCRIPTION | 8 ++++----
MD5 | 2 +-
2 files changed, 5 insertions(+), 5 deletions(-)
Title: Quantitative Analysis Made Accessible
Diff between userfriendlyscience versions 0.2-0 dated 2015-02-27 and 0.2-1 dated 2015-03-23
More information about userfriendlyscience at CRAN
Description: Contains a number of functions that serve
two goals: first, make R more accessible to people migrating from
SPSS by adding a number of functions that behave roughly like their
SPSS equivalents; and second, make a number of slightly more
advanced functions more user friendly to relatively novice users.
Author: Gjalt-Jorn Peters
Maintainer: Gjalt-Jorn Peters
ChangeLog | 16 +++
DESCRIPTION | 8 -
MD5 | 36 ++++----
NAMESPACE | 1
NEWS | 11 +-
R/associationMatrix.r | 12 +-
R/basicSPSStranslationFunctions.r | 65 ++++++++++++++-
R/convert.r | 42 +++++++++
R/meanDiff.r | 13 ++-
R/oneway.r | 13 ++-
R/userfriendlyscienceBasics.r | 11 +-
man/userfriendlyscience-associationMatrix.Rd | 11 --
man/userfriendlyscience-basicSPSStranslationFunctions.Rd | 16 +++
man/userfriendlyscience-convert.Rd | 27 +++++-
man/userfriendlyscience-meanDiff.Rd | 19 ++++
man/userfriendlyscience-package.Rd | 6 -
man/userfriendlyscience-regr.Rd | 2
man/userfriendlyscience-scaleInspection.Rd | 2
man/userfriendlyscience-userfriendlyscienceBasics.Rd | 20 +++-
19 files changed, 264 insertions(+), 67 deletions(-)
Permanent link
Title: Simulation Parameter Analysis R Toolkit ApplicatioN: Spartan
Diff between spartan versions 2.1 dated 2014-08-19 and 2.2 dated 2015-03-23
Description: Computer simulations are becoming a popular technique to use in attempts to further our understanding of complex systems. SPARTAN, described in our 2013 publication in PLoS Computational Biology, provides code for four techniques described in available literature which aid the analysis of simulation results, at both single and multiple timepoints in the simulation run. The first technique addresses aleatory uncertainty in the system caused through inherent stochasticity, and determines the number of replicate runs necessary to generate a representative result. The second examines how robust a simulation is to parameter perturbation, through the use of a one-at-a-time parameter analysis technique. Thirdly, a latin hypercube based sensitivity analysis technique is included which can elucidate non-linear effects between parameters and indicate implications of epistemic uncertainty with reference to the system being modelled. Finally, a further sensitivity analysis technique, the extended Fourier Amplitude Sampling Test (eFAST) has been included to partition the variance in simulation results between input parameters, to determine the parameters which have a significant effect on simulation behaviour. Version 1.3 adds support for Netlogo simulations, aiding simulation developers who use Netlogo to build their simulations perform the same analyses. We have also added user support through the group spartan-group[AT]york[DOT]ac[DOT]uk. Version 2.0 added the ability to read all simulations in from a single CSV file in addition to the prescribed folder structure in previous versions.
Author: Kieran Alden, Mark Read, Paul Andrews, Jon Timmis, Henrique Veiga-Fernandes, Mark Coles
Maintainer: Kieran Alden
DESCRIPTION | 10 ++++-----
MD5 | 35 ++++++++++++++++----------------
R/aa_getATestResults.R | 3 ++
R/aa_graphATestsForSampleSize.R | 11 ++++++----
R/aa_graphSampleSizeSummary.R | 14 +++++++++---
R/aa_sampleSizeSummary.R | 3 ++
R/aa_summariseReplicateRuns.R | 3 ++
R/efast_get_overall_medians.R | 3 ++
R/efast_run_Analysis.R | 3 ++
R/lhc_generateLHCSummary.R | 5 +++-
R/lhc_generatePRCoEffs.R | 3 ++
R/lhc_graphMeasuresForParameterChange.R | 3 ++
R/lhc_plotCoEfficients.R |only
R/lhc_process_sample_run_subsets.R | 3 ++
R/oat_csv_result_file_analysis.R | 3 ++
R/oat_graphATestsForSampleSize.R | 4 ++-
R/oat_plotResultDistribution.R | 3 ++
R/oat_processParamSubsets.R | 5 +++-
man/Technique3-lhc_perform_analysis.Rd | 18 +++++++++++++---
19 files changed, 96 insertions(+), 36 deletions(-)
Title: Calculate Pairwise Multiple Comparisons of Mean Rank Sums
Diff between PMCMR versions 1.0 dated 2014-06-25 and 1.1 dated 2015-03-23
Description: The Kruskal and Wallis one-way analysis of variance by ranks
can be employed, if the data do not meet the assumptions
for one-way ANOVA. Provided that significant differences
were detected by the Kruskal-Wallis-Test, one may be interested
in applying post-hoc tests for pairwise multiple comparisons
of the ranked data. Similarly, one-way ANOVA with repeated
measures that is also referred to as ANOVA with unreplicated
block design can also be conducted via the Friedman-Test.
The consequent post-hoc pairwise multiple comparison test according
to Nemenyi is also provided in this package.
Author: Thorsten Pohlert
Maintainer: Thorsten Pohlert
PMCMR-1.0/PMCMR/inst/CITATION |only
PMCMR-1.1/PMCMR/DESCRIPTION | 10 -
PMCMR-1.1/PMCMR/MD5 | 20 +--
PMCMR-1.1/PMCMR/NAMESPACE | 10 +
PMCMR-1.1/PMCMR/R/posthoc.friedman.nemenyi.test.R | 120 ++++++++++++-------
PMCMR-1.1/PMCMR/R/posthoc.kruskal.nemenyi.test.R | 63 +++++++++
PMCMR-1.1/PMCMR/build/vignette.rds |binary
PMCMR-1.1/PMCMR/inst/NEWS.Rd |only
PMCMR-1.1/PMCMR/inst/doc/PMCMR.pdf |binary
PMCMR-1.1/PMCMR/man/PMCMR-package.Rd | 6
PMCMR-1.1/PMCMR/man/posthoc.friedman.nemenyi.test.Rd | 32 ++++-
PMCMR-1.1/PMCMR/man/posthoc.kruskal.nemenyi.test.Rd | 51 ++++++--
12 files changed, 228 insertions(+), 84 deletions(-)
Title: Comprehensive Luminescence Dating Data Analysis
Diff between Luminescence versions 0.4.1 dated 2015-01-29 and 0.4.2 dated 2015-03-23
Description: A collection of various R functions for the purpose of Luminescence dating data analysis. This includes, amongst others, data import, export, application of age models, curve deconvolution, sequence analysis and plotting of equivalent dose distributions.
Author: Sebastian Kreutzer [aut, trl, cre],
Michael Dietze [aut],
Christoph Burow [aut],
Margret C. Fuchs [aut],
Christoph Schmidt [aut],
Manfred Fischer [aut, trl],
Rachel K. Smedley [aut],
Markus Fuchs [ths]
Maintainer: Sebastian Kreutzer
DESCRIPTION | 18
MD5 | 211 -
NAMESPACE | 7
NEWS | 279 +
R/CW2pHMi.R | 280 -
R/CW2pLM.R | 132
R/CW2pLMi.R | 236 -
R/CW2pPMi.R | 214 -
R/RLum.Analysis-class.R | 788 ++-
R/RLum.Data.Image-class.R | 160
R/RLum.Results-class.R | 387 +
R/RcppExports.R |only
R/RisoeBINfileData-class.R | 194
R/Second2Gray.R | 280 -
R/analyse_IRSAR.RF.R | 1105 +++--
R/analyse_SAR.CWOSL.R | 679 +--
R/analyse_pIRIRSequence.R | 1476 +++----
R/apply_CosmicRayRemoval.R | 249 -
R/calc_CentralDose.R | 2
R/calc_CommonDose.R | 2
R/calc_FadingCorr.R | 158
R/calc_FiniteMixture.R | 14
R/calc_FuchsLang2001.R | 2
R/calc_HomogeneityTest.R | 2
R/calc_IEU.R |only
R/calc_MaxDose.R | 12
R/calc_MinDose.R | 968 ++--
R/calc_SourceDoseRate.R | 334 -
R/calc_Statistics.R | 104
R/extract_IrradiationTimes.R |only
R/fit_LMCurve.R | 728 +--
R/get_RLum.R | 188
R/merge_RLum.R | 220 -
R/merge_Risoe.BINfileData.R | 500 +-
R/plot_AbanicoPlot.R | 6184 +++++++++++++++----------------
R/plot_DRTResults.R | 1484 +++----
R/plot_GrowthCurve.R | 2382 ++++++-----
R/plot_Histogram.R | 1251 +++---
R/plot_KDE.R | 1704 ++++----
R/plot_RLum.Analysis.R | 407 +-
R/plot_RLum.Data.Spectrum.R | 671 +--
R/plot_RLum.Results.R | 39
R/plot_RadialPlot.R | 2971 +++++++-------
R/readBIN2R.R | 1961 ++++-----
R/readSPE2R.R | 878 ++--
R/readXSYG2R.R | 518 +-
R/writeR2BIN.R | 748 ++-
data/ExampleData.DeValues.RData |binary
inst/NEWS.Rd | 1137 +++--
inst/doc/S4classObjects.pdf |binary
man/Analyse_SAR.OSLdata.Rd | 2
man/CW2pHMi.Rd | 84
man/CW2pLM.Rd | 26
man/CW2pLMi.Rd | 74
man/CW2pPMi.Rd | 60
man/ExampleData.DeValues.Rd | 138
man/Luminescence-package.Rd | 11
man/Risoe.BINfileData-class.Rd | 62
man/Risoe.BINfileData2RLum.Analysis.Rd | 2
man/Risoe.BINfileData2RLum.Data.Curve.Rd | 2
man/Second2Gray.Rd | 6
man/analyse_IRSAR.RF.Rd | 150
man/analyse_SAR.CWOSL.Rd | 92
man/analyse_SAR.TL.Rd | 2
man/analyse_pIRIRSequence.Rd | 86
man/apply_CosmicRayRemoval.Rd | 47
man/apply_EfficiencyCorrection.Rd | 2
man/calc_AliquotSize.Rd | 2
man/calc_CentralDose.Rd | 4
man/calc_CommonDose.Rd | 2
man/calc_CosmicDoseRate.Rd | 2
man/calc_FadingCorr.Rd | 42
man/calc_FiniteMixture.Rd | 16
man/calc_FuchsLang2001.Rd | 4
man/calc_HomogeneityTest.Rd | 4
man/calc_IEU.Rd |only
man/calc_MaxDose.Rd | 11
man/calc_MinDose.Rd | 199
man/calc_OSLLxTxRatio.Rd | 2
man/calc_SourceDoseRate.Rd | 4
man/calc_Statistics.Rd | 16
man/calc_TLLxTxRatio.Rd | 2
man/extract_IrradiationTimes.Rd |only
man/fit_CWCurve.Rd | 2
man/fit_LMCurve.Rd | 132
man/get_Layout.Rd | 2
man/get_RLum.Rd | 4
man/merge_RLum.Analysis.Rd | 2
man/merge_RLum.Data.Curve.Rd | 2
man/merge_RLum.Rd | 6
man/merge_Risoe.BINfileData.Rd | 28
man/plot_AbanicoPlot.Rd | 116
man/plot_DRTResults.Rd | 16
man/plot_GrowthCurve.Rd | 106
man/plot_Histogram.Rd | 79
man/plot_KDE.Rd | 68
man/plot_RLum.Analysis.Rd | 44
man/plot_RLum.Data.Curve.Rd | 2
man/plot_RLum.Data.Image.Rd | 2
man/plot_RLum.Data.Spectrum.Rd | 80
man/plot_RLum.Rd | 2
man/plot_RLum.Results.Rd | 4
man/plot_RadialPlot.Rd | 104
man/plot_Risoe.BINfileData.Rd | 2
man/readBIN2R.Rd | 32
man/readSPE2R.Rd | 2
man/readXSYG2R.Rd | 38
man/writeR2BIN.Rd | 50
src |only
109 files changed, 18002 insertions(+), 16343 deletions(-)
Title: Analysis and Visualization of Macroevolutionary Dynamics on
Phylogenetic Trees
Diff between BAMMtools versions 2.0.4 dated 2015-03-18 and 2.0.5 dated 2015-03-23
Description: Provides functions for analyzing and visualizing complex macroevolutionary dynamics on phylogenetic trees. It is a companion package to the command line program BAMM (Bayesian Analysis of Macroevolutionary Mixtures) and is entirely oriented towards the analysis, interpretation, and visualization of evolutionary rates. Functionality includes visualization of rate shifts on phylogenies, estimating evolutionary rates through time, comparing posterior distributions of evolutionary rates across clades, comparing diversification models using Bayes factors, and more.
Author: Dan Rabosky, Mike Grundler, Pascal Title, Carlos Anderson, Jeff Shi, Joseph Brown, Huateng Huang
Maintainer: Pascal Title
DESCRIPTION | 8 ++++----
MD5 | 24 ++++++++++++------------
R/assignColorBreaks.R | 2 +-
R/plot.bammdata.R | 6 +++++-
R/plot.bammshifts.R | 7 +++++--
R/plot.credibleshiftset.R | 3 +++
R/speciesByRatesMatrix.R | 5 ++++-
man/assignColorBreaks.Rd | 8 ++++----
man/plot.bammdata.Rd | 4 ++--
man/plot.bammshifts.Rd | 2 +-
man/plot.credibleshiftset.Rd | 2 +-
man/speciesByRatesMatrix.Rd | 2 +-
src/jenksBrks.c | 20 ++++----------------
13 files changed, 47 insertions(+), 46 deletions(-)
Title: Response Surface Analysis
Diff between RSA versions 0.9.6 dated 2015-01-21 and 0.9.8 dated 2015-03-23
Description: Advanced response surface analysis. The main function RSA computes
and compares several nested polynomial regression models (full polynomial,
shifted and rotated squared differences, rising ridge surfaces, basic
squared differences). The package provides plotting functions for 3d
wireframe surfaces, interactive 3d plots, and contour plots. Calculates
many surface parameters (a1 to a4, principal axes, stationary point,
eigenvalues) and provides standard, robust, or bootstrapped standard errors
and confidence intervals for them.
Author: Felix Schönbrodt
Maintainer: Felix Schönbrodt
DESCRIPTION | 8 +--
MD5 | 38 ++++++++++--------
R/RSA.R | 30 ++++++++------
R/aictab.R | 100 +++++++++++++++++++++++++++++++++++++++++--------
R/compare.R | 22 +++++-----
R/confint.R | 25 +++++++++---
R/demoSRRR.R | 8 +--
R/getPar.R | 13 +++---
R/helpers.R | 2
R/motcon2-data.R |only
R/plot.RSA.R | 33 ++++++++--------
R/print.RSA.R | 28 ++-----------
data/motcon2.tab |only
inst/NEWS.Rd | 43 +++++++++++++++++++++
inst/RSA_modeltree.pdf |only
man/RSA.Rd | 9 ++--
man/aictab.Rd | 34 ++++++++++++++--
man/compare.Rd | 4 +
man/compare2.Rd | 4 +
man/getPar.Rd | 2
man/motcon2.Rd |only
man/plotRSA.Rd | 8 ++-
22 files changed, 284 insertions(+), 127 deletions(-)
Title: Detection and Control of Tree-Ring Widths on Scanned Image
Sections
Diff between measuRing versions 0.1 dated 2014-10-01 and 0.3 dated 2015-03-23
Description: Identification of ring borders on scanned image sections from dendrochronological samples. Processesing of image reflectances to produce gray matrices and a time series of smoothed gray values. Luminance data is plotted on segmented images for users to perform both: visual identification of ring borders, or control of automatic detection. Routines to visually include/exclude ring borders on the R graphical device, or automatically detect ring borders using a linear detection algorithm. This algorithm detects ring borders according to positive/negative extreme values in the smoothed time-series of gray values.
Author: Wilson Lara, Carlos Sierra, Felipe Bravo
Maintainer: Wilson Lara
measuRing-0.1/measuRing/R/pixelTypes.R |only
measuRing-0.1/measuRing/man/pixelTypes.Rd |only
measuRing-0.3/measuRing/DESCRIPTION | 16 -
measuRing-0.3/measuRing/MD5 | 57 ++-
measuRing-0.3/measuRing/NAMESPACE | 16 -
measuRing-0.3/measuRing/NEWS |only
measuRing-0.3/measuRing/R/colNarrow.R |only
measuRing-0.3/measuRing/R/dataSegments.R |only
measuRing-0.3/measuRing/R/grayDarker.R | 61 ++-
measuRing-0.3/measuRing/R/graySmoothed.R | 79 +++-
measuRing-0.3/measuRing/R/imageTogray.R | 89 ++++-
measuRing-0.3/measuRing/R/lagIngray.R | 49 ++-
measuRing-0.3/measuRing/R/linearDetect.R | 80 +++--
measuRing-0.3/measuRing/R/multiDetect.R |only
measuRing-0.3/measuRing/R/plotSegments.R | 364 +++++++++++++++--------
measuRing-0.3/measuRing/R/ringBorders.R |only
measuRing-0.3/measuRing/R/ringDetect.R | 128 +++++---
measuRing-0.3/measuRing/R/ringSelect.R | 155 ++++-----
measuRing-0.3/measuRing/R/ringWidths.R | 80 +++--
measuRing-0.3/measuRing/inst/P105_a.png |only
measuRing-0.3/measuRing/inst/P105_b.tif |only
measuRing-0.3/measuRing/inst/P105_c.tif |only
measuRing-0.3/measuRing/inst/P105_d.tif |only
measuRing-0.3/measuRing/man/colNarrow.Rd |only
measuRing-0.3/measuRing/man/dataSegments.Rd |only
measuRing-0.3/measuRing/man/grayDarker.Rd | 38 +-
measuRing-0.3/measuRing/man/graySmoothed.Rd | 33 +-
measuRing-0.3/measuRing/man/imageTogray.Rd | 47 ++
measuRing-0.3/measuRing/man/lagIngray.Rd | 33 +-
measuRing-0.3/measuRing/man/linearDetect.Rd | 29 +
measuRing-0.3/measuRing/man/measuRing-package.Rd | 16 -
measuRing-0.3/measuRing/man/multiDetect.Rd |only
measuRing-0.3/measuRing/man/plotSegments.Rd | 66 ++--
measuRing-0.3/measuRing/man/ringBorders.Rd |only
measuRing-0.3/measuRing/man/ringDetect.Rd | 93 +++--
measuRing-0.3/measuRing/man/ringSelect.Rd | 86 ++---
measuRing-0.3/measuRing/man/ringWidths.Rd | 38 +-
37 files changed, 1095 insertions(+), 558 deletions(-)
Title: Multiple Hypothesis Testing for Variable Selection in
High-Dimensional Linear Models
Diff between mht versions 3.0.11 dated 2014-09-02 and 3.1.2 dated 2015-03-23
Description: Multiple Hypothesis Testing For Variable Selection in high dimensional linear models. This package performs variable selection with multiple hypothesis testing, either for ordered variable selection or non-ordered variable selection. In both cases, a sequential procedure is performed. It starts to test the null hypothesis "no variable is relevant"; if this hypothesis is rejected, it then tests "only the first variable is relevant", and so on until the null hypothesis is accepted.
Author: Florian Rohart
Maintainer: Florian Rohart
mht-3.0.11/mht/R/gaussrandom.R |only
mht-3.0.11/mht/R/predict.mht.R |only
mht-3.0.11/mht/R/predict.mht.order.R |only
mht-3.0.11/mht/R/print.mht.R |only
mht-3.0.11/mht/R/print.mht.order.R |only
mht-3.0.11/mht/man/predict.mht.Rd |only
mht-3.0.11/mht/man/predict.mht.order.Rd |only
mht-3.1.2/mht/DESCRIPTION | 18
mht-3.1.2/mht/MD5 | 69 +--
mht-3.1.2/mht/NAMESPACE | 8
mht-3.1.2/mht/NEWS | 12
mht-3.1.2/mht/R/bolassofunction.R | 229 +++++++-----
mht-3.1.2/mht/R/data.scale.R |only
mht-3.1.2/mht/R/decompbaseorthofunction.R | 110 ++++-
mht-3.1.2/mht/R/decoupdyadfunction.R | 349 +++++++++++-------
mht-3.1.2/mht/R/mht.R | 484 +++++++++++---------------
mht-3.1.2/mht/R/mht.order.R | 393 +++++++++++----------
mht-3.1.2/mht/R/order.variables.R |only
mht-3.1.2/mht/R/plot.R |only
mht-3.1.2/mht/R/predict.R |only
mht-3.1.2/mht/R/print.R |only
mht-3.1.2/mht/R/print.bolasso.R | 23 +
mht-3.1.2/mht/R/quantil_ord.R | 89 ++--
mht-3.1.2/mht/R/quantilemht.R | 256 +++++++------
mht-3.1.2/mht/R/quantiletest.R | 19 +
mht-3.1.2/mht/R/refit.R | 19 +
mht-3.1.2/mht/R/refit.mht.R | 553 ++++++++++++++----------------
mht-3.1.2/mht/R/refit.mht.order.R | 459 ++++++++++++++----------
mht-3.1.2/mht/R/zzz.R | 26 +
mht-3.1.2/mht/man/bolasso.Rd | 33 +
mht-3.1.2/mht/man/data.scale.Rd |only
mht-3.1.2/mht/man/decompbaseortho.Rd | 13
mht-3.1.2/mht/man/decoupdyad.Rd | 35 +
mht-3.1.2/mht/man/mht-package.Rd | 26 -
mht-3.1.2/mht/man/mht.Rd | 44 +-
mht-3.1.2/mht/man/mht.order.Rd | 47 +-
mht-3.1.2/mht/man/order.variables.Rd |only
mht-3.1.2/mht/man/plot.Rd |only
mht-3.1.2/mht/man/plot.bolasso.Rd |only
mht-3.1.2/mht/man/predict.Rd |only
mht-3.1.2/mht/man/quantilemht.Rd | 2
mht-3.1.2/mht/man/refit.mht.Rd | 31 +
mht-3.1.2/mht/man/refit.mht.order.Rd | 33 +
mht-3.1.2/mht/src/mhtquant.cpp | 54 ++
44 files changed, 1939 insertions(+), 1495 deletions(-)