Title: Infrastructure for Data Stream Mining
Diff between stream versions 1.0-3 dated 2014-07-14 and 1.1-0 dated 2014-12-18
Description: A framework for data stream modeling and associated data mining tasks such as clustering and classification. The development of this package was supported in part by NSF IIS-0948893 and NIH R21HG005912.
Author: Michael Hahsler [aut, cre, cph],
Matthew Bolanos [aut, cph],
John Forrest [aut, cph]
Maintainer: Michael Hahsler
stream-1.0-3/stream/R/DSD_ReadStream.R |only
stream-1.0-3/stream/R/DSD_Wrapper.R |only
stream-1.0-3/stream/R/cluster.R |only
stream-1.0-3/stream/man/DSD_ReadStream.Rd |only
stream-1.0-3/stream/man/DSD_Wrapper.Rd |only
stream-1.0-3/stream/man/cluster.Rd |only
stream-1.1-0/stream/DESCRIPTION | 9
stream-1.1-0/stream/MD5 | 169 -
stream-1.1-0/stream/NAMESPACE | 41
stream-1.1-0/stream/R/AAA.R | 5
stream-1.1-0/stream/R/DSC.R | 12
stream-1.1-0/stream/R/DSC_DStream.R | 24
stream-1.1-0/stream/R/DSC_Macro.R | 5
stream-1.1-0/stream/R/DSC_R.R | 24
stream-1.1-0/stream/R/DSC_Sample.R | 82
stream-1.1-0/stream/R/DSC_TwoStage.R | 25
stream-1.1-0/stream/R/DSC_Window.R | 68
stream-1.1-0/stream/R/DSC_tNN.R | 4
stream-1.1-0/stream/R/DSD.R | 27
stream-1.1-0/stream/R/DSD_BarsAndGaussians.R | 15
stream-1.1-0/stream/R/DSD_Cubes.R | 10
stream-1.1-0/stream/R/DSD_Gaussians.R | 10
stream-1.1-0/stream/R/DSD_MG.R | 25
stream-1.1-0/stream/R/DSD_Memory.R |only
stream-1.1-0/stream/R/DSD_ReadCSV.R |only
stream-1.1-0/stream/R/DSD_ReadDB.R |only
stream-1.1-0/stream/R/DSD_ScaleStream.R | 28
stream-1.1-0/stream/R/DSD_Target.R | 12
stream-1.1-0/stream/R/DSD_UniformNoise.R | 11
stream-1.1-0/stream/R/DSD_mlbenchData.R | 2
stream-1.1-0/stream/R/DSD_mlbenchGenerator.R | 5
stream-1.1-0/stream/R/DSO.R |only
stream-1.1-0/stream/R/DSO_Sample.R |only
stream-1.1-0/stream/R/DSO_Window.R |only
stream-1.1-0/stream/R/animation.R | 4
stream-1.1-0/stream/R/evaluate.R | 8
stream-1.1-0/stream/R/get_assignment.R | 2
stream-1.1-0/stream/R/recluster.R | 4
stream-1.1-0/stream/R/write_stream.R | 51
stream-1.1-0/stream/build/vignette.rds |binary
stream-1.1-0/stream/inst/NEWS | 8
stream-1.1-0/stream/inst/doc/stream.R | 462 +++-
stream-1.1-0/stream/inst/doc/stream.Rnw | 2441 +++++++++++++-----------
stream-1.1-0/stream/inst/doc/stream.pdf |binary
stream-1.1-0/stream/inst/tests |only
stream-1.1-0/stream/man/DSC_DBSCAN.Rd | 14
stream-1.1-0/stream/man/DSC_DStream.Rd | 27
stream-1.1-0/stream/man/DSC_Hierarchical.Rd | 28
stream-1.1-0/stream/man/DSC_Kmeans.Rd | 16
stream-1.1-0/stream/man/DSC_Reachability.Rd | 10
stream-1.1-0/stream/man/DSC_Sample.Rd | 30
stream-1.1-0/stream/man/DSC_Static.Rd | 12
stream-1.1-0/stream/man/DSC_TwoStage.Rd | 18
stream-1.1-0/stream/man/DSC_Window.Rd | 18
stream-1.1-0/stream/man/DSC_tNN.Rd | 24
stream-1.1-0/stream/man/DSD.Rd | 15
stream-1.1-0/stream/man/DSD_BarsAndGaussians.Rd | 6
stream-1.1-0/stream/man/DSD_Benchmark.Rd | 4
stream-1.1-0/stream/man/DSD_Cubes.Rd | 4
stream-1.1-0/stream/man/DSD_Gaussians.Rd | 8
stream-1.1-0/stream/man/DSD_MG.Rd | 34
stream-1.1-0/stream/man/DSD_Memory.Rd |only
stream-1.1-0/stream/man/DSD_ReadCSV.Rd |only
stream-1.1-0/stream/man/DSD_ReadDB.Rd |only
stream-1.1-0/stream/man/DSD_ScaleStream.Rd | 14
stream-1.1-0/stream/man/DSD_Target.Rd | 6
stream-1.1-0/stream/man/DSD_UniformNoise.Rd | 8
stream-1.1-0/stream/man/DSD_mlbenchData.Rd | 14
stream-1.1-0/stream/man/DSD_mlbenchGenerator.Rd | 4
stream-1.1-0/stream/man/DSO.Rd |only
stream-1.1-0/stream/man/DSO_Sampling.Rd |only
stream-1.1-0/stream/man/DSO_Window.Rd |only
stream-1.1-0/stream/man/MGC.Rd | 30
stream-1.1-0/stream/man/animation.Rd | 10
stream-1.1-0/stream/man/evaluate.Rd | 22
stream-1.1-0/stream/man/get_assignment.Rd | 14
stream-1.1-0/stream/man/get_centers.Rd | 12
stream-1.1-0/stream/man/get_points.Rd | 14
stream-1.1-0/stream/man/get_weights.Rd | 12
stream-1.1-0/stream/man/microToMacro.Rd | 8
stream-1.1-0/stream/man/nclusters.Rd | 10
stream-1.1-0/stream/man/plot.Rd | 23
stream-1.1-0/stream/man/prune_clusters.Rd | 14
stream-1.1-0/stream/man/recluster.Rd | 12
stream-1.1-0/stream/man/reset_stream.Rd | 23
stream-1.1-0/stream/man/update.Rd |only
stream-1.1-0/stream/man/write_stream.Rd | 8
stream-1.1-0/stream/tests |only
stream-1.1-0/stream/vignettes/dsd_uml.odg |binary
stream-1.1-0/stream/vignettes/dsd_uml.pdf |binary
stream-1.1-0/stream/vignettes/dst_uml.odg |binary
stream-1.1-0/stream/vignettes/dst_uml.pdf |binary
stream-1.1-0/stream/vignettes/interaction.odg |binary
stream-1.1-0/stream/vignettes/interaction.pdf |binary
stream-1.1-0/stream/vignettes/stream.Rnw | 2441 +++++++++++++-----------
stream-1.1-0/stream/vignettes/stream.bib | 116 -
96 files changed, 3841 insertions(+), 2835 deletions(-)
Title: Semiparametric Bivariate Probit Modelling
Diff between SemiParBIVProbit versions 3.2-12.1 dated 2014-11-12 and 3.2-13 dated 2014-12-18
More information about SemiParBIVProbit at CRAN
Description: Routine for fitting bivariate models for binary responses with semiparametric predictors (including linear and nonlinear effects) in the presence of correlated error equations, endogeneity, non-random sample selection or partial observability.
Author: Giampiero Marra
Maintainer: Giampiero Marra
ChangeLog | 9 +
DESCRIPTION | 8 -
MD5 | 74 +++++----
NAMESPACE | 4
R/AT.r | 282 ++++++++++++++++++++++++++-----------
R/LM.bpm.r | 15 +
R/SemiParBIVProbit.fit.R | 63 +++++++-
R/SemiParBIVProbit.fit.post.r | 56 +++++--
R/SemiParBIVProbit.fit1.R |only
R/SemiParBIVProbit.r | 62 +++++---
R/VuongClarke.bcm.r | 4
R/bprobgHs.r | 81 +++-------
R/bprobgHsPL.r | 98 +++---------
R/bprobgHsPO.r | 67 ++------
R/bprobgHsSS.r | 67 ++------
R/gt.bpm.R | 20 +-
R/mb.r |only
R/pen.r |only
R/penPL.r |only
R/print.AT.r | 2
R/print.est.prev.r | 2
R/print.summary.SemiParBIVProbit.r | 33 ++--
R/sem.checks.r | 15 +
R/summary.SemiParBIVProbit.r | 147 ++++++++-----------
R/working.comp.r | 110 +++++---------
R/working.comp1.r |only
R/working.comp3.r |only
man/AT.Rd | 19 +-
man/SemiParBIVProbit-package.Rd | 2
man/SemiParBIVProbit.Rd | 47 ++++--
man/SemiParBIVProbit.fit1.Rd |only
man/SemiParBIVProbitObject.Rd | 6
man/VuongClarke.bcm.Rd | 5
man/bprobgHsPL.Rd | 2
man/est.prev.Rd | 3
man/logLik.SemiParBIVProbit.Rd | 7
man/mb.Rd |only
man/pen.Rd |only
man/penPL.Rd |only
man/plot.SemiParBIVProbit.Rd | 5
man/sem.checks.Rd | 3
man/summary.SemiParBIVProbit.Rd | 29 ++-
man/working.comp1.Rd |only
man/working.comp3.Rd |only
44 files changed, 738 insertions(+), 609 deletions(-)
Permanent link
Title: Generalized Hermite Distribution
Diff between hermite versions 1.0 dated 2014-10-31 and 1.0.1 dated 2014-12-18
Description: Probability functions and utilities for the generalized Hermite distribution
Author: David Moriña (Centre for Research in Environmental Epidemiology, CREAL), Manuel Higueras (Universitat Autònoma de Barcelona and Public Health England) and Pedro Puig (Universitat Autònoma de Barcelona)
Maintainer: David Moriña Soler
DESCRIPTION | 12 ++++++------
MD5 | 16 ++++++++++------
R/cofi.R |only
R/dhermite.R | 17 ++++++++++++++++-
R/edg.R |only
R/int.hermite.R | 12 +++++++++---
R/mle.hermite.R |only
R/phermite.R | 5 +++--
R/qhermite.R | 44 +++++++++++++++++++++++++++++++++-----------
man/hermite-internal.Rd | 4 ++++
man/mle.hermite.Rd |only
11 files changed, 81 insertions(+), 29 deletions(-)
Title: Package for Luminescence Dating data analysis
Diff between Luminescence versions 0.3.4 dated 2014-06-08 and 0.4.0 dated 2014-12-18
Description: Package provides a collection of various R functions for Luminescence Dating data analysis.
Author: Sebastian Kreutzer [aut, trl, cre],
Michael Dietze [aut],
Christoph Burow [aut],
Margret C. Fuchs [aut],
Christoph Schmidt [aut],
Manfred Fischer [aut, trl],
Markus Fuchs [ths]
Maintainer: Sebastian Kreutzer
Luminescence-0.3.4/Luminescence/R/calc_MaxDose3.R |only
Luminescence-0.3.4/Luminescence/R/calc_MinDose3.R |only
Luminescence-0.3.4/Luminescence/R/calc_MinDose4.R |only
Luminescence-0.3.4/Luminescence/man/calc_FuchsLang2001.rd |only
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Luminescence-0.3.4/Luminescence/man/calc_MinDose3.Rd |only
Luminescence-0.3.4/Luminescence/man/calc_MinDose4.Rd |only
Luminescence-0.4.0/Luminescence/DESCRIPTION | 43
Luminescence-0.4.0/Luminescence/MD5 | 228 -
Luminescence-0.4.0/Luminescence/NAMESPACE | 5
Luminescence-0.4.0/Luminescence/NEWS | 943 ++--
Luminescence-0.4.0/Luminescence/R/Analyse_SAR.OSLdata.R | 61
Luminescence-0.4.0/Luminescence/R/CW2pLMi.R | 2
Luminescence-0.4.0/Luminescence/R/RLum.Analysis-class.R | 44
Luminescence-0.4.0/Luminescence/R/RLum.Data.Image-class.R |only
Luminescence-0.4.0/Luminescence/R/RLum.Results-class.R | 75
Luminescence-0.4.0/Luminescence/R/Risoe.BINfileData2RLum.Analysis.R | 26
Luminescence-0.4.0/Luminescence/R/RisoeBINfileData-class.R | 8
Luminescence-0.4.0/Luminescence/R/Second2Gray.R | 99
Luminescence-0.4.0/Luminescence/R/analyse_IRSAR.RF.R | 645 ++-
Luminescence-0.4.0/Luminescence/R/analyse_SAR.CWOSL.R | 686 ++-
Luminescence-0.4.0/Luminescence/R/analyse_SAR.TL.R | 16
Luminescence-0.4.0/Luminescence/R/analyse_pIRIRSequence.R |only
Luminescence-0.4.0/Luminescence/R/apply_CosmicRayRemoval.R | 22
Luminescence-0.4.0/Luminescence/R/apply_EfficiencyCorrection.R | 16
Luminescence-0.4.0/Luminescence/R/calc_AliquotSize.R | 909 ++--
Luminescence-0.4.0/Luminescence/R/calc_CentralDose.R | 342 -
Luminescence-0.4.0/Luminescence/R/calc_CommonDose.R | 352 -
Luminescence-0.4.0/Luminescence/R/calc_CosmicDoseRate.R | 1153 ++---
Luminescence-0.4.0/Luminescence/R/calc_FiniteMixture.R | 784 +--
Luminescence-0.4.0/Luminescence/R/calc_FuchsLang2001.R | 582 +-
Luminescence-0.4.0/Luminescence/R/calc_HomogeneityTest.R | 267 -
Luminescence-0.4.0/Luminescence/R/calc_MaxDose.R |only
Luminescence-0.4.0/Luminescence/R/calc_MinDose.R |only
Luminescence-0.4.0/Luminescence/R/calc_OSLLxTxRatio.R | 117
Luminescence-0.4.0/Luminescence/R/calc_SourceDoseRate.R |only
Luminescence-0.4.0/Luminescence/R/calc_Statistics.R | 11
Luminescence-0.4.0/Luminescence/R/calc_TLLxTxRatio.R | 51
Luminescence-0.4.0/Luminescence/R/fit_CWCurve.R | 64
Luminescence-0.4.0/Luminescence/R/get_Layout.R |only
Luminescence-0.4.0/Luminescence/R/get_RLum.R |only
Luminescence-0.4.0/Luminescence/R/merge_RLum.Analysis.R |only
Luminescence-0.4.0/Luminescence/R/merge_RLum.R |only
Luminescence-0.4.0/Luminescence/R/merge_Risoe.BINfileData.R | 17
Luminescence-0.4.0/Luminescence/R/plot_AbanicoPlot.R | 2047 +++++++---
Luminescence-0.4.0/Luminescence/R/plot_DRTResults.R | 138
Luminescence-0.4.0/Luminescence/R/plot_GrowthCurve.R | 302 -
Luminescence-0.4.0/Luminescence/R/plot_Histogram.R | 615 ++-
Luminescence-0.4.0/Luminescence/R/plot_KDE.R | 547 +-
Luminescence-0.4.0/Luminescence/R/plot_RLum.Analysis.R | 218 +
Luminescence-0.4.0/Luminescence/R/plot_RLum.Data.Curve.R | 26
Luminescence-0.4.0/Luminescence/R/plot_RLum.Data.Image.R |only
Luminescence-0.4.0/Luminescence/R/plot_RLum.Data.Spectrum.R | 263 +
Luminescence-0.4.0/Luminescence/R/plot_RLum.R | 24
Luminescence-0.4.0/Luminescence/R/plot_RLum.Results.R |only
Luminescence-0.4.0/Luminescence/R/plot_RadialPlot.R | 486 +-
Luminescence-0.4.0/Luminescence/R/plot_Risoe.BINfileData.R | 56
Luminescence-0.4.0/Luminescence/R/readBIN2R.R | 130
Luminescence-0.4.0/Luminescence/R/readSPE2R.R |only
Luminescence-0.4.0/Luminescence/R/readXSYG2R.R | 207 -
Luminescence-0.4.0/Luminescence/R/writeR2BIN.R | 126
Luminescence-0.4.0/Luminescence/R/zzz.R | 2
Luminescence-0.4.0/Luminescence/data/ExampleData.RLum.Data.Image.RData |only
Luminescence-0.4.0/Luminescence/data/datalist | 1
Luminescence-0.4.0/Luminescence/inst/CITATION | 11
Luminescence-0.4.0/Luminescence/inst/NEWS.Rd | 1091 ++---
Luminescence-0.4.0/Luminescence/inst/doc/S4classObjects.pdf |binary
Luminescence-0.4.0/Luminescence/inst/doc/index.html | 6
Luminescence-0.4.0/Luminescence/man/Analyse_SAR.OSLdata.Rd | 25
Luminescence-0.4.0/Luminescence/man/BaseDataSet.CosmicDoseRate.Rd | 238 -
Luminescence-0.4.0/Luminescence/man/CW2pHMi.Rd | 2
Luminescence-0.4.0/Luminescence/man/CW2pLM.Rd | 2
Luminescence-0.4.0/Luminescence/man/CW2pLMi.Rd | 4
Luminescence-0.4.0/Luminescence/man/CW2pPMi.Rd | 2
Luminescence-0.4.0/Luminescence/man/ExampleData.DeValues.Rd | 5
Luminescence-0.4.0/Luminescence/man/ExampleData.FittingLM.Rd | 2
Luminescence-0.4.0/Luminescence/man/ExampleData.LxTxData.Rd | 2
Luminescence-0.4.0/Luminescence/man/ExampleData.RLum.Analysis.Rd | 2
Luminescence-0.4.0/Luminescence/man/ExampleData.RLum.Data.Image.Rd |only
Luminescence-0.4.0/Luminescence/man/ExampleData.XSYG.Rd | 2
Luminescence-0.4.0/Luminescence/man/Luminescence-package.Rd | 12
Luminescence-0.4.0/Luminescence/man/RLum.Data.Image-class.Rd |only
Luminescence-0.4.0/Luminescence/man/RLum.Results-class.Rd | 4
Luminescence-0.4.0/Luminescence/man/Risoe.BINfileData-class.Rd | 46
Luminescence-0.4.0/Luminescence/man/Risoe.BINfileData2RLum.Analysis.Rd | 5
Luminescence-0.4.0/Luminescence/man/Risoe.BINfileData2RLum.Data.Curve.Rd | 2
Luminescence-0.4.0/Luminescence/man/Second2Gray.Rd | 36
Luminescence-0.4.0/Luminescence/man/analyse_IRSAR.RF.Rd | 122
Luminescence-0.4.0/Luminescence/man/analyse_SAR.CWOSL.Rd | 100
Luminescence-0.4.0/Luminescence/man/analyse_SAR.TL.Rd | 18
Luminescence-0.4.0/Luminescence/man/analyse_pIRIRSequence.Rd |only
Luminescence-0.4.0/Luminescence/man/apply_CosmicRayRemoval.Rd | 22
Luminescence-0.4.0/Luminescence/man/apply_EfficiencyCorrection.Rd | 14
Luminescence-0.4.0/Luminescence/man/calc_AliquotSize.Rd | 27
Luminescence-0.4.0/Luminescence/man/calc_CentralDose.Rd | 45
Luminescence-0.4.0/Luminescence/man/calc_CommonDose.Rd | 34
Luminescence-0.4.0/Luminescence/man/calc_CosmicDoseRate.Rd | 24
Luminescence-0.4.0/Luminescence/man/calc_FadingCorr.Rd | 2
Luminescence-0.4.0/Luminescence/man/calc_FiniteMixture.Rd | 67
Luminescence-0.4.0/Luminescence/man/calc_FuchsLang2001.Rd |only
Luminescence-0.4.0/Luminescence/man/calc_HomogeneityTest.Rd | 19
Luminescence-0.4.0/Luminescence/man/calc_MaxDose.Rd |only
Luminescence-0.4.0/Luminescence/man/calc_MinDose.Rd |only
Luminescence-0.4.0/Luminescence/man/calc_OSLLxTxRatio.Rd | 41
Luminescence-0.4.0/Luminescence/man/calc_SourceDoseRate.Rd |only
Luminescence-0.4.0/Luminescence/man/calc_Statistics.Rd | 2
Luminescence-0.4.0/Luminescence/man/calc_TLLxTxRatio.Rd | 23
Luminescence-0.4.0/Luminescence/man/fit_CWCurve.Rd | 18
Luminescence-0.4.0/Luminescence/man/fit_LMCurve.Rd | 2
Luminescence-0.4.0/Luminescence/man/get_Layout.Rd |only
Luminescence-0.4.0/Luminescence/man/get_RLum.Rd |only
Luminescence-0.4.0/Luminescence/man/merge_RLum.Analysis.Rd |only
Luminescence-0.4.0/Luminescence/man/merge_RLum.Rd |only
Luminescence-0.4.0/Luminescence/man/merge_Risoe.BINfileData.Rd | 10
Luminescence-0.4.0/Luminescence/man/plot_AbanicoPlot.Rd | 123
Luminescence-0.4.0/Luminescence/man/plot_DRTResults.Rd | 26
Luminescence-0.4.0/Luminescence/man/plot_GrowthCurve.Rd | 36
Luminescence-0.4.0/Luminescence/man/plot_Histogram.Rd | 60
Luminescence-0.4.0/Luminescence/man/plot_KDE.Rd | 44
Luminescence-0.4.0/Luminescence/man/plot_RLum.Analysis.Rd | 27
Luminescence-0.4.0/Luminescence/man/plot_RLum.Data.Curve.Rd | 9
Luminescence-0.4.0/Luminescence/man/plot_RLum.Data.Image.Rd |only
Luminescence-0.4.0/Luminescence/man/plot_RLum.Data.Spectrum.Rd | 60
Luminescence-0.4.0/Luminescence/man/plot_RLum.Rd | 16
Luminescence-0.4.0/Luminescence/man/plot_RLum.Results.Rd |only
Luminescence-0.4.0/Luminescence/man/plot_RadialPlot.Rd | 30
Luminescence-0.4.0/Luminescence/man/plot_Risoe.BINfileData.Rd | 58
Luminescence-0.4.0/Luminescence/man/readBIN2R.Rd | 6
Luminescence-0.4.0/Luminescence/man/readSPE2R.Rd |only
Luminescence-0.4.0/Luminescence/man/readXSYG2R.Rd | 19
Luminescence-0.4.0/Luminescence/man/sTeve.Rd | 2
Luminescence-0.4.0/Luminescence/man/writeR2BIN.Rd | 6
132 files changed, 9405 insertions(+), 5962 deletions(-)
Title: Categorical Regression Splines
Diff between crs versions 0.15-23 dated 2014-08-11 and 0.15-24 dated 2014-12-18
Description: Regression splines that handle a mix of continuous and categorical (discrete) data often encountered in applied settings. I would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC:www.nserc.ca), the Social Sciences and Humanities Research Council of Canada (SSHRC:www.sshrc.ca), and the Shared Hierarchical Academic Research Computing Network (SHARCNET:www.sharcnet.ca).
Author: Jeffrey S. Racine [aut, cre],
Zhenghua Nie [aut],
Brian D. Ripley [ctb] (stepCV.R)
Maintainer: Jeffrey S. Racine
CHANGELOG | 6 ++++++
DESCRIPTION | 14 +++++++-------
MD5 | 26 +++++++++++++-------------
NAMESPACE | 2 +-
R/crs.R | 8 ++++----
R/crsivderiv.R | 2 +-
R/np.regression.glp.R | 12 ++++++------
R/zzz.R | 17 ++++++++++++++---
build/vignette.rds |binary
inst/doc/crs.pdf |binary
inst/doc/crs_faq.Rnw | 16 +++++++++++++---
inst/doc/crs_faq.pdf |binary
inst/doc/spline_primer.pdf |binary
vignettes/crs_faq.Rnw | 16 +++++++++++++---
14 files changed, 78 insertions(+), 41 deletions(-)
Title: Framework for Screening Prognostic Interactions
Diff between sprinter versions 1.0.0 dated 2014-11-20 and 1.1.0 dated 2014-12-18
Description: The main function of this package builds prognostic models that consider interactions by combining available statistical components. Furthermore, it provides a function for evaluating the relevance of the selected interactions by resampling techniques.
Author: Isabell Hoffmann
Maintainer: Isabell Hoffmann
sprinter-1.0.0/sprinter/man/screen.main.Rd |only
sprinter-1.1.0/sprinter/DESCRIPTION | 11
sprinter-1.1.0/sprinter/MD5 | 17 -
sprinter-1.1.0/sprinter/NAMESPACE | 7
sprinter-1.1.0/sprinter/R/sprinter.r | 203 +++++++++++++++---
sprinter-1.1.0/sprinter/build/vignette.rds |binary
sprinter-1.1.0/sprinter/inst/doc/vignetteSprinter.pdf |binary
sprinter-1.1.0/sprinter/man/screen.inter.Rd | 27 +-
sprinter-1.1.0/sprinter/man/screen.main.cox.Rd |only
sprinter-1.1.0/sprinter/man/screen.main.glm.Rd |only
sprinter-1.1.0/sprinter/man/sprinter.Rd | 121 +++++++++-
11 files changed, 331 insertions(+), 55 deletions(-)
Title: Using Graphs as a Navigational Infrastructure
Diff between RnavGraph versions 0.1.7 dated 2014-10-21 and 0.1.8 dated 2014-12-18
Description: GUI to explore high dimensional data (including image data) using graphs as navigational infrastructure.
Author: Adrian R. Waddell and R. Wayne Oldford
Maintainer: Adrian Waddell
RnavGraph-0.1.7/RnavGraph/vignettes/img/graph.eps |only
RnavGraph-0.1.8/RnavGraph/DESCRIPTION | 8 -
RnavGraph-0.1.8/RnavGraph/MD5 | 53 +++++------
RnavGraph-0.1.8/RnavGraph/NEWS | 5 +
RnavGraph-0.1.8/RnavGraph/build/vignette.rds |binary
RnavGraph-0.1.8/RnavGraph/inst/doc/RnavGraph.pdf |binary
RnavGraph-0.1.8/RnavGraph/man/navGraph.Rd | 2
RnavGraph-0.1.8/RnavGraph/vignettes/img/Iris2D.png |binary
RnavGraph-0.1.8/RnavGraph/vignettes/img/Iris3Dgraph.png |binary
RnavGraph-0.1.8/RnavGraph/vignettes/img/all.png |binary
RnavGraph-0.1.8/RnavGraph/vignettes/img/f1_1.png |binary
RnavGraph-0.1.8/RnavGraph/vignettes/img/f1_2.png |binary
RnavGraph-0.1.8/RnavGraph/vignettes/img/f2_1.png |binary
RnavGraph-0.1.8/RnavGraph/vignettes/img/f2_2.png |binary
RnavGraph-0.1.8/RnavGraph/vignettes/img/graph.png |binary
RnavGraph-0.1.8/RnavGraph/vignettes/img/imageDigits.png |binary
RnavGraph-0.1.8/RnavGraph/vignettes/img/m1_1.png |binary
RnavGraph-0.1.8/RnavGraph/vignettes/img/m1_2.png |binary
RnavGraph-0.1.8/RnavGraph/vignettes/img/m2_1.png |binary
RnavGraph-0.1.8/RnavGraph/vignettes/img/m3_1.png |binary
RnavGraph-0.1.8/RnavGraph/vignettes/img/m4_1.png |binary
RnavGraph-0.1.8/RnavGraph/vignettes/img/m4_2.png |binary
RnavGraph-0.1.8/RnavGraph/vignettes/img/settings.png |binary
RnavGraph-0.1.8/RnavGraph/vignettes/img/tk2dGlyphs.png |binary
RnavGraph-0.1.8/RnavGraph/vignettes/img/tk2dImagesObject.png |binary
RnavGraph-0.1.8/RnavGraph/vignettes/img/tk2dcolors.png |binary
RnavGraph-0.1.8/RnavGraph/vignettes/img/tk2dcolors2.png |binary
RnavGraph-0.1.8/RnavGraph/vignettes/img/tk2dimages1.png |binary
28 files changed, 36 insertions(+), 32 deletions(-)
Title: A Laboratory for Recursive Partytioning
Diff between party versions 1.0-18 dated 2014-11-10 and 1.0-19 dated 2014-12-18
Description: A computational toolbox for recursive partitioning.
The core of the package is ctree(), an implementation of
conditional inference trees which embed tree-structured
regression models into a well defined theory of conditional
inference procedures. This non-parametric class of regression
trees is applicable to all kinds of regression problems, including
nominal, ordinal, numeric, censored as well as multivariate response
variables and arbitrary measurement scales of the covariates.
Based on conditional inference trees, cforest() provides an
implementation of Breiman's random forests. The function mob()
implements an algorithm for recursive partitioning based on
parametric models (e.g. linear models, GLMs or survival
regression) employing parameter instability tests for split
selection. Extensible functionality for visualizing tree-structured
regression models is available.
Author: Torsten Hothorn [aut, cre],
Kurt Hornik [aut],
Carolin Strobl [aut],
Achim Zeileis [aut]
Maintainer: Torsten Hothorn
party-1.0-18/party/src/mvt.f |only
party-1.0-18/party/src/mvt.h |only
party-1.0-19/party/DESCRIPTION | 18 ++---
party-1.0-19/party/MD5 | 41 +++++-------
party-1.0-19/party/NAMESPACE | 7 +-
party-1.0-19/party/inst/NEWS | 8 ++
party-1.0-19/party/inst/doc/MOB.pdf |binary
party-1.0-19/party/inst/doc/party.pdf |binary
party-1.0-19/party/man/prettytree.Rd |only
party-1.0-19/party/src/Distributions.c | 29 +++++---
party-1.0-19/party/src/Utils.c | 3
party-1.0-19/party/src/party.h | 1
party-1.0-19/party/tests/Distributions.Rout.save | 4 -
party-1.0-19/party/tests/IndependenceTest-regtest.R | 3
party-1.0-19/party/tests/IndependenceTest-regtest.Rout.save | 7 +-
party-1.0-19/party/tests/LinearStatistic-regtest.Rout.save | 4 -
party-1.0-19/party/tests/Node-regtest.Rout.save | 4 -
party-1.0-19/party/tests/Predict-regtest.Rout.save | 4 -
party-1.0-19/party/tests/Splits-regtest.Rout.save | 4 -
party-1.0-19/party/tests/TestStatistic-regtest.Rout.save | 4 -
party-1.0-19/party/tests/TreeGrow-regtest.Rout.save | 4 -
party-1.0-19/party/tests/Utils-regtest.Rout.save | 4 -
party-1.0-19/party/tests/bugfixes.Rout.save | 4 -
23 files changed, 84 insertions(+), 69 deletions(-)
Title: Multivariate Normal and t Distributions
Diff between mvtnorm versions 1.0-1 dated 2014-11-13 and 1.0-2 dated 2014-12-18
Description: Computes multivariate normal and t probabilities, quantiles,
random deviates and densities.
Author: Alan Genz [aut],
Frank Bretz [aut],
Tetsuhisa Miwa [aut],
Xuefei Mi [aut],
Friedrich Leisch [ctb],
Fabian Scheipl [ctb],
Bjoern Bornkamp [ctb],
Martin Maechler [ctb],
Torsten Hothorn [aut, cre]
Maintainer: Torsten Hothorn
mvtnorm-1.0-1/mvtnorm/src/randomF77.c |only
mvtnorm-1.0-1/mvtnorm/src/tvpackAux.c |only
mvtnorm-1.0-2/mvtnorm/DESCRIPTION | 8 +++---
mvtnorm-1.0-2/mvtnorm/MD5 | 29 +++++++++++++++---------
mvtnorm-1.0-2/mvtnorm/NAMESPACE | 3 +-
mvtnorm-1.0-2/mvtnorm/R/mvt.R | 29 ++++++++++++------------
mvtnorm-1.0-2/mvtnorm/R/tvpack.R | 4 +--
mvtnorm-1.0-2/mvtnorm/cleanup | 4 +++
mvtnorm-1.0-2/mvtnorm/inst/C_API_Example |only
mvtnorm-1.0-2/mvtnorm/inst/NEWS | 11 +++++++++
mvtnorm-1.0-2/mvtnorm/inst/doc/MVT_Rnews.pdf |binary
mvtnorm-1.0-2/mvtnorm/inst/include |only
mvtnorm-1.0-2/mvtnorm/src/C_FORTRAN_interface.c |only
mvtnorm-1.0-2/mvtnorm/src/mvt.f | 6 ----
mvtnorm-1.0-2/mvtnorm/src/mvtnorm-init.c |only
mvtnorm-1.0-2/mvtnorm/src/mvtnorm.h |only
mvtnorm-1.0-2/mvtnorm/src/mvtnormAPI.h |only
17 files changed, 58 insertions(+), 36 deletions(-)
Title: Order-Restricted Inference for Microarray Experiments
Diff between IsoGene versions 1.0-22 dated 2013-11-05 and 1.0-23 dated 2014-12-18
Description: The package offers framework for testing for monotonic relationship between gene expression and doses in a microarray experiment. Several testing procedures including the global likelihood-ratio test (Bartholomew, 1961), Williams (1971, 1972), Marcus (1976), M (Hu et al. 2005) and the modified M (Lin et al. 2007) are used to test for the monotonic trend in gene expression with respect to doses. BH (Benjamini and Hochberg 1995) and BY (Benjamini and Yekutieli 2004) FDR controlling procedures are applied to adjust the raw p-values obtained from the permutations.
Author: Dan Lin, Setia Pramana, Tobias Verbeke and Ziv Shkedy
Maintainer: Martin Otava
DESCRIPTION | 27 ++++++++++-----------------
MD5 | 12 ++++++------
NAMESPACE | 1 +
R/IsoRawp.R | 2 +-
data/dopamine.rda |binary
data/exampleData.rda |binary
inst/doc/IsoGene.pdf |binary
7 files changed, 18 insertions(+), 24 deletions(-)
Title: Interaction between R and REDCap
Diff between REDCapR versions 0.4-28 dated 2014-09-20 and 0.7-1 dated 2014-12-18
Description: Encapsulates functions to streamline calls from R to the REDCap
API. REDCap (Research Electronic Data CAPture) is a web application for
building and managing online surveys and databases developed at Vanderbilt
University. The Application Programming Interface (API) offers an avenue
to access and modify data programmatically, improving the capacity for
literate and reproducible programming.
Author: Will Beasley [aut, cre],
David Bard [ctb],
Thomas Wilson [ctb],
John J Aponte [ctb],
Rollie Parrish [ctb],
Benjamin Nutter [ctb],
Andrew Peters [ctb]
Maintainer: Will Beasley
REDCapR-0.4-28/REDCapR/inst/test_data/simple.csv |only
REDCapR-0.4-28/REDCapR/tests/manual/test-file_oneshot.R |only
REDCapR-0.4-28/REDCapR/tests/manual/test-project.R |only
REDCapR-0.4-28/REDCapR/tests/manual/test-read_batch.R |only
REDCapR-0.4-28/REDCapR/tests/manual/test-read_oneshot.R |only
REDCapR-0.4-28/REDCapR/tests/manual/test-write_batch.R |only
REDCapR-0.4-28/REDCapR/tests/manual/test-write_oneshot.R |only
REDCapR-0.7-1/REDCapR/DESCRIPTION | 31
REDCapR-0.7-1/REDCapR/MD5 | 101 +-
REDCapR-0.7-1/REDCapR/NAMESPACE | 5
REDCapR-0.7-1/REDCapR/NEWS | 30
REDCapR-0.7-1/REDCapR/R/REDCapR-package.R | 7
REDCapR-0.7-1/REDCapR/R/auxiliary.R | 32
REDCapR-0.7-1/REDCapR/R/create_batch_glossary.R | 2
REDCapR-0.7-1/REDCapR/R/metadata_utilities.R |only
REDCapR-0.7-1/REDCapR/R/project_simple.R | 19
REDCapR-0.7-1/REDCapR/R/redcap_download_file_oneshot.R | 19
REDCapR-0.7-1/REDCapR/R/redcap_metadata_read.R |only
REDCapR-0.7-1/REDCapR/R/redcap_project.R | 10
REDCapR-0.7-1/REDCapR/R/redcap_read.R | 10
REDCapR-0.7-1/REDCapR/R/redcap_read_oneshot.R | 74 +
REDCapR-0.7-1/REDCapR/R/redcap_upload_file_oneshot.R | 19
REDCapR-0.7-1/REDCapR/R/redcap_write.R | 6
REDCapR-0.7-1/REDCapR/R/redcap_write_oneshot.R | 20
REDCapR-0.7-1/REDCapR/R/validate_for_write.R | 2
REDCapR-0.7-1/REDCapR/README.md | 45
REDCapR-0.7-1/REDCapR/build/vignette.rds |binary
REDCapR-0.7-1/REDCapR/inst/doc/BasicREDCapROperations.R | 55 -
REDCapR-0.7-1/REDCapR/inst/doc/BasicREDCapROperations.Rmd | 62 -
REDCapR-0.7-1/REDCapR/inst/doc/BasicREDCapROperations.html | 224 +++-
REDCapR-0.7-1/REDCapR/inst/doc/TroubleshootingApiCalls.Rmd | 91 +
REDCapR-0.7-1/REDCapR/inst/doc/TroubleshootingApiCalls.html | 87 +
REDCapR-0.7-1/REDCapR/inst/ssl_certs/mozilla_ca_root.crt | 497 +++++-----
REDCapR-0.7-1/REDCapR/inst/test_data/project_color_boxes |only
REDCapR-0.7-1/REDCapR/inst/test_data/project_simple |only
REDCapR-0.7-1/REDCapR/man/REDCapR.Rd | 15
REDCapR-0.7-1/REDCapR/man/create_batch_glossary.Rd | 5
REDCapR-0.7-1/REDCapR/man/metadata_utilities.Rd |only
REDCapR-0.7-1/REDCapR/man/redcap_column_sanitize.Rd | 3
REDCapR-0.7-1/REDCapR/man/redcap_download_file_oneshot.Rd | 14
REDCapR-0.7-1/REDCapR/man/redcap_metadata_read.Rd |only
REDCapR-0.7-1/REDCapR/man/redcap_project.Rd | 9
REDCapR-0.7-1/REDCapR/man/redcap_read.Rd | 14
REDCapR-0.7-1/REDCapR/man/redcap_read_oneshot.Rd | 70 +
REDCapR-0.7-1/REDCapR/man/redcap_upload_file_oneshot.Rd | 14
REDCapR-0.7-1/REDCapR/man/redcap_write.Rd | 14
REDCapR-0.7-1/REDCapR/man/redcap_write_oneshot.Rd | 14
REDCapR-0.7-1/REDCapR/man/retrieve_token.Rd | 5
REDCapR-0.7-1/REDCapR/man/validate_for_write.Rd | 5
REDCapR-0.7-1/REDCapR/tests/testthat/test-file_oneshot.R |only
REDCapR-0.7-1/REDCapR/tests/testthat/test-metadata_read.R |only
REDCapR-0.7-1/REDCapR/tests/testthat/test-metadata_utilities.R |only
REDCapR-0.7-1/REDCapR/tests/testthat/test-project.R |only
REDCapR-0.7-1/REDCapR/tests/testthat/test-read_batch.R |only
REDCapR-0.7-1/REDCapR/tests/testthat/test-read_oneshot.R |only
REDCapR-0.7-1/REDCapR/tests/testthat/test-validate_for_write.R | 4
REDCapR-0.7-1/REDCapR/tests/testthat/test-write_batch.R |only
REDCapR-0.7-1/REDCapR/tests/testthat/test-write_oneshot.R |only
REDCapR-0.7-1/REDCapR/vignettes/BasicREDCapROperations.Rmd | 62 -
REDCapR-0.7-1/REDCapR/vignettes/TroubleshootingApiCalls.Rmd | 91 +
60 files changed, 1194 insertions(+), 593 deletions(-)
More information about RoughSetKnowledgeReduction at CRAN
Permanent link
Title: Extra themes, scales and geoms for ggplot
Diff between ggthemes versions 1.7.0 dated 2014-04-22 and 2.1.0 dated 2014-12-18
Description: Some extra themes, geoms, and scales for ggplot2.
Author: Jeffrey B. Arnold [aut, cre],
Gergely Daroczi [ctb],
Bo Werth [ctb],
Brian Weitzner [ctb],
Joshua Kunst [ctb]
Maintainer: Jeffrey B. Arnold
DESCRIPTION | 33 +++--
MD5 | 173 +++++++++++++++------------
NAMESPACE | 18 ++
NEWS | 27 ++++
R/economist.R | 4
R/excel.R | 2
R/fivethirtyeight.R |only
R/geom-tufteboxplot.R | 58 +++++++--
R/ggthemes-data.R | 16 ++
R/ggthemes-package.R | 2
R/hc.R |only
R/pander.R |only
R/stata.R | 21 +--
R/tableau.R | 16 +-
R/theme-foundation.R | 3
R/theme-solid.R | 7 -
R/tufte.R | 2
R/wsj.R | 6
build/partial.rdb |binary
build/vignette.rds |only
inst |only
man/bank_slopes.Rd | 214 ++++++++++++++++++----------------
man/calc_pal.Rd | 5
man/calc_shape_pal.Rd | 1
man/circlefill_shape_pal.Rd | 24 +--
man/cleveland_shape_pal.Rd | 47 +++----
man/colorblind.Rd | 16 +-
man/economist_pal.Rd | 19 +--
man/excel_pal.Rd | 22 +--
man/few_pal.Rd | 15 +-
man/fivethirtyeight_pal.Rd |only
man/gdocs_pal.Rd | 5
man/geom_rangeframe.Rd | 65 ++++------
man/geom_tufteboxplot.Rd | 70 +++++------
man/ggthemes.Rd | 6
man/ggthemes_data.Rd | 36 +++--
man/hc_pal.Rd |only
man/palette_pander.Rd |only
man/range_breaks.Rd | 46 ++-----
man/scale_calc.Rd | 6
man/scale_color_tableau.Rd | 33 ++---
man/scale_colour_gradient2_tableau.Rd | 41 +++---
man/scale_colour_gradient_tableau.Rd | 42 +++---
man/scale_economist.Rd | 9 -
man/scale_excel.Rd | 9 -
man/scale_few.Rd | 8 -
man/scale_fivethirtyeight.Rd |only
man/scale_gdocs.Rd | 6
man/scale_hc.Rd |only
man/scale_linetype_stata.Rd | 8 -
man/scale_pander.Rd |only
man/scale_shape_calc.Rd | 8 -
man/scale_shape_circlefill.Rd | 19 +--
man/scale_shape_cleveland.Rd | 27 +---
man/scale_shape_stata.Rd | 8 -
man/scale_shape_tableau.Rd | 11 -
man/scale_shape_tremmel.Rd | 29 ++--
man/scale_solarized.Rd | 10 -
man/scale_stata.Rd | 10 -
man/scale_tufte.Rd | 12 -
man/scale_wsj.Rd | 18 +-
man/show_linetypes.Rd | 11 -
man/show_shapes.Rd | 11 -
man/smart_digits.Rd | 12 -
man/solarized_pal.Rd | 24 +--
man/solarized_rebase.Rd | 9 -
man/stat_fivenumber.Rd | 64 +++++-----
man/stata_linetype_pal.Rd | 1
man/stata_pal.Rd | 10 -
man/stata_shape_pal.Rd | 5
man/tableau_color_pal.Rd | 43 +++---
man/tableau_div_gradient_pal.Rd | 33 ++---
man/tableau_seq_gradient_pal.Rd | 33 ++---
man/tableau_shape_pal.Rd | 4
man/theme_calc.Rd | 8 -
man/theme_economist.Rd | 53 +++-----
man/theme_excel.Rd | 9 -
man/theme_few.Rd | 5
man/theme_fivethirtyeight.Rd |only
man/theme_foundation.Rd | 26 +---
man/theme_gdocs.Rd | 5
man/theme_hc.Rd |only
man/theme_igray.Rd | 24 ++-
man/theme_pander.Rd |only
man/theme_solarized.Rd | 16 +-
man/theme_solid.Rd | 18 +-
man/theme_stata.Rd | 33 ++---
man/theme_tufte.Rd | 35 ++---
man/theme_wsj.Rd | 13 +-
man/tremmel_shape_pal.Rd | 44 +++---
man/wsj_pal.Rd | 45 +++----
vignettes |only
92 files changed, 1008 insertions(+), 879 deletions(-)
Title: Exploration and Graphics for RivEr Trends (EGRET)
Diff between EGRET versions 2.0.2 dated 2014-12-03 and 2.1.0 dated 2014-12-18
Description: Statistics and graphics for streamflow history,
water quality trends, and the statistical modeling algorithm: Weighted
Regressions on Time, Discharge, and Season (WRTDS).
Author: Robert Hirsch [aut],
Laura DeCicco [aut, cre]
Maintainer: Laura DeCicco
EGRET-2.0.2/EGRET/data/fluxConst.RData |only
EGRET-2.0.2/EGRET/data/monthInfo.RData |only
EGRET-2.0.2/EGRET/data/parameterCdFile.RData |only
EGRET-2.0.2/EGRET/data/qConst.RData |only
EGRET-2.0.2/EGRET/man/fluxConst.Rd |only
EGRET-2.0.2/EGRET/man/monthInfo.Rd |only
EGRET-2.0.2/EGRET/man/parameterCdFile.Rd |only
EGRET-2.0.2/EGRET/man/qConst.Rd |only
EGRET-2.1.0/EGRET/DESCRIPTION | 8
EGRET-2.1.0/EGRET/MD5 | 345 ++++------
EGRET-2.1.0/EGRET/NAMESPACE | 2
EGRET-2.1.0/EGRET/NEWS | 5
EGRET-2.1.0/EGRET/R/EGRET.R | 56 -
EGRET-2.1.0/EGRET/R/boxQTwice.R | 2
EGRET-2.1.0/EGRET/R/flowDuration.R | 2
EGRET-2.1.0/EGRET/R/fluxBiasEight.R | 4
EGRET-2.1.0/EGRET/R/multiPlotDataOverview.R | 2
EGRET-2.1.0/EGRET/R/plotConcQ.R | 2
EGRET-2.1.0/EGRET/R/plotConcQSmooth.R | 2
EGRET-2.1.0/EGRET/R/plotConcTime.R | 2
EGRET-2.1.0/EGRET/R/plotConcTimeSmooth.R | 2
EGRET-2.1.0/EGRET/R/plotContours.R | 2
EGRET-2.1.0/EGRET/R/plotDiffContours.R | 2
EGRET-2.1.0/EGRET/R/plotFlowSingle.R | 2
EGRET-2.1.0/EGRET/R/plotFluxHist.R | 2
EGRET-2.1.0/EGRET/R/plotFluxPred.R | 2
EGRET-2.1.0/EGRET/R/plotFluxQ.R | 4
EGRET-2.1.0/EGRET/R/plotFluxTimeDaily.R | 2
EGRET-2.1.0/EGRET/R/plotFour.R | 2
EGRET-2.1.0/EGRET/R/plotFourStats.R | 2
EGRET-2.1.0/EGRET/R/plotQTimeDaily.R | 2
EGRET-2.1.0/EGRET/R/plotResidQ.R | 2
EGRET-2.1.0/EGRET/R/populateParameterINFO.r | 18
EGRET-2.1.0/EGRET/R/populateSiteINFO.r | 56 -
EGRET-2.1.0/EGRET/R/printSeries.R | 2
EGRET-2.1.0/EGRET/R/processQWData.r | 21
EGRET-2.1.0/EGRET/R/readMetaData.r | 139 ++--
EGRET-2.1.0/EGRET/R/readNWISDaily.r | 8
EGRET-2.1.0/EGRET/R/readNWISSample.r | 5
EGRET-2.1.0/EGRET/R/sysdata.rda |only
EGRET-2.1.0/EGRET/R/tableChange.R | 2
EGRET-2.1.0/EGRET/R/tableChangeSingle.R | 2
EGRET-2.1.0/EGRET/R/tableFlowChange.R | 2
EGRET-2.1.0/EGRET/R/tableResults.R | 4
EGRET-2.1.0/EGRET/man/Choptank_eList.Rd | 3
EGRET-2.1.0/EGRET/man/EGRET-package.Rd | 3
EGRET-2.1.0/EGRET/man/as.egret.Rd | 3
EGRET-2.1.0/EGRET/man/blankTime.Rd | 3
EGRET-2.1.0/EGRET/man/boxConcMonth.Rd | 3
EGRET-2.1.0/EGRET/man/boxConcThree.Rd | 3
EGRET-2.1.0/EGRET/man/boxQTwice.Rd | 5
EGRET-2.1.0/EGRET/man/boxResidMonth.Rd | 3
EGRET-2.1.0/EGRET/man/calculateMonthlyResults.Rd | 3
EGRET-2.1.0/EGRET/man/censoredSegments.Rd | 3
EGRET-2.1.0/EGRET/man/checkStartEndDate.Rd | 3
EGRET-2.1.0/EGRET/man/compressData.Rd | 3
EGRET-2.1.0/EGRET/man/dataOverview.Rd | 3
EGRET-2.1.0/EGRET/man/dateFormatCheck.Rd | 3
EGRET-2.1.0/EGRET/man/estCrossVal.Rd | 3
EGRET-2.1.0/EGRET/man/estDailyFromSurfaces.Rd | 3
EGRET-2.1.0/EGRET/man/estSurfaces.Rd | 3
EGRET-2.1.0/EGRET/man/fixSampleFrame.Rd | 3
EGRET-2.1.0/EGRET/man/flowDuration.Rd | 5
EGRET-2.1.0/EGRET/man/fluxBiasMulti.Rd | 7
EGRET-2.1.0/EGRET/man/fluxBiasStat.Rd | 3
EGRET-2.1.0/EGRET/man/fluxUnit-class.Rd | 3
EGRET-2.1.0/EGRET/man/formatCheckDate.Rd | 3
EGRET-2.1.0/EGRET/man/formatCheckParameterCd.Rd | 3
EGRET-2.1.0/EGRET/man/generalAxis.Rd | 3
EGRET-2.1.0/EGRET/man/genericEGRETDotPlot.Rd | 3
EGRET-2.1.0/EGRET/man/getDaily.Rd | 3
EGRET-2.1.0/EGRET/man/getInfo.Rd | 3
EGRET-2.1.0/EGRET/man/getSample.Rd | 3
EGRET-2.1.0/EGRET/man/getSurfaces.Rd | 3
EGRET-2.1.0/EGRET/man/is.egret.Rd | 3
EGRET-2.1.0/EGRET/man/logPretty1.Rd | 3
EGRET-2.1.0/EGRET/man/logPretty3.Rd | 3
EGRET-2.1.0/EGRET/man/makeAnnualSeries.Rd | 3
EGRET-2.1.0/EGRET/man/mergeReport.Rd | 3
EGRET-2.1.0/EGRET/man/modelEstimation.Rd | 3
EGRET-2.1.0/EGRET/man/monthLabel-class.Rd | 3
EGRET-2.1.0/EGRET/man/multiPlotDataOverview.Rd | 5
EGRET-2.1.0/EGRET/man/plot15.Rd | 3
EGRET-2.1.0/EGRET/man/plot1of15.Rd | 3
EGRET-2.1.0/EGRET/man/plotConcHist.Rd | 3
EGRET-2.1.0/EGRET/man/plotConcPred.Rd | 3
EGRET-2.1.0/EGRET/man/plotConcQ.Rd | 5
EGRET-2.1.0/EGRET/man/plotConcQSmooth.Rd | 5
EGRET-2.1.0/EGRET/man/plotConcTime.Rd | 5
EGRET-2.1.0/EGRET/man/plotConcTimeDaily.Rd | 3
EGRET-2.1.0/EGRET/man/plotConcTimeSmooth.Rd | 5
EGRET-2.1.0/EGRET/man/plotContours.Rd | 5
EGRET-2.1.0/EGRET/man/plotDiffContours.Rd | 5
EGRET-2.1.0/EGRET/man/plotFlowSingle.Rd | 5
EGRET-2.1.0/EGRET/man/plotFluxHist.Rd | 5
EGRET-2.1.0/EGRET/man/plotFluxPred.Rd | 5
EGRET-2.1.0/EGRET/man/plotFluxQ.Rd | 7
EGRET-2.1.0/EGRET/man/plotFluxTimeDaily.Rd | 5
EGRET-2.1.0/EGRET/man/plotFour.Rd | 5
EGRET-2.1.0/EGRET/man/plotFourStats.Rd | 5
EGRET-2.1.0/EGRET/man/plotQTimeDaily.Rd | 5
EGRET-2.1.0/EGRET/man/plotResidPred.Rd | 3
EGRET-2.1.0/EGRET/man/plotResidQ.Rd | 5
EGRET-2.1.0/EGRET/man/plotResidTime.Rd | 3
EGRET-2.1.0/EGRET/man/plotSDLogQ.Rd | 3
EGRET-2.1.0/EGRET/man/populateConcentrations.Rd | 3
EGRET-2.1.0/EGRET/man/populateDaily.Rd | 3
EGRET-2.1.0/EGRET/man/populateDateColumns.Rd | 3
EGRET-2.1.0/EGRET/man/populateParameterINFO.Rd | 3
EGRET-2.1.0/EGRET/man/populateSampleColumns.Rd | 3
EGRET-2.1.0/EGRET/man/populateSiteINFO.Rd | 3
EGRET-2.1.0/EGRET/man/print.egret.Rd | 3
EGRET-2.1.0/EGRET/man/printFluxUnitCheatSheet.Rd | 3
EGRET-2.1.0/EGRET/man/printSeries.Rd | 5
EGRET-2.1.0/EGRET/man/printqUnitCheatSheet.Rd | 3
EGRET-2.1.0/EGRET/man/processQWData.Rd | 9
EGRET-2.1.0/EGRET/man/qUnit-class.Rd | 3
EGRET-2.1.0/EGRET/man/readDataFromFile.Rd | 3
EGRET-2.1.0/EGRET/man/readNWISDaily.Rd | 6
EGRET-2.1.0/EGRET/man/readNWISInfo.Rd | 3
EGRET-2.1.0/EGRET/man/readNWISSample.Rd | 6
EGRET-2.1.0/EGRET/man/readUserDaily.Rd | 3
EGRET-2.1.0/EGRET/man/readUserInfo.Rd | 3
EGRET-2.1.0/EGRET/man/readUserSample.Rd | 3
EGRET-2.1.0/EGRET/man/readWQPInfo.Rd | 3
EGRET-2.1.0/EGRET/man/readWQPSample.Rd | 3
EGRET-2.1.0/EGRET/man/removeDuplicates.Rd | 3
EGRET-2.1.0/EGRET/man/runSurvReg.Rd | 3
EGRET-2.1.0/EGRET/man/saveResults.Rd | 3
EGRET-2.1.0/EGRET/man/selectDays.Rd | 3
EGRET-2.1.0/EGRET/man/setPA.Rd | 3
EGRET-2.1.0/EGRET/man/setSeasonLabel.Rd | 3
EGRET-2.1.0/EGRET/man/setSeasonLabelByUser.Rd | 3
EGRET-2.1.0/EGRET/man/setupYears.Rd | 3
EGRET-2.1.0/EGRET/man/surfaceIndex.Rd | 3
EGRET-2.1.0/EGRET/man/tableChange.Rd | 5
EGRET-2.1.0/EGRET/man/tableChangeSingle.Rd | 5
EGRET-2.1.0/EGRET/man/tableFlowChange.Rd | 5
EGRET-2.1.0/EGRET/man/tableResults.Rd | 7
EGRET-2.1.0/EGRET/man/triCube.Rd | 3
EGRET-2.1.0/EGRET/man/yPretty.Rd | 3
EGRET-2.1.0/EGRET/vignettes/figure/Mercedplot-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/Mercedplot-2.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/MississippiPlot-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/adjustSize-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/adjustSize-2.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/boxConcThree-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/boxResidMonth-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/boxResidMonth-2.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/customPanel-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/easyFontChange-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/fluxBiasMulti-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/modifiedContour1-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/modifiedDiffContour-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/multiPlotDataOverview-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotBoxes-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotBoxes-2.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotConcQComparison-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotConcQComparison-2.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotConcQSmooth-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotConcQSmooth-2.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotConcTime-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotConcTime-2.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotConcTimeDaily-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotConcTimeDaily-2.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotConcTimeSmooth-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotConcTimeSmooth-2.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotContours-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotDiffContours-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotFluxHist-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotFluxHist-2.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotFluxPred-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotFluxPred-2.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotFluxQ-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotFour-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotResidQ-1.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/plotResidQ-2.pdf |binary
EGRET-2.1.0/EGRET/vignettes/figure/tinyPlot1-1.pdf |binary
178 files changed, 595 insertions(+), 479 deletions(-)
Title: Diversity-Dependent Diversification
Diff between DDD versions 2.5 dated 2014-05-26 and 2.6 dated 2014-12-18
Description:
implements maximum likelihood methods based on the diversity-dependent birth-death process to test whether speciation or extinction are diversity-dependent.
See Etienne et al. 2012, Proc. Roy. Soc. B 279: 1300-1309, doi: 10.1098/rspb.2011.1439.
DDD also implements a maximum likelihood method to detect key innovations defined as decoupling of diversity-dependence.
See Etienne & Haegeman 2012, Am. Nat. 180: E75-E89, doi: 10.1086/667574.
Finally, DDD contains a function to simulate the diversity-dependent process.
Author: Rampal S. Etienne & Bart Haegeman
Maintainer: Rampal S. Etienne
DESCRIPTION | 12 +++---
MD5 | 40 ++++++++++----------
R/dd_KI_ML.R | 10 ++---
R/dd_KI_loglik.R | 99 ++++++++++++++++++++++++++++++++++++++++-----------
R/dd_ML.R | 4 +-
R/dd_SR_ML.R | 6 +--
R/dd_SR_loglik.R | 44 +++++++++++++++-------
R/dd_loglik.R | 22 ++++++++---
R/dd_loglik_bw_rhs.R | 13 ++++++
R/dd_loglik_rhs.R | 13 ++++++
R/dd_sim.R | 17 ++++++++
R/flavec.R | 4 ++
man/DDD-package.Rd | 27 ++-----------
man/bd_ML.Rd | 2 -
man/dd_KI_ML.Rd | 29 ++++++++------
man/dd_KI_loglik.Rd | 11 +++--
man/dd_ML.Rd | 39 +++++++-------------
man/dd_SR_ML.Rd | 7 ++-
man/dd_SR_loglik.Rd | 8 ++--
man/dd_loglik.Rd | 8 ++--
man/dd_sim.Rd | 12 ++++--
21 files changed, 272 insertions(+), 155 deletions(-)
Title: Differential Co-expression Analysis and Differential Regulation
Analysis of Gene Expression Microarray Data
Diff between DCGL versions 2.1.1 dated 2013-12-31 and 2.1.2 dated 2014-12-18
Description: Functions for 1) gene filtration; 2) link filtration; 3) differential co-expression analysis: DCG (Differential Coexpressed
Gene) identification and DCL (Differentially Coexpressed Link)
identification; and 4) differential regulation analysis: DRG (Differential Regulated
Gene) identification, DRL (Differential Regulated Link)
identification, DRL visualization and regulator ranking.
Author: Jing Yang, Hui Yu, Bao-Hong Liu, Zhongming Zhao, Lei Liu, Liang-Xiao Ma, Yi-Xue Li, Yuan-Yuan Li
Maintainer: Bao-Hong Liu
DESCRIPTION | 8 ++++----
MD5 | 8 ++++----
man/DCGL-package.Rd | 32 ++++++++++++++++----------------
man/DRrank.Rd | 12 ++++++------
man/DRsort.Rd | 9 +++++----
5 files changed, 35 insertions(+), 34 deletions(-)