Title: Stereo Camera Calibration and Reconstruction
Description: Functions for the collection of 3D points and curves using a stereo camera setup.
Author: Aaron Olsen, Annat Haber
Maintainer: Aaron Olsen <aolsen@uchicago.edu>
Diff between StereoMorph versions 1.4 dated 2015-04-07 and 1.5 dated 2016-02-26
StereoMorph-1.4/StereoMorph/R/cprod.R |only StereoMorph-1.4/StereoMorph/R/rotationMatrixZYX.R |only StereoMorph-1.4/StereoMorph/man/cprod.Rd |only StereoMorph-1.4/StereoMorph/man/readLandmarksToArray.Rd |only StereoMorph-1.4/StereoMorph/man/rotationMatrixZYX.Rd |only StereoMorph-1.5/StereoMorph/DESCRIPTION | 13 StereoMorph-1.5/StereoMorph/MD5 | 148 ++-- StereoMorph-1.5/StereoMorph/NAMESPACE | 9 StereoMorph-1.5/StereoMorph/R/RcppExports.R | 4 StereoMorph-1.5/StereoMorph/R/XML4R2list.R |only StereoMorph-1.5/StereoMorph/R/XML4R2listLines.R |only StereoMorph-1.5/StereoMorph/R/alignLandmarksToMidline.R | 39 - StereoMorph-1.5/StereoMorph/R/alignShapesToMidline.R |only StereoMorph-1.5/StereoMorph/R/calibrateCameras.R |only StereoMorph-1.5/StereoMorph/R/checkCornerOrder.R |only StereoMorph-1.5/StereoMorph/R/cprod_SM.R |only StereoMorph-1.5/StereoMorph/R/createErrorPlots.R |only StereoMorph-1.5/StereoMorph/R/digitizeImage.R | 20 StereoMorph-1.5/StereoMorph/R/digitizeImages.R |only StereoMorph-1.5/StereoMorph/R/distancePointToLine.R | 2 StereoMorph-1.5/StereoMorph/R/distortionError.R |only StereoMorph-1.5/StereoMorph/R/dltCCEstimateStartParams.R |only StereoMorph-1.5/StereoMorph/R/dltCalibrateCameras.R | 222 +----- StereoMorph-1.5/StereoMorph/R/dltCoefficients.R | 6 StereoMorph-1.5/StereoMorph/R/dltMatchCurvePoints.R | 348 +--------- StereoMorph-1.5/StereoMorph/R/dltTestCalibration.R | 209 ++---- StereoMorph-1.5/StereoMorph/R/dltTransformationParameterRMSError.R | 4 StereoMorph-1.5/StereoMorph/R/drawCheckerboard.R | 22 StereoMorph-1.5/StereoMorph/R/drawShapes.R |only StereoMorph-1.5/StereoMorph/R/estimateDistortion.R |only StereoMorph-1.5/StereoMorph/R/findCheckerboardCorners.R | 258 ++++--- StereoMorph-1.5/StereoMorph/R/findEpipolarTangencyAngles.R |only StereoMorph-1.5/StereoMorph/R/findHomography.R |only StereoMorph-1.5/StereoMorph/R/findInterpointDistanceError.R |only StereoMorph-1.5/StereoMorph/R/findOptimalPointAlignment.R | 20 StereoMorph-1.5/StereoMorph/R/gridPointsFit.R | 2 StereoMorph-1.5/StereoMorph/R/gridPointsFitError.R |only StereoMorph-1.5/StereoMorph/R/imagePlaneGridTransform.R | 6 StereoMorph-1.5/StereoMorph/R/imagePlaneGridTransformError.R |only StereoMorph-1.5/StereoMorph/R/list2XML4R.R |only StereoMorph-1.5/StereoMorph/R/matchCurvePoints.R |only StereoMorph-1.5/StereoMorph/R/measureCheckerboardSize.R | 2 StereoMorph-1.5/StereoMorph/R/print_processing_times.R |only StereoMorph-1.5/StereoMorph/R/process_digitize_images_input.R |only StereoMorph-1.5/StereoMorph/R/quadraticPointsOnInterval.R |only StereoMorph-1.5/StereoMorph/R/readBezierControlPoints.R | 2 StereoMorph-1.5/StereoMorph/R/readShapes.R | 65 + StereoMorph-1.5/StereoMorph/R/readXML4R.R | 185 ----- StereoMorph-1.5/StereoMorph/R/readXMLLines.R |only StereoMorph-1.5/StereoMorph/R/reconstructStereoSets.R |only StereoMorph-1.5/StereoMorph/R/reflectMissingLandmarks.R | 32 StereoMorph-1.5/StereoMorph/R/reflectMissingShapes.R |only StereoMorph-1.5/StereoMorph/R/removeOutlierCorners.R |only StereoMorph-1.5/StereoMorph/R/resampleGridImagePoints.R | 8 StereoMorph-1.5/StereoMorph/R/rotationMatrixZYX_SM.R |only StereoMorph-1.5/StereoMorph/R/tMatrixDC_SM.R |only StereoMorph-1.5/StereoMorph/R/testCalibration.R |only StereoMorph-1.5/StereoMorph/R/transformPlanarCalibrationCoordinates.R | 2 StereoMorph-1.5/StereoMorph/R/undistort.R |only StereoMorph-1.5/StereoMorph/R/unifyLandmarks.R | 68 + StereoMorph-1.5/StereoMorph/R/uvector_SM.R |only StereoMorph-1.5/StereoMorph/inst/extdata/apps/digitizeImage/server.R | 25 StereoMorph-1.5/StereoMorph/inst/extdata/apps/digitizeImages |only StereoMorph-1.5/StereoMorph/inst/extdata/session_parameters.txt |only StereoMorph-1.5/StereoMorph/man/StereoMorph-package.Rd | 42 - StereoMorph-1.5/StereoMorph/man/alignLandmarksToMidline.Rd | 10 StereoMorph-1.5/StereoMorph/man/calibrateCameras.Rd |only StereoMorph-1.5/StereoMorph/man/digitizeImage.Rd | 4 StereoMorph-1.5/StereoMorph/man/digitizeImages.Rd |only StereoMorph-1.5/StereoMorph/man/dltCalibrateCameras.Rd | 14 StereoMorph-1.5/StereoMorph/man/dltCoefficients.Rd | 2 StereoMorph-1.5/StereoMorph/man/dltMatchCurvePoints.Rd | 25 StereoMorph-1.5/StereoMorph/man/dltReconstruct.Rd | 2 StereoMorph-1.5/StereoMorph/man/dltTestCalibration.Rd | 29 StereoMorph-1.5/StereoMorph/man/drawCheckerboard.Rd | 10 StereoMorph-1.5/StereoMorph/man/findCheckerboardCorners.Rd | 9 StereoMorph-1.5/StereoMorph/man/findOptimalPointAlignment.Rd | 5 StereoMorph-1.5/StereoMorph/man/measureCheckerboardSize.Rd | 7 StereoMorph-1.5/StereoMorph/man/pointsAtEvenSpacing.Rd | 2 StereoMorph-1.5/StereoMorph/man/readBezierControlPoints.Rd | 2 StereoMorph-1.5/StereoMorph/man/readCheckerboardsToArray.Rd | 2 StereoMorph-1.5/StereoMorph/man/readShapes.Rd | 3 StereoMorph-1.5/StereoMorph/man/reconstructStereoSets.Rd |only StereoMorph-1.5/StereoMorph/man/reflectMissingLandmarks.Rd | 6 StereoMorph-1.5/StereoMorph/man/unifyLandmarks.Rd | 9 StereoMorph-1.5/StereoMorph/src/RcppExports.cpp | 231 ++---- StereoMorph-1.5/StereoMorph/src/dilateImage.cpp | 38 - StereoMorph-1.5/StereoMorph/src/drawRectangle.cpp | 14 StereoMorph-1.5/StereoMorph/src/equalizeImageHist.cpp | 3 StereoMorph-1.5/StereoMorph/src/erodeImage.cpp | 31 StereoMorph-1.5/StereoMorph/src/generateQuads.cpp | 219 ++++-- StereoMorph-1.5/StereoMorph/src/thresholdImageMatrix.cpp | 5 92 files changed, 1111 insertions(+), 1334 deletions(-)
Title: Optimal Multilevel Matching using a Network Algorithm
Description: Performs multilevel matches for data with cluster-level treatments and individual-level outcomes using a network optimization algorithm. Functions for checking balance at the cluster and individual levels are also provided, as are methods for permutation-inference-based outcome analysis.
Author: Luke Keele and Sam Pimentel
Maintainer: Sam Pimentel <spi@wharton.upenn.edu>
Diff between matchMulti versions 1.0 dated 2016-02-19 and 1.1 dated 2016-02-26
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- R/matchMulti-internal.R | 8 ++++---- R/matchMulti.R | 4 ++-- R/rematchSchools.R | 13 +++++++------ build/partial.rdb |binary data/catholic_schools.RData |binary man/matchMulti.Rd | 9 +++++++-- man/matchSchools.Rd | 9 +++++++-- man/rematchSchools.Rd | 4 ++-- 10 files changed, 42 insertions(+), 31 deletions(-)
Title: Abbreviating Items Measures using Genetic Algorithms
Description: The GAabbreviate package uses Genetic Algorithms as an optimization tool for scale abbreviation or subset selection that maximally captures the variance in the original data.
Author: Luca Scrucca [aut],
Baljinder K. Sahdra [aut, cre]
Maintainer: Baljinder K. Sahdra <baljinder.sahdra@acu.edu.au>
Diff between GAabbreviate versions 1.0 dated 2015-02-25 and 1.1 dated 2016-02-26
DESCRIPTION | 19 ++++++++++--------- MD5 | 10 ++++++---- NAMESPACE | 6 ++++++ R/GAabbreviate.R | 5 +++-- inst |only man/GAabbreviate.Rd | 20 ++++++++++++-------- 6 files changed, 37 insertions(+), 23 deletions(-)
Title: Atomic Force Microscope Image Analysis
Description: Provides Atomic Force Microscope images analysis such as Power
Spectrum Density, roughness against lengthscale, variogram and variance,
fractal dimension and scale. The AFM images can be exported to STL format for 3D
printing.
Author: Mathieu Beauvais [aut, cre],
Irma Liascukiene [aut],
Jessem Landoulsi [aut]
Maintainer: Mathieu Beauvais <beauvais.escp@gmail.com>
Diff between AFM versions 1.1.0 dated 2015-12-01 and 1.2.0 dated 2016-02-26
CHANGES | 4 DESCRIPTION | 24 MD5 | 145 ++-- NAMESPACE | 88 ++ R/AFM3DPrinter.R | 356 ++++++---- R/AFMFractalDimensionAnalyser.R | 1 R/AFMImage.R | 70 + R/AFMImageAnalyser.R | 13 R/AFMNetworksAnalyser.R |only R/AFMPSDAnalyser.R | 1 R/AFMReportMaker.R | 1 R/AFMVariogramAnalyser.R | 2 R/pkgname.R | 27 R/runAFMApp.R |only inst |only man/AFM.Rd | 17 man/AFMFractalDimensionAnalyser-getFractalDimensions.Rd | 2 man/AFMImage-class.Rd | 10 man/AFMImage-extractAFMImage.Rd | 3 man/AFMImage-importFromNanoscope.Rd | 2 man/AFMImage-sampleAFMImage.Rd | 5 man/AFMImage-saveOnDisk.Rd | 3 man/AFMImage-simplifyAFMImage.Rd |only man/AFMImage3DModelAnalysis-class.Rd |only man/AFMImageAnalyser-class-initialize.Rd | 9 man/AFMImageAnalyser-class.Rd | 4 man/AFMImageFractalDimensionMethod-class.Rd | 2 man/AFMImageFractalDimensionsAnalysis-class.Rd | 2 man/AFMImageNetworksAnalysis-class.Rd |only man/AFMImageOfAluminiumInterface.Rd | 2 man/AFMImageOfNormallyDistributedHeights.Rd | 2 man/AFMImageOfOnePeak.Rd | 2 man/AFMImageOfRegularPeaks.Rd | 2 man/AFMImagePSDAnalysis-class.Rd | 2 man/AFMImageVariogramAnalyser-calculateDirectionalVariograms.Rd | 8 man/AFMImageVariogramAnalyser-calculateOmnidirectionalVariogram.Rd | 4 man/AFMImageVariogramAnalyser-getAutomaticWidthForVariogramCalculation.Rd | 3 man/AFMImageVariogramAnalysis-class.Rd | 2 man/AFMImageVariogramAnalysis-evaluateVariogramModels-method.Rd | 17 man/AFMImageVariogramAnalysis-getDTModelEvaluation-method.Rd | 2 man/AFMImageVariogramAnalysis-getDTModelSillRange-method.Rd | 2 man/AFMImageVariogramAnalysis-updateProgress-method.Rd | 4 man/AFMImageVariogramModel-class.Rd | 2 man/AFMVariogramAnalyser-getSpplotFromAFMImage.Rd | 2 man/AFMVariogramAnalyser-saveSpplotFromAFMImage.Rd | 4 man/PSD1DAgainstFrequency-methods.Rd | 8 man/PSD2DAgainstFrequency-methods.Rd | 2 man/RoughnessByLengthScale-methods.Rd | 8 man/analyse.Rd | 3 man/calculate3DModel-methods.Rd |only man/calculateIgraph.Rd |only man/calculateNetworkSkeleton.Rd |only man/calculateNetworks-methods.Rd |only man/canBeRemoved.Rd |only man/checkIsotropy.Rd | 9 man/checkNormality.Rd | 4 man/displayIn3D.Rd | 3 man/existsEdge.Rd |only man/exportToSTL.Rd | 6 man/generateAFMImageReport.Rd | 2 man/generateCheckReport.Rd | 4 man/generateReport.Rd | 4 man/generateReportFromNanoscopeImageDirectory.Rd | 2 man/getCoordinatesFromVertexId.Rd |only man/getListOfDiameters.Rd |only man/getNetworkGridLayout.Rd |only man/getNyquistSpatialFrequency-methods.Rd | 3 man/getPaddedAFMImage.Rd | 2 man/getRoughnessParameters-methods.Rd | 5 man/getSurroundingVertexesList.Rd |only man/getTopologyAFMImage.Rd |only man/getVertexId.Rd |only man/gridIgraphPlot.Rd |only man/isAdjacentToBetterVertex.Rd |only man/performAllPSDCalculation.Rd | 3 man/printVariogramModelEvaluations.Rd | 2 man/putAnalysisOnDisk-methods.Rd | 2 man/putImagesFromAnalysisOnDisk.Rd | 2 man/runAFMApp.Rd |only man/shiftFFT2D.Rd | 2 man/shiftedPSDuv.Rd | 4 man/totalRMSRoughness.Rd | 3 tests/testthat/testAFMReportMaker.R | 48 - 83 files changed, 658 insertions(+), 324 deletions(-)
Title: Fitting and Plotting Tools for the Maximum Entropy Theory of
Ecology (METE)
Description: Fit and plot macroecological patterns predicted by the Maximum
Entropy Theory of Ecology (METE).
Author: Andy Rominger, Cory Merow
Maintainer: Cory Merow <cory.merow@gmail.com>
Diff between meteR versions 1.0 dated 2015-11-24 and 1.1 dated 2016-02-26
meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-10_6475f2432a71158c4fec9b6683ef410a.RData |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-10_6475f2432a71158c4fec9b6683ef410a.rdb |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-10_6475f2432a71158c4fec9b6683ef410a.rdx |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-11_801a3f2db7edad6f8a8642dee7aa8c57.RData |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-11_801a3f2db7edad6f8a8642dee7aa8c57.rdb |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-11_801a3f2db7edad6f8a8642dee7aa8c57.rdx |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-12_fcbffadf8821c5d5cb95e2b9b5615789.RData |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-12_fcbffadf8821c5d5cb95e2b9b5615789.rdb |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-12_fcbffadf8821c5d5cb95e2b9b5615789.rdx |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-13_e6e3919ee7564f483a49e38ae4303f50.RData |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-13_e6e3919ee7564f483a49e38ae4303f50.rdb |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-13_e6e3919ee7564f483a49e38ae4303f50.rdx |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-14_e9cac017a2892d763ecd3f60ad6d69b9.RData |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-14_e9cac017a2892d763ecd3f60ad6d69b9.rdb |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-14_e9cac017a2892d763ecd3f60ad6d69b9.rdx |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-15_d4da1b99a4d582d65e2719e4e020fc18.RData |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-15_d4da1b99a4d582d65e2719e4e020fc18.rdb |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-15_d4da1b99a4d582d65e2719e4e020fc18.rdx |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-16_3b66118e8f22d90dbf4f5d84826b95c1.RData |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-16_3b66118e8f22d90dbf4f5d84826b95c1.rdb |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-16_3b66118e8f22d90dbf4f5d84826b95c1.rdx |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-17_51c368714a4d4c132fda3170a7ec4a45.RData |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-17_51c368714a4d4c132fda3170a7ec4a45.rdb |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-17_51c368714a4d4c132fda3170a7ec4a45.rdx |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-18_08ce17f7f3396d0e22fdb52160f81d81.RData |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-18_08ce17f7f3396d0e22fdb52160f81d81.rdb |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-18_08ce17f7f3396d0e22fdb52160f81d81.rdx |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-19_08bf98c49042dc1ac2d74bc1754e8907.RData |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-19_08bf98c49042dc1ac2d74bc1754e8907.rdb |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-19_08bf98c49042dc1ac2d74bc1754e8907.rdx |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-1_4a263db9f749e2c6057d979ceac24535.RData |only meteR-1.0/meteR/vignettes/meteR_vignette_cache/latex/unnamed-chunk-1_4a263db9f749e2c6057d979ceac24535.rdb |only 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Title: Transcriptional Module Analysis
Description: The tmod package contains definitions of human blood
transcriptional modules and tools to analyse them.
Author: January Weiner
Maintainer: January Weiner <january.weiner@gmail.com>
Diff between tmod versions 0.19 dated 2015-06-19 and 0.24 dated 2016-02-26
tmod-0.19/tmod/R/evidencePlot.R |only tmod-0.19/tmod/R/showGene.R |only tmod-0.19/tmod/R/tmodLimma.R |only tmod-0.19/tmod/R/tmodPCA.R |only tmod-0.19/tmod/R/tmodPanelPlot.R |only tmod-0.19/tmod/R/tmodUtest.R |only tmod-0.19/tmod/vignettes/tmod.html |only tmod-0.24/tmod/DESCRIPTION | 13 tmod-0.24/tmod/MD5 | 133 +++++----- tmod-0.24/tmod/NAMESPACE | 10 tmod-0.24/tmod/NEWS |only tmod-0.24/tmod/R/classes.R | 105 +++++++ tmod-0.24/tmod/R/helpers.R | 21 + tmod-0.24/tmod/R/importexport.R | 23 + tmod-0.24/tmod/R/limma.R |only tmod-0.24/tmod/R/multivariate.R |only tmod-0.24/tmod/R/panelplots.R |only tmod-0.24/tmod/R/statisticaltests.R |only tmod-0.24/tmod/R/tmod-data.R | 25 - tmod-0.24/tmod/R/visualizations.R |only tmod-0.24/tmod/build/vignette.rds |binary tmod-0.24/tmod/data/Egambia.rda |binary tmod-0.24/tmod/data/tmod.rda |binary tmod-0.24/tmod/inst/doc/tmod.R | 98 +------ tmod-0.24/tmod/inst/doc/tmod.pdf |binary tmod-0.24/tmod/inst/doc/tmod.rmd | 113 +++----- tmod-0.24/tmod/man/Egambia.Rd | 4 tmod-0.24/tmod/man/evidencePlot.Rd | 38 ++ tmod-0.24/tmod/man/extract-methods.Rd | 2 tmod-0.24/tmod/man/getGenes.Rd | 4 tmod-0.24/tmod/man/getModuleMembers.Rd |only tmod-0.24/tmod/man/hgEnrichmentPlot.Rd | 6 tmod-0.24/tmod/man/pvalEffectPlot.Rd | 4 tmod-0.24/tmod/man/showGene.Rd | 6 tmod-0.24/tmod/man/showModule.Rd | 4 tmod-0.24/tmod/man/simplePie.Rd | 12 tmod-0.24/tmod/man/tmod-class.Rd |only tmod-0.24/tmod/man/tmod-data.Rd | 36 +- tmod-0.24/tmod/man/tmod-package.Rd | 2 tmod-0.24/tmod/man/tmodAUC.Rd | 4 tmod-0.24/tmod/man/tmodDecideTests.Rd | 8 tmod-0.24/tmod/man/tmodImportMSigDB.Rd | 4 tmod-0.24/tmod/man/tmodLimmaDecideTests.Rd | 6 tmod-0.24/tmod/man/tmodLimmaTest.Rd | 9 tmod-0.24/tmod/man/tmodLimmaTopTable.Rd | 6 tmod-0.24/tmod/man/tmodPCA.Rd | 8 tmod-0.24/tmod/man/tmodPanelPlot.Rd | 23 - tmod-0.24/tmod/man/tmodSummary.Rd | 8 tmod-0.24/tmod/man/tmodTagcloud.Rd | 4 tmod-0.24/tmod/man/tmodUtest.Rd | 8 tmod-0.24/tmod/vignettes/bibliography.bib | 7 tmod-0.24/tmod/vignettes/tmod.rmd | 113 +++----- tmod-0.24/tmod/vignettes/tmod_cache/latex/__packages | 2 tmod-0.24/tmod/vignettes/tmod_cache/latex/nineB_fe644190d20ef9b45d971abbd611181e.RData |only tmod-0.24/tmod/vignettes/tmod_cache/latex/nineB_fe644190d20ef9b45d971abbd611181e.rdb |only tmod-0.24/tmod/vignettes/tmod_cache/latex/nineB_fe644190d20ef9b45d971abbd611181e.rdx |only tmod-0.24/tmod/vignettes/tmod_cache/latex/nine_a103ee8d7485abebb1856c3eb89b6eb2.RData |only tmod-0.24/tmod/vignettes/tmod_cache/latex/nine_a103ee8d7485abebb1856c3eb89b6eb2.rdb |only tmod-0.24/tmod/vignettes/tmod_cache/latex/nine_a103ee8d7485abebb1856c3eb89b6eb2.rdx |only tmod-0.24/tmod/vignettes/tmod_cache/latex/wpex1_8b13cdee7e18f5b9668d1ae0f13c68e1.RData |binary tmod-0.24/tmod/vignettes/tmod_cache/latex/wpex1_8b13cdee7e18f5b9668d1ae0f13c68e1.rdb |binary tmod-0.24/tmod/vignettes/tmod_cache/latex/wpex1_8b13cdee7e18f5b9668d1ae0f13c68e1.rdx |binary tmod-0.24/tmod/vignettes/tmod_cache/latex/wpex2_6bb550f100fa6e85e4da6ce50aacac60.RData |binary tmod-0.24/tmod/vignettes/tmod_cache/latex/wpex2_6bb550f100fa6e85e4da6ce50aacac60.rdb |binary tmod-0.24/tmod/vignettes/tmod_cache/latex/wpex2_6bb550f100fa6e85e4da6ce50aacac60.rdx |binary tmod-0.24/tmod/vignettes/tmod_files/figure-latex/basic2-1.pdf |binary tmod-0.24/tmod/vignettes/tmod_files/figure-latex/eight-1.pdf |binary tmod-0.24/tmod/vignettes/tmod_files/figure-latex/eleven-1.pdf |binary tmod-0.24/tmod/vignettes/tmod_files/figure-latex/five-1.pdf |binary tmod-0.24/tmod/vignettes/tmod_files/figure-latex/limma2-1.pdf |binary tmod-0.24/tmod/vignettes/tmod_files/figure-latex/nine-1.pdf |binary tmod-0.24/tmod/vignettes/tmod_files/figure-latex/nineB-1.pdf |binary tmod-0.24/tmod/vignettes/tmod_files/figure-latex/pcsum2-1.pdf |binary tmod-0.24/tmod/vignettes/tmod_files/figure-latex/pcsum3-1.pdf |binary tmod-0.24/tmod/vignettes/tmod_files/figure-latex/pplot1-1.pdf |binary tmod-0.24/tmod/vignettes/tmod_files/figure-latex/pplot3-1.pdf |binary tmod-0.24/tmod/vignettes/tmod_files/figure-latex/pplot4-1.pdf |binary tmod-0.24/tmod/vignettes/tmod_files/figure-latex/six-1.pdf |binary 78 files changed, 491 insertions(+), 378 deletions(-)
Title: Microsoft Word, Microsoft Powerpoint and HTML Documents
Generation
Description: Create Microsoft Word document (>=2007),
Microsoft Powerpoint document (>=2007) and HTML documents from R. There are
several features to let you format and present R outputs ; e.g. Editable
Vector Graphics, functions for complex tables reporting, reuse of corporate
template document (*.docx and *.pptx). You can use the package as a tool
for fast reporting and as a tool for reporting automation. The package does
not require any installation of Microsoft product to be able to write
Microsoft files (docx and pptx).
Author: David Gohel [aut, cre],
Bootstrap [ctb, cph] (Bootstrap development team),
jQuery [ctb, cph] (The jQuery Foundation)
Maintainer: David Gohel <david.gohel@lysis-consultants.fr>
Diff between ReporteRs versions 0.8.2 dated 2015-08-03 and 0.8.5 dated 2016-02-26
ReporteRs-0.8.2/ReporteRs/R/FontMetric.R |only ReporteRs-0.8.2/ReporteRs/R/add.plot.interactivity.R |only ReporteRs-0.8.2/ReporteRs/R/addCodeBlock.bsdoc.R |only ReporteRs-0.8.2/ReporteRs/R/addCodeBlock.docx.R |only ReporteRs-0.8.2/ReporteRs/R/addCodeBlock.pptx.R |only ReporteRs-0.8.2/ReporteRs/R/addDocument.docx.R |only ReporteRs-0.8.2/ReporteRs/R/addFlexTable.bsdoc.R |only ReporteRs-0.8.2/ReporteRs/R/addFlexTable.docx.R |only ReporteRs-0.8.2/ReporteRs/R/addFlexTable.pptx.R |only ReporteRs-0.8.2/ReporteRs/R/addImage.bsdoc.R |only ReporteRs-0.8.2/ReporteRs/R/addImage.docx.R |only ReporteRs-0.8.2/ReporteRs/R/addImage.pptx.R |only ReporteRs-0.8.2/ReporteRs/R/addParagraph.bsdoc.R |only ReporteRs-0.8.2/ReporteRs/R/addParagraph.docx.R |only ReporteRs-0.8.2/ReporteRs/R/addParagraph.pptx.R |only ReporteRs-0.8.2/ReporteRs/R/addPlot.bsdoc.R |only ReporteRs-0.8.2/ReporteRs/R/addPlot.docx.R |only ReporteRs-0.8.2/ReporteRs/R/addPlot.pptx.R |only ReporteRs-0.8.2/ReporteRs/R/addRScript.bsdoc.R |only ReporteRs-0.8.2/ReporteRs/R/addRScript.docx.R |only ReporteRs-0.8.2/ReporteRs/R/addRScript.pptx.R |only ReporteRs-0.8.2/ReporteRs/R/addSlide.pptx.R |only ReporteRs-0.8.2/ReporteRs/R/addTOC.bsdoc.R |only ReporteRs-0.8.2/ReporteRs/R/addTOC.docx.R |only ReporteRs-0.8.2/ReporteRs/R/addTitle.bsdoc.R |only ReporteRs-0.8.2/ReporteRs/R/addTitle.docx.R |only ReporteRs-0.8.2/ReporteRs/R/addTitle.pptx.R |only ReporteRs-0.8.2/ReporteRs/R/dim.docx.R |only ReporteRs-0.8.2/ReporteRs/R/dim.pptx.R |only ReporteRs-0.8.2/ReporteRs/R/drawingML.R |only ReporteRs-0.8.2/ReporteRs/R/print.docx.R |only ReporteRs-0.8.2/ReporteRs/R/print.pptx.R |only ReporteRs-0.8.2/ReporteRs/R/raphael.html.R |only ReporteRs-0.8.2/ReporteRs/R/writeDoc.bsdoc.R |only ReporteRs-0.8.2/ReporteRs/R/writeDoc.docx.R |only ReporteRs-0.8.2/ReporteRs/R/writeDoc.pptx.R |only ReporteRs-0.8.2/ReporteRs/inst/Rmd |only ReporteRs-0.8.2/ReporteRs/inst/bootstrap/css/tooltip.css |only ReporteRs-0.8.2/ReporteRs/inst/bootstrap/js/raphael-min.js |only ReporteRs-0.8.2/ReporteRs/inst/bootstrap/js/tooltip.js |only ReporteRs-0.8.2/ReporteRs/man/FontMetric.Rd |only ReporteRs-0.8.2/ReporteRs/man/add.plot.interactivity.Rd |only ReporteRs-0.8.2/ReporteRs/man/addCodeBlock.bsdoc.Rd |only ReporteRs-0.8.2/ReporteRs/man/addCodeBlock.docx.Rd |only ReporteRs-0.8.2/ReporteRs/man/addCodeBlock.pptx.Rd |only ReporteRs-0.8.2/ReporteRs/man/addColumnBreak.docx.Rd |only ReporteRs-0.8.2/ReporteRs/man/addDate.pptx.Rd |only ReporteRs-0.8.2/ReporteRs/man/addDocument.docx.Rd |only ReporteRs-0.8.2/ReporteRs/man/addFlexTable.bsdoc.Rd |only ReporteRs-0.8.2/ReporteRs/man/addFlexTable.docx.Rd |only ReporteRs-0.8.2/ReporteRs/man/addFlexTable.pptx.Rd |only ReporteRs-0.8.2/ReporteRs/man/addImage.bsdoc.Rd |only ReporteRs-0.8.2/ReporteRs/man/addImage.docx.Rd |only ReporteRs-0.8.2/ReporteRs/man/addImage.pptx.Rd |only ReporteRs-0.8.2/ReporteRs/man/addPageBreak.docx.Rd |only ReporteRs-0.8.2/ReporteRs/man/addParagraph.bsdoc.Rd |only ReporteRs-0.8.2/ReporteRs/man/addParagraph.docx.Rd |only ReporteRs-0.8.2/ReporteRs/man/addParagraph.pptx.Rd |only ReporteRs-0.8.2/ReporteRs/man/addPlot.bsdoc.Rd |only ReporteRs-0.8.2/ReporteRs/man/addPlot.docx.Rd |only ReporteRs-0.8.2/ReporteRs/man/addPlot.pptx.Rd |only ReporteRs-0.8.2/ReporteRs/man/addPostCommand.Rd |only ReporteRs-0.8.2/ReporteRs/man/addRScript.bsdoc.Rd |only ReporteRs-0.8.2/ReporteRs/man/addRScript.docx.Rd |only ReporteRs-0.8.2/ReporteRs/man/addRScript.pptx.Rd |only ReporteRs-0.8.2/ReporteRs/man/addSection.docx.Rd |only ReporteRs-0.8.2/ReporteRs/man/addSlide.pptx.Rd |only ReporteRs-0.8.2/ReporteRs/man/addTOC.bsdoc.Rd |only ReporteRs-0.8.2/ReporteRs/man/addTOC.docx.Rd |only ReporteRs-0.8.2/ReporteRs/man/addTitle.bsdoc.Rd |only ReporteRs-0.8.2/ReporteRs/man/addTitle.docx.Rd |only ReporteRs-0.8.2/ReporteRs/man/addTitle.pptx.Rd |only ReporteRs-0.8.2/ReporteRs/man/chprop.borderProperties.Rd |only ReporteRs-0.8.2/ReporteRs/man/chprop.cellProperties.Rd |only 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ReporteRs-0.8.5/ReporteRs/R/addFooter.bsdoc.R | 34 ReporteRs-0.8.5/ReporteRs/R/addFooter.pptx.R | 24 ReporteRs-0.8.5/ReporteRs/R/addIframe.bsdoc.R | 18 ReporteRs-0.8.5/ReporteRs/R/addImage.R |only ReporteRs-0.8.5/ReporteRs/R/addMarkdown.bsdoc.R | 60 ReporteRs-0.8.5/ReporteRs/R/addMarkdown.docx.R | 56 ReporteRs-0.8.5/ReporteRs/R/addMarkdown.pptx.R | 68 ReporteRs-0.8.5/ReporteRs/R/addPageBreak.docx.R | 28 ReporteRs-0.8.5/ReporteRs/R/addPageNumber.pptx.R | 30 ReporteRs-0.8.5/ReporteRs/R/addParagraph.R |only ReporteRs-0.8.5/ReporteRs/R/addPlot.R |only ReporteRs-0.8.5/ReporteRs/R/addRScript.R |only ReporteRs-0.8.5/ReporteRs/R/addSlide.R |only ReporteRs-0.8.5/ReporteRs/R/addSubtitle.pptx.R | 14 ReporteRs-0.8.5/ReporteRs/R/addTOC.R |only ReporteRs-0.8.5/ReporteRs/R/addTitle.R |only ReporteRs-0.8.5/ReporteRs/R/bootstrap.copy.R | 10 ReporteRs-0.8.5/ReporteRs/R/borderProperties.R | 65 ReporteRs-0.8.5/ReporteRs/R/bsdoc.R | 76 ReporteRs-0.8.5/ReporteRs/R/cellProperties.R | 181 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| 62 ReporteRs-0.8.5/ReporteRs/man/chprop.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/declareTitlesStyles.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/declareTitlesStyles.docx.Rd | 8 ReporteRs-0.8.5/ReporteRs/man/deleteBookmark.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/deleteBookmarkNextContent.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/doc-list-settings.Rd | 32 ReporteRs-0.8.5/ReporteRs/man/docx-bookmark.Rd | 17 ReporteRs-0.8.5/ReporteRs/man/docx.Rd | 150 ReporteRs-0.8.5/ReporteRs/man/is.color.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/knit_print.FlexTable.Rd |only ReporteRs-0.8.5/ReporteRs/man/knit_print.pot.Rd |only ReporteRs-0.8.5/ReporteRs/man/light.table.Rd | 4 ReporteRs-0.8.5/ReporteRs/man/list_bookmarks.Rd | 9 ReporteRs-0.8.5/ReporteRs/man/parCenter.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/parJustify.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/parLeft.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/parProperties.Rd | 35 ReporteRs-0.8.5/ReporteRs/man/parRight.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/plus-.pot.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/pot.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/pot_img.Rd | 6 ReporteRs-0.8.5/ReporteRs/man/pptx.Rd | 26 ReporteRs-0.8.5/ReporteRs/man/print.FlexTable.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/print.Footnote.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/print.bsdoc.Rd | 4 ReporteRs-0.8.5/ReporteRs/man/print.pot.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/renderFlexTable.Rd |only ReporteRs-0.8.5/ReporteRs/man/setColumnsColors.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/setFlexTableBackgroundColors.Rd | 8 ReporteRs-0.8.5/ReporteRs/man/setFlexTableBorders.Rd | 10 ReporteRs-0.8.5/ReporteRs/man/setFlexTableWidths.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/setRowsColors.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/setZebraStyle.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/set_of_paragraphs.Rd | 6 ReporteRs-0.8.5/ReporteRs/man/slide.layouts.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/slide.layouts.pptx.Rd | 6 ReporteRs-0.8.5/ReporteRs/man/spanFlexTableColumns.Rd | 4 ReporteRs-0.8.5/ReporteRs/man/spanFlexTableRows.Rd | 4 ReporteRs-0.8.5/ReporteRs/man/styles.Rd | 19 ReporteRs-0.8.5/ReporteRs/man/textBold.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/textBoldItalic.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/textItalic.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/textNormal.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/textProperties.Rd | 43 ReporteRs-0.8.5/ReporteRs/man/text_extract.Rd | 9 ReporteRs-0.8.5/ReporteRs/man/toc.options.Rd | 2 ReporteRs-0.8.5/ReporteRs/man/toc.options.docx.Rd | 4 ReporteRs-0.8.5/ReporteRs/man/vanilla.table.Rd | 4 ReporteRs-0.8.5/ReporteRs/man/writeDoc.Rd | 40 ReporteRs-0.8.5/ReporteRs/tests |only 261 files changed, 10290 insertions(+), 2438 deletions(-)
Title: Toolkit for Encryption, Signatures and Certificates Based on
OpenSSL
Description: Bindings to OpenSSL libssl and libcrypto, plus custom SSH
pubkey parsers. Supports RSA, DSA and NIST curves P-256, P-384 and P-521.
Cryptographic signatures can either be created and verified manually or via x509
certificates. AES block cipher is used in CBC mode for symmetric encryption; RSA
for asymmetric (public key) encryption. High-level envelope functions combine
RSA and AES for encrypting arbitrary sized data. Other utilities include key
generators, hash functions (md5, sha1, sha256, etc), base64 encoder, a secure
random number generator, and 'bignum' math methods for manually performing
crypto calculations on large multibyte integers.
Author: Jeroen Ooms [cre, aut],
Oliver Keyes [ctb]
Maintainer: Jeroen Ooms <jeroen.ooms@stat.ucla.edu>
Diff between openssl versions 0.9.1 dated 2016-01-18 and 0.9.2 dated 2016-02-26
DESCRIPTION | 6 +-- MD5 | 65 +++++++++++++++++++----------------- NAMESPACE | 9 ++++ NEWS | 12 ++++++ R/askpass.R | 2 - R/hash.R | 26 ++++++++++++-- R/info.R |only R/keygen.R | 10 ++++- R/list.R | 18 ++++++++- R/openssh.R | 36 ++++++++++++++++++- R/read.R | 5 +- R/signing.R | 8 ++-- R/ssh2.R | 6 ++- R/writessh.R |only configure | 36 +++++++++++-------- inst/doc/bignum.html | 27 +++++++------- inst/doc/crypto_hashing.html | 4 +- inst/doc/secure_rng.html | 18 ++++----- man/askpass.Rd | 2 - man/fingerprint.Rd |only man/hash.Rd | 18 ++++++++- man/keygen.Rd | 8 +++- man/openssl_config.Rd |only man/write_pem.Rd | 17 ++++++++- src/bignum.c | 1 src/info.c |only src/keygen.c | 9 ++++ src/openssh.c | 16 ++++++++ src/read.c | 2 + src/signing.c | 15 ++------ src/ssl.c | 1 tests/testthat/test_keys_dsa.R | 4 ++ tests/testthat/test_keys_ecdsa.R | 11 ++++++ tests/testthat/test_keys_ecdsa384.R | 6 +++ tests/testthat/test_keys_ecdsa521.R | 7 +++ tests/testthat/test_keys_rsa.R | 4 ++ 36 files changed, 298 insertions(+), 111 deletions(-)
Title: Multi-Resolution Estimation of the Hazard Rate
Description: Used on survival data to jointly estimate the hazard rate and the effects of covariates on failure times. Can accommodate covariates under the proportional and non-proportional hazards setting, and is ideal for analysis of survival data with long-term follow-up.
Author: Yolanda Hagar, Yuanting Chen, Vanja Dukic
Maintainer: Yolanda Hagar <yolanda.hagar@colorado.edu>
Diff between MRH versions 2.1 dated 2015-09-04 and 2.2 dated 2016-02-26
DESCRIPTION | 8 ++++---- MD5 | 30 +++++++++++++++--------------- R/FunctionsNotforUser_Assorted.r | 4 ++-- R/FunctionsforUser.r | 16 ++++++++-------- R/NPHBA_samplek.r | 2 +- R/NPHBA_samplesimple.r | 1 + R/NPHBA_shell.r | 9 +++++---- R/PH_samplegamma.r | 2 +- R/PH_samplek.r | 3 ++- R/PH_samplekandgamma.r | 2 +- R/PH_samplesimple.r | 2 +- R/PH_shell.r | 2 +- R/S3functions_BA.r | 4 ++-- R/estimateMRH.r | 2 +- build/vignette.rds |binary inst/doc/MRH.pdf |binary 16 files changed, 45 insertions(+), 42 deletions(-)
Title: Efficient Effect Size Computation
Description: A collection of functions to compute the standardized
effect sizes for experiments (Cohen d, Hedges g, Cliff delta, Vargha-Delaney A).
The computation algorithms have been optimized to allow efficient computation even
with very large data sets.
Author: Marco Torchiano [aut, cre]
Maintainer: Marco Torchiano <marco.torchiano@polito.it>
Diff between effsize versions 0.5.4 dated 2015-04-21 and 0.6.1 dated 2016-02-26
DESCRIPTION | 8 ++-- MD5 | 26 ++++++------- NAMESPACE | 1 R/CliffDelta.R | 28 ++++++++++++-- R/CohenD.R | 88 +++++++++++++++++++++++++++++++++++++-------- R/VD_A.R | 2 - R/printes.R | 2 - man/cliff.delta.Rd | 12 +++--- man/cohen.d.Rd | 16 ++++++-- man/effsize-package.Rd | 6 +++ tests/testCliff.R | 6 +++ tests/testCliff.Rout.save | 24 +++--------- tests/testCohenD.R | 24 ++++++++++++ tests/testCohenD.Rout.save | 43 ++++++++++++--------- 14 files changed, 204 insertions(+), 82 deletions(-)
Title: Scale Functions for Visualization
Description: Graphical scales map data to aesthetics, and provide
methods for automatically determining breaks and labels
for axes and legends.
Author: Hadley Wickham [aut, cre],
RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between scales versions 0.3.0 dated 2015-08-24 and 0.4.0 dated 2016-02-26
scales-0.3.0/scales/NEWS |only scales-0.4.0/scales/DESCRIPTION | 9 - scales-0.4.0/scales/MD5 | 162 +++++++++--------- scales-0.4.0/scales/NAMESPACE | 2 scales-0.4.0/scales/NEWS.md |only scales-0.4.0/scales/R/formatter.r | 3 scales-0.4.0/scales/R/pal-manual.r | 9 - scales-0.4.0/scales/R/scale-continuous.r | 2 scales-0.4.0/scales/build/partial.rdb |binary scales-0.4.0/scales/man/Range-class.Rd | 2 scales-0.4.0/scales/man/abs_area.Rd | 2 scales-0.4.0/scales/man/alpha.Rd | 2 scales-0.4.0/scales/man/area_pal.Rd | 2 scales-0.4.0/scales/man/as.trans.Rd | 2 scales-0.4.0/scales/man/asn_trans.Rd | 2 scales-0.4.0/scales/man/atanh_trans.Rd | 2 scales-0.4.0/scales/man/boxcox_trans.Rd | 2 scales-0.4.0/scales/man/brewer_pal.Rd | 2 scales-0.4.0/scales/man/cbreaks.Rd | 2 scales-0.4.0/scales/man/censor.Rd | 2 scales-0.4.0/scales/man/col2hcl.Rd | 2 scales-0.4.0/scales/man/col_numeric.Rd | 4 scales-0.4.0/scales/man/colour_ramp.Rd | 8 scales-0.4.0/scales/man/comma_format.Rd | 2 scales-0.4.0/scales/man/cscale.Rd | 2 scales-0.4.0/scales/man/date_breaks.Rd | 2 scales-0.4.0/scales/man/date_format.Rd | 2 scales-0.4.0/scales/man/date_trans.Rd | 2 scales-0.4.0/scales/man/dichromat_pal.Rd | 2 scales-0.4.0/scales/man/discard.Rd | 2 scales-0.4.0/scales/man/div_gradient_pal.Rd | 2 scales-0.4.0/scales/man/dollar_format.Rd | 4 scales-0.4.0/scales/man/dscale.Rd | 2 scales-0.4.0/scales/man/exp_trans.Rd | 2 scales-0.4.0/scales/man/expand_range.Rd | 2 scales-0.4.0/scales/man/extended_breaks.Rd | 2 scales-0.4.0/scales/man/format_format.Rd | 2 scales-0.4.0/scales/man/fullseq.Rd | 2 scales-0.4.0/scales/man/gradient_n_pal.Rd | 2 scales-0.4.0/scales/man/grey_pal.Rd | 2 scales-0.4.0/scales/man/hue_pal.Rd | 2 scales-0.4.0/scales/man/identity_pal.Rd | 2 scales-0.4.0/scales/man/identity_trans.Rd | 2 scales-0.4.0/scales/man/linetype_pal.Rd | 2 scales-0.4.0/scales/man/log1p_trans.Rd | 2 scales-0.4.0/scales/man/log_breaks.Rd | 2 scales-0.4.0/scales/man/log_trans.Rd | 2 scales-0.4.0/scales/man/manual_pal.Rd | 2 scales-0.4.0/scales/man/math_format.Rd | 2 scales-0.4.0/scales/man/muted.Rd | 2 scales-0.4.0/scales/man/ordinal_format.Rd | 2 scales-0.4.0/scales/man/package-scales.Rd | 2 scales-0.4.0/scales/man/parse_format.Rd | 2 scales-0.4.0/scales/man/percent_format.Rd | 2 scales-0.4.0/scales/man/pretty_breaks.Rd | 2 scales-0.4.0/scales/man/probability_trans.Rd | 2 scales-0.4.0/scales/man/reciprocal_trans.Rd | 2 scales-0.4.0/scales/man/rescale.Rd | 2 scales-0.4.0/scales/man/rescale_max.Rd | 2 scales-0.4.0/scales/man/rescale_mid.Rd | 2 scales-0.4.0/scales/man/rescale_none.Rd | 2 scales-0.4.0/scales/man/rescale_pal.Rd | 2 scales-0.4.0/scales/man/reverse_trans.Rd | 2 scales-0.4.0/scales/man/scientific_format.Rd | 2 scales-0.4.0/scales/man/seq_gradient_pal.Rd | 2 scales-0.4.0/scales/man/shape_pal.Rd | 2 scales-0.4.0/scales/man/show_col.Rd | 2 scales-0.4.0/scales/man/sqrt_trans.Rd | 2 scales-0.4.0/scales/man/squish.Rd | 2 scales-0.4.0/scales/man/squish_infinite.Rd | 2 scales-0.4.0/scales/man/time_trans.Rd | 2 scales-0.4.0/scales/man/train_continuous.Rd | 2 scales-0.4.0/scales/man/train_discrete.Rd | 2 scales-0.4.0/scales/man/trans_breaks.Rd | 2 scales-0.4.0/scales/man/trans_format.Rd | 2 scales-0.4.0/scales/man/trans_new.Rd | 2 scales-0.4.0/scales/man/trans_range.Rd | 2 scales-0.4.0/scales/man/unit_format.Rd | 2 scales-0.4.0/scales/man/wrap_format.Rd | 2 scales-0.4.0/scales/man/zero_range.Rd | 3 scales-0.4.0/scales/src/colors.cpp | 2 scales-0.4.0/scales/tests/testthat/test-colour-ramp.R |only scales-0.4.0/scales/tests/testthat/test-formatter.r | 4 scales-0.4.0/scales/tests/testthat/test-manual-pal.R |only 84 files changed, 182 insertions(+), 164 deletions(-)
Title: Arrange 'Grobs' in Tables
Description: Tools to make it easier to work with "tables" of 'grobs'.
Author: Hadley Wickham [aut, cre]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between gtable versions 0.1.2 dated 2012-12-05 and 0.2.0 dated 2016-02-26
gtable-0.1.2/gtable/NEWS |only gtable-0.1.2/gtable/inst |only gtable-0.1.2/gtable/tests/test-all.R |only gtable-0.2.0/gtable/DESCRIPTION | 23 ++--- gtable-0.2.0/gtable/MD5 | 84 +++++++++--------- gtable-0.2.0/gtable/NAMESPACE | 9 +- gtable-0.2.0/gtable/NEWS.md |only gtable-0.2.0/gtable/R/add-rows-cols.r | 16 ++- gtable-0.2.0/gtable/R/add-space.r | 4 gtable-0.2.0/gtable/R/align.r | 21 ++-- gtable-0.2.0/gtable/R/filter.r | 9 +- gtable-0.2.0/gtable/R/grid.r | 73 +++++++--------- gtable-0.2.0/gtable/R/gtable-layouts.r | 17 ++- gtable-0.2.0/gtable/R/gtable.r | 89 ++++++++++---------- gtable-0.2.0/gtable/R/padding.r | 7 - gtable-0.2.0/gtable/R/rbind-cbind.r | 14 +-- gtable-0.2.0/gtable/R/trim.r | 9 +- gtable-0.2.0/gtable/R/utils.r | 14 +-- gtable-0.2.0/gtable/README.md |only gtable-0.2.0/gtable/man/bind.Rd | 28 +++--- gtable-0.2.0/gtable/man/gtable.Rd | 115 ++++++++++++-------------- gtable-0.2.0/gtable/man/gtable_add_cols.Rd | 17 ++- gtable-0.2.0/gtable/man/gtable_add_grob.Rd | 48 ++++------ gtable-0.2.0/gtable/man/gtable_add_padding.Rd | 13 +- gtable-0.2.0/gtable/man/gtable_add_rows.Rd | 17 ++- gtable-0.2.0/gtable/man/gtable_add_space.Rd | 16 ++- gtable-0.2.0/gtable/man/gtable_col.Rd | 32 +++---- gtable-0.2.0/gtable/man/gtable_filter.Rd | 33 +++---- gtable-0.2.0/gtable/man/gtable_height.Rd | 9 +- gtable-0.2.0/gtable/man/gtable_matrix.Rd | 41 ++++----- gtable-0.2.0/gtable/man/gtable_row.Rd | 32 +++---- gtable-0.2.0/gtable/man/gtable_show_layout.Rd | 8 + gtable-0.2.0/gtable/man/gtable_spacer.Rd | 12 +- gtable-0.2.0/gtable/man/gtable_trim.Rd | 9 +- gtable-0.2.0/gtable/man/gtable_width.Rd | 9 +- gtable-0.2.0/gtable/man/is.gtable.Rd | 8 + gtable-0.2.0/gtable/man/print.gtable.Rd | 12 +- gtable-0.2.0/gtable/man/z_arrange_gtables.Rd | 17 ++- gtable-0.2.0/gtable/man/z_normalise.Rd | 19 ++-- gtable-0.2.0/gtable/tests/testthat |only gtable-0.2.0/gtable/tests/testthat.R |only 41 files changed, 452 insertions(+), 432 deletions(-)
Title: Methods for Changepoint Detection
Description: Implements various mainstream and specialised changepoint methods for finding single and multiple changepoints within data. Many popular non-parametric and frequentist methods are included. The cpt.mean(), cpt.var(), cpt.meanvar() functions should be your first point of call.
Author: Rebecca Killick [aut, cre],
Kaylea Haynes [aut],
Idris Eckley [ths, aut],
Paul Fearnhead [ctb, ths],
Jamie Lee [ctr]
Maintainer: Rebecca Killick <r.killick@lancs.ac.uk>
Diff between changepoint versions 2.2 dated 2015-11-09 and 2.2.1 dated 2016-02-26
DESCRIPTION | 12 ++--- MD5 | 14 ++--- NEWS | 9 +++ R/PELT_one_func_minseglen.R | 8 +-- R/cpt.class.R | 4 - R/range_of_penalties.R | 73 ++---------------------------- R/single.norm.R | 105 ++++++++++++++++++-------------------------- man/changepoint-package.Rd | 4 - 8 files changed, 81 insertions(+), 148 deletions(-)
Title: Community Ecology Package
Description: Ordination methods, diversity analysis and other
functions for community and vegetation ecologists.
Author: Jari Oksanen, F. Guillaume Blanchet, Roeland Kindt, Pierre Legendre,
Peter R. Minchin, R. B. O'Hara, Gavin L. Simpson, Peter Solymos,
M. Henry H. Stevens, Helene Wagner
Maintainer: Jari Oksanen <jari.oksanen@oulu.fi>
Diff between vegan versions 2.3-3 dated 2016-01-12 and 2.3-4 dated 2016-02-26
vegan-2.3-3/vegan/inst/doc/FAQ-vegan.pdf |only vegan-2.3-3/vegan/inst/doc/NEWS.html |only vegan-2.3-3/vegan/vignettes/.install_extras |only vegan-2.3-3/vegan/vignettes/FAQ-vegan.pdf |only vegan-2.3-3/vegan/vignettes/FAQ-vegan.texi |only vegan-2.3-3/vegan/vignettes/Makefile |only vegan-2.3-3/vegan/vignettes/NEWS.html |only vegan-2.3-3/vegan/vignettes/decision-vegan.tex |only vegan-2.3-3/vegan/vignettes/diversity-vegan.tex |only vegan-2.3-3/vegan/vignettes/intro-vegan.tex |only vegan-2.3-4/vegan/DESCRIPTION | 15 ++-- vegan-2.3-4/vegan/MD5 | 62 ++++++++--------- vegan-2.3-4/vegan/NAMESPACE | 3 vegan-2.3-4/vegan/R/betadiver.R | 2 vegan-2.3-4/vegan/R/linestack.R | 9 +- vegan-2.3-4/vegan/R/simper.R | 4 - vegan-2.3-4/vegan/R/vegandocs.R | 37 +++------- vegan-2.3-4/vegan/build/vignette.rds |binary vegan-2.3-4/vegan/inst/NEWS.Rd | 53 ++++++++++++++ vegan-2.3-4/vegan/inst/doc/FAQ-vegan.R |only vegan-2.3-4/vegan/inst/doc/FAQ-vegan.Rmd |only vegan-2.3-4/vegan/inst/doc/FAQ-vegan.html |only vegan-2.3-4/vegan/inst/doc/decision-vegan.pdf |binary vegan-2.3-4/vegan/inst/doc/diversity-vegan.pdf |binary vegan-2.3-4/vegan/inst/doc/intro-vegan.pdf |binary vegan-2.3-4/vegan/inst/doc/partitioning.R |only vegan-2.3-4/vegan/inst/doc/partitioning.Rnw |only vegan-2.3-4/vegan/inst/doc/partitioning.pdf |binary vegan-2.3-4/vegan/man/cca.Rd | 4 - vegan-2.3-4/vegan/man/diversity.Rd | 12 +-- vegan-2.3-4/vegan/man/nestedtemp.Rd | 2 vegan-2.3-4/vegan/man/oecosimu.Rd | 3 vegan-2.3-4/vegan/man/plot.cca.Rd | 7 + vegan-2.3-4/vegan/man/simper.Rd | 4 - vegan-2.3-4/vegan/man/specpool.Rd | 23 +++--- vegan-2.3-4/vegan/man/varpart.Rd | 28 +++---- vegan-2.3-4/vegan/man/vegan-package.Rd | 35 ++++----- vegan-2.3-4/vegan/man/vegandocs.Rd | 85 ++---------------------- vegan-2.3-4/vegan/vignettes/FAQ-vegan.Rmd |only vegan-2.3-4/vegan/vignettes/partitioning.Rnw |only vegan-2.3-4/vegan/vignettes/varpart23.pdf |only vegan-2.3-4/vegan/vignettes/varpart4.pdf |only 42 files changed, 176 insertions(+), 212 deletions(-)
Title: HTML Output Formats and Templates for 'rmarkdown' Documents
Description: HTML formats and templates for 'rmarkdown' documents, with some extra
features such as automatic table of contents, lightboxed figures, dynamic
crosstab helper.
Author: Julien Barnier [aut, cre]
Maintainer: Julien Barnier <julien.barnier@ens-lyon.fr>
Diff between rmdformats versions 0.1.1 dated 2015-12-09 and 0.2 dated 2016-02-26
rmdformats-0.1.1/rmdformats/inst/templates/bootstrap-3.3.1 |only rmdformats-0.2/rmdformats/DESCRIPTION | 8 rmdformats-0.2/rmdformats/MD5 | 118 +++++----- rmdformats-0.2/rmdformats/NAMESPACE | 1 rmdformats-0.2/rmdformats/NEWS | 10 rmdformats-0.2/rmdformats/R/html_clean.R | 2 rmdformats-0.2/rmdformats/R/html_dependencies.R | 32 ++ rmdformats-0.2/rmdformats/R/readthedown.R |only rmdformats-0.2/rmdformats/README.md | 30 +- rmdformats-0.2/rmdformats/build/vignette.rds |binary rmdformats-0.2/rmdformats/inst/doc/introduction.Rmd | 8 rmdformats-0.2/rmdformats/inst/doc/introduction.html | 12 - rmdformats-0.2/rmdformats/inst/rmarkdown/templates/html_clean/skeleton/skeleton.Rmd | 5 rmdformats-0.2/rmdformats/inst/rmarkdown/templates/html_clean_projecttemplate/skeleton/skeleton.Rmd | 5 rmdformats-0.2/rmdformats/inst/rmarkdown/templates/html_docco/skeleton/skeleton.Rmd | 5 rmdformats-0.2/rmdformats/inst/rmarkdown/templates/html_docco_projecttemplate/skeleton/skeleton.Rmd | 5 rmdformats-0.2/rmdformats/inst/rmarkdown/templates/readthedown |only rmdformats-0.2/rmdformats/inst/rmarkdown/templates/readthedown_projecttemplate |only rmdformats-0.2/rmdformats/inst/templates/bootstrap-3.3.6 |only rmdformats-0.2/rmdformats/inst/templates/jquery-stickytableheaders-0.1.11 |only rmdformats-0.2/rmdformats/inst/templates/readthedown |only rmdformats-0.2/rmdformats/man/html_clean.Rd | 2 rmdformats-0.2/rmdformats/man/readthedown.Rd |only rmdformats-0.2/rmdformats/vignettes/introduction.Rmd | 8 24 files changed, 156 insertions(+), 95 deletions(-)
Title: Mandallaz' Model-Assisted Small Area Estimators
Description: An S4 implementation of the unbiased extension of the model-
assisted synthetic-regression estimator proposed by
Mandallaz (2013) <DOI:10.1139/cjfr-2012-0381>,
Mandallaz et al. (2013) <DOI:10.1139/cjfr-2013-0181> and
Mandallaz (2014) <DOI:10.1139/cjfr-2013-0449>.
It yields smaller variances than the standard bias correction,
the generalised regression estimator.
Author: Andreas Dominik Cullmann [aut, cre],
Daniel Mandallaz [ctb],
Alexander Francis Massey [ctb]
Maintainer: Andreas Dominik Cullmann <r-package_masae@arcor.de>
Diff between maSAE versions 0.1-3 dated 2015-07-02 and 0.1-4 dated 2016-02-26
maSAE-0.1-3/maSAE/ChangeLog |only maSAE-0.1-3/maSAE/vignettes/Makefile |only maSAE-0.1-4/maSAE/DESCRIPTION | 26 +++++++++++++------- maSAE-0.1-4/maSAE/MD5 | 31 +++++++++++------------- maSAE-0.1-4/maSAE/NAMESPACE | 1 maSAE-0.1-4/maSAE/R/maSAE-package.R | 2 - maSAE-0.1-4/maSAE/README.md |only maSAE-0.1-4/maSAE/inst/doc/maSAE.pdf |binary maSAE-0.1-4/maSAE/man/maSAE-internal.Rd | 6 +++- maSAE-0.1-4/maSAE/man/maSAE-package.Rd | 39 +++++++++++++++---------------- maSAE-0.1-4/maSAE/man/predict-methods.Rd | 15 ++++++----- maSAE-0.1-4/maSAE/man/s0.Rd | 2 - maSAE-0.1-4/maSAE/man/s1.Rd | 2 - maSAE-0.1-4/maSAE/man/s2.Rd | 2 - maSAE-0.1-4/maSAE/man/saObj.Rd | 8 +++--- maSAE-0.1-4/maSAE/man/sadObj-class.Rd | 3 +- maSAE-0.1-4/maSAE/man/saeObj-class.Rd | 23 +++++++++--------- maSAE-0.1-4/maSAE/man/savObj-class.Rd | 6 +++- 18 files changed, 93 insertions(+), 73 deletions(-)
Title: Crowd Sourced System Benchmarks
Description: Benchmark your CPU and compare against other CPUs. Also provides
functions for obtaining system specifications, such as
RAM, CPU type, and R version.
Author: Colin Gillespie [aut, cre]
Maintainer: Colin Gillespie <csgillespie@gmail.com>
Diff between benchmarkme versions 0.2.2 dated 2016-02-24 and 0.2.3 dated 2016-02-26
DESCRIPTION | 12 +++--- MD5 | 24 ++++++------ NEWS.md |only R/clean_ram_output.R |only R/get_cpu.R | 23 ++++++++++-- R/get_ram.R | 80 ++++++++++++++++++------------------------- R/plot_results.R | 2 - build/vignette.rds |binary inst/doc/a_introduction.Rmd | 12 +++--- inst/doc/a_introduction.html | 12 +++--- man/get_cpu.Rd | 5 ++ man/get_ram.Rd | 7 +++ tests/testthat/test-ram.R | 12 +++--- vignettes/a_introduction.Rmd | 12 +++--- 14 files changed, 108 insertions(+), 93 deletions(-)
Title: An Individual-Based Population Genetic Simulation Environment
Description: An interface between R and the 'metasim' simulation engine.
Facilitates the use of the 'metasim' engine to build and
run individual based population genetics simulations. The
simulation environment is documented in: Allan
Strand. Metasim 1.0: an individual-based environment for
simulating population genetics of complex population
dynamics. Mol. Ecol. Notes, 2:373-376, 2002. (Please
contact Allan Strand with comments, bug reports, etc).
This version represents a significant alteration of
function names that hopefully increases consistency and
reduces the chances of collisions with other packages
naming conventions. For a spatially-explicit, but slower, package
with a similar interface, see 'kernelPop'.
Author: Allan Strand <stranda@cofc.edu>,
James Niehaus
Maintainer: Allan Strand <stranda@cofc.edu>
Diff between rmetasim versions 2.0.4 dated 2014-06-01 and 2.0.4.1 dated 2016-02-26
DESCRIPTION | 14 +++++++------- MD5 | 8 ++++---- NAMESPACE | 4 ++++ src/Eigen.h | 5 +---- src/rmetasim.h | 2 -- 5 files changed, 16 insertions(+), 17 deletions(-)
Title: R binding for cppbugs
Description: R binding for cppbugs
Author: Whit Armstrong <armstrong.whit@gmail.com>
Maintainer: Whit Armstrong <armstrong.whit@gmail.com>
Diff between rcppbugs versions 0.1.4.1 dated 2014-05-02 and 0.1.4.2 dated 2016-02-26
DESCRIPTION | 6 +++--- MD5 | 4 ++-- src/mcmc.rng.h | 3 ++- 3 files changed, 7 insertions(+), 6 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2011-12-11 1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2012-11-11 0.7-3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-07-23 0.2-2
2015-03-03 0.2-1
2014-08-22 0.2-0
2013-03-14 0.1-0
Title: Extra Themes, Scales and Geoms for 'ggplot2'
Description: Some extra themes, geoms, and scales for 'ggplot2'.
Provides 'ggplot2' themes and scales that replicate the look of plots
by Edward Tufte, Stephen Few, 'Fivethirtyeight', 'The Economist', 'Stata',
'Excel', and 'The Wall Street Journal', among others.
Provides 'geoms' for Tufte's box plot and range frame.
Author: Jeffrey B. Arnold [aut, cre],
Gergely Daroczi [ctb],
Bo Werth [ctb],
Brian Weitzner [ctb],
Joshua Kunst [ctb],
Baptise Auguie [ctb],
Bob Rudis [ctb],
Hadley Wickham [ctb, cph] (Code from the ggplot2 package.),
Justin Talbot [ctb] (Code from the labeling package)
Maintainer: Jeffrey B. Arnold <jeffrey.arnold@gmail.com>
Diff between ggthemes versions 3.0.1 dated 2016-01-10 and 3.0.2 dated 2016-02-26
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NAMESPACE | 1 + NEWS | 5 +++++ R/ggthemes-data.R | 1 + inst/doc/ggthemes.html | 29 ++++++++++++++--------------- man/geom_rangeframe.Rd | 34 +++++++++++++++++++--------------- man/geom_tufteboxplot.Rd | 34 +++++++++++++++++++--------------- man/stat_fivenumber.Rd | 35 ++++++++++++++++++++++++----------- 9 files changed, 94 insertions(+), 67 deletions(-)
Title: Propensity Score Matching of Non-Binary Treatments
Description: Propensity score matching for non-binary treatments.
Author: Jason Bryer <jason@bryer.org>
Maintainer: Jason Bryer <jason@bryer.org>
Diff between TriMatch versions 0.9.6 dated 2015-12-15 and 0.9.7 dated 2016-02-26
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NAMESPACE | 3 +++ NEWS | 15 +++++++++++++++ R/plot.triangle.psa.R | 4 ++-- R/plot.utils.R | 3 +++ man/plot.triangle.psa.Rd | 2 +- 7 files changed, 34 insertions(+), 13 deletions(-)
Title: R Interface for China National Data
Description: R interface for china national data http://data.stats.gov.cn/,
some convenient functions for accessing the national data are provided.
Author: Xuehui YANG
Maintainer: Xuehui YANG <jianghang@bagualu.net>
Diff between rstatscn versions 1.0.1 dated 2016-02-25 and 1.0.2 dated 2016-02-26
DESCRIPTION | 8 ++++---- MD5 | 5 +++-- NEWS.md | 7 +++++++ README.md |only 4 files changed, 14 insertions(+), 6 deletions(-)
Title: Bootstrapping for Propensity Score Analysis
Description: Bootstrapping for propensity score analysis and matching.
Author: Jason Bryer <jason@bryer.org>
Maintainer: Jason Bryer <jason@bryer.org>
Diff between PSAboot versions 1.1.3 dated 2015-11-04 and 1.1.4 dated 2016-02-26
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- R/balance.boxplot.R | 2 +- R/balance.plot.R | 4 ++-- R/plot.PSAboot.R | 2 +- build/vignette.rds |binary inst/doc/MatchingOrder.html | 8 ++++---- vignettes/PSAboot.Rmd | 15 ++++++++------- 8 files changed, 28 insertions(+), 27 deletions(-)
Title: Tools for Interacting with the Brazilian Flora 2020
Description: Tools to quickly compile taxonomic and distribution data from
the Brazilian Flora 2020 at http://floradobrasil.jbrj.gov.br/.
Author: Gustavo Carvalho
Maintainer: Gustavo Carvalho <gustavo.bio@gmail.com>
Diff between flora versions 0.2.4 dated 2015-03-20 and 0.2.7 dated 2016-02-26
DESCRIPTION | 17 +++++++++------- MD5 | 47 +++++++++++++++++++++++++--------------------- NAMESPACE | 6 ++++- NEWS | 25 ++++++++++++++++++++++++ R/df2phytaxa.R |only R/get.taxa.R | 41 ++++++++++++++++++++++++++++------------ R/help.R | 3 +- R/sysdata.rda |binary data/plants.rda |binary inst/plantminer/server.R | 22 ++++++++++----------- inst/plantminer/shinyapps |only inst/plantminer/ui.R | 6 ++--- man/df2phytaxa.Rd |only man/fixCase.Rd | 2 - man/flora.Rd | 2 - man/get.taxa.Rd | 16 ++++++++------- man/lower.taxa.Rd | 2 - man/occurrence.Rd | 2 - man/plants.Rd | 2 - man/remove.authors.Rd | 2 - man/standardize.names.Rd | 2 - man/suggest.names.Rd | 10 ++++----- man/trim.Rd | 2 - man/vernacular.Rd | 2 - man/web.flora.Rd | 2 - tests |only 26 files changed, 135 insertions(+), 78 deletions(-)
Title: Search and Retrieve Scientific Publication Records from Pubmed
Description: Query NCBI Entrez and retrieve PubMed records in XML format. A large number of records can be easily downloaded via this simple-to-use interface to the NCBI PubMed API.
Author: Damiano Fantini
Maintainer: Damiano Fantini <damiano.fantini@gmail.com>
Diff between easyPubMed versions 1.3 dated 2016-01-06 and 1.5 dated 2016-02-26
easyPubMed-1.3/easyPubMed/R/fetchPubmedData.R |only easyPubMed-1.3/easyPubMed/R/getPubmedIds.R |only easyPubMed-1.3/easyPubMed/man/fetchPubmedData.Rd |only easyPubMed-1.3/easyPubMed/man/getPubmedIds.Rd |only easyPubMed-1.5/easyPubMed/DESCRIPTION | 14 ++-- easyPubMed-1.5/easyPubMed/MD5 | 17 +++-- easyPubMed-1.5/easyPubMed/NAMESPACE | 3 - easyPubMed-1.5/easyPubMed/R/batch_pubmed_download.R |only easyPubMed-1.5/easyPubMed/R/easyPubMed-internal.R |only easyPubMed-1.5/easyPubMed/R/fetch_pubmed_data.R |only easyPubMed-1.5/easyPubMed/R/get_pubmed_ids.R |only easyPubMed-1.5/easyPubMed/man/batch_pubmed_download.Rd |only easyPubMed-1.5/easyPubMed/man/easyPubMed-package.Rd | 50 ++++------------- easyPubMed-1.5/easyPubMed/man/fetch_pubmed_data.Rd |only easyPubMed-1.5/easyPubMed/man/get_pubmed_ids.Rd |only 15 files changed, 32 insertions(+), 52 deletions(-)
Title: Fit Continuous-Time Correlated Random Walk Models to Animal
Movement Data
Description: The Correlated Random Walk Library of
R functions was designed for fitting continuous-time
correlated random walk models with time indexed
covariates. The model is fit using the Kalman-filter on
a state space version of the continuous-time stochastic
movement process.
Author: Devin S. Johnson
Maintainer: Devin S. Johnson <devin.johnson@noaa.gov>
Diff between crawl versions 1.5 dated 2015-08-20 and 2.0 dated 2016-02-26
crawl-1.5/crawl/R/logSpeed.R |only crawl-1.5/crawl/man/crwUseGrid.Rd |only crawl-1.5/crawl/man/logSpeed.Rd |only crawl-1.5/crawl/src/crwDriftN2ll.f90 |only crawl-1.5/crawl/src/crwDriftPredict.f90 |only crawl-1.5/crawl/src/crwDriftSimulate.f90 |only crawl-1.5/crawl/src/crwN2ll.f90 |only crawl-1.5/crawl/src/crwPredict.f90 |only crawl-1.5/crawl/src/crwSimulate.f90 |only crawl-2.0/crawl/DESCRIPTION | 27 +- crawl-2.0/crawl/MD5 | 110 +++++--- crawl-2.0/crawl/NAMESPACE | 15 - crawl-2.0/crawl/R/AllMethod.R | 45 +-- crawl-2.0/crawl/R/RcppExports.R |only crawl-2.0/crawl/R/argosDiag2Cov.R |only crawl-2.0/crawl/R/crawl-internal.R | 47 --- crawl-2.0/crawl/R/crawl-package.R | 89 ++++-- crawl-2.0/crawl/R/crwMLE.R | 369 +++++++++++++---------------- crawl-2.0/crawl/R/crwN2ll.R | 126 ++++----- crawl-2.0/crawl/R/crwPostIS.R | 210 +++++++--------- crawl-2.0/crawl/R/crwPredict.R | 334 ++++++++++---------------- crawl-2.0/crawl/R/crwPredictPlot.R | 1 crawl-2.0/crawl/R/crwSamplePar.R | 269 ++++++++++----------- crawl-2.0/crawl/R/crwSimulator.R | 126 ++++----- crawl-2.0/crawl/R/crwUseGrid.R | 66 ++--- crawl-2.0/crawl/R/displayPar.R | 78 +++--- crawl-2.0/crawl/R/getQ.R | 1 crawl-2.0/crawl/R/print.crwFit.R |only crawl-2.0/crawl/R/run_shiny_apps.R |only crawl-2.0/crawl/build |only crawl-2.0/crawl/data/beardedSeals.rda |only crawl-2.0/crawl/data/harborSeal.rda |binary crawl-2.0/crawl/data/northernFurSeal.rda |binary crawl-2.0/crawl/demo/00Index | 5 crawl-2.0/crawl/demo/harborSeal.R | 88 +++--- crawl-2.0/crawl/demo/harborSealSmooth.R |only crawl-2.0/crawl/demo/northernFurSeal.R | 71 ++--- crawl-2.0/crawl/inst |only crawl-2.0/crawl/man/aic.crw.Rd | 2 crawl-2.0/crawl/man/argosDiag2Cov.Rd |only crawl-2.0/crawl/man/as.flat.Rd | 2 crawl-2.0/crawl/man/beardedSeals.Rd |only crawl-2.0/crawl/man/check_csv.Rd |only crawl-2.0/crawl/man/crawl-package.Rd | 25 + crawl-2.0/crawl/man/crwMLE.Rd | 54 +--- crawl-2.0/crawl/man/crwN2ll.Rd | 35 +- crawl-2.0/crawl/man/crwPostIS.Rd | 2 crawl-2.0/crawl/man/crwPredict.Rd | 29 -- crawl-2.0/crawl/man/crwPredictPlot.Rd | 2 crawl-2.0/crawl/man/crwSamplePar.Rd | 2 crawl-2.0/crawl/man/crwSimulator.Rd | 2 crawl-2.0/crawl/man/displayPar.Rd | 20 - crawl-2.0/crawl/man/expandPred.Rd | 4 crawl-2.0/crawl/man/fillCols.Rd | 3 crawl-2.0/crawl/man/flatten.Rd |only crawl-2.0/crawl/man/harborSeal.Rd | 12 crawl-2.0/crawl/man/intToPOSIX.Rd | 3 crawl-2.0/crawl/man/mergeTrackStop.Rd | 5 crawl-2.0/crawl/man/northernFurSeal.Rd | 6 crawl-2.0/crawl/src/CTCRWN2LL.cpp |only crawl-2.0/crawl/src/CTCRWN2LL_DRIFT.cpp |only crawl-2.0/crawl/src/CTCRWPREDICT.cpp |only crawl-2.0/crawl/src/CTCRWPREDICT_DRIFT.cpp |only crawl-2.0/crawl/src/CTCRWSAMPLE.cpp |only crawl-2.0/crawl/src/CTCRWSAMPLE_DRIFT.cpp |only crawl-2.0/crawl/src/Makevars |only crawl-2.0/crawl/src/Makevars.win |only crawl-2.0/crawl/src/RcppExports.cpp |only crawl-2.0/crawl/src/SMM_MATS.cpp |only crawl-2.0/crawl/vignettes |only 70 files changed, 1094 insertions(+), 1191 deletions(-)