API for caitlinjones/halo
Development version of the package 'halo', which analyzes and visualizes Halo data

Global functions
DATE Source code
addMedianErrorBarValues Man page Source code
addMissingMarkers Man page Source code Source code
addNegatives Source code
areaBB Source code
assignCellType Man page Source code
boundaryToSpatialPolygon Source code
boundingBoxToPath Source code
boundingBoxToRect Source code
calculateAreaTotalFOV Man page Source code
calculateBandAreas Man page Source code
calculateDensity Man page
calculateFOVStats Man page Source code
calculateInfiltrationDensity Man page Source code
calculateInterfaceArea Man page Source code
calculateMarkerDensityTotalFOV Man page Source code
cc Source code
cellDive.calculateInfiltrationArea Man page Source code
cellDive.calculateInfiltrationDensity Man page Source code
cellDive.calculateTotalFOVarea Man page Source code
cellDive.calculateTotalFOVdensity Man page Source code
cellDive.fillInMarkerComboInterpretations Man page Source code
cellDive.getAllBoundaryAnnotations Man page Source code
cellDive.loadAllData Man page Source code
cellDive.markExclusions Man page Source code
cellDive.updateManifest Man page Source code
cellDive.writeMarkerComboTables Man page Source code
cleanBoundaries Man page Source code
cleanBoundaries_OLD Man page Source code
cleanData Man page Source code Source code
cleanMarkers Man page Source code Source code
clipSPBoundaryToBB Source code
clipSPBoundaryToBBWithDraw Source code
computeBandAreasMC Man page Source code
computeMultiMarkerTable Source code Source code
configureStudy Man page Source code
convertBoundaryFilePaths Man page Source code
convertCellMinMaxToMidpoints Man page Source code
countMarkers Man page Source code Source code
densityBoxPlots Man page Source code
distance Man page Source code
drawBoundaries Source code
drawBoundary Source code
drawBoundingBox Source code
expandClippedPathToOuterBox Source code
findDistanceFromPointsToInterfacePoint Source code
flattenMetaData Man page Source code
g_legend Man page Source code
generateSobolGrid Man page Source code
getAllCellTypeCombinations Man page Source code
getAllCombos Man page Source code
getAllDensityValues Man page Source code
getAllHaloAnnotations Source code
getAllInfiltrationDensityValues Man page Source code
getAreaPerBand Man page Source code
getBandAssignments Man page Source code
getBorderPaddingExclusions Man page Source code
getBoundingBox Man page Source code
getBoundingBoxL Man page Source code
getCellTypes Man page Source code
getComplexMarkerCombos Man page Source code
getContours Source code
getCustomColors Man page Source code
getDriftExclusions Source code
getHaloExclusions Man page Source code
getInfiltrationDensitySummary Man page Source code
getLegend Man page Source code
getMarkerColors Man page Source code
getMarkerConfig Man page Source code
getMarkerDensityTable Man page Source code
getPlotTheme Man page Source code
getSDIR Source code
getSampleFromFileName Man page Source code
getSheetOrder Man page Source code Source code
getStudyExclusions Man page Source code
getTemplateCellTypeConfig Man page Source code
getTemplateMarkerConfig Man page
getTemplatePlotConfig Man page Source code
getTemplateStudyConfig Man page Source code
getTotalDensityFillColors Man page Source code
getTotalDensityPlots Man page Source code
getTotalSampleDensitySummary Source code
gridArrangeSharedLegend Source code
initializeProject Man page Source code
interfaceSide Source code
interpretMarkerCombos Man page Source code
intersectWithBoundingBox Source code
joinBandArea Man page Source code
joinBoundingBoxes Man page Source code
len Source code
loadHalo Man page Source code Source code
logParams Man page Source code
markExclusions Man page Source code
markerComboCounts Man page Source code
markerComboWorkbook Man page Source code
markerComboXLSX Man page Source code
markerStatsFile Man page Source code Source code
markerStringToPredicate Man page Source code
markerStringToSelectRE Source code
medianRow Man page Source code Source code
padBoundingBox Source code
parseAnnotationXML Man page Source code
plotCellTypeLocations Man page Source code
plotExclusions Man page Source code
plotFOV Source code
plotFOV0 Source code
plotFOV1 Source code
plotInfiltrationDensity Man page Source code
plotMarkerPercentages Man page Source code
plotTotalFOVMarkerDensity Source code
pointsInPolygon Source code
pointsInsidePolygonList Source code
printDensityPlots Man page
printInfiltrationDensityPlots Man page Source code
printTotalDensityPlots Man page Source code
projectFileName Man page Source code
readHaloAnnotations Man page Source code
removeExcludedPoints Man page Source code
removeExtraMarkers Man page Source code Source code
removeLegend Man page Source code
removeNegativeMarkers Source code
splitByFov Man page Source code
subDivideLongSegments Source code
theta Man page Source code
trimDFToBB Source code
trimImage Man page Source code Source code
tty.width Source code
validateConfig Source code
validateExclusions Source code
validateSingleFOVFile Man page Source code Source code
write.xls Source code
writeExclusionReasons Man page Source code
writeXLSXsheet Man page Source code Source code
caitlinjones/halo documentation built on Aug. 7, 2018, 7:43 a.m.