A B C D E F G H I J L M N O P Q R S T U V W X Y Z

M

main(String[]) - Static method in class sc.fiji.snt.analysis.graph.GraphUtils

main(String...) - Static method in class sc.fiji.snt.analysis.MultiTreeColorMapper

main(String[]) - Static method in class sc.fiji.snt.analysis.PathProfiler

main(String...) - Static method in class sc.fiji.snt.analysis.sholl.TreeParser

main(String[]) - Static method in class sc.fiji.snt.analysis.TreeAnalyzer

main(String...) - Static method in class sc.fiji.snt.analysis.TreeColorMapper

main(String[]) - Static method in class sc.fiji.snt.analysis.TreeStatistics

main(String[]) - Static method in class sc.fiji.snt.annotation.AllenUtils

main(String[]) - Static method in class sc.fiji.snt.annotation.VFBUtils

main(String[]) - Static method in class sc.fiji.snt.FillManagerUI

main(String...) - Static method in class sc.fiji.snt.gui.cmds.ChooseDatasetCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.ColorMapReconstructionCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.CompareFilesCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.ComputeSecondaryImg

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.ComputeTubenessImg

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.CustomizeObjCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.CustomizeTreeCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.DistributionCmd

main(String...) - Static method in class sc.fiji.snt.gui.cmds.EnableSciViewUpdateSiteCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.JSONImporterCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.LoadObjCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.LoadReconstructionCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.MLImporterCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.MultiSWCImporterCmd

main(String...) - Static method in class sc.fiji.snt.gui.cmds.OpenDatasetCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.PathFitterCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.PrefsCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.ReconstructionViewerCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.RecViewerPrefsCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.RemoteSWCImporterCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.ShowCorrespondencesCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.SNTLegacyLoaderCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.SNTLoaderCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.SWCTypeFilterCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.SWCTypeOptionsCmd

main(String[]) - Static method in class sc.fiji.snt.gui.cmds.TranslateReconstructionsCmd

main(String[]) - Static method in class sc.fiji.snt.gui.ColorChooserButton

main(String[]) - Static method in class sc.fiji.snt.gui.ColorMenu

main(String[]) - Static method in class sc.fiji.snt.gui.PathManagerUISearchableBar

main(String[]) - Static method in class sc.fiji.snt.hyperpanes.MultiDThreePanes

main(String...) - Static method in class sc.fiji.snt.io.FlyCircuitLoader

main(String...) - Static method in class sc.fiji.snt.io.MouseLightLoader

main(String...) - Static method in class sc.fiji.snt.io.MouseLightQuerier

main(String...) - Static method in class sc.fiji.snt.io.NeuroMorphoLoader

main(String[]) - Static method in class sc.fiji.snt.PathManagerUI

main(String...) - Static method in class sc.fiji.snt.plugin.CallLegacyShollPlugin

main(String[]) - Static method in class sc.fiji.snt.plugin.LocalThicknessCmd

main(String[]) - Static method in class sc.fiji.snt.plugin.PlotterCmd

main(String[]) - Static method in class sc.fiji.snt.plugin.ROIExporterCmd

main(String[]) - Static method in class sc.fiji.snt.plugin.ShollAnalysisPlugin

Deprecated.

main(String...) - Static method in class sc.fiji.snt.plugin.ShollTracingsCmd

main(String[]) - Static method in class sc.fiji.snt.plugin.SkeletonizerCmd

main(String[]) - Static method in class sc.fiji.snt.plugin.TreeMapperCmd

main(String[]) - Static method in class sc.fiji.snt.SciViewSNT

main(String...) - Static method in class sc.fiji.snt.viewer.MultiViewer2D

main(String...) - Static method in class sc.fiji.snt.viewer.Viewer2D

main(String[]) - Static method in class sc.fiji.snt.viewer.Viewer3D

makePalette(int, int, int, int, int, int, double[], int, int, int) - Method in class sc.fiji.snt.gui.SigmaPalette

Displays the Sigma wizard in a separate thread.

makePathVolume(Collection<Path>) - Method in class sc.fiji.snt.SNT

makePathVolume() - Method in class sc.fiji.snt.SNT

makeShollCrossingsImagePlus(ImagePlus) - Method in class sc.fiji.snt.gui.ShollAnalysisDialog.ShollResults

Deprecated.

ManualTracerThread - Class in sc.fiji.snt

A tracer thread for manual tracing.

ManualTracerThread(SNT, double, double, double, double, double, double) - Constructor for class sc.fiji.snt.ManualTracerThread

map(String, ColorTable) - Method in class sc.fiji.snt.analysis.ColorMapper

map(String, ColorTable) - Method in class sc.fiji.snt.analysis.MultiTreeColorMapper

map(Tree, LinearProfileStats, ColorTable) - Method in class sc.fiji.snt.analysis.TreeColorMapper

Colorizes a tree using Sholl data.

map(Tree, String, ColorTable) - Method in class sc.fiji.snt.analysis.TreeColorMapper

Colorizes a tree after the specified measurement.

map(Tree, String, String) - Method in class sc.fiji.snt.analysis.TreeColorMapper

Colorizes a tree after the specified measurement.

mapRootDistanceToCentroid(AllenCompartment, ColorTable) - Method in class sc.fiji.snt.analysis.MultiTreeColorMapper

mapTrees(List<Tree>, String) - Method in class sc.fiji.snt.analysis.TreeColorMapper

Colorizes a list of trees, with each tree being assigned a LUT index.

maximumDistanceCompletelyExplored(SearchThread, float) - Method in class sc.fiji.snt.FillManagerUI

MAXRADIUS_KEY - Static variable in class sc.fiji.snt.gui.cmds.PathFitterCmd

MEAN_RADIUS - Static variable in class sc.fiji.snt.analysis.TreeAnalyzer

Flag for "Path mean radius" analysis.

MEAN_RADIUS - Static variable in class sc.fiji.snt.analysis.TreeColorMapper

Flag for "Path mean radius" mapping.

merge(Tree) - Method in class sc.fiji.snt.Tree

Appends all paths of a specified Tree to this one.

mergeAnnotations(Collection<Annotation3D>, String) - Method in class sc.fiji.snt.viewer.Viewer3D

Merges a collection of annotations into a single object.

metric - Variable in class sc.fiji.snt.Fill

micrometer() - Static method in class sc.fiji.snt.gui.GuiUtils

MIDPOINTS - Static variable in class sc.fiji.snt.PathFitter

Flag specifying that the computed path should only inherit midpoint refinement of node coordinates

MLImporterCmd - Class in sc.fiji.snt.gui.cmds

Command for importing MouseLight reconstructions

MLImporterCmd() - Constructor for class sc.fiji.snt.gui.cmds.MLImporterCmd

modKey() - Static method in class sc.fiji.snt.gui.GuiUtils

MouseLightLoader - Class in sc.fiji.snt.io

Methods for retrieving reconstructions from MouseLight's online database at ml-neuronbrowser.janelia.org *

MouseLightLoader(String) - Constructor for class sc.fiji.snt.io.MouseLightLoader

Instantiates a new loader.

MouseLightQuerier - Class in sc.fiji.snt.io

Importer for retrieving reconstructions from MouseLight's online database at ml-neuronbrowser.janelia.org

MouseLightQuerier(String) - Constructor for class sc.fiji.snt.io.MouseLightQuerier

Instantiates a new loader.

mouseMovedTo(double, double, int, boolean) - Method in class sc.fiji.snt.hyperpanes.MultiDThreePanes

mouseMovedTo(double, double, int, boolean) - Method in interface sc.fiji.snt.hyperpanes.PaneOwner

mouseMovedTo(double, double, int, boolean, boolean) - Method in class sc.fiji.snt.SNT

moveNode(int, PointInImage) - Method in class sc.fiji.snt.Path

Assigns a new location to the specified node.

MultiDThreePanes - Class in sc.fiji.snt.hyperpanes

Convenience class defining methods common to SNT's XY, XZ, and ZY panes

MultiDThreePanes() - Constructor for class sc.fiji.snt.hyperpanes.MultiDThreePanes

MultiDThreePanesCanvas - Class in sc.fiji.snt.hyperpanes

MultiSWCImporterCmd - Class in sc.fiji.snt.gui.cmds

Command for importing a folder of SWC files.

MultiSWCImporterCmd() - Constructor for class sc.fiji.snt.gui.cmds.MultiSWCImporterCmd

MultiTreeColorMapper - Class in sc.fiji.snt.analysis

Class for color coding groups of Trees.

MultiTreeColorMapper(Collection<Tree>) - Constructor for class sc.fiji.snt.analysis.MultiTreeColorMapper

Instantiates the MultiTreeColorMapper.

MultiViewer2D - Class in sc.fiji.snt.viewer

Class for rendering Trees as 2D plots that can be exported as SVG, PNG or PDF.

MultiViewer2D(List<Viewer2D>) - Constructor for class sc.fiji.snt.viewer.MultiViewer2D

myOffScreenX(int) - Method in class sc.fiji.snt.hyperpanes.MultiDThreePanesCanvas

Converts a screen x-coordinate to an offscreen (image) x-coordinate.

myOffScreenXD(int) - Method in class sc.fiji.snt.hyperpanes.MultiDThreePanesCanvas

Converts a screen x-coordinate to a floating-point offscreen (image) x-coordinate.

myOffScreenY(int) - Method in class sc.fiji.snt.hyperpanes.MultiDThreePanesCanvas

Converts a screen y-coordinate to an offscreen (image) y-coordinate.

myOffScreenYD(int) - Method in class sc.fiji.snt.hyperpanes.MultiDThreePanesCanvas

Converts a screen y-coordinate to a floating-point offscreen (image) y-coordinate.

myScreenX(int) - Method in class sc.fiji.snt.hyperpanes.MultiDThreePanesCanvas

Converts an offscreen (image) x-coordinate to a screen x-coordinate.

myScreenXD(double) - Method in class sc.fiji.snt.hyperpanes.MultiDThreePanesCanvas

Converts a floating-point offscreen (image) x-coordinate to a screen x-coordinate.

myScreenXDprecise(double) - Method in class sc.fiji.snt.hyperpanes.MultiDThreePanesCanvas

Converts an offscreen (image) x-coordinate to a screen x-coordinate with floating-point precision.

myScreenY(int) - Method in class sc.fiji.snt.hyperpanes.MultiDThreePanesCanvas

Converts an offscreen (image) y-coordinate to a screen y-coordinate.

myScreenYD(double) - Method in class sc.fiji.snt.hyperpanes.MultiDThreePanesCanvas

Converts a floating-point offscreen (image) x-coordinate to a screen x-coordinate.

myScreenYDprecise(double) - Method in class sc.fiji.snt.hyperpanes.MultiDThreePanesCanvas

Converts an offscreen (image) y-coordinate to a screen y-coordinate with floating-point precision.

A B C D E F G H I J L M N O P Q R S T U V W X Y Z