- paintIcon(Component, Graphics, int, int) - Method in class sc.fiji.snt.gui.FADerivedIcon
-
- PaneOwner - Interface in sc.fiji.snt.hyperpanes
-
- parent - Variable in class sc.fiji.snt.util.SWCPoint
-
The parent id of this node
- parse() - Method in class sc.fiji.snt.analysis.sholl.TreeParser
-
- Path - Class in sc.fiji.snt
-
This class represents a traced segment (i.e., a Path) in a
reconstruction.
- Path(double, double, double, String) - Constructor for class sc.fiji.snt.Path
-
Instantiates a new path.
- PATH_DISTANCE - Static variable in class sc.fiji.snt.analysis.TreeColorMapper
-
Flag for "Path distance to soma" mapping.
- PathAndFillManager - Class in sc.fiji.snt
-
The PathAndFillManager is responsible for importing, handling and managing of
Paths and Fills.
- PathAndFillManager() - Constructor for class sc.fiji.snt.PathAndFillManager
-
Instantiates a new PathAndFillManager using default values.
- PathAndFillManager(double, double, double, String) - Constructor for class sc.fiji.snt.PathAndFillManager
-
Instantiates a new PathAndFillManager imposing specified pixel dimensions,
which may be required for pixel operations.
- PathAndFillManager.AllPointsIterator - Class in sc.fiji.snt
-
- PathDownsampler - Class in sc.fiji.snt
-
This is an implementation of the Ramer-Douglas-Peucker algorithm for
simplifying a curve represented by line-segments, as described
here
- PathDownsampler() - Constructor for class sc.fiji.snt.PathDownsampler
-
- PathFitter - Class in sc.fiji.snt
-
Class for fitting circular cross-sections around existing nodes of a
Path in order to compute radii (node thickness) and midpoint
refinement of existing coordinates.
- PathFitter(ImagePlus, Path) - Constructor for class sc.fiji.snt.PathFitter
-
Instantiates a new PathFitter.
- PathFitter(SNT, Path) - Constructor for class sc.fiji.snt.PathFitter
-
Instantiates a new PathFitter.
- PathFitterCmd - Class in sc.fiji.snt.gui.cmds
-
- PathFitterCmd() - Constructor for class sc.fiji.snt.gui.cmds.PathFitterCmd
-
- PathManagerUI - Class in sc.fiji.snt
-
Implements the Path Manager Dialog.
- PathManagerUI(SNT) - Constructor for class sc.fiji.snt.PathManagerUI
-
Instantiates a new Path Manager Dialog.
- PathManagerUISearchableBar - Class in sc.fiji.snt.gui
-
Implements the customized SearchableBar used by
PathManagerUI,
including GUI commands for selection and morphological filtering of Paths.
- PathManagerUISearchableBar(PathManagerUI) - Constructor for class sc.fiji.snt.gui.PathManagerUISearchableBar
-
Creates PathManagerUI's SearchableBar
- PathProfiler - Class in sc.fiji.snt.analysis
-
Command to retrieve Profile plots (plots of voxel intensities values along a
Path) from reconstructions.
- PathProfiler(Tree, ImagePlus) - Constructor for class sc.fiji.snt.analysis.PathProfiler
-
Instantiates a new Profiler
- PathProfiler(Path, ImagePlus) - Constructor for class sc.fiji.snt.analysis.PathProfiler
-
Instantiates a new Profiler from a single path
- PathTransformer - Interface in sc.fiji.snt
-
Classes transforming
Paths should implement this interface.
- PAUSED - Static variable in class sc.fiji.snt.SearchThread
-
- pauseOrRestartFilling() - Method in class sc.fiji.snt.SNT
-
- pauseOrUnpause() - Method in class sc.fiji.snt.SearchThread
-
- PlotterCmd - Class in sc.fiji.snt.plugin
-
Implements Reconstruction Plotter, a command wrapper for interactively
plotting trees using
Viewer2D
- PlotterCmd() - Constructor for class sc.fiji.snt.plugin.PlotterCmd
-
- PointInCanvas - Class in sc.fiji.snt.util
-
Defines a Point in a tracing canvas in pixel coordinates.
- PointInCanvas(double, double, double) - Constructor for class sc.fiji.snt.util.PointInCanvas
-
- PointInImage - Class in sc.fiji.snt.util
-
Defines a Point in an image, a node of a traced
Path.
- PointInImage(double, double, double) - Constructor for class sc.fiji.snt.util.PointInImage
-
- POINTS_EXHAUSTED - Static variable in class sc.fiji.snt.SearchThread
-
- pointsConsideredInSearch() - Method in class sc.fiji.snt.SearchThread
-
- pointsInSearch(SearchInterface, int, int) - Method in class sc.fiji.snt.FillManagerUI
-
- pointsInSearch(SearchInterface, int, int) - Method in interface sc.fiji.snt.SearchProgressCallback
-
- pointsInSearch(SearchInterface, int, int) - Method in class sc.fiji.snt.SNT
-
- PrefsCmd - Class in sc.fiji.snt.gui.cmds
-
Command for (re)setting SNT Preferences.
- PrefsCmd() - Constructor for class sc.fiji.snt.gui.cmds.PrefsCmd
-
- preview() - Method in class sc.fiji.snt.gui.cmds.TranslateReconstructionsCmd
-
- preview() - Method in class sc.fiji.snt.plugin.ShollTracingsCmd
-
- previous - Variable in class sc.fiji.snt.Fill.Node
-
- PRIMARY_NODES_ANY - Static variable in class sc.fiji.snt.analysis.sholl.TreeParser
-
Flag for defining the profile center as the average position of root nodes
of all primary Paths.
- PRIMARY_NODES_APICAL_DENDRITE - Static variable in class sc.fiji.snt.analysis.sholl.TreeParser
-
Flag for defining the profile center as the average position of root nodes
of Paths tagged as Apical Dendrite.
- PRIMARY_NODES_AXON - Static variable in class sc.fiji.snt.analysis.sholl.TreeParser
-
Flag for defining the profile center as the average position of root nodes
of Paths tagged as Axon.
- PRIMARY_NODES_CUSTOM - Static variable in class sc.fiji.snt.analysis.sholl.TreeParser
-
Flag for defining the profile center as the average position of root nodes
of Paths tagged as Custom.
- PRIMARY_NODES_DENDRITE - Static variable in class sc.fiji.snt.analysis.sholl.TreeParser
-
Flag for defining the profile center as the average position of root nodes
of Paths tagged as (Basal) Dendrite
- PRIMARY_NODES_SOMA - Static variable in class sc.fiji.snt.analysis.sholl.TreeParser
-
Flag for defining the profile center as the average position of root nodes
of Paths tagged as Soma
- PRIMARY_NODES_UNDEFINED - Static variable in class sc.fiji.snt.analysis.sholl.TreeParser
-
Flag for defining the profile center as the average position of root nodes
of Paths tagged as Undefined
- printStatus() - Method in class sc.fiji.snt.SearchThread
-
- PROPERTIES - Static variable in class sc.fiji.snt.analysis.MultiTreeColorMapper
-
- proportionDone(double) - Method in class sc.fiji.snt.SNT
-