| Package | Description |
|---|---|
| sc.fiji.snt |
SNT core classes
|
| sc.fiji.snt.analysis |
Analysis of
Trees. |
| sc.fiji.snt.analysis.graph |
Classes for handling neuronal reconstructions as graphs
|
| sc.fiji.snt.annotation |
Classes handling neuropil annotations and atlases metadata.
|
| sc.fiji.snt.viewer.geditor |
| Modifier and Type | Method and Description |
|---|---|
DirectedWeightedGraph |
Tree.getGraph()
Assembles a DirectedGraph from this Tree.
|
DirectedWeightedGraph |
Tree.getGraph(boolean simplify)
Assembles a DirectedGraph from this Tree.
|
| Modifier and Type | Method and Description |
|---|---|
static PathAndFillManager |
PathAndFillManager.createFromGraph(DirectedWeightedGraph graph,
boolean keepTreePathStructure)
Create a new PathAndFillManager instance from the graph.
|
protected void |
PathAndFillManager.importGraph(DirectedWeightedGraph graph) |
protected void |
PathAndFillManager.importGraphWithPathStructure(DirectedWeightedGraph graph) |
void |
SNTService.loadGraph(DirectedWeightedGraph graph) |
| Constructor and Description |
|---|
Tree(DirectedWeightedGraph graph,
String label) |
Tree(DirectedWeightedGraph graph,
String label,
boolean keepTreePathStructure) |
| Modifier and Type | Method and Description |
|---|---|
DirectedWeightedGraph |
StrahlerAnalyzer.getGraph() |
| Modifier and Type | Method and Description |
|---|---|
List<DirectedWeightedGraph> |
SkeletonConverter.getGraphs()
Generates a list of
DirectedWeightedGraphs from the skeleton image. |
| Modifier and Type | Method and Description |
|---|---|
static void |
StrahlerAnalyzer.classify(DirectedWeightedGraph graph,
boolean reverseOrder) |
protected static Map<BrainAnnotation,Double> |
TreeStatistics.getAnnotatedLength(DirectedWeightedGraph graph,
int level,
char lr) |
protected static Map<BrainAnnotation,double[]> |
TreeStatistics.getAnnotatedLengthsByHemisphere(DirectedWeightedGraph graph,
int level) |
| Modifier and Type | Method and Description |
|---|---|
static DirectedWeightedGraph |
GraphUtils.createGraph(Collection<SWCPoint> nodes,
boolean assignDistancesToWeights)
Deprecated.
|
static DirectedWeightedGraph |
GraphUtils.createGraph(Tree tree)
Deprecated.
|
DirectedWeightedGraph |
DirectedWeightedGraph.getSimplifiedGraph()
Returns a simplified graph in which slab nodes are removed and the graph
is represented only by root, branch nodes and leaves.
|
static DirectedWeightedGraph |
GraphUtils.getSimplifiedGraph(DirectedWeightedGraph graph)
Deprecated.
|
| Modifier and Type | Method and Description |
|---|---|
List<DirectedWeightedGraph> |
DirectedWeightedGraph.getComponents()
Return the connected components of this graph as a list of new
DirectedWeightedGraphs. |
| Modifier and Type | Method and Description |
|---|---|
static DirectedWeightedGraph |
GraphUtils.getSimplifiedGraph(DirectedWeightedGraph graph)
Deprecated.
|
static Window |
GraphUtils.show(DirectedWeightedGraph graph)
Displays a graph in SNT's "Dendrogram Viewer" featuring UI commands for
interactive visualization and export options.
|
| Constructor and Description |
|---|
DirectedWeightedSubgraph(DirectedWeightedGraph graph,
Set<SWCPoint> nodeSubset)
Creates a subgraph from a sub-set of nodes.
|
| Modifier and Type | Method and Description |
|---|---|
static void |
AllenUtils.assignHemisphereTags(DirectedWeightedGraph graph) |
static List<DirectedWeightedSubgraph> |
AllenUtils.splitByHemisphere(DirectedWeightedGraph graph) |
| Constructor and Description |
|---|
TreeGraphAdapter(DirectedWeightedGraph graph) |
TreeGraphAdapter(DirectedWeightedGraph graph,
String verticesColor) |
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