public class PathOrderAnalysisCmd extends TreeAnalyzer
Path Ordering analysis on a
Tree. Albeit related to reverse Horton-Strahler classification, Path
ordering is formally distinct, as it classifies Paths rather than
branches.StrahlerCmddisplayService, innerBranches, primaryBranches, statusService, table, terminalBranches, tips, tree| Constructor and Description |
|---|
PathOrderAnalysisCmd(Tree tree) |
| Modifier and Type | Method and Description |
|---|---|
void |
compute() |
void |
displayPlot() |
Map<Integer,Double> |
getBranchPointMap() |
net.imagej.plot.CategoryChart<Integer> |
getCategoryChart()
Returns the analysis chart.
|
SNTChart |
getChart()
A variant of
getCategoryChart() that returns the Analysis chart as a
SNTChart object. |
Map<Integer,Double> |
getCountMap() |
int |
getHighestPathOrder()
Gets the highest
path order of the analyzed tree |
Map<Integer,Double> |
getLengthMap() |
Map<Integer,Double> |
getRatioMap() |
void |
run()
Generates detailed summaries in which measurements are grouped by SWC-type
flags
|
void |
updateAndDisplayTable()
Updates and displays the Analyzer table.
|
getAllMetrics, getAnnotations, getAnnotations, getAvgBranchLength, getAvgContraction, getAvgFractalDimension, getAvgFragmentation, getAvgPartitionAsymmetry, getAvgRemoteBifAngle, getBranches, getBranchPoints, getBranchPoints, getCableLength, getCableLength, getCableLength, getCableLengthNorm, getCol, getDepth, getFractalDimension, getHeight, getInnerBranches, getInnerLength, getMetric, getMetricInternal, getMetrics, getMetricWithoutChecks, getNBranches, getNbranchPoints, getNbranchPointsNorm, getNextRow, getNFittedPaths, getNoSpinesOrVaricosities, getNPaths, getNtips, getNtipsNorm, getParsedTree, getPartitionAsymmetry, getPrimaryBranches, getPrimaryLength, getPrimaryPaths, getRemoteBifAngles, getShollAnalyzer, getSinglePointPaths, getSpineOrVaricosityDensity, getStrahlerAnalyzer, getStrahlerBifurcationRatio, getStrahlerNumber, getSWCTypesAsString, getTable, getTerminalBranches, getTerminalLength, getTips, getTips, getWidth, ignoreSWCType, isSameOrParentAnnotation, isValid, main, measure, measure, resetRestrictions, restrictToLength, restrictToNamePattern, restrictToOrder, restrictToSize, restrictToSWCType, setTable, setTable, summarize, summarizecancel, getCancelReason, isCanceledcontext, getContextclone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, waitsetContextpublic PathOrderAnalysisCmd(Tree tree)
public void run()
TreeAnalyzerrun in interface Runnablerun in class TreeAnalyzerTreeAnalyzer.summarize(String, boolean)public void compute()
public void updateAndDisplayTable()
TreeAnalyzerupdateAndDisplayTable in class TreeAnalyzerpublic void displayPlot()
public net.imagej.plot.CategoryChart<Integer> getCategoryChart() throws IllegalArgumentException
IllegalArgumentException - if tree contains multiple roots or loopsgetChart()public SNTChart getChart() throws IllegalArgumentException
getCategoryChart() that returns the Analysis chart as a
SNTChart object.SNTChart objectIllegalArgumentException - if tree contains multiple roots or loopspublic Map<Integer,Double> getCountMap()
compute() has not been called.public Map<Integer,Double> getBranchPointMap()
compute() has not
been called.public int getHighestPathOrder()
TreeAnalyzerpath order of the analyzed treegetHighestPathOrder in class TreeAnalyzerTreeAnalyzer.getStrahlerNumber()public Map<Integer,Double> getLengthMap()
compute() has not been called.Copyright © 2015–2021 Fiji. All rights reserved.