| Constructor and Description |
|---|
JIPipeIteratingAlgorithm(JIPipeIteratingAlgorithm other)
Copies the algorithm
|
| Modifier and Type | Class and Description |
|---|---|
class |
AnnotateWithData |
class |
MergeAnnotations
Algorithm that merges the annotations of all inputs and outputs the data with the shared annotations
|
class |
OverwriteAnnotations |
| Modifier and Type | Class and Description |
|---|---|
class |
CLIJCommandNode |
| Modifier and Type | Class and Description |
|---|---|
class |
Clij2ExecuteKernelIterating |
| Modifier and Type | Class and Description |
|---|---|
class |
ConcatenatePaths
Applies subfolder navigation to each input folder
|
class |
CopyPath
Applies subfolder navigation to each input folder
|
class |
ExportData |
class |
RelativizePaths
Applies subfolder navigation to each input folder
|
| Modifier and Type | Class and Description |
|---|---|
class |
ErodedVolumeFraction3DAlgorithm |
class |
Watershed3DSplittingAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
SetOverlay3DAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
ExportROI3DAlgorithm
Deprecated.
|
class |
ExportROI3DAlgorithm2 |
| Modifier and Type | Class and Description |
|---|---|
class |
Roi3DToLabelsAlgorithm |
class |
Roi3DToMaskAlgorithm |
class |
Roi3DToRGBAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
FilterRoi3DByOverlapAlgorithm |
class |
FilterRoi3DByStatisticsAlgorithm
Wrapper around
RoiManager |
| Modifier and Type | Class and Description |
|---|---|
class |
ExtractRoi3DRelationStatisticsAlgorithm |
class |
ExtractRoi3DStatisticsAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
SetROI3DMetadataFromTableAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
ColorRoi3DByStatisticsAlgorithm
Wrapper around
RoiManager |
| Modifier and Type | Class and Description |
|---|---|
class |
RemoveBorderRoi3DAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
SplitRoi3DIntoConnectedComponentsAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
ConstantSpotSegmentation3DAlgorithm |
class |
DifferenceSpotSegmentation3DAlgorithm |
class |
GaussianFitSpotSegmentation3DAlgorithm |
class |
IterativeThreshold3DAlgorithm |
class |
LocalMeanSpotSegmentation3DAlgorithm |
class |
SpotSegmentation3DAlgorithm |
class |
Watershed3DSegmentationAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
ConvertFilamentsToLabels2Algorithm |
class |
ConvertFilamentsToLabelsAlgorithm |
class |
ConvertFilamentsToMaskAlgorithm |
class |
ConvertFilamentsToRGBAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
RemoveBorderFilaments |
| Modifier and Type | Class and Description |
|---|---|
class |
SkeletonToSimplifiedFilamentsFijiAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
ConnectVerticesAlgorithm |
class |
ConnectVerticesFastAlgorithm |
class |
SetVertexMetadataFromImageAlgorithm |
class |
SetVertexPhysicalSizeFromImageAlgorithm |
class |
SetVertexRadiusFromImageAlgorithm |
class |
SetVertexValueFromImageAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
SetOverlayFilamentsAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
CopyFilamentsAcrossZCTAlgorithm |
class |
FixOverlapsNonBranchingAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
SpotDetectorNode |
class |
SpotsToRGBNode |
| Modifier and Type | Class and Description |
|---|---|
class |
FollowSpotsPerTrackNode |
class |
TrackingNode |
class |
TracksToRGBNode |
| Modifier and Type | Class and Description |
|---|---|
class |
ImportWekaModelFromFileAlgorithm |
class |
WekaClassification2DAlgorithm |
class |
WekaClassification3DAlgorithm |
class |
WekaTrainingLabels2DAlgorithm |
class |
WekaTrainingMask2DAlgorithm |
class |
WekaTrainingROI2DAlgorithm |
class |
WekaTrainingROI3DAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
ImageJ2OpNode |
| Modifier and Type | Class and Description |
|---|---|
class |
MacroWrapperAlgorithm
An algorithm that wraps around an ImageJ macro
|
| Modifier and Type | Class and Description |
|---|---|
class |
AnalyzeSkeleton2D3DAlgorithm |
class |
AnnotateByImageStatisticsExpressionAlgorithm
Wrapper around
RoiManager |
class |
ImageStatisticsAlgorithm
Wrapper around
RoiManager |
class |
ImageStatisticsExpressionAlgorithm
Wrapper around
RoiManager |
| Modifier and Type | Class and Description |
|---|---|
class |
BitwiseLogicalOperationAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
CopyPhysicalDimensionsBetweenImagesAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
Coloc2Node |
| Modifier and Type | Class and Description |
|---|---|
class |
BlendImagesAlgorithm |
class |
MergeChannelsAlgorithm
Wrapper around
ImageProcessor |
class |
MergeHSBChannelsAlgorithm |
class |
MergeLABChannelsAlgorithm |
class |
MergeRGBChannelsAlgorithm |
class |
OverlayImagesAlgorithm
Deprecated.
Use
BlendImagesAlgorithm instead |
class |
SplitChannelsByTableAlgorithm
Wrapper around
ChannelSplitter |
| Modifier and Type | Class and Description |
|---|---|
class |
ImageToTableColumnAlgorithm |
class |
MultipleImagesToTableAlgorithm
Algorithm that generates
ResultsTableData as histogram |
| Modifier and Type | Class and Description |
|---|---|
class |
ConvolveByImage2DAlgorithm
Wrapper around
Convolver |
| Modifier and Type | Class and Description |
|---|---|
class |
OMEImageFromImagePlus |
| Modifier and Type | Class and Description |
|---|---|
class |
StackCombinerAlgorithm |
class |
StackToDimensionMerger2Algorithm
Wrapper around
ImageProcessor |
| Modifier and Type | Class and Description |
|---|---|
class |
FFTCustomFilter |
| Constructor and Description |
|---|
FFTCustomFilter(JIPipeIteratingAlgorithm other) |
| Modifier and Type | Class and Description |
|---|---|
class |
ExportImage2Algorithm |
class |
ExportImageAlgorithm
Deprecated.
|
class |
ExportImageDirectorySlotAlgorithm |
class |
ExportROIAlgorithm
Deprecated.
|
class |
ExportROIAlgorithm2 |
class |
ExportTableAlgorithm
Deprecated.
|
class |
ExportTableAlgorithm2 |
| Modifier and Type | Class and Description |
|---|---|
class |
AnnotateWithOverlapMeasureLabelsAlgorithm |
class |
ExtractLabelStatisticsAlgorithm |
class |
MergeLabelsAlgorithm |
class |
MergeLabelsToBinsAlgorithm |
class |
MergeLabelsToThicknessAlgorithm |
class |
MergeSmallLabelsAlgorithm |
class |
OverlapMeasureLabelsAlgorithm |
class |
ReplaceLabelsByTableAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
FilterLabelsByMaskAlgorithm |
class |
FilterLabelsByOverlapAlgorithm |
class |
FilterLabelsByStatisticsAlgorithm
Wrapper around
RoiManager |
class |
FilterLabelsByThicknessAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
SetLUTFromImageAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
SetToColorAlgorithm |
class |
SetToContentAwareAlgorithm |
class |
SetToValueAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
FastImageArithmeticsAlgorithm |
class |
ImageCalculator2DExpression |
class |
ImageComparer2DAlgorithm
Deprecated.
|
class |
LegacyImageCalculator2DAlgorithm
Deprecated.
|
| Modifier and Type | Class and Description |
|---|---|
class |
GeodesicDistanceMap2DAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
ImposeMaxima2DAlgorithm |
class |
ImposeMaxima3DAlgorithm |
class |
LocalImageCalculator2DExpression |
| Modifier and Type | Class and Description |
|---|---|
class |
SetImageMetadataFromTableAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
MontageToStackAlgorithm
Implementation of
MontageMaker |
class |
StackToMontage2Algorithm
Implementation of
MontageMaker |
class |
StackToMontageAlgorithm
Deprecated.
|
| Modifier and Type | Class and Description |
|---|---|
class |
GrayscaleAttributeFiltering2DAlgorithm |
class |
GrayscaleAttributeFiltering3DAlgorithm |
class |
MorphologicalReconstruction2DAlgorithm |
class |
MorphologicalReconstruction3DAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
SetOverlayAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
SimpleImageRegistrationAlgorithm
Port of
Register_Virtual_Stack_MT |
| Modifier and Type | Class and Description |
|---|---|
class |
TurboRegRegistration2DReferencedAlgorithm
Port of
Register_Virtual_Stack_MT |
class |
TurboRegRegistration2DSingleAlgorithm
Port of
Register_Virtual_Stack_MT |
| Modifier and Type | Class and Description |
|---|---|
class |
CropToRoiAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
ExtractFromROIAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
ExtractImageInRoiAlgorithm |
class |
GetRoiImageAlgorithm
Wrapper around
RoiManager |
class |
ROIToLabelsByNameAlgorithm |
class |
ROIToLabelsExpressionAlgorithm |
class |
RoiToMaskAlgorithm
Wrapper around
RoiManager |
class |
RoiToRGBAlgorithm
Wrapper around
RoiDrawer |
| Modifier and Type | Class and Description |
|---|---|
class |
DrawLineOvalRectangleRoiAlgorithm |
class |
DrawOvalRoiAlgorithm
Deprecated.
|
class |
DrawRectangleRoiAlgorithm
Deprecated.
|
class |
DrawScaleBarRoiAlgorithm |
class |
DrawTextRoiAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
FilterROIByOverlapAlgorithm |
class |
FilterRoiByStatisticsAlgorithm
Wrapper around
RoiManager |
class |
FilterRoiByStatisticsScriptAlgorithm
Wrapper around
RoiManager |
class |
RemoveBorderRoisAlgorithm
Wrapper around
RoiManager |
| Modifier and Type | Class and Description |
|---|---|
class |
ReferencedAppendRectangularRoiAlgorithm
Deprecated.
|
class |
ReferencedDefineRectangularRoiAlgorithm
Deprecated.
|
| Modifier and Type | Class and Description |
|---|---|
class |
ExtractRoi2DRelationStatisticsAlgorithm |
class |
ExtractROIProfileAlgorithm |
class |
RoiStatisticsAlgorithm
Wrapper around
RoiManager |
| Modifier and Type | Class and Description |
|---|---|
class |
FilterAndMergeRoiByStatisticsScriptAlgorithm
Wrapper around
RoiManager |
| Modifier and Type | Class and Description |
|---|---|
class |
ChangeRoiNameFromExpressionsAndMeasurementsAlgorithm |
class |
ChangeRoiPropertiesFromExpressionsAlgorithm
Wrapper around
RoiManager |
class |
ChangeRoiPropertiesFromTableAlgorithm
Wrapper around
RoiManager |
class |
ColorRoiByStatisticsAlgorithm
Wrapper around
RoiManager |
class |
EnlargeShrinkRoiAlgorithm
Wrapper around
RoiManager |
class |
RoiFloodFillAlgorithm
Wrapper around
RoiManager |
class |
RotateRoiAlgorithm
Wrapper around
RoiManager |
class |
SetRoiImageAlgorithm
Wrapper around
RoiManager |
| Modifier and Type | Class and Description |
|---|---|
class |
SetRoiMetadataByStatisticsAlgorithm
Wrapper around
RoiManager |
class |
SetROIMetadataFromTableAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
RegisterRoiToImageByBrightnessAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
SortAndExtractRoiByStatisticsAlgorithm
Deprecated.
|
class |
SortAndExtractRoiByStatisticsAlgorithm2
Wrapper around
RoiManager |
class |
SortRoiListByExpressionsAndMeasurementsAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
SplitRoiConnectedComponentsAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
ClassicWatershedSegmentationAlgorithm |
class |
SeededWatershedSegmentationAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
AverageKeyValueThresholdStatisticsGenerator |
class |
FastKeyValueThresholdStatisticsGenerator |
class |
KeyValueAveragesGenerator |
class |
KeyValueHistogramGenerator |
class |
KeyValueThresholdPartitionAveragesGenerator |
class |
KeyValueThresholdPartitionGenerator |
class |
KeyValueThresholdStatisticsGenerator |
| Modifier and Type | Class and Description |
|---|---|
class |
AutoThreshold2DAlgorithm
Thresholding node that thresholds via an auto threshold
|
class |
CustomAutoThreshold2D16UAlgorithm
Thresholding node that thresholds via an auto threshold
|
class |
CustomAutoThreshold2D16Uv2Algorithm
Thresholding node that thresholds via an auto threshold
|
class |
CustomAutoThreshold2D32FAlgorithm
Thresholding node that thresholds via an auto threshold
|
class |
CustomAutoThreshold2D32Fv2Algorithm
Thresholding node that thresholds via an auto threshold
|
class |
CustomAutoThreshold2D8UAlgorithm
Thresholding node that thresholds via an auto threshold
|
class |
CustomAutoThreshold2D8Uv2Algorithm
Thresholding node that thresholds via an auto threshold
|
| Modifier and Type | Class and Description |
|---|---|
class |
IterativeThresholdByROIStatistics2DAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
LineMirror2DFromRoiAlgorithm |
class |
MergeImagesAlgorithm |
class |
TransformEqualizeDimensionsAlgorithm |
class |
TransformExpandCanvas2DAlgorithm |
class |
Warp2DAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
SimpleImageAndRoiIteratingAlgorithm
Image processor algorithm that optionally takes a ROI
|
| Modifier and Type | Class and Description |
|---|---|
class |
AnnotateDataWithImagePropertiesAlgorithm
Adds data annotations that contain the image properties
|
| Modifier and Type | Class and Description |
|---|---|
class |
ExportImpImageAlgorithm |
class |
SetImpAlphaChannelAlgorithm |
| Constructor and Description |
|---|
SetImpAlphaChannelAlgorithm(JIPipeIteratingAlgorithm other) |
| Modifier and Type | Class and Description |
|---|---|
class |
MergeParametersAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
UploadOMEROImageToDatasetAlgorithm |
class |
UploadOMEROTableAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
InpaintingAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
IteratingJythonScriptAlgorithm
An algorithm that allows to run Python code
|
| Modifier and Type | Class and Description |
|---|---|
class |
IteratingPythonScriptAlgorithm
An algorithm that allows to run Python code
|
| Modifier and Type | Class and Description |
|---|---|
class |
IteratingRScriptAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
ExportScene3DToColladaAlgorithm
Deprecated.
|
class |
ExportScene3DToColladaAlgorithm2 |
| Modifier and Type | Class and Description |
|---|---|
class |
AnnotateDataWithTableValues |
| Modifier and Type | Class and Description |
|---|---|
class |
MergeTableColumnsSupplementAlgorithm
Algorithm that integrates columns
|
| Modifier and Type | Class and Description |
|---|---|
class |
SingleIterationStepCheckerAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
PathsToJIPipeProjectParametersAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
RunProcessIteratingAlgorithm |
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