| Modifier and Type | Interface and Description |
|---|---|
interface |
JIPipeDependency
Encapsulates a dependency such as an extension or JSON extension
|
interface |
JIPipeExtension
Interface shared between all JIPipe extensions
|
interface |
JIPipeJavaExtension
A Java extension
|
interface |
JIPipeRegistry
Contains all JIPipe resources
|
| Modifier and Type | Class and Description |
|---|---|
class |
JIPipe
A scijava service that discovers JIPipe plugins in the classpath
|
class |
JIPipeDefaultJavaExtension
Default implementation of
JIPipeJavaExtension |
static class |
JIPipeImageJUpdateSiteDependency.List
the List class
|
class |
JIPipeJsonExtension
A JSON-serializable extension
|
class |
JIPipeMutableDependency
A JSON-serializable
JIPipeDependency. |
class |
JIPipeRegistryIssues
Class that describes issues with the current registration process
|
| Modifier and Type | Class and Description |
|---|---|
static class |
JIPipeAuthorMetadata.List |
static class |
JIPipeNodeTemplate.List |
class |
JIPipeProject
A JIPipe project.
|
| Modifier and Type | Method and Description |
|---|---|
void |
JIPipeIssueReport.report(JIPipeValidatable validatable)
Reports a
JIPipeValidatable into this report |
| Modifier and Type | Class and Description |
|---|---|
class |
JIPipeCompartmentsExtension
Extension that provides compartment management functionality
|
| Modifier and Type | Class and Description |
|---|---|
class |
IOInterfaceAlgorithm
Algorithm that passes the input to the output
|
class |
JIPipeCompartmentOutput
A graph compartment output
Transfers data 1:1 from input to output
|
class |
JIPipeProjectCompartment
A project compartment.
|
| Modifier and Type | Class and Description |
|---|---|
class |
SingleImageJAlgorithmRunConfiguration
Manages a single algorithm run
|
| Modifier and Type | Class and Description |
|---|---|
class |
ExternalEnvironment
Defines an external environment
|
| Modifier and Type | Class and Description |
|---|---|
class |
GraphWrapperAlgorithm
An algorithm that wraps another algorithm graph
|
class |
GraphWrapperAlgorithmInput |
class |
GraphWrapperAlgorithmOutput |
class |
GroupingExtension
Extension for anything that is related to
GraphWrapperAlgorithm |
class |
JsonAlgorithm
An algorithm that was imported from a Json extension.
|
class |
JsonNodeInfo
Info of a
GraphWrapperAlgorithm |
class |
JsonNodeRegistrationTask
Registers a
JsonNodeInfo |
class |
NodeGroup
A sub-graph algorithm that can be defined by a user
|
| Modifier and Type | Class and Description |
|---|---|
class |
GraphNodeParameterReferenceGroupCollection
Contains a list of
GraphNodeParameterReferenceGroup and GraphNodeParameterCollectionReference
Stores references to parameters within an JIPipeGraph |
| Modifier and Type | Class and Description |
|---|---|
class |
LoopEndNode |
class |
LoopingExtension
Extension for anything that is related to
GraphWrapperAlgorithm |
class |
LoopStartNode |
| Modifier and Type | Class and Description |
|---|---|
class |
JIPipeAlgorithm
An
JIPipeGraphNode that contains a non-empty workload. |
class |
JIPipeGraph
Manages multiple
JIPipeGraphNode instances as graph |
class |
JIPipeGraphNode
A node is a set of input and output data slots, and a run() function
It is part of the
JIPipeGraph. |
class |
JIPipeIteratingAlgorithm
An
JIPipeAlgorithm that iterates through each data row. |
class |
JIPipeIteratingMissingDataGeneratorAlgorithm
An
JIPipeAlgorithm that passes incoming data to their corresponding output slots if the data batch is complete
and otherwise runs a generator function that generates missing data items. |
class |
JIPipeMergingAlgorithm
An
JIPipeAlgorithm that applies a similar algorithm to JIPipeIteratingAlgorithm, but does create JIPipeMergingDataBatch instead. |
class |
JIPipeMissingDataGeneratorAlgorithm
An
JIPipeAlgorithm that passes incoming data to their corresponding output slots if the data batch is complete
and otherwise runs a generator function that generates missing data items. |
class |
JIPipeParameterlessSimpleIteratingAlgorithm
An
JIPipeAlgorithm that iterates through each data row. |
class |
JIPipeParameterSlotAlgorithm
An
JIPipeAlgorithm that has an optional slot that allows to supply parameter data sets. |
class |
JIPipeSimpleIteratingAlgorithm
An
JIPipeAlgorithm that iterates through each data row. |
class |
JIPipeSingleIterationAlgorithm
An
JIPipeAlgorithm that applies a single iteration with a data batch containing all data. |
| Modifier and Type | Class and Description |
|---|---|
class |
DefaultJIPipeParameterGenerator
A default implementation of
JIPipeParameterGenerator that shows all parameters of this JIPipeParameterCollection
in a dialog before generating the data. |
class |
JIPipeDynamicParameterCollection
Holds a user-definable set of parameters
|
| Modifier and Type | Interface and Description |
|---|---|
interface |
JIPipeNodeRegistrationTask
A task for algorithm registration that can handle algorithm dependencies
|
| Modifier and Type | Class and Description |
|---|---|
class |
JIPipeDefaultNodeRegistrationTask
Mutable implementation of
JIPipeNodeRegistrationTask |
class |
JIPipeJavaNodeRegistrationTask
Registers a Java algorithm
|
class |
JIPipeNodeRegistry
Manages known algorithms and their annotations
|
| Modifier and Type | Class and Description |
|---|---|
class |
JIPipePrepackagedDefaultJavaExtension
JIPipeDefaultJavaExtension for internal usage |
| Modifier and Type | Class and Description |
|---|---|
class |
AnnotationsExtension
Extension that provides data types and algorithms to modify data annotations
|
| Modifier and Type | Class and Description |
|---|---|
class |
AnnotateByExpression
Algorithm that annotates all data with the same annotation
|
class |
AnnotateWithAnnotationTable
Algorithm that merges the annotations of all inputs and outputs the data with the shared annotations
|
class |
AnnotateWithData |
class |
AnnotateWithDataString
Generates annotations from filenames
|
class |
AnnotateWithSourceSlot
Generates annotations from filenames
|
class |
ConvertToAnnotationTable
Removes a specified annotation
|
class |
DataAnnotationToStringAnnotation |
class |
ExtractAndReplaceAnnotation
Generates annotations from filenames
|
class |
ExtractDataAnnotation |
class |
FilterByAnnotation
Algorithm that splits the input data by a specified annotation
|
class |
GenerateRandomUniqueAnnotation
Generates annotations from filenames
|
class |
GenerateUniqueAnnotation
Generates annotations from filenames
|
class |
MergeAnnotations
Algorithm that merges the annotations of all inputs and outputs the data with the shared annotations
|
class |
MergeDataSlots
Merges the input slot tables into one data slot
|
class |
ModifyAnnotationScript
Algorithm that annotates all data with the same annotation
|
class |
OverwriteAnnotations |
class |
RemoveAnnotationAlgorithm
Removes a specified annotation
|
class |
RemoveArrayAnnotationsAlgorithm |
class |
RemoveDataAnnotations |
class |
RemoveNAAnnotationColumnsAlgorithm |
class |
RenameAnnotation
Generates annotations from filenames
|
class |
RenameDataAnnotation
Generates annotations from filenames
|
class |
SetSingleAnnotation
Algorithm that annotates all data with the same annotation
|
class |
SimplifyAnnotationsAlgorithm |
class |
SplitByAnnotation
Algorithm that splits the input data by a specified annotation
|
class |
SplitByAnnotationScript
Algorithm that annotates all data with the same annotation
|
| Modifier and Type | Class and Description |
|---|---|
class |
AnnotationTableFromFile
Imports
AnnotationTableData from a file |
| Modifier and Type | Class and Description |
|---|---|
class |
BatchAssistantExtension |
| Modifier and Type | Class and Description |
|---|---|
class |
CellposeExtension |
| Modifier and Type | Class and Description |
|---|---|
class |
CellposeAlgorithm
Improved version of
CellposeAlgorithm_Old that utilizes the Cellpose CLI |
class |
CellposeTrainingAlgorithm |
class |
ImportCellposeModelAlgorithm |
class |
ImportCellposeSizeModelAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
CellposeAlgorithm_Old
Deprecated.
New implementation will be CellposeAlgorithm2 that is based around the Cellpose CLI
|
class |
CellposeTrainingAlgorithm_Old
Deprecated.
|
| Modifier and Type | Class and Description |
|---|---|
class |
CLIJCommandNode |
class |
CLIJExtension
Integrates CLIJ
|
| Modifier and Type | Class and Description |
|---|---|
class |
Clij2ExecuteKernelIterating |
class |
Clij2ExecuteKernelSimpleIterating |
class |
Clij2PullAlgorithm |
class |
Clij2PushAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
CoreExtension
The core extension
|
| Modifier and Type | Class and Description |
|---|---|
class |
JIPipeCommentNode |
| Modifier and Type | Class and Description |
|---|---|
class |
CustomExpressionVariablesParameter
A parameter collection that allows the creation of custom expression variables
Please note that the
JIPipeParameter annotation should have JIPipeParameterPersistence set to 'NestedCollection'. |
static class |
DefaultExpressionParameter.List |
class |
ExpressionExtension |
class |
NamedStringQueryExpression |
static class |
NamedStringQueryExpression.List |
class |
NamedTextAnnotationGeneratorExpression |
static class |
NamedTextAnnotationGeneratorExpression.List |
class |
TableColumnSourceExpressionParameter
Parameter that acts as source (via matching a column) or a generator
|
| Modifier and Type | Class and Description |
|---|---|
class |
FilesystemExtension
Extension that provides filesystem data types
|
| Modifier and Type | Class and Description |
|---|---|
class |
AnnotateWithPathProperties |
class |
AnnotationTableToPaths
Filters input files
|
class |
AnnotationToPath
Filters input files
|
class |
ConcatenateByParameter
Applies subfolder navigation to each input folder
|
class |
ConcatenatePaths
Applies subfolder navigation to each input folder
|
class |
ConvertDataToOutputPath
Applies subfolder navigation to each input folder
|
class |
CopyPath
Applies subfolder navigation to each input folder
|
class |
CreateDirectory
Applies subfolder navigation to each input folder
|
class |
ExportData |
class |
ExportDataByParameter |
class |
ExportDataTable |
class |
ExportDataTableByParameter |
class |
ExtractFileName
Applies subfolder navigation to each input folder
|
class |
ExtractParent
Applies subfolder navigation to each input folder
|
class |
FilterPaths
Filters input files
|
class |
ImportDataRowFolder |
class |
ImportDataTableArchive |
class |
ImportDataTableDirectory |
class |
ListFiles
Algorithm that lists files in each folder
|
class |
ListSubfolders
Algorithms that lists the sub folders for each input folder
|
class |
ModifyPath |
class |
RelativizeByParameter
Applies subfolder navigation to each input folder
|
class |
RelativizePaths
Applies subfolder navigation to each input folder
|
class |
RenameByString
Applies subfolder navigation to each input folder
|
class |
SimpleFileAnnotationGenerator
Generates annotations from filenames
|
class |
SimpleFolderAnnotationGenerator
Algorithm that generates annotations from folder names
|
class |
SimplePathAnnotationGenerator
Algorithm that generates annotations from folder names
|
| Modifier and Type | Class and Description |
|---|---|
class |
DownloadFilesDataSource |
class |
FileDataSource
Provides an input file
|
class |
FileListDataSource
Provides an input file
|
class |
FolderDataSource
Provides an input folder
|
class |
FolderListDataSource
Provides an input folder
|
class |
OutputFolderDataSource |
class |
PathDataSource
Provides an input file
|
class |
PathFromUserDataSource |
class |
PathListDataSource
Provides an input folder
|
class |
TemporaryFileDataSource |
class |
TemporaryFolderDataSource |
| Modifier and Type | Class and Description |
|---|---|
class |
FormsExtension
Extension that adds forms
|
| Modifier and Type | Class and Description |
|---|---|
class |
BooleanFormGeneratorAlgorithm |
class |
DoubleFormGeneratorAlgorithm |
class |
EnumFormGeneratorAlgorithm |
class |
FormGeneratorAlgorithm
A node base class that adds a new form element into the list of existing forms
|
class |
GroupHeaderFormGeneratorAlgorithm |
class |
IntegerFormGeneratorAlgorithm |
class |
IteratingFormProcessorAlgorithm |
class |
MergingFormProcessorAlgorithm |
class |
PathFormGeneratorAlgorithm |
class |
SimpleFormGeneratorAlgorithm |
class |
SimpleIteratingFormProcessorAlgorithm |
class |
StringFormGeneratorAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
BooleanFormData |
class |
DoubleFormData |
class |
EnumFormData |
class |
FormData
Base class for any form data.
|
class |
GroupHeaderFormData |
class |
IntegerFormData |
class |
ParameterFormData
|
class |
PathFormData |
class |
StringFormData |
| Modifier and Type | Class and Description |
|---|---|
class |
MultiTemplateMatchingAlgorithm |
class |
MultiTemplateMatchingExtension
Extension that adds ImageJ2 algorithms
|
| Modifier and Type | Class and Description |
|---|---|
class |
TrackMateExtension |
| Modifier and Type | Class and Description |
|---|---|
class |
ConvertSpotsToRoiNode |
class |
ConvertTracksToRoiNode |
| Modifier and Type | Class and Description |
|---|---|
class |
CreateSpotDetectorNode |
class |
CreateSpotTrackerNode |
| Modifier and Type | Class and Description |
|---|---|
class |
MeasureSpotsNode |
class |
MergeSpotsNode |
class |
SplitSpotsNode |
class |
SpotDetectorNode |
class |
SpotFilterNode |
class |
SpotsToRGBNode |
| Modifier and Type | Class and Description |
|---|---|
class |
FollowSpotsPerTrackNode |
class |
MeasureBranchesNode |
class |
MeasureEdgesNode |
class |
MeasureTracksNode |
class |
MergeTracksNode |
class |
SplitTracksNode |
class |
TrackFilterNode |
class |
TrackingNode |
class |
TrackSchemeRendererNode |
class |
TracksToRGBNode |
| Modifier and Type | Class and Description |
|---|---|
static class |
SpotFeatureFilterParameter.List |
static class |
SpotFeaturePenaltyParameter.List |
static class |
TrackFeatureFilterParameter.List |
| Modifier and Type | Class and Description |
|---|---|
class |
WekaExtension |
| 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 |
ImageJ2Extension
Extension that adds ImageJ2 algorithms
|
class |
ImageJ2OpNode |
| Modifier and Type | Class and Description |
|---|---|
class |
CreateIJ2OutOfBoundsFactoryAlgorithm |
class |
CreateIJ2ShapeAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
ImageJAlgorithmsExtension
Extension that adds ImageJ2 algorithms
|
| Modifier and Type | Class and Description |
|---|---|
class |
HyperstackDimensionPairParameter |
static class |
HyperstackDimensionPairParameter.List |
class |
MacroWrapperAlgorithm
An algorithm that wraps around an ImageJ macro
|
| Modifier and Type | Class and Description |
|---|---|
class |
AnalyzeSkeleton2D3DAlgorithm |
class |
AnnotateByImageStatisticsExpressionAlgorithm
Wrapper around
RoiManager |
class |
FindParticles2D
Converts a mask to ROI and ROI measurements
|
class |
ImageStatisticsAlgorithm
Wrapper around
RoiManager |
class |
ImageStatisticsExpressionAlgorithm
Wrapper around
RoiManager |
| Modifier and Type | Class and Description |
|---|---|
class |
RollingBallBackgroundEstimator2DAlgorithm
Wrapper around
RankFilters |
| Modifier and Type | Class and Description |
|---|---|
class |
BinarizeAlgorithm |
class |
BitwiseLogicalOperationAlgorithm |
class |
ConditionalInverterAlgorithm |
class |
ConnectedComponentsLabeling2DAlgorithm |
class |
ConnectedComponentsLabeling3DAlgorithm |
class |
ConvexifyAlgorithm |
class |
DistanceTransformWatershed2DAlgorithm
Wrapper around
EDM |
class |
KeepLargestRegionAlgorithm |
class |
RemoveLargestRegionAlgorithm |
class |
UltimateErodedPoints2DAlgorithm
Wrapper around
EDM |
class |
VolumeOpening2DAlgorithm |
class |
VolumeOpening3DAlgorithm |
class |
Voronoi2DAlgorithm
Wrapper around
EDM |
| Modifier and Type | Class and Description |
|---|---|
class |
BoxFilter2DAlgorithm
Wrapper around
ImageProcessor |
class |
BoxFilter3DAlgorithm
Wrapper around
GaussianBlur |
class |
GaussianBlur2DAlgorithm
Wrapper around
GaussianBlur |
class |
GaussianBlur3DAlgorithm
Wrapper around
GaussianBlur |
class |
MedianBlurFilter2DAlgorithm
Wrapper around
RankFilters |
class |
MedianBlurFilter3DAlgorithm
Wrapper around
GaussianBlur |
class |
MedianBlurGreyscale8U2DAlgorithm
Wrapper around
ImageProcessor |
class |
MedianBlurRGB2DAlgorithm
Wrapper around
ImageProcessor |
| Modifier and Type | Class and Description |
|---|---|
class |
DrawScaleBarAlgorithm |
class |
SetPhysicalDimensionsAlgorithm |
class |
SetPhysicalDimensionsByAnnotationsAlgorithm |
class |
SetPhysicalDimensionsByExpressionsAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
Coloc2Node |
| Modifier and Type | Class and Description |
|---|---|
class |
ArrangeChannelsAlgorithm
Wrapper around
ChannelArranger |
class |
BlendImagesAlgorithm |
class |
ColorToGreyscaleExpression2D |
class |
CombineChannelsToRGBAlgorithm |
class |
InvertColorsAlgorithm
Wrapper around
ImageProcessor |
class |
MergeChannelsAlgorithm
Wrapper around
ImageProcessor |
class |
NewSplitChannelsAlgorithm
Wrapper around
ChannelSplitter |
class |
OverlayImagesAlgorithm
Deprecated.
Use
BlendImagesAlgorithm instead |
class |
RenderImageToRGBAlgorithm |
class |
SetToColorAlgorithm |
class |
SetToValueAlgorithm |
class |
SplitChannelsAlgorithm
Deprecated.
|
class |
SplitRGBChannelsAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
CLAHEContrastEnhancer
Applies CLAHE image enhancing
|
class |
HistogramContrastEnhancerAlgorithm
This class is based on
ContrastEnhancer
This class is not very portable, so I adapted the code here |
class |
IlluminationCorrection2DAlgorithm
Applies illumination correction
|
| Modifier and Type | Class and Description |
|---|---|
class |
ConvertImageAlgorithm |
class |
ConvertImageTo16BitAlgorithm |
class |
ConvertImageTo32BitAlgorithm |
class |
ConvertImageTo8BitAlgorithm |
class |
ConvertImageToHSBAlgorithm |
class |
ConvertImageToLABAlgorithm |
class |
ImageToMatrixAlgorithm
Algorithm that generates
ResultsTableData as histogram |
class |
ImageToTableAlgorithm
Algorithm that generates
ResultsTableData as histogram |
class |
MatrixToImageAlgorithm |
class |
TableToImageAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
ConvolveByImage2DAlgorithm
Wrapper around
Convolver |
class |
ConvolveByParameter2DAlgorithm
Wrapper around
Convolver |
| Modifier and Type | Class and Description |
|---|---|
class |
ImageStackFromFolder
Loads an image data from a file via IJ.openFile()
|
class |
OMEImageFromImagePlus |
| Modifier and Type | Class and Description |
|---|---|
class |
CreateStackAlgorithm
Wrapper around
ImageProcessor |
class |
ExpressionSlicerAlgorithm |
class |
HyperstackSlicerAlgorithm |
class |
InputImagesToMontage |
class |
Merge2DToHyperstackAlgorithm |
class |
MontageToStackAlgorithm
Implementation of
MontageMaker |
class |
NewZProjectorAlgorithm
Wrapper around
ZProjector |
class |
ReorderDimensionsAlgorithm
Algorithm that reorders Hyperstack dimensions
|
class |
ResliceAlgorithm |
class |
SplitByDimensionAlgorithm |
class |
StackCombinerAlgorithm |
class |
StackInverterAlgorithm
Wrapper around
ImageProcessor |
class |
StackSplitterAlgorithm
Wrapper around
ChannelArranger |
class |
StackTo2DAlgorithm
Wrapper around
ImageProcessor |
class |
StackToDimensionMergerAlgorithm
Wrapper around
ImageProcessor |
class |
StackToMontageAlgorithm
Implementation of
MontageMaker |
class |
ZProjectorAlgorithm
Wrapper around
ZProjector |
| Modifier and Type | Class and Description |
|---|---|
class |
CannyEdgeDetectorAlgorithm
This is the JIPipe version of the ImageJ plugin ...
|
class |
LaplacianEdgeDetectorAlgorithm
Wrapper around
ImageProcessor |
class |
SobelEdgeDetectorAlgorithm
Wrapper around
ImageProcessor |
| Modifier and Type | Class and Description |
|---|---|
class |
DifferenceOfGaussian2DAlgorithm
Wrapper around
GaussianBlur |
class |
DirectionalFilter2DAlgorithm |
class |
FrangiVesselnessFeatures
Applies CLAHE image enhancing
|
class |
LaplacianOfGaussian2DAlgorithm
Based on code by Dimiter Prodanov
...
|
class |
LocalMaxima2DAlgorithm
Wrapper around
MaximumFinder |
class |
MeijeringVesselness2DFeatures
Applies CLAHE image enhancing
|
| Modifier and Type | Class and Description |
|---|---|
class |
FFT2DForwardTransform
Applies a FFT forward transformation
|
class |
FFT2DInverseTransform
Applies a FFT forward transformation
|
class |
FFT2DSwapQuadrants
Applies a FFT forward transformation
|
| Modifier and Type | Class and Description |
|---|---|
class |
DrawMaskAlgorithm |
class |
DrawROIAlgorithm |
class |
MaskDrawerFormData
Structural
FormData for drawing masks |
class |
ROIDrawerFormData
Structural
FormData for drawing ROIs |
| Modifier and Type | Class and Description |
|---|---|
class |
GenerateLUTImageFromColorMap
Wrapper around
ImageProcessor |
class |
GenerateMissingImageFromMathExpression2D
Wrapper around
ImageProcessor |
class |
GenerateMissingTablesAlgorithm |
class |
GenerateMissingZeroImage
Wrapper around
ImageProcessor |
class |
GenerateStructureElement2DAlgorithm
Wrapper around
ImageProcessor |
class |
GenerateStructureElement3DAlgorithm
Wrapper around
ImageProcessor |
class |
GenerateZeroImage
Wrapper around
ImageProcessor |
class |
ImageFromMatrix2DAlgorithm
Wrapper around
Convolver |
| Modifier and Type | Class and Description |
|---|---|
class |
ExportImage2Algorithm |
class |
ExportImageAlgorithm |
class |
ExportROIAlgorithm |
class |
ExportTableAlgorithm |
class |
ExportTableAsXLSXAlgorithm |
class |
ImagePlusFromGUI
Imports
ImagePlusData from the GUI |
class |
ImagePlusToGUI
Imports
ImagePlusData from the GUI |
class |
ResultsTableFromGUI
Imports
ImagePlusData from the GUI |
class |
ResultsTableToGUI
Imports
ImagePlusData from the GUI |
class |
ROIFromGUI
Imports
ImagePlusData from the GUI |
class |
ROIToGUI
Imports
ImagePlusData from the GUI |
class |
RunImageJExporterAlgorithm |
class |
RunImageJImporterAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
AnnotateWithOverlapMeasureLabelsAlgorithm |
class |
CropLabelsAlgorithm |
class |
DilateLabelsAlgorithm |
class |
ExpandLabelsAlgorithm |
class |
ExtractLabelStatisticsAlgorithm |
class |
GetLabelBoundariesAlgorithm |
class |
KeepLargestLabelAlgorithm |
class |
LabelsToRGBAlgorithm |
class |
LabelsToROIAlgorithm |
class |
MergeLabelsAlgorithm |
class |
MergeSmallLabelsAlgorithm |
class |
OverlapMeasureLabelsAlgorithm |
class |
RemapLabelsAlgorithm |
class |
ReplaceLabelsAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
FilterLabelsByExpression2DAlgorithm |
class |
FilterLabelsByExpression3DAlgorithm |
class |
FilterLabelsByIdAlgorithm |
class |
FilterLabelsByMaskAlgorithm |
class |
FilterLabelsByOverlapAlgorithm |
class |
FilterLabelsByStatisticsAlgorithm
Wrapper around
RoiManager |
class |
RemoveBorderLabelsAlgorithm |
class |
RemoveLargestLabelAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
ApplyLUTAlgorithm |
class |
LUTInverterAlgorithm |
class |
RemoveLUTAlgorithm |
class |
SetLUTFromColorMapAlgorithm |
class |
SetLUTFromColorsAlgorithm |
class |
SetLUTFromImageAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
ApplyColorMathExpression2DExpression |
class |
ApplyMath2DAlgorithm
Wrapper around
ImageProcessor |
class |
ApplyMathExpression2DAlgorithm
Wrapper around
ImageProcessor |
class |
ApplyTransform2DAlgorithm
Wrapper around
ImageProcessor |
class |
ApplyVectorMathExpression2DAlgorithm
Wrapper around
ImageProcessor |
class |
DivideByMaximumAlgorithm
Wrapper around
ImageProcessor |
class |
GenerateFromMathExpression2D
Wrapper around
ImageProcessor |
class |
GenerateVectorFromMathExpression
Wrapper around
ImageProcessor |
class |
Hessian2DAlgorithm
Wrapper around
EDM |
class |
ImageCalculator2DAlgorithm
Wrapper around
ImageProcessor |
class |
ImageCalculator2DExpression |
class |
RemoveNaNFilter2DAlgorithm
Wrapper around
RankFilters |
class |
RoundFloatImageAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
ApplyDistanceTransform2DAlgorithm
Wrapper around
EDM |
class |
ChamferDistanceMap2DAlgorithm |
class |
ChamferDistanceMap3DAlgorithm |
class |
GeodesicDistanceMap2DAlgorithm |
class |
LabelChamferDistanceMap3DAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
ExtendedMaxima2DAlgorithm |
class |
ExtendedMaxima3DAlgorithm |
class |
ExtendedMinima2DAlgorithm |
class |
ExtendedMinima3DAlgorithm |
class |
ImposeMaxima2DAlgorithm |
class |
ImposeMaxima3DAlgorithm |
class |
LocalImageCalculator2DExpression |
class |
LocalMaximumFilter2DAlgorithm
Wrapper around
RankFilters |
class |
LocalMaximumFilter3DAlgorithm
Wrapper around
RankFilters |
class |
LocalMinimumFilter2DAlgorithm
Wrapper around
RankFilters |
class |
LocalMinimumFilter3DAlgorithm
Wrapper around
RankFilters |
class |
LocalVarianceFilter2DAlgorithm
Wrapper around
RankFilters |
class |
LocalVarianceFilter3DAlgorithm
Wrapper around
RankFilters |
class |
RegionalMaxima2DAlgorithm |
class |
RegionalMaxima3DAlgorithm |
class |
RegionalMinima2DAlgorithm |
class |
RegionalMinima3DAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
DataToPreviewAlgorithm |
class |
RenderJIPipeProjectAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
FindHoles2DAlgorithm |
class |
GrayscaleAttributeFiltering2DAlgorithm |
class |
GrayscaleAttributeFiltering3DAlgorithm |
class |
MorphologicalReconstruction2DAlgorithm |
class |
MorphologicalReconstruction3DAlgorithm |
class |
Morphology2DAlgorithm
Wrapper around
ImageProcessor |
class |
Morphology3DAlgorithm
Wrapper around
ImageProcessor |
class |
MorphologyBinary2DAlgorithm
Wrapper around
ImageProcessor |
class |
MorphologyFillHoles2DAlgorithm
Wrapper around
ImageProcessor |
class |
MorphologyInternalGradient2DAlgorithm
Wrapper around
ImageProcessor |
class |
MorphologyOutline2DAlgorithm
Wrapper around
ImageProcessor |
class |
MorphologySkeletonize2DAlgorithm
Wrapper around
ImageProcessor |
class |
MorphologySkeletonize3DAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
AddNoise2DAlgorithm
Wrapper around
ImageProcessor |
class |
AddSaltAndPepperNoise2DAlgorithm
Wrapper around
ImageProcessor |
class |
DespeckleFilter2DAlgorithm
Wrapper around
RankFilters |
class |
RemoveOutliersFilter2DAlgorithm
Wrapper around
RankFilters |
| Modifier and Type | Class and Description |
|---|---|
class |
MSEBlockFlowAlgorithm
Adapted from
MSEBlockFlow, as the methods there are all protected/private |
class |
MSEGaussianFlowAlgorithm
Adapted from
MSEGaussianFlow, as the methods there are all protected/private |
class |
PMCCBlockFlowAlgorithm
Adapted from
PMCCBlockFlow, as the methods there are all protected/private |
| Modifier and Type | Class and Description |
|---|---|
class |
ExtractOverlayAlgorithm |
class |
RemoveOverlayAlgorithm |
class |
RenderOverlayAlgorithm
Wrapper around
RoiDrawer |
class |
SetOverlayAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
CropToRoiAlgorithm |
class |
ExtractImageInRoiAlgorithm |
class |
GetRoiImageAlgorithm
Wrapper around
RoiManager |
class |
RoiCalculatorAlgorithm
Wrapper around
RoiManager |
class |
SetRoiImageAlgorithm
Wrapper around
RoiManager |
class |
SplitRoiConnectedComponentsAlgorithm |
class |
UnsetRoiImageAlgorithm
Wrapper around
RoiManager |
| Modifier and Type | Class and Description |
|---|---|
class |
RoiPropertiesToAnnotationsAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
AssembleExtractedROIAlgorithm |
class |
ExtractFromROIAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
ROIToLabelsByNameAlgorithm |
class |
ROIToLabelsExpressionAlgorithm |
class |
RoiToMaskAlgorithm
Wrapper around
RoiManager |
class |
RoiToRGBAlgorithm
Wrapper around
RoiDrawer |
class |
UnreferencedRoiToMaskAlgorithm
Wrapper around
RoiManager |
class |
UnreferencedRoiToRGBAlgorithm
Wrapper around
RoiManager |
| Modifier and Type | Class and Description |
|---|---|
class |
DrawOvalRoiAlgorithm |
class |
DrawRectangleRoiAlgorithm |
class |
DrawScaleBarRoiAlgorithm |
class |
DrawTextRoiAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
FilterRoiByNameAlgorithm
Wrapper around
RoiManager |
class |
FilterROIByOverlapAlgorithm |
class |
FilterRoiByStatisticsAlgorithm
Wrapper around
RoiManager |
class |
FilterRoiByStatisticsScriptAlgorithm
Wrapper around
RoiManager |
class |
FilterROIListsAlgorithm |
class |
RemoveBorderRoisAlgorithm
Wrapper around
RoiManager |
class |
SliceROIListAlgorithm
Wrapper around
RoiManager |
| Modifier and Type | Class and Description |
|---|---|
class |
AppendRectangularRoiAlgorithm
Deprecated.
|
class |
DefineRectangularRoiAlgorithm
Deprecated.
|
class |
GenerateMissingRoiListsAlgorithm |
class |
MaskToRoiAlgorithm |
class |
ReferencedAppendRectangularRoiAlgorithm
Deprecated.
|
class |
ReferencedDefineRectangularRoiAlgorithm
Deprecated.
|
class |
TableToCircularROIAlgorithm
Wrapper around
RoiManager |
class |
TableToRectangularROIAlgorithm
Wrapper around
RoiManager |
| Modifier and Type | Class and Description |
|---|---|
class |
CountROIAlgorithm |
class |
RoiStatisticsAlgorithm
Wrapper around
RoiManager |
| Modifier and Type | Class and Description |
|---|---|
class |
AddRoiListsAlgorithm
Wrapper around
RoiManager |
class |
FilterAndMergeRoiByStatisticsScriptAlgorithm
Wrapper around
RoiManager |
class |
MergeRoiListsAlgorithm
Wrapper around
RoiManager |
| Modifier and Type | Class and Description |
|---|---|
class |
ChangeRoiNameFromExpressionsAndMeasurementsAlgorithm |
class |
ChangeRoiPropertiesAlgorithm
Wrapper around
RoiManager |
class |
ChangeRoiPropertiesFromAnnotationsAlgorithm
Wrapper around
RoiManager |
class |
ChangeRoiPropertiesFromExpressionsAlgorithm
Wrapper around
RoiManager |
class |
ColorRoiByNameAlgorithm |
class |
ColorRoiByStatisticsAlgorithm
Wrapper around
RoiManager |
class |
OutlineRoiAlgorithm
Wrapper around
RoiManager |
class |
ReorderRoiDimensionsAlgorithm
Algorithm that reorders Hyperstack dimensions
|
class |
RoiFloodFillAlgorithm
Wrapper around
RoiManager |
class |
RoiToCentroidAlgorithm
Wrapper around
RoiManager |
class |
ScaleRoiAlgorithm
Wrapper around
RoiManager |
| Modifier and Type | Class and Description |
|---|---|
class |
ExtractROIMetadataAlgorithm |
class |
RemoveROIMetadataAlgorithm |
class |
SetRoiMetadataByStatisticsAlgorithm
Wrapper around
RoiManager |
class |
SetROIMetadataFromTableAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
SortAndExtractRoiByStatisticsAlgorithm
Deprecated.
|
class |
SortAndExtractRoiByStatisticsAlgorithm2
Wrapper around
RoiManager |
class |
SortRoiListByExpressionsAndMeasurementsAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
ExplodeRoiAlgorithm
Wrapper around
RoiManager |
class |
SplitRoiAlgorithm
Wrapper around
RoiManager |
| Modifier and Type | Class and Description |
|---|---|
class |
ClassicWatershedSegmentationAlgorithm |
class |
RidgeDetector2DAlgorithm |
class |
SeededWatershedSegmentationAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
LaplacianSharpen2DAlgorithm
Wrapper around
ImageProcessor |
| Modifier and Type | Class and Description |
|---|---|
class |
AverageKeyValueThresholdStatisticsGenerator |
class |
FastKeyValueThresholdStatisticsGenerator |
class |
HistogramGenerator
Algorithm that generates
ResultsTableData as histogram |
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 |
BrightSpotsSegmentation2DAlgorithm
Applies Bright spots segmentation
|
class |
CircularHoughSegmentation2DAlgorithm
Segments using a Hough circle transform
|
class |
CustomAutoThreshold2D16UAlgorithm
Thresholding node that thresholds via an auto threshold
|
class |
CustomAutoThreshold2D32FAlgorithm
Thresholding node that thresholds via an auto threshold
|
class |
CustomAutoThreshold2D8UAlgorithm
Thresholding node that thresholds via an auto threshold
|
class |
FastCircularHoughSegmentation2DAlgorithm
Segments using a Hough circle transform
This code is based on ...
|
class |
HessianSegmentation2DAlgorithm
Segments using a Hessian
|
class |
InternalGradientSegmentation2DAlgorithm
Internal gradient segmenter
|
class |
LinesHoughDetection2DAlgorithm |
class |
ManualThreshold16U2DAlgorithm
Wrapper around
ImageProcessor |
class |
ManualThreshold32F2DAlgorithm
Wrapper around
ImageProcessor |
class |
ManualThreshold8U2DAlgorithm
Wrapper around
ImageProcessor |
class |
PercentileThreshold8U2DAlgorithm
Wrapper around
ImageProcessor |
class |
ThresholdByAnnotation2DAlgorithm
Wrapper around
ImageProcessor |
| Modifier and Type | Class and Description |
|---|---|
class |
ColorThresholdExpression2D |
class |
ManualHSBThreshold2DAlgorithm |
class |
ManualLABThreshold2DAlgorithm |
class |
ManualRGBThreshold2DAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
IterativeThresholdByROIStatistics2DAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
BernsenLocalAutoThreshold2DAlgorithm
Segmenter node that thresholds via an auto threshold
Based on code from
Auto_Local_Threshold |
class |
ContrastLocalAutoThreshold2DAlgorithm
Segmenter node that thresholds via an auto threshold
Based on code from
Auto_Local_Threshold |
class |
LocalAutoThreshold2DAlgorithm
Segmenter node that thresholds via an auto threshold
Based on code from
Auto_Local_Threshold |
class |
NiblackLocalAutoThreshold2DAlgorithm
Segmenter node that thresholds via an auto threshold
Based on code from
Auto_Local_Threshold |
class |
PhansalkarLocalAutoThreshold2DAlgorithm
Segmenter node that thresholds via an auto threshold
Based on code from
Auto_Local_Threshold |
class |
SauvolaLocalAutoThreshold2DAlgorithm
Segmenter node that thresholds via an auto threshold
Based on code from
Auto_Local_Threshold |
| Modifier and Type | Class and Description |
|---|---|
class |
AddBorder2DAlgorithm |
class |
MergeImagesAlgorithm |
class |
TileImage2DAlgorithm |
class |
TransformCrop2DAlgorithm
Wrapper around
ImageProcessor |
class |
TransformEqualCanvasSize2DAlgorithm |
class |
TransformEqualizeDimensionsAlgorithm |
class |
TransformExpandCanvas2DAlgorithm |
class |
TransformFlip2DAlgorithm
Wrapper around
ImageProcessor |
class |
TransformRotate2DAlgorithm
Wrapper around
ImageProcessor |
class |
TransformRotateFree2DAlgorithm
Wrapper around
ImageProcessor |
class |
TransformScale2DAlgorithm
Wrapper around
ImageProcessor |
class |
TransformScale3DAlgorithm
Wrapper around
ImageProcessor |
class |
TransformSetHyperstackDimensionsAlgorithm |
class |
UnTileImage2DAlgorithm |
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 |
ImageJDataTypesExtension
Provides ImageJ data types
|
| Modifier and Type | Class and Description |
|---|---|
class |
BioFormatsExporter |
class |
DisplayRangeCalibrationAlgorithm |
class |
ImagePropertiesToAnnotationAlgorithm
Adds data annotations that contain the image properties
|
class |
ImageTypeConverter
Converts ImageJ data type into each other
|
class |
SetBioFormatsExporterSettings |
| Modifier and Type | Class and Description |
|---|---|
class |
ColorSpaceConverterAlgorithm |
class |
ToHSBColorSpaceConverterAlgorithm |
class |
ToLABColorSpaceConverterAlgorithm |
class |
ToRGBColorSpaceConverterAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
BioFormatsImporter
BioFormats importer wrapper
|
class |
ImagePlusFromFile
Loads an image data from a file via IJ.openFile()
|
class |
ImportLUTAsRGBFromFile |
class |
ResultsTableFromFile
Imports
ResultsTableData from a file |
class |
ROIDataFromFile
Loads ROI data from a file via IJ.openFile()
|
class |
ROIDataFromOMEImage
Loads ROI data from a file via IJ.openFile()
|
| Modifier and Type | Class and Description |
|---|---|
class |
MeasurementColumnSortOrder
A key-value pair parameter of
MeasurementColumn to SortOrder |
static class |
MeasurementColumnSortOrder.List
A list of
MeasurementColumnSortOrder |
| Modifier and Type | Class and Description |
|---|---|
class |
JsonExtensionLoaderExtension
Extension that loads
JIPipeJsonExtension |
class |
JsonExtensionRegistrationTask
Registers a
JIPipeJsonExtension |
| Modifier and Type | Class and Description |
|---|---|
class |
MultiParameterAlgorithmsExtension
Extension that provides capabilities to run multiple parameters
|
class |
MultiParametersExtension
Extension that provides capabilities to run multiple parameters
|
| Modifier and Type | Class and Description |
|---|---|
class |
AnnotationsToParametersAlgorithm |
class |
ConvertParametersToTableAlgorithm |
class |
DefineParametersAlgorithm
Generates
ParametersData objects |
class |
DefineParametersTableAlgorithm
Generates
ParametersData objects |
class |
ExtractParametersAlgorithm |
class |
GeneratedParameters
Encapsulates the generation of parameters
|
class |
GenerateParametersFromExpressionAlgorithm |
class |
MergeParametersAlgorithm |
class |
ParametersToAnnotationsAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
NodeTemplateBoxToolExtension |
| Modifier and Type | Class and Description |
|---|---|
class |
OMEROExtension
Provides data types dor handling strings
|
| Modifier and Type | Class and Description |
|---|---|
class |
DownloadOMEROImageAlgorithm |
class |
DownloadOMEROTableAlgorithm |
class |
UploadOMEROImageAlgorithm |
class |
UploadOMEROTableAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
OMERODatasetReferenceDataSource |
class |
OMEROFindDatasetAlgorithm |
class |
OMEROFindGroupAlgorithm |
class |
OMEROFindImageAlgorithm |
class |
OMEROFindProjectAlgorithm |
class |
OMEROGroupReferenceDataSource |
class |
OMEROImageReferenceDataSource |
class |
OMEROProjectReferenceDataSource |
| Modifier and Type | Class and Description |
|---|---|
class |
OmniposeExtension |
| Modifier and Type | Class and Description |
|---|---|
class |
OmniposeAlgorithm |
class |
OmniposeTrainingAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
StandardParametersExtension
Provides some standard parameters
|
| Modifier and Type | Class and Description |
|---|---|
class |
ListParameter<T>
A parameter that is a collection of another parameter type
|
| Modifier and Type | Class and Description |
|---|---|
class |
EnumParameterGenerator |
| Modifier and Type | Class and Description |
|---|---|
class |
FunctionParameter<I,P,O>
A parameter that allows to model a function with an input, an output, and parameters.
|
class |
StringPatternExtractionFunction
A function entry that applies pattern extraction to an
String |
static class |
StringPatternExtractionFunction.List
List of
StringPatternExtractionFunction |
| Modifier and Type | Class and Description |
|---|---|
class |
SlotMapParameterCollection
Parameter that holds a value for each data slot
|
| Modifier and Type | Class and Description |
|---|---|
class |
PairParameter<K,V>
Parameter equivalent of
Map.Entry. |
| Modifier and Type | Class and Description |
|---|---|
class |
ParameterCollectionList
A list of multiple
JIPipeParameterCollection items (internally JIPipeDynamicParameterCollection. |
| Modifier and Type | Class and Description |
|---|---|
class |
ColorListParameter |
| Modifier and Type | Class and Description |
|---|---|
class |
PathList
Collection of paths.
|
| Modifier and Type | Class and Description |
|---|---|
class |
InputSlotMapParameterCollection
Parameter that holds a value for each data slot
|
class |
OutputSlotMapParameterCollection
Parameter that holds a value for each data slot
|
| Modifier and Type | Class and Description |
|---|---|
static class |
PluginCategoriesEnumParameter.List |
| Modifier and Type | Class and Description |
|---|---|
class |
StringPatternExtraction
A parameter that extracts a pattern from a string
|
static class |
StringPatternExtraction.List
A collection of multiple
StringPatternExtraction |
| Modifier and Type | Class and Description |
|---|---|
class |
NumberRangeParameterGenerator
Generator that creates instances of
Number. |
static class |
StringOrDouble.List
A collection of multiple
StringOrDouble
The filters are connected via "OR" |
| Modifier and Type | Class and Description |
|---|---|
class |
DoubleList
A list of
Double |
class |
FloatList
A list of
Float |
class |
IntegerList
A list of
Integer |
class |
LongList
A list of
Long |
class |
StringList
A list of
String |
| Modifier and Type | Class and Description |
|---|---|
class |
OptionalAnnotationNameParameter
Parameter used for creating annotations
|
class |
OptionalDataAnnotationNameParameter
Parameter used for creating annotations
|
| Modifier and Type | Class and Description |
|---|---|
class |
ImageJDataExporterRef
Helper to allow easy serialization of
ImageJDataExporter references |
class |
ImageJDataExportOperationRef
Helper to allow easy serialization of
ImageJDataExporter references |
class |
ImageJDataImporterRef
Helper to allow easy serialization of
ImageJDataImporter references |
class |
ImageJDataImportOperationRef
Helper to allow easy serialization of
ImageJDataImporter references |
class |
JIPipeDataInfoRef
Helper to allow easy serialization of
JIPipeDataInfo references |
class |
JIPipeNodeInfoRef
A parameter that holds a reference to an
JIPipeNodeInfo |
class |
JIPipeParameterTypeInfoRef
A parameter that holds a reference to an
JIPipeParameterTypeInfo |
| Modifier and Type | Class and Description |
|---|---|
static class |
FixedMargin.List
List parameter of
FixedMargin |
static class |
Margin.List
List parameter of
Margin |
class |
RectangleList
List parameter of
Rectangle |
| Modifier and Type | Class and Description |
|---|---|
class |
PipelineRenderExtension
Extension containing some additional tools
|
| Modifier and Type | Class and Description |
|---|---|
class |
PlotsExtension
Provides a standard selection of plots
|
| Modifier and Type | Class and Description |
|---|---|
class |
BarBoxAndWhiskerCategoryPlotData
A box and whisker plot
Series table columns: Value (Double), Category (String), Group (String)
Multiple series: Yes
|
class |
BarCategoryPlotData
A bar category plot
Series table columns: Value (Double), Category (String), Group (String)
Multiple series: No
|
class |
BarStatisticalCategoryPlotData
A statistical bar category plot
Series table columns: Value (Double), Category (String), Group (String)
Multiple series: No
|
class |
BoxAndWhiskerCategoryPlotData
Contains data for box and whisker category plots category plots.
|
class |
CategoryPlotData
Contains data for category plots.
|
class |
HistogramPlotData
Contains data to generate a histogram plot
Series table colums: Value (Numeric)
Multiple series: Yes
|
class |
LineCategoryPlotData
Generates a bar category plot
Series table columns: Value (Double), Category (String), Group (String)
Multiple series: No
|
class |
LineStatisticalCategoryPlotData
Generates a bar category plot
Series table columns: Value (Double), Category (String), Group (String)
Multiple series: No
|
class |
LineXYPlotData
Generates a bar category plot
Series table columns: X (Double), Y (Double)
Multiple series: Yes
|
class |
Pie2DPlotData
Generates a Pie chart
Series table columns: Amount (Double), Category (String)
Multiple series: No
|
class |
Pie3DPlotData
Generates a Pie chart
Series table columns: Amount (Double), Category (String)
Multiple series: No
|
class |
PiePlotData
Contains data for pie plots.
|
class |
PlotData
Contains all necessary data to generate a plot
|
class |
ScatterXYPlotData
A scatter XY plot
Series table columns: X (Double), Y (Double)
Multiple series: Yes
|
class |
StackedBarCategoryPlotData
A stacked bar plot
Series table columns: Value (Double), Category (String), Group (String)
Multiple series: No
|
class |
StatisticalCategoryPlotData
Contains data for statistical plots.
|
class |
XYPlotData
Contains data for XY plots
Any plot has following columns:
X (Double), Y (Double)
|
| Modifier and Type | Class and Description |
|---|---|
class |
PlotTables2Algorithm
Algorithm that creates
PlotData from ResultsTableData
This is an improved version of PlotTables2Algorithm that is linked directly to a specific plot |
class |
PlotTablesAlgorithm
Deprecated.
Instead, the new dynamically generated plotting should be utilized
|
| Modifier and Type | Class and Description |
|---|---|
class |
ProcessEnvironment |
static class |
ProcessEnvironment.List
A list of
ProcessEnvironment |
class |
ProcessesExtension |
| Modifier and Type | Class and Description |
|---|---|
class |
JIPipePythonAdapterLibraryEnvironment
Environment that supplies the JIPipe Python adapter library
|
static class |
JIPipePythonAdapterLibraryEnvironment.List
A list of
JIPipePythonAdapterLibraryEnvironment |
class |
PythonEnvironment
Parameter that describes a Python environment
|
static class |
PythonEnvironment.List
A list of
PythonEnvironment |
class |
PythonExtension
Python nodes
|
class |
PythonPackageLibraryEnvironment
An environment-like type that points to a package
|
| Modifier and Type | Class and Description |
|---|---|
class |
IteratingJythonScriptAlgorithm
An algorithm that allows to run Python code
|
class |
IteratingPythonScriptAlgorithm
An algorithm that allows to run Python code
|
class |
JythonScriptAlgorithm
An algorithm that allows to run Python code
|
class |
MergingJythonScriptAlgorithm
An algorithm that allows to run Python code
|
class |
MergingPythonScriptAlgorithm
An algorithm that allows to run Python code
|
class |
PythonScriptAlgorithm
An algorithm that allows to run Python code
|
class |
SimpleIteratingJythonScriptAlgorithm
An algorithm that allows to run Python code
|
| Modifier and Type | Class and Description |
|---|---|
class |
REnvironment |
static class |
REnvironment.List
A list of
REnvironment |
class |
RExtension |
| Modifier and Type | Class and Description |
|---|---|
class |
ImportRDatasetAlgorithm |
class |
IteratingRScriptAlgorithm |
class |
MergingRScriptAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
DefaultCacheDisplaySettings
A dynamic settings sheet that lets users select the default cache display
|
class |
DefaultResultImporterSettings
A dynamic settings sheet that lets users select the default importer
|
static class |
DownloadSettings.DownloadEnvironment |
class |
StandardSettingsExtension
Extension that provides all JIPipe included settings sheets
|
| Modifier and Type | Class and Description |
|---|---|
class |
StringsExtension
Provides data types dor handling strings
|
| Modifier and Type | Class and Description |
|---|---|
class |
StringDefinitionDataSource |
| Modifier and Type | Class and Description |
|---|---|
class |
TablesExtension
Standard set of table operations
|
| Modifier and Type | Class and Description |
|---|---|
class |
DefineTablesAlgorithm
Algorithm that annotates all data with the same annotation
|
class |
GenerateColumnAlgorithm
Algorithm that adds or replaces a column by a generated value
|
class |
GenerateTableFromExpressionAlgorithm
Algorithm that adds or replaces a column by a generated value
|
class |
IntegrateColumnsAlgorithm
Algorithm that integrates columns
|
class |
ModifyAndMergeTablesScript
Algorithm that annotates all data with the same annotation
|
class |
ModifyTableColumnNamesAlgorithm |
class |
ModifyTablesScript
Algorithm that annotates all data with the same annotation
|
class |
TablesFromScript
Algorithm that annotates all data with the same annotation
|
| Modifier and Type | Class and Description |
|---|---|
class |
AddAnnotationColumnsAlgorithm
Algorithm that integrates columns
|
class |
AnnotateByTablePropertiesAlgorithm |
class |
AnnotateDataWithTableValues |
class |
ConvertAnnotationTableToAnnotatedTables
Algorithm that integrates columns
|
| Modifier and Type | Class and Description |
|---|---|
class |
ApplyExpressionToColumnsAlgorithm
Algorithm that integrates columns
|
class |
ColumnsToAnnotationsAlgorithm |
class |
ColumnToNumericAlgorithm
Algorithm that removes columns
|
class |
ColumnToStringAlgorithm
Algorithm that removes columns
|
class |
ConvertColumnsAlgorithm
Algorithm that integrates columns
|
class |
RemoveColumnAlgorithm
Algorithm that removes columns
|
class |
RenameSingleColumnsAlgorithm
Algorithm that removes columns
|
class |
RenameTableColumnsAlgorithm
Algorithm that removes columns
|
class |
RenameTableColumnsToAnnotationAlgorithm
Algorithm that removes columns
|
class |
SortTableColumnsAlgorithm
Algorithm that integrates columns
|
| Modifier and Type | Class and Description |
|---|---|
class |
FilterTableRowsAlgorithm
Algorithm that integrates columns
|
class |
FilterTablesAlgorithm
Algorithm that integrates columns
|
class |
SliceTableRowsAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
MergeColumnsAlgorithm
Algorithm that integrates columns
|
class |
MergeTableColumnsSimpleAlgorithm
Algorithm that integrates columns
|
class |
MergeTableColumnsSupplementAlgorithm
Algorithm that integrates columns
|
class |
MergeTableRowsAlgorithm
Algorithm that integrates columns
|
| Modifier and Type | Class and Description |
|---|---|
class |
AddMissingRowsInSeriesAlgorithm |
class |
ApplyExpressionPerRowAlgorithm |
class |
SortTableRowsAlgorithm
Algorithm that integrates columns
|
| Modifier and Type | Class and Description |
|---|---|
class |
SplitTableByColumnsAlgorithm
Algorithm that integrates columns
|
class |
SplitTableIntoColumnsAlgorithm
Algorithm that integrates columns
|
class |
SplitTableIntoRowsAlgorithm
Algorithm that integrates columns
|
| Modifier and Type | Class and Description |
|---|---|
class |
HistogramAlgorithm |
class |
MeltTableAlgorithm
Algorithm that integrates columns
|
class |
UnMeltTableAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
ConvertingTableColumnProcessorParameterList |
class |
ExpressionTableColumnGeneratorProcessorParameterList |
class |
ExpressionTableColumnProcessorParameterList |
class |
IntegratingTableColumnProcessorParameterList |
class |
ResultsTableDataList
A list of
ResultsTableData |
class |
TableColumnGeneratorProcessorParameterList |
| Modifier and Type | Class and Description |
|---|---|
class |
TableColumnGeneratorParameter
A parameter that allows the user to setup a table column generator
|
| Modifier and Type | Class and Description |
|---|---|
class |
ConvertingTableColumnProcessorParameter
A parameter that models processing an input column via an conversion function
and generating an output column
|
class |
ExpressionTableColumnGeneratorProcessor
Processor-like parameter that maps a column generator to a string
|
class |
ExpressionTableColumnProcessorParameter
A parameter that models processing an input column via an conversion function
and generating an output column
|
class |
IntegratingTableColumnProcessorParameter
A parameter that models processing an input column via an integration function
and generating an output column
|
class |
TableColumnGeneratorProcessor
Processor-like parameter that maps a column generator to a string
|
| Modifier and Type | Class and Description |
|---|---|
class |
ToolsExtension
Extension containing some additional tools
|
| Modifier and Type | Class and Description |
|---|---|
class |
UtilitiesExtension |
| Modifier and Type | Class and Description |
|---|---|
class |
ConverterAlgorithm
Algorithm that converts any type to any other type
|
class |
DataBatchSlicer |
class |
DataSlicer |
class |
ImportJIPipeSlotFolderAlgorithm |
class |
RunExpressionAlgorithm |
class |
SelectDataTableRowsAlgorithm |
class |
SetVirtualStateAlgorithm |
class |
SleepAlgorithm |
class |
SortRowsByAnnotationsAlgorithm |
class |
SortRowsByExpressionAlgorithm |
class |
ToDataStringAlgorithm |
class |
UsePlaceholderForMissingDataAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
AnnotateWithDataTableProperties |
class |
ExtractTableAlgorithm |
class |
MergeDataToTableAlgorithm |
class |
PullDataTableAnnotations |
class |
PushDataTableAnnotations |
| Modifier and Type | Class and Description |
|---|---|
class |
DistributeDataRandomlyByCountAlgorithm |
class |
DistributeDataRandomlyByPercentageAlgorithm |
| Modifier and Type | Class and Description |
|---|---|
class |
GetJIPipeSlotFolderAlgorithm |
class |
JIPipeProjectParameterDefinition |
class |
PathsToJIPipeProjectParametersAlgorithm |
class |
RunJIPipeProjectAlgorithm
Runs a JIPipe project
|
| Modifier and Type | Class and Description |
|---|---|
class |
RunProcessIteratingAlgorithm |
class |
RunProcessMergingAlgorithm |
| Constructor and Description |
|---|
ReloadableValidityChecker(JIPipeValidatable validatable) |
ReloadableValidityChecker(JIPipeValidatable validatable,
MarkdownDocument helpDocument) |
| Modifier and Type | Class and Description |
|---|---|
class |
JIPipeJsonExtensionProjectValidation
Supplies additional validation only for projects
|
| Modifier and Type | Class and Description |
|---|---|
class |
UpdateSiteExtension
Helper class that encapsulates an ImageJ update site into a
JIPipeExtension |
| Modifier and Type | Class and Description |
|---|---|
class |
JIPipePlotSeriesBuilder
Constructs a series from a set of columns
|
class |
PlotEditor
User interface for displaying and creating plots
|
| Modifier and Type | Class and Description |
|---|---|
class |
QuickRun
Allows to test one algorithm with multiple parameters
|
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