Index

A

Align Images Align Images FFT Align Images FFT Output Align Images FFT Plugin Interface Align Images Output Align Images Plugin Interface Align Stacks Align Stacks Plugin Interface

Apply Mask Apply Mask Output Apply Mask Plugin Interface Assign Foci to Clusters Assign Foci to Clusters Features Assign Foci to Clusters Plugin Interface Assign Foci to Objects Assign Foci to Objects Features Assign Foci to Objects Plugin Interface

B

Batch Processing

Binary Scoring Statistics

C

CDA (Macro) CDA Features CDA Method CDA Plugin Interface CDA Results Table Cell Outliner Cell Outliner Method Cell Outliner Output Cell Outliner Plugin Interface

Cells Plugins Colocalisation Plugins Colocalisation Threshold Colocalisation Threshold Features Colocalisation Threshold Method Colocalisation Threshold Plugin Interface Colocated Mask Colocated Mask Output Colocated Mask Plugin Interface Contrast Enhancer

D

Difference of Gaussians Difference of Gaussians Output

Difference of Gaussians Plugin Interface Double Mask Divider

E

Edge Mask

Edge Mask Output Edge Mask Plugin Interface

F

File Match Calculator Find Foci Plugins FindFoci FindFoci Algorithm Overview FindFoci Batch FindFoci Batch Features FindFoci Batch Plugin Interface FindFoci Features FindFoci GUI FindFoci GUI Features FindFoci GUI Plugin Interface FindFoci Helper FindFoci Helper Features FindFoci Helper Plugin Interface FindFoci Image Input FindFoci Macro Extensions FindFoci Match Calculator FindFoci Optimiser

FindFoci Optimiser Features FindFoci Optimiser GUI FindFoci Optimiser GUI Features FindFoci Optimiser GUI Plugin Interface FindFoci Optimiser Multi-Image FindFoci Optimiser Multi-Image Features FindFoci Optimiser Multi-Image Plugin Interface FindFoci Optimiser Plugin Interface FindFoci Plugin Interface FindFoci Results Table FindFoci Settings Foci Neighbour Analysis Foreground Analyser Foreground Analyser Plugin Interface Foreground Analyser Results Table FRAP Analysis FRAP Analysis Method FRAP Analysis Plugin Interface FRAP Analysis Results

G

GDSC ImageJ Plugins Global Threshold

Global Threshold Output Global Threshold Plugin Interface Google Analytics Details

H

HSB Filter HSB Filter Output

HSB Filter Plugin Interface HSB Picker HSB Picker Plugin Interface

I

Image Scaler Image Scaler Plugin Interface ImageJ Plugins Overview Install using ImageJ version 1 Install using ImageJ2/Fiji

Installation Intensity Analysis Intensity Analysis Plugin Interface Intensity Analysis Results Issues

L

Laplacian of Gaussian

Laplacian of Gaussian Output Laplacian of Gaussian Plugin Interface

M

Mask Analyze Channels Mask Analyze Particles Mask Creator Mask Creator Output Mask Creator Plugin Interface Mask Divider Mask Object Dimensions Mask Overlap Mask Overlap Output Mask Overlap Plugin Interface Mask to Border Mask to Border Output

Mask to Border Plugin Interface Mask to ROI Mask to ROI Output Mask to ROI Plugin Interface Match Calculator Match Calculator Features Match Calculator Plugin Interface Measure 3D Measure 3D Results Table Multi-Threshold Multi-Threshold Output Multi-Threshold Plugin Interface

N

Nuclei Outline Nuclei Outline Method

Nuclei Outline Plugin Interface Nuclei Outline Results Overlay Nuclei Outline Results Table

O

Object Foci Depth

P

Particle Correlation Particle Correlation Object Mask Particle Correlation Plugin Interface Particle Correlation Results Table Particle Correlation Scatter Plot Particle Correlation Summary Table Particle Overlap Particle Overlap Plugin Interface

Particle Overlap Results Table Performance Point Aligner Point Aligner Features Point Aligner Plugin Interface Point Extractor Point Extractor Features Point Extractor Plugin Interface

R

References

S

Scale Space Scale Space Output Scale Space Plugin Interface Skeleton Analyser Skeleton Analyser Output Skeleton Analyser Plugin Interface Spot Analyser Spot Analyser Plugin Interface Spot Analyser Results Table Spot Density Spot Distance Spot Pair Distance Spot Pairs

Spot Radial Intensity Spot Separation Spot Separation Plugin Interface Spot Separation Results Table Stack Colocalisation Analyser Stack Colocalisation Analyser Plugin Interface Stack Colocalisation Analyser Results Table Stack Correlation Analyser Stack Correlation Analyser Plugin Interface Stack Correlation Analyser Results Stack Threshold Stack Threshold Image Thresholding Stack Threshold Plugin Interface

T

Thread Analyser Thread Analyser Plugin Interface Thread Analyser Results Table Threshold Outliner Threshold Outliner Output

Threshold Outliner Plugin Interface Thresholding Plugins Toolsets Tracking Identifiers Translocation Finder (Tool)

U

Usage Data Usage Tracking

User Preferences Utility Plugins

Z

Z Project extra