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adipoq

A simple toolbox of ImageJ plugins for quantifying adipocyte morphology and function in tissues and in vitro.

adipoq_analyzer

ImageJ plugin to quantify HE-staining images of adipose tissue - Part II.

adipoq_preparator

ImageJ plugin to quantify HE-staining images of adipose tissue.

canny3d-thresholder

ImageJ plugin to preform image binarization based on a canny edge detection in 3 dimensions

ciliaq

An ImageJ plugin to quantify ciliary shape, length, and fluorescence.

ciliaq_editor

An ImageJ plugin to edit segmented channels in images output by CiliaQ_Preparator.

ciliaq_preparator

An ImageJ plugin to prepare images for analysis using CiliaQ.

colorstackbytimeandproject

ImageJ macros to color stacks by time point and create a video where the projection builds up frame by frame.

extractsharpestplane_jnh

ExtractSharpestPlane_JNH is an ImageJ/FIJI plugin to automatically extract the sharpest plane by highest SD from image stacks for large data sets.

freq

An ImageJ plugin to analyze pixel intensity oscillations in time-lapse 2D images. For example, this allows to characterize the ciliary beat of multi-ciliated cells in time-lapse images acquired with a bright-field or phase-contrast microscope.

imagej.github.io

The ImageJ wiki

list-of-update-sites

The update sites ImageJ2 knows about automatically

motiq

A set of ImageJ plugins to quantify dynamics, morphology, and fluorescence of microglial cells.

multifocal_aligncurvesbylms

A pure java tool to align bead profiles obtained by MultiFocalParticleTracker-Calibrator-3 across different planes by LMS.

multifocal_preparation

An ImageJ plugin to convert raw camera recordings from a four-plane multifocal imaging setup, where the planes are projected to different positions of the camera chip, into a hyperstack (including image alignment and background and intensity corrections).

multifocalimaging-analysistoolbox

A toolbox to analyze spherical and filamentous objects in multifocal images with high speed and high precision.

multifocalparticletracker-calibrator-3

An ImageJ plugin to obtain the width of beads in multifocal images for generating a calibration table.

multifocalparticletracker-complex-3

A plugin to calculate the z position of beads in multifocal images based on provding a calibrated relationship of bead radius and z position.

nuclq

NuclQ - an ImageJ plugin to quantify intensity levels by distance to the nuclear membrane.

spermq

An ImageJ plugin to analyze the flagellar beat of sperm, motile cilia beat, and sperm steering.

spermq-mf

Analyzing sperm in images from multifocal microscopy.

spermq-mf_generatelut

By merging width recordings from piezo-driven multifocal z-stacks through immotile sperm, generate a Look-Up-Table for the relationship between the flagellar width and the flagellar z-position for different positions on the flagellum.

spermq_preparator

An ImageJ plugin to preprocess images for SpermQ analysis.

tutorial

none

volume_viewer