fiji-plugin
There are 60 repositories under fiji-plugin topic.
trackmate-sc/TrackMate
TrackMate is your buddy for your everyday tracking.
lmb-freiburg/Unet-Segmentation
The U-Net Segmentation plugin for Fiji (ImageJ)
ekatrukha/BigTrace
FIJI plugin for tracing of curvilinear structures in volumetric microscopy datasets
UU-cellbiology/ZstackDepthColorCode
Z-stack Depth Colorcode ImageJ FIJI plugin
ariel-waisman/LabelsToROIs
A Fiji/ImageJ plugin to generate ROIs from label images, allowing ROI erosion and quantification
bonej-org/BoneJ2
Plugins for bone image analysis
ekatrukha/CurveTrace
Curve tracing ImageJ plugin
saalfeldlab/n5-ij
ImageJ convenience layer for N5
UU-cellbiology/DoM_Utrecht
Detection of Molecules plugin for ImageJ, Utrecht University
UU-cellbiology/ComDet
ImageJ plugin detecting and colocalizing particles of given size (vesicles, dots, etc on biological microscopy images)
yu-lab-vt/SynQuant
A Fiji plugin that automatically quantify synapses from multi-channel fluorescence microscopy images.
mianalysis/mia
Modular, object-based analysis for ImageJ/Fiji
acayuelalopez/CellTypeAnalyzer
:microscope: This is an ImageJ or Fiji plugin to identify, characterize, quantify and classify cells according to user-defined conditions.
UniBoDS4H/IA
Fiji / ImageJ plugin for Imaging Alignment. This plugin manages two types of alignment: Manual Alignment and Automatic Alignment.
pmascalchi/ImageJ_AutoClickerJ
A plugin to combine power of mouse and keyboard control with image processing and analysis tools in ImageJ
UU-cellbiology/PTU_Reader
ImageJ plugin reading PicoQuant ptu/pt3 FLIM image files
theresaswayne/stereology
ImageJ scripts for stereology and morphometry
UU-cellbiology/Correlescence
spatial and temporal cross correlations in 1D and 2D for fluorescent microscopy (ImageJ plugin)
UU-cellbiology/KymoResliceWide
ImageJ plugin making kymographs of maximum or average intensity with wide lines, polylines, curves
Chlanda-Lab/cryoCLEM
Toolbox for post-correlation cryo-CLEM workflow developed at Chlanda Lab, Heidelberg University.
ishibaki/awesome-imagej-plugins
😎 Awesome lists about ImageJ Plugins!
DIDSR/BoneJ_Headless
Scripts for executing Fiji plugin BoneJ in headless mode in Python to compute bone microstructure metrics
joda01/evanalyzer
EVAnalyzer 1 - EV analyzing plugin for Fiji
thorstenwagner/ij-trajectory-classifier
This plugin segments and classify diffusion trajectories
arttumiettinen/fast-thickmap-imagej
Fast local thickness map plugin for ImageJ/Fiji
fiji/pQCT
Fiji plugins for pQCT image analysis.
goehringlab/saibr_fiji_plugin
A simple GUI-based FIJI plugin for performing spectral autofluorescence correction on biological images
L-EL/TreeJ
Fiji/ImageJ plugin to annotate a labeled image
tferr/ASA
Legacy project, now part of https://github.com/morphonets/SNT. Bitmap morphometry of neuronal arbors through Sholl
bruvellu/WormBox
Fiji/ImageJ plugin to help measuring linear distances.
LauLauThom/Fiji-QualiAnnotations
Fiji plugins for qualitative image annotations + analysis workflows for image-classification and data-visualization
sedflix/Active-Contours-API-for-Fiji-ImageJ
This is an easy to use active contours api for Fiji(ImageJ).
thorstenwagner/ij-nanotrackj
NanoTrackJ is an ImageJ/Fiji plugin to characterize the size of nanoparticles by its diffusion trajectories.
UU-cellbiology/bvv-playground
playing with BigVolumeViewer LUTs/gamma/render
ekatrukha/UnequalTiffs
making montage or combine tiff images of different sizes
MultimodalImagingCenter/MIC-MAQ
MIC-MAQ for Microscopy Images of Cells - Multi Analyses and Quantifications is an ImageJ/Fiji Plugin for automatic segmentation of nuclei and/or cells for quantifications in other channels including foci detection