fiji-plugin | Topic | Ecosyste.ms: Repos

Topic: "fiji-plugin"

trackmate-sc/TrackMate

TrackMate is your buddy for your everyday tracking.

Language: Java - Size: 12.4 MB - Last synced at: 20 days ago - Pushed at: about 1 month ago - Stars: 192 - Forks: 79

lmb-freiburg/Unet-Segmentation

The U-Net Segmentation plugin for Fiji (ImageJ)

Language: Java - Size: 2.1 MB - Last synced at: about 1 year ago - Pushed at: over 2 years ago - Stars: 86 - Forks: 25

ekatrukha/BigTrace

FIJI plugin for tracing of curvilinear structures in volumetric microscopy datasets

Language: Java - Size: 5.48 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 29 - Forks: 4

UU-cellbiology/ZstackDepthColorCode

Z-stack Depth Colorcode ImageJ FIJI plugin

Language: Java - Size: 56.6 KB - Last synced at: 30 days ago - Pushed at: over 4 years ago - Stars: 24 - Forks: 7

bonej-org/BoneJ2

Plugins for bone image analysis

Language: Java - Size: 4.08 MB - Last synced at: 16 days ago - Pushed at: 16 days ago - Stars: 23 - Forks: 12

saalfeldlab/n5-ij

ImageJ convenience layer for N5

Language: Java - Size: 2.7 MB - Last synced at: 23 days ago - Pushed at: 23 days ago - Stars: 17 - Forks: 12

ariel-waisman/LabelsToROIs

A Fiji/ImageJ plugin to generate ROIs from label images, allowing ROI erosion and quantification

Language: Python - Size: 2.02 MB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 17 - Forks: 8

ekatrukha/CurveTrace

Curve tracing ImageJ plugin

Language: Java - Size: 934 KB - Last synced at: 4 months ago - Pushed at: over 4 years ago - Stars: 16 - Forks: 4

yu-lab-vt/SynQuant

A Fiji plugin that automatically quantify synapses from multi-channel fluorescence microscopy images.

Language: Java - Size: 21.7 MB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 14 - Forks: 4

mianalysis/mia

Modular, object-based analysis for ImageJ/Fiji

Language: Java - Size: 220 MB - Last synced at: 15 days ago - Pushed at: 15 days ago - Stars: 13 - Forks: 2

UU-cellbiology/ComDet

ImageJ plugin detecting and colocalizing particles of given size (vesicles, dots, etc on biological microscopy images)

Language: Java - Size: 1.77 MB - Last synced at: over 1 year ago - Pushed at: about 2 years ago - Stars: 13 - Forks: 4

UU-cellbiology/DoM_Utrecht

Detection of Molecules plugin for ImageJ, Utrecht University

Language: Java - Size: 8.67 MB - Last synced at: over 1 year ago - Pushed at: over 2 years ago - Stars: 12 - Forks: 4

ClearVolume/imglib2-clearvolume

ImgLib2 integration for ClearVolume

Language: Java - Size: 1.33 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 11 - Forks: 3

acayuelalopez/CellTypeAnalyzer

:microscope: This is an ImageJ or Fiji plugin to identify, characterize, quantify and classify cells according to user-defined conditions.

Language: Java - Size: 103 MB - Last synced at: 10 months ago - Pushed at: over 2 years ago - Stars: 10 - Forks: 0

UniBoDS4H/IA

Fiji / ImageJ plugin for Imaging Alignment. This plugin manages two types of alignment: Manual Alignment and Automatic Alignment.

Language: Java - Size: 102 MB - Last synced at: 16 days ago - Pushed at: 16 days ago - Stars: 8 - Forks: 1

pmascalchi/ImageJ_AutoClickerJ

A plugin to combine power of mouse and keyboard control with image processing and analysis tools in ImageJ

Size: 51.8 KB - Last synced at: 10 months ago - Pushed at: over 7 years ago - Stars: 7 - Forks: 0

UU-cellbiology/PTU_Reader

ImageJ plugin reading PicoQuant ptu/pt3 FLIM image files

Language: Java - Size: 220 KB - Last synced at: 7 months ago - Pushed at: 7 months ago - Stars: 6 - Forks: 1

DIDSR/BoneJ_Headless

Scripts for executing Fiji plugin BoneJ in headless mode in Python to compute bone microstructure metrics

Language: Python - Size: 396 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 5 - Forks: 3

UU-cellbiology/Correlescence

spatial and temporal cross correlations in 1D and 2D for fluorescent microscopy (ImageJ plugin)

Language: Java - Size: 612 KB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 5 - Forks: 0

Chlanda-Lab/cryoCLEM

Toolbox for post-correlation cryo-CLEM workflow developed at Chlanda Lab, Heidelberg University.

Language: Java - Size: 103 KB - Last synced at: over 1 year ago - Pushed at: over 2 years ago - Stars: 5 - Forks: 0

ishibaki/awesome-imagej-plugins

😎 Awesome lists about ImageJ Plugins!

Size: 21.5 KB - Last synced at: 28 days ago - Pushed at: over 3 years ago - Stars: 5 - Forks: 0

UU-cellbiology/bigvolumebrowser

browsing large volumetric data

Language: Java - Size: 8.35 MB - Last synced at: 1 day ago - Pushed at: 1 day ago - Stars: 4 - Forks: 0

joda01/evanalyzer

EVAnalyzer 1 - EV analyzing plugin for Fiji

Language: Java - Size: 317 MB - Last synced at: 2 days ago - Pushed at: 2 days ago - Stars: 4 - Forks: 0

UU-cellbiology/KymoResliceWide

ImageJ plugin making kymographs of maximum or average intensity with wide lines, polylines, curves

Language: Java - Size: 154 KB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 4 - Forks: 1

thorstenwagner/ij-trajectory-classifier

This plugin segments and classify diffusion trajectories

Language: Java - Size: 47 MB - Last synced at: 4 days ago - Pushed at: over 7 years ago - Stars: 4 - Forks: 4

theresaswayne/stereology

ImageJ scripts for stereology and morphometry

Language: Python - Size: 6.84 KB - Last synced at: over 1 year ago - Pushed at: almost 8 years ago - Stars: 4 - Forks: 0

arttumiettinen/fast-thickmap-imagej

Fast local thickness map plugin for ImageJ/Fiji

Language: Java - Size: 4.39 MB - Last synced at: over 2 years ago - Pushed at: about 3 years ago - Stars: 3 - Forks: 0

tferr/ASA 📦

Legacy project, now part of https://github.com/morphonets/SNT. Bitmap morphometry of neuronal arbors through Sholl

Language: Java - Size: 2.45 MB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 3 - Forks: 5

UU-cellbiology/bvv-playground

playing with BigVolumeViewer LUTs/gamma/render

Language: Java - Size: 1.95 MB - Last synced at: 10 days ago - Pushed at: 10 days ago - Stars: 2 - Forks: 1

BIOP/ArgoLight_analysis_tool

Code to control the quality of images taken with our microscopes

Language: Java - Size: 17.3 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 2 - Forks: 1

goehringlab/saibr_fiji_plugin

A simple GUI-based FIJI plugin for performing spectral autofluorescence correction on biological images

Language: Java - Size: 177 MB - Last synced at: almost 2 years ago - Pushed at: almost 2 years ago - Stars: 2 - Forks: 0

bruvellu/WormBox

Fiji/ImageJ plugin to help measuring linear distances.

Language: Python - Size: 1.59 MB - Last synced at: about 1 year ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 1

fiji/pQCT

Fiji plugins for pQCT image analysis.

Language: Java - Size: 712 KB - Last synced at: over 1 year ago - Pushed at: almost 3 years ago - Stars: 2 - Forks: 5

LauLauThom/Fiji-QualiAnnotations

Fiji plugins for qualitative image annotations + analysis workflows for image-classification and data-visualization

Language: Python - Size: 5.61 MB - Last synced at: 3 months ago - Pushed at: about 4 years ago - Stars: 2 - Forks: 1

thorstenwagner/ij-nanotrackj

NanoTrackJ is an ImageJ/Fiji plugin to characterize the size of nanoparticles by its diffusion trajectories.

Language: Java - Size: 51.8 KB - Last synced at: 4 days ago - Pushed at: over 7 years ago - Stars: 2 - Forks: 1

sedflix/Active-Contours-API-for-Fiji-ImageJ

This is an easy to use active contours api for Fiji(ImageJ).

Language: Java - Size: 2.93 KB - Last synced at: 5 days ago - Pushed at: almost 8 years ago - Stars: 2 - Forks: 0

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

Language: Java - Size: 12.7 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 1 - Forks: 0

Turku-BioImaging/ColonyArea

ImageJ-plugin that performs standard analysis of colony formation assays conducted in 6- to 24-well dishes.

Language: ImageJ Macro - Size: 13.1 MB - Last synced at: 10 months ago - Pushed at: 11 months ago - Stars: 1 - Forks: 0

L-EL/TreeJ

Fiji/ImageJ plugin to annotate a labeled image

Language: Java - Size: 70.9 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 1 - Forks: 0

phflot/variational_aligner_IJ

ImageJ and Fiji Plugin for fast, variational 1D alignment of multichannel linescan data

Language: Java - Size: 1.3 MB - Last synced at: about 2 years ago - Pushed at: about 4 years ago - Stars: 1 - Forks: 0

ComplexOrganizationOfLivingMatter/Fiji-plugins

GitHub Repository which is used as a Maven Repository

Size: 24.2 MB - Last synced at: 10 months ago - Pushed at: over 5 years ago - Stars: 1 - Forks: 0

hadim/maskflow 📦

Maskflow: Object Detection and Segmentation for Cell Biology.

Language: Jupyter Notebook - Size: 23.8 MB - Last synced at: about 21 hours ago - Pushed at: almost 6 years ago - Stars: 1 - Forks: 0