imagej-plugins

There are 3 repositories under imagej-plugins topic.

• imagej_macros_and_scripts

  MontpellierRessourcesImagerie / imagej_macros_and_scripts

  ImageJ macros and scripts written at the imaging facility MRI

  imagej-macrosimagejfiji-macrofijibioimage-analysisimage-analysis-workflowsjythontoolsetsimagej-macroimagej-pluginsimagej-macro-scripts
  Language:ImageJ Macro 29

• Biomedical-Imaging-Group / OrientationJ

  ImageJ's plugin for directional analysis in images: color-coded analysis, distribution of orientation, vector field, keypoint detection

  imagej-pluginsorientationvector-fielddirectionalitystructure-tensor
  Language:Java 21

• phflot / flow_registration

  Flow-Registration toolbox for 2P motion compensation

  2-photoncalcium-imagingimagej-pluginsmatlabmotion-compensationmotion-correctionneuroimaging
  Language:MATLAB 21

• bonej-org / BoneJ2

  Plugins for bone image analysis

  fiji-pluginimage-analysisimage-processingimagej-pluginsmaven-multimodulejava-8imagejtravis-ciscientific-computingskeletal-biology
  Language:Java 20

• haiderriazkhan / CANDLE-J

  Collaborative Approach for eNhanced Denoising under Low-light Excitation

  image-processingimage-denoisingimagej-plugins
  Language:C 20

• dterstege / FASTMAP

  ImageJ Plugin for Flexible Atlas Segmentation Tool for Multi-Area Processing

  imagej-pluginsimage-registrationimage-segmentation
  Language:ImageJ Macro 18

• ekatrukha / CurveTrace

  Curve tracing ImageJ plugin

  imagej-pluginsfiji-plugincurve-tracingmicroscopy
  Language:Java 15

• emx77 / ASI_MTF

  Imagej macro to calculate the MTF based on a knife edge measurement

  imagej-macroelectron-microscopyimage-analysisx-ray-imagingpoint-spread-functionmtfimagejimagej-plugins
  Language:ImageJ Macro 15

• imagingbook / imagingbook-public

  Image processing software for textbooks by W. Burger & M. Burge

  burger-burgedigital-image-processingimagejimagej-pluginsimagingbookjava
  Language:Java 14

• UU-cellbiology / DoM_Utrecht

  Detection of Molecules plugin for ImageJ, Utrecht University

  imagej-pluginsfiji-pluginsingle-moleculejavaimagejutrecht-university
  Language:Java 14

• UU-cellbiology / ComDet

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

  imagej-pluginsfiji-plugindetectionmicroscopyvesiclesdotsparticlesjavautrecht-university
  Language:Java 13

• thorstenwagner / ij-blob

  ImageJ library to detect and analyse connected components (blobs) in binary images

  component-analysisimage-analysisbinary-imagefijiimagejimagej-plugins
  Language:Java 9

• Rocsg / FijiRelax

  FijiRelax: 3D+t multi-echo spin-echo sequences MRI analysis

  image-processingimagejimagej-pluginsjavamodelingmrirelaxation-time
  Language:Java 8

• SebMilardo / ErrorLevelAnalysis

  Error Level Analysis (ELA) in ImageJ

  image-processingjavaimagej-plugins
  Language:Java 8

• UniBoDS4H / IA

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

  alignmentsfiji-pluginimage-processingimagej-pluginsjava
  Language:Java 8
• CiliaQ

  hansenjn / CiliaQ

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

  ciliaq-workflowimagej-pluginciliumciliaprimary-ciliacilium-lengthciliary-fluorescencetime-lapse-imagingconfocal-imagesfluorescence-microscopy-imagingimagej-plugins
  Language:Java 7

• ij-plugins / ijp-DeBayer2SX

  Raw Bayer pattern to color image converters

  bayer-patternbayer-filterimagejimagej-plugins
  Language:Scala 7

• mrsutherland / XRM_Reader

  ImageJ plugin to read xrm files.

  imagej-pluginsimagejfijixradiazeissxrmxrm-readertxrmtxm
  Language:Java 7

• pmascalchi / ImageJ_AutoClickerJ

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

  macrosimagejmousemacro-extensionkeyboard-controlsanalysisijmkeystrokeskeystroke-injectionmousemovemouse-eventsmouse-buttonfiji-pluginimagej-pluginsimagej-macroautomationautomaticautomatedautomated-analysismacro-recorder
  7

• jpsacha / sbt-imagej

  sbt-imagej is an SBT (Simmple Build Tool) plugin that that helps with development of ImageJ plugins

  imagej-pluginssbt-imagejscalasbt-pluginimagej
  Language:Scala 6

• theresaswayne / stereology

  ImageJ scripts for stereology and morphometry

  imagejfiji-pluginfijiimagej-pluginsimage-analysis
  Language:Python 6

• UU-cellbiology / PTU_Reader

  ImageJ plugin reading PicoQuant ptu/pt3 FLIM image files

  imagejconverterlifetimestackimagej-pluginsfiji-pluginutrecht-universitypt3picoquant
  Language:Java 6
• MotiQ

  hansenjn / MotiQ

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

  imagej-pluginsmicrogliamicroglial-morphologycell-migrationimage-analysis-workflowsmorphologymorphology-analysismorphology-metricsmotilitymicroglial-motilitymorphology-reconstructionmotility-analysisfluorescence-microscopy-analysisfluorescence-microscopy-imagingtimelapse-image
  Language:Java 5

• LauLauThom / MaskFromRois-Fiji

  Fiji plugins for the creation of binary and semantic masks from ROIs in the RoiManager. Works with stacks too.

  segmentationground-truthimage-annotationimagej-pluginsroi
  Language:Python 5

• WeisongZhao / AdaptiveMedian.imagej

  v0.1.0, Adaptive Median fiter - imageJ plugin

  filter-pluginimageimage-processingimagej-pluginsjava
  Language:Java 5

• joda01 / evanalyzer

  EVAnalyzer 1 - EV analyzing plugin for Fiji

  imagej-pluginsfiji-pluginbioinformaticsevbiology
  Language:Java 4

• thorstenwagner / ij-trajectory-classifier

  This plugin segments and classify diffusion trajectories

  trajectory-classifierdiffusionclassificationrandom-forestrenjintrackingimagejimagej-pluginsfijifiji-plugin
  Language:Java 4

• unal-optodigital / DHM

  Digital Holographic Microscopy plugin for ImageJ. Allows realistic simulation and real-time reconstruction of single-shot holograms.

  holographymicroscopyimagej-pluginsoptics
  Language:Java 4
• KymoResliceWide

  UU-cellbiology / KymoResliceWide

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

  imagej-pluginsfiji-pluginstacksjavakymographyutrecht-university
  Language:Java 4

• arttumiettinen / fast-thickmap-imagej

  Fast local thickness map plugin for ImageJ/Fiji

  image-analysisimage-processingimagej-pluginsfiji-plugin
  Language:Java 3

• ishibaki / awesome-imagej-plugins

  😎 Awesome lists about ImageJ Plugins!

  imgaejfijifiji-pluginimagej-pluginsimagej-pluginawesome-listawesome
  3

• josephzammit90 / ImageJ-Recon-Plugin-Java

  ImageJ Plugin Library for 2D reconstruction (back-projection and filtered bp)

  javaimagej-plugins2d-reconstruction
  Language:Java 3

• Borda / ij-CMP-BIA

  Extension for ImageJ (Fiji) by BIA segmentation methods as plugins and some other useful API for image segmentation.

  imagej-plugins
  Language:Java 2

• fiji / pQCT

  Fiji plugins for pQCT image analysis.

  fiji-pluginimagej-pluginsbonemusclepqctstratecsoft-tissue
  Language:Java 2

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

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

  fijifiji-pluginimagej-pluginsimagejlevelsetactive-contour
  Language:Java 2

• syngenta / imagej-plugins

  ImageJ Plugins

  image-processingimagej-pluginsjava
  Language:Java 1