Repositories list

• nicolas-pasquier-crc-manuscript

  Public
  Image processing source code for the paper "Signaling downstream of tumor-stroma interaction regulates mucinous colorectal carcinoma apicobasal polarity"

  Python

  •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

• .github

  Public
  0•0•0•0•Updated Sep 19, 2024Sep 19, 2024

• stagetool-ui

  Public
  Vue3 web interface for StageTool

  Vue

  •0•0•4•0•Updated Aug 29, 2024Aug 29, 2024

• ColonyArea

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

  imagejfijiimage-processing+ 3fiji-plugincell-biologyimagej-plugin

  ImageJ Macro

  •

  GNU General Public License v3.0

  •0•1•1•0•Updated Jun 28, 2024Jun 28, 2024

• mouse-brain-alignment-tool

  Public
  Python

  •0•0•3•0•Updated Mar 5, 2024Mar 5, 2024

• omero-workshop

  Public
  0•0•0•0•Updated May 23, 2023May 23, 2023

• Fast4DReg

  Public
  Fast4DReg is a Fiji script for quick drift correction in time-lapse 3D-stacks. The script can be used to correct drift in all x-, y- and/or z-directions.

  Java

  •

  MIT License

  •3•0•0•0•Updated May 22, 2023May 22, 2023

• split-and-merge

  Public
  Fiji macro that splits and merges multi-dimensional TIFFs.

  fijiimage-processingbioimage-analysis+ 1fiji-macro

  ImageJ Macro

  •

  MIT License

  •0•0•0•0•Updated Jan 30, 2023Jan 30, 2023

• imagej.github.io

  Public
  The ImageJ wiki

  JavaScript

  •

  Other

  •119•0•0•0•Updated Jan 15, 2023Jan 15, 2023

• list-of-update-sites

  Public
  The update sites ImageJ2 knows about automatically

  Python

  •92•0•0•0•Updated Jan 4, 2023Jan 4, 2023

• filopodia-counter

  Public
  Fiji script for automated filopodia counting from single cell images.

  fijibiologyimage-processing+ 2imagej-macrofiji-macro

  ImageJ Macro

  •

  MIT License

  •0•1•0•0•Updated Jan 3, 2023Jan 3, 2023

• idt-colocalization-analysis

  Public
  Container for performing classic image colocalization analysis

  container

  Python

  •0•0•1•0•Updated Dec 5, 2022Dec 5, 2022

• idt-texture-analysis

  Public
  pythondockercontainer+ 3image-analysisharalick-featuresmahotas

  Python

  •0•0•1•0•Updated Dec 5, 2022Dec 5, 2022

• splinedist-starter

  Public
  Starter package for using SplineDist for cell segmentation

  pythonteachingsegmentation+ 2microscopysplinedist

  C

  •

  BSD 3-Clause "New" or "Revised" License

  •0•1•0•0•Updated Jun 17, 2022Jun 17, 2022

• splinedist

  Public
  SplineDist: Automated Cell Segmentation with Spline Curves

  Jupyter Notebook

  •

  BSD 3-Clause "New" or "Revised" License

  •15•0•0•0•Updated May 25, 2022May 25, 2022

• omero-docker

  Public
  Deploy an OMERO server using Docker Compose

  dockeromeromicroscopy+ 1bioimaging

  Shell

  •0•0•0•0•Updated May 23, 2022May 23, 2022

• omero-cli-docker

  Public
  PowerShell

  •

  MIT License

  •0•0•0•0•Updated May 19, 2022May 19, 2022

• turku-bioimaging.github.io

  Public
  Website of Turku Bioimaging - Image Data Team (TBI-IDAT) containing our current and past projects as well as software and tools we use.

  pythondockerfiji+ 5kerasimage-processingcellprofilerimage-segmentationbash-script

  HTML

  •0•0•2•0•Updated Feb 1, 2022Feb 1, 2022