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@JIC-Image-Analysis JIC-Image-Analysis

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    40 repositories

    • dtoolbioimage

      Public
      Bioimaging integration for dtool
      Python
      •
      MIT License
      •0•0•0•12•Updated Feb 10, 2023Feb 10, 2023

    • FISHcountv2

      Public
      FISHcount version 2
      Python
      •0•0•0•7•Updated Dec 8, 2022Dec 8, 2022

    • iview

      Public
      Vispy based image viewer
      Python
      •0•0•0•5•Updated Dec 8, 2022Dec 8, 2022

    • qtagger

      Public
      Qt based tagging program
      Python
      •
      MIT License
      •0•0•0•0•Updated Aug 10, 2022Aug 10, 2022

    • fishtools

      Public
      Python
      •
      MIT License
      •1•0•0•0•Updated Apr 20, 2022Apr 20, 2022

    • root_measurement

      Public
      Python code for taking measurements from confocal images of arabidopsis roots
      Python
      •
      MIT License
      •0•0•0•0•Updated Apr 14, 2022Apr 14, 2022

    • dbimage

      Public
      Blosc compressed numpy image format
      Python
      •0•0•0•0•Updated Feb 2, 2021Feb 2, 2021

    • point-picker

      Public
      Tool for setting points on 2D images
      Python
      •
      MIT License
      •0•0•0•0•Updated Jan 6, 2021Jan 6, 2021

    • lhp1-analysis

      Public
      Python
      •0•0•0•0•Updated Oct 28, 2020Oct 28, 2020

    • roi2json

      Public
      ImageJ ROI conversion library
      Jupyter Notebook
      •0•0•0•0•Updated Jun 18, 2020Jun 18, 2020

    • root-3d-segmentation

      Public
      Scripts to perform a 3D segmentation of a root
      Python
      •
      MIT License
      •1•2•0•0•Updated Jan 20, 2020Jan 20, 2020

    • image-analysis-tutorial

      Public
      A short introduction to image analysis
      Jupyter Notebook
      •0•0•0•0•Updated Dec 12, 2019Dec 12, 2019

    • deep_pavement

      Public
      Python
      •0•0•0•0•Updated Mar 4, 2019Mar 4, 2019

    • protoplast-nuclei-measurements

      Public
      Python
      •0•0•0•0•Updated Feb 18, 2019Feb 18, 2019

    • nuclear_chromatin_analysis

      Public
      Python
      •0•0•0•0•Updated Nov 21, 2018Nov 21, 2018

    • semi_squash_segmentation

      Public
      Python
      •0•0•0•0•Updated Oct 15, 2018Oct 15, 2018

    • seed_cell_parameterisation

      Public
      Parameterisation of seed cell tissue in 2D
      Python
      •
      MIT License
      •0•0•0•0•Updated Oct 1, 2018Oct 1, 2018

    • senescence-in-field

      Public
      Quantify senescence of crops in fields from drone images
      Python
      •
      MIT License
      •0•0•0•0•Updated Jul 2, 2018Jul 2, 2018

    • stem_tissue_characterisatoin

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated Mar 14, 2018Mar 14, 2018

    • leaf-lesion

      Public
      Quantify lesion area in leaf microscopy images
      Python
      •
      MIT License
      •0•0•0•0•Updated Feb 12, 2018Feb 12, 2018

    • rna_fish_3d

      Public
      Find RNA FISH spots in 3D microscopy data
      Python
      •
      MIT License
      •0•0•0•0•Updated Jan 16, 2018Jan 16, 2018

    • cells-from-leaves

      Public
      MATLAB
      •
      MIT License
      •0•0•0•0•Updated Jan 10, 2018Jan 10, 2018

    • cells-from-leaves-tagger

      Public
      Electron app to tag cells from leaf processing pipeline
      JavaScript
      •1•0•0•0•Updated Dec 13, 2017Dec 13, 2017

    • find-plasmodesmata-dockerised

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated Nov 1, 2017Nov 1, 2017

    • format-converter

      Public
      Dtool compatible containerised smart tool for converting microscope formats, using Bioformats
      Python
      •0•0•0•0•Updated Oct 4, 2017Oct 4, 2017

    • cotyledon_area_in_pot

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated Jul 6, 2017Jul 6, 2017

    • cookiecutter-image-analysis

      Public
      Cookiecutter image analysis project template
      Python
      •
      MIT License
      •1•0•0•0•Updated May 26, 2017May 26, 2017

    • beetle_feeding_damage

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated May 25, 2017May 25, 2017

    • line_point_clicker

      Public
      TypeScript
      •0•0•0•0•Updated May 19, 2017May 19, 2017

    • quadrilateral_point_clicker

      Public
      Tool for allowing clicking on points in a dataset
      TypeScript
      •0•0•0•0•Updated May 16, 2017May 16, 2017
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