Repositories list

• autofish

  Public
  Python code to control automated iterative FISH system

  Python

  •

  MIT License

  •0•3•7•0•Updated Nov 14, 2024Nov 14, 2024

• ComSeg

  Public
  comseg

  Python

  •

  MIT License

  •3•17•2•0•Updated Nov 8, 2024Nov 8, 2024

• autofish-analysis

  Public
  Jupyter Notebook

  •

  MIT License

  •0•1•0•0•Updated Nov 7, 2024Nov 7, 2024

• tutorial_gene_selection

  Public
  Jupyter Notebook

  •0•0•0•0•Updated Feb 28, 2024Feb 28, 2024

• big-fish

  Public
  Toolbox for the analysis of smFISH images.

  pattern-classificationsegmentationspatial-features+ 3smfishspot-detectionrna-localization

  Python

  •

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

  •19•58•14•2•Updated Oct 31, 2023Oct 31, 2023

• fq-segmentation

  Public
  Wrapper code for segmentation of cells and nuclei with Cellpose.

  segmentationnucleicellpose

  Python

  •

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

  •2•2•2•1•Updated Jul 19, 2023Jul 19, 2023

• fq-imjoy

  Public
  ImJoy plugins to run different smFISH analysis in a user-friendly setting.

  smfishimjoyimjoy-plugins

  HTML

  •

  MIT License

  •2•2•15•0•Updated Mar 8, 2023Mar 8, 2023

• sim-fish

  Public
  Toolbox to simulate smFISH images.

  Python

  •

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

  •1•7•1•0•Updated Sep 5, 2022Sep 5, 2022

• big-fish-examples

  Public
  Notebooks to illustrate how BigFISH is working.

  Jupyter Notebook

  •

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

  •8•13•5•0•Updated Sep 5, 2022Sep 5, 2022

• fish-quant.github.io

  Public
  Landing page for fish-quant organization.

  imjoybig-fishfish-quant

  JavaScript

  •

  MIT License

  •1•1•1•0•Updated Feb 21, 2022Feb 21, 2022

• fq-interactive-docs

  Public
  Interactive ImJoy docs

  HTML

  •0•0•0•0•Updated Feb 11, 2021Feb 11, 2021