Repositories list

• rtm-pymmcore

  Public
  Real-time feedback control microscopy using pymmcore as interface

  Jupyter Notebook

  •

  MIT License

  •1•3•0•0•Updated May 22, 2025May 22, 2025

• arcos4py

  Public
  Python package to detect and analyse collective phenomena

  Jupyter Notebook

  •

  MIT License

  •2•2•0•0•Updated May 18, 2025May 18, 2025

• arcosPx-napari

  Public
  A napari plugin to track spatio-temporal correlations in images

  Python

  •

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

  •2•4•0•0•Updated May 18, 2025May 18, 2025

• pertzlab_mic_configs

  Public
  Config files for microscopes of the pertzlab, university of Bern

  0•1•0•0•Updated May 2, 2025May 2, 2025

• arcos-gui

  Public
  napari-plugin to analyse collective signalling events

  pythoncell-signallingcollective-events

  Python

  •

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

  •1•7•0•0•Updated Apr 1, 2025Apr 1, 2025

• ARCOS-tutorial

  Public
  A Jupyter notebook to identify collective cell signalling in raw microscopy images

  clusteringbiologyspatial-analysis+ 7biological-data-analysismicroscopycell-biologybioimage-analysisbioimage-toolsbioimage-infomaticsbioimage-worflows

  Jupyter Notebook

  •

  GNU General Public License v3.0

  •1•1•0•0•Updated Mar 20, 2025Mar 20, 2025

• ARCOSpx-publication

  Public
  Jupyter Notebook

  •0•2•0•0•Updated Mar 19, 2025Mar 19, 2025

• ARCOS

  Public
  An R package to detect collective spatio-temporal phenomena

  cluster-analysisspatio-temporal-analysistime-series-analysis+ 1single-cell-data

  R

  •

  Other

  •3•12•1•0•Updated Dec 4, 2024Dec 4, 2024

• LITOS

  Public
  LITOS - an easy-to-use tool for optogenetic cell stimulation

  C

  •

  MIT License

  •3•5•0•0•Updated Jul 14, 2024Jul 14, 2024

• shiny-timecourse-inspector

  Public
  R

  •

  GNU General Public License v3.0

  •2•3•0•0•Updated May 8, 2024May 8, 2024

• CODEX

  Public
  Convolutional Neural Network for Dynamics EXploration (CODEX) is a method for mining time-series dataset by leveraging CNN features.

  Jupyter Notebook

  •

  MIT License

  •2•6•0•0•Updated Sep 21, 2023Sep 21, 2023

• dzPlateViewer

  Public
  Deep Zoom Plate Viewer for microscopy images

  JavaScript

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  GNU General Public License v3.0

  •3•0•0•0•Updated Oct 12, 2021Oct 12, 2021

• screenQC

  Public
  R

  •

  GNU General Public License v3.0

  •1•0•0•0•Updated Sep 9, 2020Sep 9, 2020

• shiny-freeclust

  Public
  R

  •

  GNU General Public License v3.0

  •1•0•0•0•Updated Sep 9, 2020Sep 9, 2020

• Outlier_app

  Public
  R

  •2•0•0•0•Updated Aug 11, 2019Aug 11, 2019

• 96ChLED

  Public
  R Script to control the 96ChLED optiogenetical plate from Life Cell Instrument

  R

  •

  GNU General Public License v3.0

  •1•0•0•0•Updated Sep 26, 2018Sep 26, 2018