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Open Source Science

https://github.com/czbiohub-sf/2024-accs-pub

Main public repo for the 2024 Automated Cell Culture Splitter publication

https://github.com/czbiohub-sf/2024-accs-pub

Science Score: 36.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ○
    .zenodo.json file
  • ✓
    DOI references
    Found 3 DOI reference(s) in README
  • ✓
    Academic publication links
    Links to: biorxiv.org
  • ○
    Academic email domains
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (8.1%) to scientific vocabulary
Last synced: 9 months ago · JSON representation

Repository

Main public repo for the 2024 Automated Cell Culture Splitter publication

Basic Info
  • Host: GitHub
  • Owner: czbiohub-sf
  • Language: Python
  • Default Branch: main
  • Homepage:
  • Size: 185 MB
Statistics
  • Stars: 0
  • Watchers: 2
  • Forks: 0
  • Open Issues: 0
  • Releases: 0
Created over 1 year ago · Last pushed over 1 year ago
Metadata Files
Readme

README.md

Automated Cell Culture Splitter

This repository accompanies the 2024 article "Open-source cell culture automation system with integrated cell counting for passaging microplate cultures". It contains the code and original data used to produce the quantitative figures for the article, as referenced in the data availability statement, and also serves as a hub for links to other resources for reproducing the Automated Cell Culture Splitter.

What is this?

The Automated Cell Culture Splitter (ACCS) is a system that does automated splitting of cells in 96-well plates using an Opentrons OT-2 pipetting robot and a custom cell counting instrument. The design and software are open-source. Check out the preprint for more context.

Links

Manuscript

System documentation

  • Manuals for building ACCS and the Cell Counting Imager: (see accs24-pub-supplements/)
  • CAD models for the Cell Counting Imager and CCI flow cell (OnShape)

Software repos

Contents of this repository

  • Directory accs24-pub-figs/:
    Source code and raw data to reproduce the manuscript figures. Refer to accs23_pub_figs/README.md for details.
  • Directory accs24-pub-supplements/:
    Supplements published with the manuscript, in PDF form.

Maintainers

The current maintainer of this repository is Greg Courville (:email:) of the Bioengineering platform at Chan Zuckerberg Biohub San Francisco.

Owner

  • Name: Chan Zuckerberg Biohub San Francisco
  • Login: czbiohub-sf
  • Kind: organization
  • Location: San Francisco

GitHub Events

Total
  • Watch event: 2
  • Push event: 3
  • Public event: 1
Last Year
  • Watch event: 2
  • Push event: 3
  • Public event: 1

Dependencies

accs24-pub-figs/environment.yml pypi
  • aicsimageio ==4.14.0
  • bokeh ==2.4.3
  • flowkit ==1.0.1