https://github.com/arcadia-science/arcadia-microscopy-tools
High-throughput microscopy image analysis toolkit
Science Score: 26.0%
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○CITATION.cff file
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○Scientific vocabulary similarity
Low similarity (8.5%) to scientific vocabulary
Repository
High-throughput microscopy image analysis toolkit
Basic Info
- Host: GitHub
- Owner: Arcadia-Science
- License: mit
- Language: Python
- Default Branch: main
- Size: 1.38 MB
Statistics
- Stars: 0
- Watchers: 0
- Forks: 0
- Open Issues: 1
- Releases: 0
Metadata Files
README.md
arcadia-microscopy-tools
This repository contains a Python package called arcadia_microscopy_tools. The purpose of this Python package is for facilitating analysis of large-scale microscopy datasets generated by Arcadia's imaging suite which includes several microscopes:
- Nikon ECLIPSE Ti2-E (Hina)
- Nikon ECLIPSE Ni-E (Babu Frik)
- Leica Stellaris 8 (The Borg)
This package provides tooling for image preprocessing, cell/particle segmentation, morphology analysis, fluorescence quantification, and batch processing pipelines. Supports native file formats (ND2 via nd2 and LIF via readlif) and integrates with popular scientific Python libraries for streamlined high-content screening and quantitative microscopy workflows.
Installation
bash
pip install git+https://github.com/Arcadia-Science/arcadia-microscopy-tools.git
Usage
[DOCUMENTATION ABOUT HOW TO USE THE PACKAGE]
Owner
- Name: Arcadia Science
- Login: Arcadia-Science
- Kind: organization
- Location: United States of America
- Website: https://www.arcadiascience.com/
- Twitter: ArcadiaScience
- Repositories: 16
- Profile: https://github.com/Arcadia-Science
GitHub Events
Total
- Delete event: 9
- Push event: 9
- Public event: 1
- Pull request event: 14
- Fork event: 1
- Create event: 6
Last Year
- Delete event: 9
- Push event: 9
- Public event: 1
- Pull request event: 14
- Fork event: 1
- Create event: 6
Dependencies
- actions/checkout v3 composite
- actions/setup-python v4 composite
- actions/checkout v4 composite
- actions/setup-python v4 composite
- astral-sh/setup-uv v5 composite
- 153 dependencies