https://github.com/bodenmillergroup/histocat
Histology Topography Cytometry Analysis Toolbox
Science Score: 10.0%
This score indicates how likely this project is to be science-related based on various indicators:
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○CITATION.cff file
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○codemeta.json file
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○.zenodo.json file
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○DOI references
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✓Academic publication links
Links to: nature.com -
○Academic email domains
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○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (12.0%) to scientific vocabulary
Repository
Histology Topography Cytometry Analysis Toolbox
Basic Info
- Host: GitHub
- Owner: BodenmillerGroup
- License: other
- Default Branch: master
- Homepage: https://bodenmillergroup.github.io/histoCAT/
- Size: 11.4 MB
Statistics
- Stars: 3
- Watchers: 0
- Forks: 2
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
Welcome
Histology Topography Cytometry Analysis Toolbox (histoCAT) is a package to visualize and analyse multiplexed image cytometry data interactively.
Cite: https://www.nature.com/articles/nmeth.4391
Getting Started
histoCAT is automatically installed from the web when running the app installer file corresponding to your operating system which is available at https://github.com/BodenmillerGroup/histoCAT/releases.
Windows users must have Visual Studio installed for features like PhenoGraph to function. If it’s not already installed on your computer download it from https://www.visualstudio.com/downloads/.
For further informations read the corresponding manual available at https://github.com/BodenmillerGroup/histoCAT/releases.
Installation
Detailed installation instructions are available in the installation manual at https://github.com/BodenmillerGroup/histoCAT/releases.
User instructions
We are currently working on the histoCAT wiki
For further details please read the corresponding manual available at https://github.com/BodenmillerGroup/histoCAT/releases.
Example datasets
Please find a small example data set with every release at https://github.com/BodenmillerGroup/histoCAT/releases
The Nature Methods breast cancer raw data set (large) can be found here: 52 Breast Cancer Samples
The Nature Methods breast cancer data set (large) as a histoCAT session data can be found here: Session Data
All other data associated with the Nature Methods publication can be found here: histoCAT@BodenmillerLab.org
Using histoCAT from source
Please use MATLAB2014b and load the full histoCAT folder into your MATLAB path. Run histoCAT.m to start histoCAT from source.
Owner
- Name: BodenmillerGroup
- Login: BodenmillerGroup
- Kind: organization
- Repositories: 83
- Profile: https://github.com/BodenmillerGroup
GitHub Events
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Last Year
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