https://github.com/zafarali/metastasis
A hybrid model for cancer metastasis.
https://github.com/zafarali/metastasis
Last synced: about 1 year ago
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A hybrid model for cancer metastasis.
- Host: GitHub
- URL: https://github.com/zafarali/metastasis
- Owner: zafarali
- Created: 2015-06-01T21:11:31.000Z (about 11 years ago)
- Default Branch: master
- Last Pushed: 2016-05-27T18:26:10.000Z (about 10 years ago)
- Last Synced: 2025-04-05T06:28:33.030Z (over 1 year ago)
- Language: Jupyter Notebook
- Size: 13.3 MB
- Stars: 1
- Watchers: 3
- Forks: 1
- Open Issues: 5
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Metadata Files:
- Readme: README.md
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README
# Metastasis
A hybrid model for cancer metastasis implemented in [CompuCell3D](http://compucell3d.org). The model incorporates the genetic, cellular and macroscopic aspects of tumor growth to give an unparalleled insight into the nature of metastasis.
## CompuCell3D (CC3D)
Academic package for tissue simulations. A very versatile package with many parameters. Allows us to use python to execute highly custom scripts at different timesteps.
## cc3dtools
Custom library developed to extend the functionality of CC3D. It has the following packages:
1. `Genome` - used to simulate genomes of cells.
2. `GenomeComapre` and `GenomeCompare2` - used to compare and visualize multiple `Genome` objects
3. `Lineage` - allows us to track the histories of cells and to create newick representations and plot them
4. `Tracker` - used to track divisions, allos us to save as you go or stash and then save them at the end.
#### Administrative Details
- *Supervisor*: Dr. Simon Gravel (@sgravel)
- *Student*: Mr. Zafarali Ahmed (@zafarali)
- *Funding Agency*: Canadian Institutes of Health Research (CIHR) Summer Studentship Award for Computational Biology (Cancer)
- *Location of Work*: McGill University, Montreal, Quebec, Canada