Simple implementation of Most Permissive Boolean networks
Project description
The mpbn Python module offers a simple implementation of reachability and attractor analysis (minimal trap spaces) in Most Permissive Boolean Networks (doi:10.1038/s41467-020-18112-5).
It is built on the minibn module from colomoto-jupyter which allows importation of Boolean networks in many formats. See http://colomoto.org/notebook.
Installation
CoLoMoTo Notebook environment
mpbn is distributed in the CoLoMoTo docker.
Using pip
pip install mpbn
Using conda
conda install -c colomoto -c potassco mpbn
Usage
Command line
- Enumeration of fixed points and attractors:
mpbn -h
- Simulation:
mpbn-sim -h
Python interface
Documentation is available at https://mpbn.readthedocs.io.
Example notebooks:
- https://nbviewer.org/github/bnediction/mpbn/tree/master/examples/
- http://doi.org/10.5281/zenodo.3719097
For the simulation:
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
mpbn-3.0.tar.gz
(12.5 kB
view details)
Built Distribution
mpbn-3.0-py3-none-any.whl
(15.6 kB
view details)
File details
Details for the file mpbn-3.0.tar.gz.
File metadata
- Download URL: mpbn-3.0.tar.gz
- Upload date:
- Size: 12.5 kB
- Tags: Source
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/4.0.2 CPython/3.11.3
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 | 7cdabdd781910ef33016fa6bc03f923ae0951af84465dccf8c1e4d12d73f9b5f |
|
| MD5 | 2902d744c0b3bf3fab85ce092d7c37c6 |
|
| BLAKE2b-256 | 872d48e29762eeb2ff20d5f2ff6fa20250b4e94be4cda4fb151a87264c70df06 |
File details
Details for the file mpbn-3.0-py3-none-any.whl.
File metadata
- Download URL: mpbn-3.0-py3-none-any.whl
- Upload date:
- Size: 15.6 kB
- Tags: Python 3
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/4.0.2 CPython/3.11.3
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 | 65d44d42f8ed784ddd8fe8fdbea3fcd81c5ff9da4ff9675a7b0a5755074fcb98 |
|
| MD5 | 1cf055c77f3e32bb1d52d594a8bab5e9 |
|
| BLAKE2b-256 | c0292c6b23bb9982c721aa077cae31ae91a4cf71e9d24653c93933939e88ed25 |
