jaxfne
JaxFNE is a Python package for biophysical source-field modeling, coupling neural activity and biophysical state with plasticity, geometry, and population- and field-scale dynamics.
JaxFNE is designed for models that need to change easily. Biology, dynamics, connectivity, geometry, and observations can be modified within the same model.
Workflow: change biology → change dynamics → simulate → measure
You can, for example:
- add or change biophysical state $H$;
- change dynamics, plasticity, connectivity, or geometry;
- change model detail;
- measure spikes, population activity, or fields;
- develop or reduce models with JDNA.
Install
pip install jaxfne
pip install "jaxfne[viz]" # optional plotting
Development: pip install -e ".[dev,viz]" after cloning.
Minimal example
import jaxfne as jtfne
jtfne.enable_x64()
tensor = jtfne.load_canonical_neuronal_tensor("canonical-v1-column-1000n")
model = jtfne.construct(tensor, jtfne.RuntimeConfiguration(seed=0, duration_ms=1000.0, dt_ms=0.5))
signals = jtfne.simulate(model)
Import convention: import jaxfne as jtfne.
Documentation
| Resource | Link |
|---|---|
| Quickstart | docs/quickstart.md |
| Site | jaxfne.readthedocs.io |
| Tutorials | docs/tutorials/ |
| Études | docs/etudes/ |
| Public API surface (0.4.13) | docs/public_surface_contract.md |
| Changelog | docs/changelog.md |
If you are an AI agent, read artifacts/AGENTS.md.
Citation
Canonical Visualization Atlas
Seven linked panels (schema, network_3d, raster, lfp, h_dynamics, hdp, oscillatory) separate OBSERVED from DERIVED quantities and attach
manifest provenance. A panel whose declared inputs cannot be met renders an explicit omission card instead of a substitute. Previews and generation code:
documentation site and
Atlas guide.
1 maintainer
Metadata
1 maintainer
Release files for jaxfne 0.5.0
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| jaxfne-0.5.0.tar.gz | 43.1 MB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| jaxfne-0.5.0-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 43.8 MB
Release files / jaxfne-0.5.0.tar.gz
| Download URL | jaxfne-0.5.0.tar.gz |
|---|---|
| Size | 43.1 MB |
| Tags | Source |
|
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| Size | 661.7 kB |
| Tags | Python 3 |
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SHA-256 checksum How to use checksums |
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