Python package to handle probe layout, geometry and wiring to device.
Project description
probeinterface
A Python package to handle the layout, geometry, and wiring of silicon probes for extracellular electrophysiology experiments.
Documentation : https://probeinterface.readthedocs.io/
Goals
Make a lightweight package to handle:
- probe contact geometry (both 2D and 3D layouts)
- probe shape (contour of the probe, shape of channel contact, ...)
- probe wiring to device (the physical layout often doesn't match the channel ordering)
- combining several probes into a device with global geometry + global wiring
- exporting probe geometry data into JSON files
- loading existing probe geometry files (Neuronexus, imec, Cambridge Neurotech...) Started here
Bonus :
- optional plotting (based on
matplotlib
) - load/save geometry using common formats (PRB, CSV, NWB, ...)
- handle SI length units correctly um/mm/...
Target users/projet :
- spikeinterface team : integrate this into spikeextractor for channel location
- neo team : handle array_annotations for AnalogSignal
- spikeforest team : use this package for ploting probe activity
- phy team: integrate for probe display
- spyking-circus team : handle probe with this package
- kilosort team : handle probe with this package
- tridesclous team : handle probe with this package
- open ephys team : automatically generate channel map configuration files
Author: Samuel Garcia
Project details
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
probeinterface-0.2.5.tar.gz
(23.7 kB
view details)
Built Distribution
File details
Details for the file probeinterface-0.2.5.tar.gz
.
File metadata
- Download URL: probeinterface-0.2.5.tar.gz
- Upload date:
- Size: 23.7 kB
- Tags: Source
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/3.4.2 importlib_metadata/4.8.1 pkginfo/1.7.1 requests/2.26.0 requests-toolbelt/0.9.1 tqdm/4.62.2 CPython/3.8.11
File hashes
Algorithm | Hash digest | |
---|---|---|
SHA256 | 0564df49d9b95d9e15e51d3539a07c6b563198c9f931cf8230a25787f57ce402 |
|
MD5 | b2e402822472b63356df059c7c1ae832 |
|
BLAKE2b-256 | 1ebafd9376665e3b1feab1bcd7b062b6e9ddfb8a1fe87e487ff0480005ebf101 |
Provenance
File details
Details for the file probeinterface-0.2.5-py3-none-any.whl
.
File metadata
- Download URL: probeinterface-0.2.5-py3-none-any.whl
- Upload date:
- Size: 26.4 kB
- Tags: Python 3
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/3.4.2 importlib_metadata/4.8.1 pkginfo/1.7.1 requests/2.26.0 requests-toolbelt/0.9.1 tqdm/4.62.2 CPython/3.8.11
File hashes
Algorithm | Hash digest | |
---|---|---|
SHA256 | c451c1e146533ef996ae258599498e104405ba1e95fef965c88f96e5b8ea287e |
|
MD5 | 3bd658da572ff7079b9f3e1499262679 |
|
BLAKE2b-256 | 7b202fb99423e21d6eb7a03254f3afb61bb810af81a39300ea4cc1315c8e5e4a |