Python port of bombcell. Automated quality control, curation and neuron classification of spike-sorted electrophysiology data.
Project description
Bombcell
Python port of BombCell. Automated quality control, curation and neuron classification of spike-sorted electrophysiology data.
Installation
To install the latest stable version:
conda create -n bombcell python=3.11
conda activate bombcell
pip install uv
uv pip install bombcell # you could do `pip install .`, but uv is much quicker!
To install the dev version (with the latest updates):
conda create -n bombcell python=3.11
conda activate bombcell
git clone https://github.com/Julie-Fabre/bombcell.git
cd bombcell/pyBombCell
pip install uv
uv pip install -e .
Quick Start
See the demo script
Features
- Automated quality control for spike-sorted data
- Interactive GUI for manual curation
- Cell type classification (cortical and striatal neurons)
- Comprehensive quality metrics computation
- Parameter optimization tools
Documentation
See the demo notebooks in the Demos/ directory for detailed examples, and see the wiki for more information
License
GPL-3.0 License
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
Built Distribution
Filter files by name, interpreter, ABI, and platform.
If you're not sure about the file name format, learn more about wheel file names.
Copy a direct link to the current filters
File details
Details for the file bombcell-0.66.tar.gz.
File metadata
- Download URL: bombcell-0.66.tar.gz
- Upload date:
- Size: 116.7 kB
- Tags: Source
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/6.1.0 CPython/3.12.7
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 |
0a2ce6f7bb23396a40104c63576eba3fad07887eb81bd71f926c35951d946b13
|
|
| MD5 |
a14f0ce93d8850812f95a7b0d8065ab1
|
|
| BLAKE2b-256 |
83644d81959095e487c421f5b163c270e437eb690e68cdb2ae83973fe3987886
|
File details
Details for the file bombcell-0.66-py3-none-any.whl.
File metadata
- Download URL: bombcell-0.66-py3-none-any.whl
- Upload date:
- Size: 123.0 kB
- Tags: Python 3
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/6.1.0 CPython/3.12.7
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 |
2211b340143505f754adf08e3f7f273c839363f5eafb4f681fd2f7ddb1de0355
|
|
| MD5 |
9993bc01cea7f390da88442e0b8b5acd
|
|
| BLAKE2b-256 |
75252d54b408fd6e9ad7a497b1e0460fc7b111c6f65ca252951995558bf51f55
|
