Treat2p
Made to be used with suite2p, to extend it's capabilities with treatment ones, on top of the nice roi signal extraction features of suite2p.
Made after the matlab developments of Pierre Pierre Marie Gardères
Getting started
To install this package, you simply need to hop into your own virtual environment and run :
pip install treat2p
or
uv add treat2p
How to use :
In short, to treat some plane/channel data that suite2p extracted already:
import treat2p
suite2p_path = r"C:\Users\yourname\Desktop\suite2p"
outputs, stats, ops = treat2p.run_treat2p(suite2p_path, plane = 0, chan = 1)
run_treat2p takes all the arguments that goes into the various stages of the pipeline, registers, them, and stores them in the ops.npy file under the treat2p key.
- neuropil factor estimation (and correction)
- slow trend estimation (and correction)
- deltaF/F0 normalization normalisation or
- "mean centered" normalization
For a bit more explanations, please see the jupyter notebook tutorial here.
1 maintainer
Metadata
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Release files for treat2p 0.1.12
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Source distribution (sdist)
| File | Size | Uploaded | |
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| treat2p-0.1.12.tar.gz | 501.2 kB | Details |
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| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| treat2p-0.1.12-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 522.4 kB
Release files / treat2p-0.1.12.tar.gz
| Download URL | treat2p-0.1.12.tar.gz |
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| Size | 501.2 kB |
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| Size | 21.1 kB |
| Tags | Python 3 |
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