MiniAn
MiniAn is an analysis pipeline and visualization tool inspired by both CaImAn and MIN1PIPE package specifically for Miniscope data.
Prerequisites
- FFmpeg (
ffmpegandffprobeonPATHfor video I/O)
Quick Start Guide
- (Recommended) Create and activate a fresh environment, e.g.
python -m venv minian-env && source minian-env/bin/activateorconda create -y -n minian && conda activate minian - Install MiniAn, either:
- with pip:
pip install minian(install FFmpeg separately, see Prerequisites), or - from conda-forge:
conda install -y -c conda-forge minian(includes FFmpeg)
- with pip:
- Copy the pipeline notebook into your working directory:
minian notebooks copy pipeline - Fire up jupyter and open it:
jupyter notebook minian-notebooks/pipeline/pipeline.ipynb
The notebook downloads its demo recording automatically on first run (cached and
checksum-verified). Browse and manage the bundled notebooks with
minian notebooks list and the demo datasets with minian data list. See the
command line interface reference
for all commands and options.
Documentation
MiniAn documentation is hosted on ReadtheDocs at:
https://minian.readthedocs.io/
Contributing to MiniAn
We would love feedback and contribution from the community! See the contribution page for more detail!
License
This project is licensed under GNU GPLv3.
2 maintainers
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 minian-2.0.2.tar.gz.
File metadata
- Download URL: minian-2.0.2.tar.gz
- Upload date:
- Size: 1.4 MB
- Tags: Source
- Uploaded using Trusted Publishing? Yes
- Uploaded via: twine/6.1.0 CPython/3.13.12
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 |
2b4ee1325172abb024723330575cdeb83b19de06ff8f9e21270ff2a78f6056d4
|
|
| MD5 |
4c64bcfd1b6b9683bf53f3bac404e659
|
|
| BLAKE2b-256 |
5d1a42189d5fa776c0b367d70bf7a188c2f4f796d6e88f4c37392e744df4b959
|
Provenance
The following attestation bundles were made for minian-2.0.2.tar.gz:
Publisher:
publish.yml on miniscope/minian
-
Statement:
-
Statement type:
https://in-toto.io/Statement/v1 -
Predicate type:
https://docs.pypi.org/attestations/publish/v1 -
Subject name:
minian-2.0.2.tar.gz -
Subject digest:
2b4ee1325172abb024723330575cdeb83b19de06ff8f9e21270ff2a78f6056d4 - Sigstore transparency entry: 1970809177
- Sigstore integration time:
-
Permalink:
miniscope/minian@45d510aab82f47f1d57923f8e2652dd3bdcaa514 -
Branch / Tag:
refs/tags/v2.0.2 - Owner: https://github.com/miniscope
-
Access:
public
-
Token Issuer:
https://token.actions.githubusercontent.com -
Runner Environment:
github-hosted -
Publication workflow:
publish.yml@45d510aab82f47f1d57923f8e2652dd3bdcaa514 -
Trigger Event:
push
-
Statement type:
File details
Details for the file minian-2.0.2-py3-none-any.whl.
File metadata
- Download URL: minian-2.0.2-py3-none-any.whl
- Upload date:
- Size: 1.4 MB
- Tags: Python 3
- Uploaded using Trusted Publishing? Yes
- Uploaded via: twine/6.1.0 CPython/3.13.12
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 |
4c08e0b128ecf193e7d3f5096aa21d6459ea1f24932fe8240cc72c1fb91479da
|
|
| MD5 |
8a452cb0a844bc623e7c55596bb18e4c
|
|
| BLAKE2b-256 |
168050592a616965508cd394d9d6a6daa4c22e8608f97a66f3061d310ce5b206
|
Provenance
The following attestation bundles were made for minian-2.0.2-py3-none-any.whl:
Publisher:
publish.yml on miniscope/minian
-
Statement:
-
Statement type:
https://in-toto.io/Statement/v1 -
Predicate type:
https://docs.pypi.org/attestations/publish/v1 -
Subject name:
minian-2.0.2-py3-none-any.whl -
Subject digest:
4c08e0b128ecf193e7d3f5096aa21d6459ea1f24932fe8240cc72c1fb91479da - Sigstore transparency entry: 1970809302
- Sigstore integration time:
-
Permalink:
miniscope/minian@45d510aab82f47f1d57923f8e2652dd3bdcaa514 -
Branch / Tag:
refs/tags/v2.0.2 - Owner: https://github.com/miniscope
-
Access:
public
-
Token Issuer:
https://token.actions.githubusercontent.com -
Runner Environment:
github-hosted -
Publication workflow:
publish.yml@45d510aab82f47f1d57923f8e2652dd3bdcaa514 -
Trigger Event:
push
-
Statement type:
