MultiVeloVAE - Velocity inference from multi-lineage, multi-omic, and multi-sample single-cell data
Package Installation
The package depends on several popular packages in computational biology and machine learning, including scanpy, scVelo, PyTorch, and scikit-learn. We suggest using a GPU to accelerate the training process.
To install the MultiVeloVAE package through PyPI:
pip install multivelovae
And import the package inside python:
import multivelovae as vv
Package Usage
Please feel free to test this method on our previously published 10X Multiome datasets. See https://multivelo.readthedocs.io/en/latest/MultiVelo_Demo.html. The example of running the mouse brain dataset is located in paper-notebooks. Alternatively, you can apply the same training and analysis steps on our single-sample HSPC dataset for which we provide the AnnData objects directly in figshare. Expected runtimes can be found inside each notebook.
This file lists the versions of packages used to generate manuscript figures.
TODO
bioconda readthedocs
1 maintainer
Metadata
1 maintainer
Release files for multivelovae 0.1.0
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Source distribution (sdist)
| File | Size | Uploaded | |
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| multivelovae-0.1.0.tar.gz | 120.7 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| multivelovae-0.1.0-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 245.5 kB
Release files / multivelovae-0.1.0.tar.gz
| Download URL | multivelovae-0.1.0.tar.gz |
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Release files / multivelovae-0.1.0-py3-none-any.whl
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| Size | 124.8 kB |
| Tags | Python 3 |
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