TileDB-SOMA-ML
A Python package containing ML tools for use with TileDB-SOMA.
Docs: single-cell-data.github.io/TileDB-SOMA-ML.
NOTE: this is a pre-release package, and may be subject to breaking API changes prior to first release.
Description
The package contains a prototype PyTorch IterableDataset, ExperimentDataset, for use with the torch.utils.data.DataLoader API.
notebooks/ contains tutorials and examples that use this repo to train toy models. For a general introduction to PyTorch data loading, see this tutorial. Additional information on the DataLoader/Dataset pattern can be found here.
Defects and feature requests should be filed as a GitHub issue in this repo. Please include a reproducible test case in all bug reports.
Getting Started
Installing
Install from PyPI:
pip install tiledbsoma-ml
Developers may install editable, from source, in the usual manner -- clone the repo and execute:
pip install -e .
Documentation
Documentation can be found at single-cell-data.github.io/TileDB-SOMA-ML, and in the notebooks directory.
Builds
This is a pure Python package. To build a wheel, ensure you have the build package installed, and then:
python -m build .
Version History
See the CHANGELOG.md file.
License
This project is licensed under the MIT License.
Acknowledgements
The SOMA team is grateful to the Chan Zuckerberg Initiative Foundation CELLxGENE Census team for their initial contribution.
Release files for tiledbsoma-ml 0.1.0
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | Provenance | |
|---|---|---|---|---|
| tiledbsoma_ml-0.1.0.tar.gz | 488.3 kB | With provenance | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| tiledbsoma_ml-0.1.0-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 514.4 kB
Release files / tiledbsoma_ml-0.1.0.tar.gz
| Download URL | tiledbsoma_ml-0.1.0.tar.gz |
|---|---|
| Size | 488.3 kB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
f6d5fb9f1ec0652b807403e8a2392fed828ae28b82fda3497c112249f4027bf2
|
|
BLAKE2b-256 checksum How to use checksums |
cc472b721e6f86860f8fc8b46646111fe1abadea413d2e5998e397bf09a7c612
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
Yes |
| Uploaded via |
twine/6.1.0 CPython/3.12.9
|
Provenance
Provenance describes where a file came from. On PyPI, provenance is shared via attestations, which provide a verifiable record of the build or publishing details. View details, limitations and caveats.
PyPI Publish Attestation
PyPI verified that this artifact, at this checksum, originated from the publisher listed below.
Signed by GitHub Actions, verified by PyPI on Mar 20, 2025.
Transparency logRelease files / tiledbsoma_ml-0.1.0-py3-none-any.whl
| Download URL | tiledbsoma_ml-0.1.0-py3-none-any.whl |
|---|---|
| Size | 26.1 kB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
fac16be270cd9427b6e7dd88ecc7f0a5ceb05bec893b9e3439004c030efa1798
|
|
BLAKE2b-256 checksum How to use checksums |
38499afddb57a926525867eec278bb95e71b8b5248a5120bb1417cc73a358506
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
Yes |
| Uploaded via |
twine/6.1.0 CPython/3.12.9
|
Provenance
Provenance describes where a file came from. On PyPI, provenance is shared via attestations, which provide a verifiable record of the build or publishing details. View details, limitations and caveats.
PyPI Publish Attestation
PyPI verified that this artifact, at this checksum, originated from the publisher listed below.
Signed by GitHub Actions, verified by PyPI on Mar 20, 2025.
Transparency logSecurity for tiledbsoma-ml 0.1.0
Provenance
Provenance describes where a file came from. On PyPI, provenance is shared via attestations, which provide a verifiable record of the build or publishing details. View details, limitations and caveats.
Full provenance
All 2 files in this release have been uploaded with provenance metadata.
Attestation for tiledbsoma_ml-0.1.0.tar.gz
PyPI Publish Attestation
PyPI verified that this artifact, at this checksum, originated from the publisher listed below.
Signed by GitHub Actions, verified by PyPI on Mar 20, 2025.
Transparency logA note on package security
PyPI is a repository for distributing packages, not a service for auditing them. While third-party security researchers and our staff do their best to detect and remove malicious packages, PyPI cannot guarantee the quality, security or suitability of any given package.
