scvi-tools 0.9.0-alpha.0

This is our first prerelease with our new PyTorch Lightning powered backend and is available via PyPi:

pip install scvi-tools==0.9.0a0

Docs can be seen by changing from the stable to latest version on the docs website.

Please report any issues on GitHub.

scvi-tools 0.8.1

See the release notes for changes.

This release is available via PyPi:

pip install scvi-tools

Conda availability will follow (< 4 days typically)

Please report any issues on GitHub.

scvi-tools 0.8.0

See the release notes for all the new functionality, and breaking changes.

This release is available via PyPi:

pip install scvi-tools

Conda availability will follow (< 4 days typically)

Please report any issues on GitHub.

scvi-tools 0.8.0-beta.0

See the release notes for all the new functionality.

This release is available via PyPi:

pip install scvi-tools

Please report any issues on GitHub.

scvi-tools 0.7.1

This small update provides access to our new Discourse forum from the docs website.

This release is available via PyPi:

pip install scvi-tools

Conda release will follow (additional 1-3 days)

Please report any issues on GitHub.

scvi-tools 0.7.0

scvi is now scvi-tools. This is a major upgrade and will break all previous code.

See the docs for all the new functionality.

This is the first official release of scvi-tools.

This release is available via PyPi:

pip install scvi-tools

Conda release will follow (additional 1-3 days)

Please report any issues on GitHub.

scvi-tools 0.7.0-beta.0

scvi is now scvi-tools. This is a major upgrade and will break all previous code.

See the docs for all the new functionality.

This is the first beta release of scvi-tools.

This release is available via PyPi:

pip install scvi-tools

Conda release will take additional time.

Please report any issues on GitHub.

scvi-tools 0.7.0-alpha.6

scvi is now scvi-tools. This is a major upgrade and will break all previous code.

See the docs for all the new functionality.

In this alpha release, we fixed various bugs in our DE functionality with sparse matrices, the memory configuration of anndata objects, automated the number of epochs for many models based on dataset size, fixed how we store categoricals so that anndatas set up with scvi-tools can be saved, fixed scvi.__version__, and other bug fixes.

This release is available via PyPi:

pip install scvi-tools

We are currently figuring out issues with our conda build.

Please report any issues on GitHub.

scvi-tools 0.7.0-alpha.5

scvi is now scvi-tools. This is a major upgrade and will break all previous code.

See the docs for all the new functionality.

In this alpha release, we fixed various bugs in our DE functionality, restored proper defaults, reduced an extra pass on the train set per epoch when using early stopping, and fixed bugs with ScviConfig.

This release is available via PyPi:

pip install scvi-tools

We are currently figuring out issues with our conda build.

Please report any issues on GitHub.

scvi-tools 0.7.0-alpha.4

scvi is now scvi-tools. This is a major upgrade and will break all previous code.

See the docs for all the new functionality.

In this release, we moved scvi.dataset to scvi.data and scvi.models to scvi.model.

This release is available via PyPi:

pip install scvi-tools

Please report any issues on GitHub.