scvi-tools
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scverse
Deep probabilistic analysis of single-cell and spatial omics data
updates: - [github.com/pre-commit/mirrors-prettier: v3.1.0 → v4.0.0-alpha.8](https://github.com/pre-commit/mirrors-prettier/compare/v3.1.0...v4.0.0-alpha.8) - [github.com/astral-sh/ruff-pre-commit: v0.2.1 → v0.2.2](https://github.com/astral-sh/ruff-pre-commit/compare/v0.2.1...v0.2.2)
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Users should now use `scvi.train.SaveCheckpoint` or the `enable_checkpointing` Lightning arg instead.
- [x] Bump version in `pyproject.toml` #2538 - [x] If patch release, backport version bump PR into the appropriate branch. Else, create a new branch off `main` with the appropriate...
No milestone yet - will assess once we get started.
Bug using "scvi-tools/tabula-sapiens-heart-stereoscope" hugging face scvi model - scvi-tools 1.0.4
Hi! I followed this tutorial [scvi-hugging-face](https://colab.research.google.com/github/scverse/scvi-tutorials/blob/1.0.4/hub/scvi_hub_intro_and_download.ipynb#scrollTo=89938623) to load pre-trained scvi models and make some predictions/obtain the latent representation. This is my current environment: **env.yaml** > name: base > channels: >...
See #1063. CC @canergen Two ways we could implement this: `train_indices`, `validation_indices`, and `test_indices` - Need to validate that indices are within range and check for overlaps - Easier to...
when I integrating datasets with scVI in R (https://docs.scvi-tools.org/en/stable/tutorials/notebooks/scrna/scvi_in_R.html), it reports the following warnings. I am wondering how could I set the num_workers in R? Could you give some suggestions?...
