Update several tutorials so they will work in scvi-tools 1.2.0, py312… - Githubissues

scverse / scvi-tutorials

Notebooks used in scvi-tools tutorials

https://docs.scvi-tools.org/en/stable/tutorials/index.html

BSD 3-Clause "New" or "Revised" License

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Update several tutorials so they will work in scvi-tools 1.2.0, py312… #353

Closed ori-kron-wis closed 1 month ago

ori-kron-wis commented 1 month ago

… as well as on new servers

Formatting

[ ] My tutorial has only one top-level (#) header

Reproducibility

[ ] My tutorial works on Google Colab
[ ] My tutorial sets scvi.settings.seed = 0 at the beginning of the notebook
[ ] My tutorial has been run and includes outputs (e.g. plots, tables)

Other

[ ] Counts and normalized data should co-exist in the datasets, see the API overview for an example
[ ] For scRNA-seq data, normalization should be counts per median library size and then log1p transformed -- if not, a reason should be given

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