Can Ergen
Can Ergen
Hi Jacob, the current AnnData developers have no plan to continue developing AnnCollection but the idea is to focus on the dask integration. This should handle it similarly. I'm a...
To follow up on it, the MappedCollection release is now production ready (we still need to fix the tests there): https://github.com/scverse/scvi-tools/pull/3193/files. MappedCollection has several advantages over AnnCollection in terms of...
Can you create a PR for this (can be in just the regular Training code)? Do you have some benchmarking for training time to add validation loss at each step?
@ori-kron-wis can you please fix this? It should behave similarly for all types of covariates. It needs a legacy load though similarly to the fix in scANVI. Maybe the better...
Adressed in sysVI merge https://github.com/scverse/scvi-tools/pull/3195
What's the status of this? The bug was reported 5 months ago in that specific branch https://github.com/Lightning-AI/pytorch-lightning/pull/19976 authored by @awaelchli and approved by @lantiga. There seems to be no activity...
Some comments > 1. Is this implementation here should be general enough for all models? Yes, we should check with @florianingelfinger for cytoVI though. > 2. If this is the...
Addressed in #2956. Rule introduced to keep this formatting in the future.