Danila

- Display axis in `MuData.__repr__()` - `MuData.mod` is of type `ModDict` now that subclasses the dictionary and allows to implement custom behaviour such as the one in #44.

Following spec formalisation for AnnData (https://github.com/scverse/anndata/pull/882, [docs](https://anndata.readthedocs.io/en/latest/fileformat-prose.html)), add formal specification for `.mod`, `.obsmap`, `.varmap` groups and `.axis` attribute.

Downstream applications that use count matrices or embeddings from multiple modalities frequently operate on tensors. For instance, in the current `muon.tl.mofa()` interface, there is a way to use or discard...

Slow update() when indices in modalities haven't changed

1

This issue continues the issue #16. While a lot of functionality in MuData just as in AnnData cannot be guaranteed in the presence of duplicates in the indices (and many...

Review and update code to support pandas 2.0 release

See https://github.com/scverse/mudata/issues/89 for detail

# Refactoring - [x] `src/` layout - [x] use [ruff](https://github.com/astral-sh/ruff) and [uv](https://github.com/astral-sh/uv) for CI # ATAC - [ ] do not count duplicates in #110