Concat on disk
Open
Nobody has claimed this yet.
enhancement
- Dominant language
- Python
- Stars
- 134
- Forks
- 23
- Avg merge
- 27m
- Merged PRs (30d)
- 7
Description
I would like to move to MuData for multiomic data, but one roadblock so far has been concatenating mudata objects that are too large to fit in memory. Are there any plans to implement some of the functions from AnnData e.g. concat_on_disk that could get around memory limitations?
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
The issue points to AnnData's experimental/merge.py implementation of concat_on_disk. Start there and review how MuData objects are currently concatenated to assess the requirements for large multimodal objects. A complete contribution would need an agreed API and behavior for disk-backed concatenation, which the issue does not yet specify.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- data
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 30/100