How to use OptSpace function in Python? No fit_transform method
Open
- Dominant language
- JavaScript
- Stars
- 37
- Forks
- 18
- PR merge metrics
- No merged PRs in 30d
Description
I'm trying to use `U,s,V = OptSpace().fit_transform(A_)` but there are no defaults for `OptSpace` and there is also no `fit_transform` method.
How can I use your `DEICODE` Python package without using `qiime2`?
Side question, is `OptSpace` only intended for aitchison transformed compositional data?
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Research direction
Begin with the Python API around OptSpace and the DEICODE package’s non-QIIME2 usage; the issue names no source file or test. Check how OptSpace is constructed and whether fit_transform is part of the intended interface, then clarify the supported standalone workflow and the Aitchison-data expectation.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- data, machine-learning
- Issue type
- Feature
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 30/100