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- use NumPyro - simplify codebase - use Poetry
- improve run_nuts() and run_svi() - improve SplotchResult
- add tests - use `logging.getLogger(__name__)`
Graph based tissue section detection
- add pytest-cov - improve test coverage
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What
Refactor the whole code base.
Why
The code base is old and it was put together without a good structure. Additionally, the use of CmdStan introduced some complicated steps when it comes to input data generation and downstream analysis. Finally, the code was not going to work on Visium data.
How
Here is a list of the main changes:
Testing
Experimented with the package and implemented tests to ensure that the package works as expected.
Anything else
There are many breaking changes.