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change file-based to on-disk
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berombau committed Sep 7, 2024
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Tools like rpy2 and reticulate allow for direct communication between languages within a single analysis session. This approach provides flexibility and avoids intermediate file I/O, but can introduce complexity in managing dependencies and environments.


## File-based Interoperability
## Disk-based Interoperability

Storing intermediate results in standardized, language-agnostic file formats (e.g., HDF5, Parquet) allows for sequential execution of scripts written in different languages. This approach is relatively simple but can lead to increased storage requirements and I/O overhead.
Storing intermediate results to disk in standardized, language-agnostic file formats (e.g., HDF5, Parquet) allows for sequential execution of scripts written in different languages. This approach is relatively simple but can lead to increased storage requirements and I/O overhead.

## Workflow Frameworks

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