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Update CHANGELOG
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lazappi committed Nov 27, 2024
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* Update workflows to use core repository dependency (PR #20).

* Update the `common` submodule (PR #24)

* Use the common `checkItemAllowed()` for the method check in the benchmark workflow (PR #24)

* Use the `cxg_immune_cell_atlas` dataset instead of the `cxg_mouse_pancreas_atlas` for testing (PR #24)

* Update `README` (PR #24)

## BUG FIXES

* Update the nextflow workflow dependencies (PR #17).
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* `process_dataset`: Added a component for processing common datasets into task-ready dataset objects.

* `resources_test/denoising/pancreas` with `src/tasks/denoising/resources_test_scripts/pancreas.sh`.

* `workflows/run`: Added nf-tower test script. (PR #205)

### V1 MIGRATION
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### Changes from V1

* Anndata layers are used to store data instead of obsm

* extended the use of sparse data in methods unless it was not possible

* process_dataset also removes unnecessary data from train and test datasets not needed by the methods and metrics.
* process_dataset also removes unnecessary data from train and test datasets not needed by the methods and metrics.

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