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docs: bump tutorials submodule to pull in network label fix#334

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PauBadiaM merged 1 commit into
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chore/bump-tutorials-submodule
Jun 8, 2026
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docs: bump tutorials submodule to pull in network label fix#334
PauBadiaM merged 1 commit into
mainfrom
chore/bump-tutorials-submodule

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Summary

Bumps the docs/notebooks submodule (scverse/decoupler-tutorials) from 6ca80f0 to 21c4b9a, pulling the merged tutorial fixes into the published docs.

The tutorials PR (scverse/decoupler-tutorials#1) addresses #331 — the dc.pl.network plot in the RNA enrichment vignettes was labeled "Gene expression" even though the input is a DESeq2 contrast statistic (t-values). It now:

  • passes t_label="Gene-level statistic" to dc.pl.network and updates the surrounding markdown,
  • migrates pyDESeq2 from the deprecated design_factors to the formulaic design argument,
  • regenerates all outputs (warning-free; scanpy bumped to 1.12.1 to drop an anndata.obs_vector FutureWarning).

Merging this rebuilds the docs on Read the Docs (which fetches submodules) with the corrected tutorials.

Closes #331

🤖 Generated with Claude Code

Pulls in the updated RNA enrichment vignettes (scverse/decoupler-tutorials#1):
fixes the network plot colorbar label ("Gene-level statistic" instead of
"Gene expression"), migrates pyDESeq2 to the formulaic `design` argument,
and regenerates warning-free outputs. Rebuilds the docs with the corrected
tutorials.

Closes #331

Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>
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Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 94.01%. Comparing base (d06c042) to head (eb73279).

Additional details and impacted files
@@           Coverage Diff           @@
##             main     #334   +/-   ##
=======================================
  Coverage   94.01%   94.01%           
=======================================
  Files          78       78           
  Lines        4078     4078           
=======================================
  Hits         3834     3834           
  Misses        244      244           
🚀 New features to boost your workflow:
  • ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.

@PauBadiaM PauBadiaM merged commit ad8a00c into main Jun 8, 2026
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Successfully merging this pull request may close these issues.

"Gene expression" in Pseudobulk Enrichment Analysis tutorial: is this incorrect for non-expression inputs?

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