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Codecov Report✅ All modified and coverable lines are covered by tests. Additional details and impacted files@@ Coverage Diff @@
## main #170 +/- ##
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+ Coverage 87.20% 87.21% +0.01%
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timtreis
marked this pull request as ready for review
September 29, 2026 12:41
…wn the figure; drop notebook boilerplate
… needs a renderer arg
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Inventories every
mt.dsdataset and adds a descriptive page (context plus plots) for the ones that lacked one, woven into the docs{toctree}.What changed
Ten new
docs/datasets/*.ipynbpages, one per public example dataset that had none: chroma, cp_posh, jump_crispr, jump_export, jump_plate, neuropainting, pki, pooled_rare, rohban, scallops_arv471. Each page carries an import/setup cell, factual markdown context (assay, accession, shape, controls, what the dataset uniquely demonstrates), and one to three descriptive plots (realmt.plfunctions, scanpy PCA rendered with plotly, or an image/table where those fit the type). Every new page is registered in the "Dataset pages" toctree indocs/api/datasets.md.Verification
sphinx-build ... -W(nitpicky) exits 0 with no warnings.ruff checkandruff format --checkclean on the notebooks.docs/datasets/*.ipynband the toctree edit; no src, loader or registry changes.Notes
chroma: the rehosted well table keeps only the features shared across all eight acquisitions, which are the channel-agnostic shape descriptors and the Brightfield textures, so the extra dye channels that motivate the pilot are described in text and shown as a channel breakdown rather than plotted from per-dye features.neuropainting: the genotype and donor design factor is dropped by the per-plate column intersect, so the page groups by plate and notes the missing columns.This was originally stacked on #169; that PR has since merged, so it now targets
maindirectly.