Repository navigation
Integrate FigureYa optimization references batch 10 (issue #436 items 46-50) - #449
Merged
Merged
Conversation
…(items 46-50, checklist order) - FigureYa175quadrant -> NEW Correlation/QuadrantPlot(.zh).qmd: nine-grid quadrant scatter with threshold lines, ggrepel gene labels, and colour-coded quadrant regions - FigureYa176BlandAltman -> Clinics/BlandAltmanPlot(.zh).qmd §5: Bland-Altman with slope test for proportional bias assessment (lm of differences on averages, H0: slope = 0) - FigureYa177RNAvelocity -> NEW Omics/RnaVelocityPlot(.zh).qmd: RNA velocity arrows projected on PCA (simulated velocyto output, geom_segment + arrow) + velocity magnitude boxplots - FigureYa178receptorLigand -> Omics/CellChatCirclePlot(.zh).qmd §5: CellPhoneDB-style ligand-receptor dot plot (point size = permutation P, colour = scaled mean expression) - FigureYa179AMGDplot -> 暂缓: source Rmd file is empty (0 lines), not ready for integration All new docs bilingual (EN + zh), citing the FigureYa paper. New pages QuadrantPlot and RnaVelocityPlot registered in the sidebar and the gallery CSVs (rows 1123-1128). Chunk code executed standalone with data assertions before commit. All 6 renderable files pass; 2 files (Omics/CellChatCirclePlot EN/zh) require CellChat which is available on CI but not locally. Visual gate: rendered figures inspected; all pass.
Contributor
✅ QMD Format Check✅ All 4 checked QMD file(s) pass format validation!
|
Contributor
📊 Quarto Render PreviewThe new or modified Quarto files have been rendered and are available as artifacts. 🔗 View and Download Rendered Files Click the link above, scroll to the "Artifacts" section at the bottom of the page, and download Modified files: |
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
Add this suggestion to a batch that can be applied as a single commit.This suggestion is invalid because no changes were made to the code.Suggestions cannot be applied while the pull request is closed.Suggestions cannot be applied while viewing a subset of changes.Only one suggestion per line can be applied in a batch.Add this suggestion to a batch that can be applied as a single commit.Applying suggestions on deleted lines is not supported.You must change the existing code in this line in order to create a valid suggestion.Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be applied on multi-line comments.Suggestions cannot be applied while the pull request is queued to merge.Suggestion cannot be applied right now. Please check back later.
Summary
Batch 10 of the FigureYa integration list (issue #436, R-section items 46-50 in strict checklist order). Same quality pipeline: standalone chunk execution with data assertions → Quarto render → visual inspection → gallery/sidebar sync.
Correlation/QuadrantPlot(.zh).qmdClinics/BlandAltmanPlot(.zh).qmd§5Omics/RnaVelocityPlot(.zh).qmdOmics/CellChatCirclePlot(.zh).qmd§5All new docs bilingual (EN + zh), citing the FigureYa paper. New pages QuadrantPlot and RnaVelocityPlot registered in the sidebar and the gallery CSVs (rows 1123-1128), with demo images.
Quality pipeline
Attribution: content by ZCode (GLM).