Academic Journal
Composable Visualization of High-Dimensional Biological Data with ggalign.
| Τίτλος: | Composable Visualization of High-Dimensional Biological Data with ggalign. |
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| Συγγραφείς: | Liu W; Department of Biomedical Informatics, School of Life Sciences, Central South University, Changsha, China.; These authors contributed equally to this work., Ding J; Department of Biomedical Informatics, School of Life Sciences, Central South University, Changsha, China.; These authors contributed equally to this work., Sun Y; Department of Biomedical Informatics, School of Life Sciences, Central South University, Changsha, China., Yan B; Department of Biomedical Informatics, School of Life Sciences, Central South University, Changsha, China., Wang Z; Department of Biomedical Informatics, School of Life Sciences, Central South University, Changsha, China., Wang C; Department of Biomedical Informatics, School of Life Sciences, Central South University, Changsha, China., Shu C; Department of Biomedical Informatics, School of Life Sciences, Central South University, Changsha, China., Zhou JG; Department of Oncology, The Second Affiliated Hospital of Zunyi Medical University, Zunyi, China., Yu G; Department of Bioinformatics, School of Basic Medical Sciences, Southern Medical University, Guangzhou, China.; These authors jointly supervised this work., Peng Y; Department of Biomedical Informatics, School of Life Sciences, Central South University, Changsha, China.; Department of Urology, Peking University People's hospital, Beijing, China.; These authors jointly supervised this work., Wang S; Department of Biomedical Informatics, School of Life Sciences, Central South University, Changsha, China.; These authors jointly supervised this work. |
| Πηγή: | Current protocols [Curr Protoc] 2026 Sep; Vol. 6 (9), pp. e70453. |
| Τύπος έκδοσης: | Journal Article |
| Γλώσσα: | English |
| Στοιχεία περιοδικού: | Publisher: John Wiley & Sons Country of Publication: United States NLM ID: 101773894 Publication Model: Print Cited Medium: Internet ISSN: 2691-1299 (Electronic) Linking ISSN: 26911299 NLM ISO Abbreviation: Curr Protoc Subsets: MEDLINE |
| Imprint Name(s): | Original Publication: Hoboken, NJ : John Wiley & Sons, [2021]- |
| Ιατρικοί όροι (MeSH): | Computational Biology*/methods , Software* , Computer Graphics* , Data Visualization*, Humans ; Multiomics |
| Περίληψη: | ggalign is an R/CRAN package for creating flexible and composable multi-panel data visualizations. The package extends the ggplot2 grammar of graphics by introducing an integrative framework that supports both data-free and data-aware composition. After five years of continuous development, ggalign has evolved into a comprehensive solution that handles diverse data types and layout structures, including quad, circular, and stack layouts. It was originally designed for general-purpose composable visualization and has been expanded to support multi-omics data integration, extending the application of ggalign to pan-cancer analysis, single-cell transcriptomics, and microbiome studies. This article presents eight basic protocols for constructing complex visualizations using the declarative syntax of ggalign. Basic Protocol 1 describes data-free composition for flexible arrangement of multiple plots; Basic Protocol 2 describes data-aware quad layout for integrating a central plot with surrounding annotations; Basic Protocol 3 describes data-aware circular layout for visualizing ring-structured data; Basic Protocol 4 describes stack layout and nested composition for coordinated display of multi-track graphics; Basic Protocol 5 describes visualization of gene expression matrix heatmaps; Basic Protocol 6 describes visualization of somatic mutation landscapes using ggoncoplot(); Basic Protocol 7 describes circular visualization based on chromosome data, and Basic Protocol 8 describes cross-connection visualization between genes and pathways. The complete package reference is available at https://yunuuuu.github.io/ggalign/, with comprehensive documentation and tutorials at https://yunuuuu.github.io/ggalign-book/, and a gallery of example figures at https://yunuuuu.github.io/ggalign-gallery/. © 2026 Wiley Periodicals LLC. Basic Protocol 1: Data-free composition Basic Protocol 2: Aligning data-aware with quad layouts Basic Protocol 3: Aligning data-aware with circular layouts Basic Protocol 4: Stack layouts and nested composition Basic Protocol 5: Visualizing heatmap of gene expression matrix Basic Protocol 6: Visualizing somatic mutation landscapes using ggoncoplot() Basic Protocol 7: Visualizing circos plots with ggalign Basic Protocol 8: Visualizing observational connections. (© 2026 Wiley Periodicals LLC.) |
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| Grant Information: | National Natural Science Foundation of China |
| Contributed Indexing: | Keywords: composable visualization; data visualization; ggalign; grammar of graphics; omics |
| Entry Date(s): | Date Created: 20260921 Date Completed: 20260921 Latest Revision: 20260921 |
| Update Code: | 20260921 |
| DOI: | 10.1002/cpz1.70453 |
| PMID: | 42765627 |
| Βάση Δεδομένων: | MEDLINE |
| ISSN: | 2691-1299 |
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| DOI: | 10.1002/cpz1.70453 |