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. 2021 Mar 2;9:1246. Originally published 2020 Oct 15. [Version 2] doi: 10.12688/f1000research.26669.2

Figure 1. The structure of the TreeSummarizedExperiment class.

Figure 1.

The rectangular data matrices are stored in assays. Each matrix usually has rows representing entities (e.g., genes or microbial taxa) and columns representing cells or samples. Information about rows and columns is stored in rowData and colData, respectively. The hierarchy structure on rows or columns is stored in rowTree or colTree respectively, and the link information between rows/columns and nodes of the row/column tree is in rowLinks/colLinks. referenceSeq is an optional slot to store the sequence information for rows.