In the rest of this chapter, we will discuss the available slots, their expected formats, and how we can interact with them. If we imagine the SingleCellExperiment object to be a cargo ship, the slots can be thought of as individual cargo boxes with different contents, e.g., certain slots expect numeric matrices whereas others may expect data frames. (This terminology comes from the S4 class system, but that’s not important right now.) Each row of the assays corresponds to a row of the rowData (pink shading), while each column of the assays corresponds to a column of the colData and reducedDims (yellow shading).Įach piece of (meta)data in the SingleCellExperiment is represented by a separate “slot”. 3.2 Some comments on experimental designįigure 4.1: Overview of the structure of the SingleCellExperiment class.1.4 Comments on Bioconductor versioning.
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