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extracell.rst

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Extra-Cell ROI Data table

Requirement level: conditionally required

Summary

This table is used to document properties (i.e., volume, mean fluorescence intensity) that are globally associated with individual extracellular structures (e.g., Tissue, Organoid, etc.) Regions of Interest (ROI), and it is required in the case extracellular ROI segmentation data was collected as part of this experiment. These are properties that are shared by all bright Spots, Traces and Cells that belong to an individual extracellular structure identified as part of this study. Each row in the table corresponds to a different extracellular structure studied in the experiment and is identified by a unique Extra_Cell_ROI_ID that links the data reported in this table with data stored in one of the other tables (e.g., :ref:`core`, :ref:`rna`, etc.).

Example

File Header

  • The first line in the header is always "##FOF-CT_Version=vX.X"
  • The second line in the header is always "##Table_Namespace=4dn_FOF-CT_extracell"

The header MUST include a detailed description of each optional columns used.

Data Columns

Each row corresponds to data associated with an individual extracellular ROI.

The first column of this table is always Extra_Cell_ROI_ID. The content and order of all other columns is at user's discretion. The order of the rows is at user's discretion.