Identifying and formatting Tabular Datasets

Authors: orcid logoJennifer Hillman-Jackson avatar Jennifer Hillman-JacksonEshaan Deshmukh avatar Eshaan DeshmukhAdd Contributions!
Format help for Tabular/BED/Interval Datasets

A Tabular datatype is human readable and has tabs separating data columns. Please note that tabular data is different from comma separated data (.csv) and the common datatypes are: .bed, .gtf, .interval, or .txt.

  1. Click the pencil icon to reach the Edit Attributes form.
    1. Change the datatype (3rd tab) and save.
    2. Label columns (1st tab) and save.
    3. Metadata will be assigned, then the dataset can be used.
  2. If the required input is a BED or Interval datatype, adjusting (.tab → .bed, .tab → .interval) maybe possible using a combination of Text Manipulation tools, to create a dataset that matches required specifications.
  3. Some tools require that BED format be followed, even if the datatype Interval (with less strict column ordering) is accepted on the tool form.
    • These tools will fail, if they are run with malformed BED datasets or non-specific column assignments.
    • Solution: reorganize the data to be in BED format and rerun.
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