Pair data model entity

IMPORTANT: This is the legacy GATK documentation. This information is only valid until Dec 31st 2019. For latest documentation and forum click here

created by Geraldine_VdAuwera

on 2017-06-14

In the FireCloud data model, a Pair entity represents a pair of biological samples collected from a Participant, for example a tumor sample and a normal sample from a cancer patient. The Pair metadata should be structured as follows:

• first column: entity:pair_id (key)
• subsequent columns (no ordering requirement):
  • casesampleid (foreign key)
  • controlsampleid (foreign key)
  • participant_id (foreign key)
  • entity attributes (optional)
• exactly one row per entity in the file

Note that you should always load participant metadata before attempting to load additional entities such as sample pairs that refer to the participants.

Example of Pair metadata load file

Updated on 2017-07-22