MiAIRR_rearrangement.yaml

#
# Schema definitions for AIRR minimal standards rearrangement objects
#

# The MiAIRR rearrangements

MiAIRR_Rearrangements:
   discriminator: MiAIRR
   type: object
   properties:
        germline_database:
          type: string
          description: >
            Source of germline V(D)J segments, with version number or
            date accessed (e.g. IMGT/V-QUEST Release 201736-4 (7 September 2017)) (AIRR)
        cell_index:
          type: integer
          description: |
            Cell Index (UID linking sequences from the same cell) (AIRR)
        v_allele:
          type: string
          description: |
            V gene with allele (e.g. IGHV4-59*01) (AIRR)
        d_allele:
          type: string
          description: |
            D gene with allele (e.g. IGHD3-10*01) (AIRR)
        j_allele:
          type: string
          description: |
            J gene with allele (e.g. IGHJ4*02) (AIRR)
        c_allele:
          type: string
          description: |
            C region with allele (AIRR)                     
        junction_nt:
          type: string
          description: >
            JUNCTION nucleotide sequence (Sequence of the CDR3
            region (nucleotide)) (AIRR)
        junction_aa:
          type: string
          description: >
            JUNCTION amino acid sequence (Sequence of the CDR3
            region (amino acid)) (AIRR)
        duplicate_count:
          type: integer
          description: |
            Number of times the sequence has been duplicated in a file (AIRR)