google_api_genomics v0.0.1 GoogleApi.Genomics.V1.Model.Variant View Source

A variant represents a change in DNA sequence relative to a reference sequence. For example, a variant could represent a SNP or an insertion. Variants belong to a variant set. For more genomics resource definitions, see Fundamentals of Google Genomics Each of the calls on a variant represent a determination of genotype with respect to that variant. For example, a call might assign probability of 0.32 to the occurrence of a SNP named rs1234 in a sample named NA12345. A call belongs to a call set, which contains related calls typically from one sample.

Attributes

  • info (Map[String, List[ErrorUnknown]]): A map of additional variant information. This must be of the form map<string, string[]> (string key mapping to a list of string values). Defaults to: null.
  • alternateBases (List[String]): The bases that appear instead of the reference bases. Defaults to: null.
  • calls (List[VariantCall]): The variant calls for this particular variant. Each one represents the determination of genotype with respect to this variant. Defaults to: null.
  • created (String): The date this variant was created, in milliseconds from the epoch. Defaults to: null.
  • end (String): The end position (0-based) of this variant. This corresponds to the first base after the last base in the reference allele. So, the length of the reference allele is (end - start). This is useful for variants that don't explicitly give alternate bases, for example large deletions. Defaults to: null.
  • filter (List[String]): A list of filters (normally quality filters) this variant has failed. `PASS` indicates this variant has passed all filters. Defaults to: null.
  • id (String): The server-generated variant ID, unique across all variants. Defaults to: null.
  • names (List[String]): Names for the variant, for example a RefSNP ID. Defaults to: null.
  • quality (Float): A measure of how likely this variant is to be real. A higher value is better. Defaults to: null.
  • referenceBases (String): The reference bases for this variant. They start at the given position. Defaults to: null.
  • referenceName (String): The reference on which this variant occurs. (such as `chr20` or `X`) Defaults to: null.
  • start (String): The position at which this variant occurs (0-based). This corresponds to the first base of the string of reference bases. Defaults to: null.
  • variantSetId (String): The ID of the variant set this variant belongs to. Defaults to: null.