class Google::Apis::GenomicsV1beta2::Variant

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. 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

alternate_bases[RW]

The bases that appear instead of the reference bases. Corresponds to the JSON property `alternateBases` @return [Array<String>]

calls[RW]

The variant calls for this particular variant. Each one represents the determination of genotype with respect to this variant. Corresponds to the JSON property `calls` @return [Array<Google::Apis::GenomicsV1beta2::Call>]

created[RW]

The date this variant was created, in milliseconds from the epoch. Corresponds to the JSON property `created` @return [String]

end[RW]

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. Corresponds to the JSON property `end` @return [String]

filter[RW]

A list of filters (normally quality filters) this variant has failed. PASS indicates this variant has passed all filters. Corresponds to the JSON property `filter` @return [Array<String>]

id[RW]

The Google generated ID of the variant, immutable. Corresponds to the JSON property `id` @return [String]

info[RW]

A string which maps to an array of values. Corresponds to the JSON property `info` @return [Hash<String,Array<String>>]

names[RW]

Names for the variant, for example a RefSNP ID. Corresponds to the JSON property `names` @return [Array<String>]

quality[RW]

A measure of how likely this variant is to be real. A higher value is better. Corresponds to the JSON property `quality` @return [Float]

reference_bases[RW]

The reference bases for this variant. They start at the given position. Corresponds to the JSON property `referenceBases` @return [String]

reference_name[RW]

The reference on which this variant occurs. (such as chr20 or X) Corresponds to the JSON property `referenceName` @return [String]

start[RW]

The position at which this variant occurs (0-based). This corresponds to the first base of the string of reference bases. Corresponds to the JSON property `start` @return [String]

variant_set_id[RW]

The ID of the variant set this variant belongs to. Corresponds to the JSON property `variantSetId` @return [String]

Public Class Methods

new(**args) click to toggle source
# File generated/google/apis/genomics_v1beta2/classes.rb, line 3126
def initialize(**args)
   update!(**args)
end

Public Instance Methods

update!(**args) click to toggle source

Update properties of this object

# File generated/google/apis/genomics_v1beta2/classes.rb, line 3131
def update!(**args)
  @alternate_bases = args[:alternate_bases] unless args[:alternate_bases].nil?
  @calls = args[:calls] unless args[:calls].nil?
  @created = args[:created] unless args[:created].nil?
  @end = args[:end] unless args[:end].nil?
  @filter = args[:filter] unless args[:filter].nil?
  @id = args[:id] unless args[:id].nil?
  @info = args[:info] unless args[:info].nil?
  @names = args[:names] unless args[:names].nil?
  @quality = args[:quality] unless args[:quality].nil?
  @reference_bases = args[:reference_bases] unless args[:reference_bases].nil?
  @reference_name = args[:reference_name] unless args[:reference_name].nil?
  @start = args[:start] unless args[:start].nil?
  @variant_set_id = args[:variant_set_id] unless args[:variant_set_id].nil?
end