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VariantFilter

Auto-generated from the config schema in the source — see the config guide for concepts. Provided by the variants plugin. View source.

The tests the multi-sample variant display applies to the records it fetched, its filter: the jexl expressions every feature filter takes, and two thresholds on what the record's genotypes say about the site.

Example usage

{
  type: 'LinearMultiSampleVariantDisplay',
  filter: { minMinorAlleleFrequency: 0.05, maxMissingness: 0.1 },
}

Config slots

A setting written to it names members one by one: a member left out stays as it is, and null resets one. Slot types (fileLocation, frozen, ...) are explained in the config slot types reference. Slots a base configuration contributes are listed here too, so this table is the whole surface.

SlotDescription
minMinorAlleleFrequency
number = 0		A variant draws only when its minor allele, the second most frequent of its called alleles, makes up at least this share of them. At most 0.5; 0 keeps every variant.
maxMissingness
number = 1		a variant draws only with at most this share of its alleles uncalled; 1 keeps every variant
Inherited from FeatureFilter1 slot
expressions
expressionArray = []		The features the display admits: a feature is drawn when every expression holds. Each entry is a jexl: expression over feature. The "Filter by..." dialog and "Edit plot..." edit this list, and "Clear all filters" returns it to what the track's config declares.