class

Wgsim::Mutate::MutationSimulator

Inherits Wgsim::Dna < Reference < Object

Constructors

new(substitution_rate : Float64, insertion_rate : Float64, deletion_rate : Float64, insertion_extension_probability : Float64, deletion_extension_probability : Float64, seed : UInt64 | Nil = nil)

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Instance methods

build_deleted_reference_base(reference_base : UInt8, deleted_bases : Array(UInt8)) : ReferenceBase

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build_insertion_reference_base(reference_base : UInt8, mutation_events : Array(MutationEvent), reference_position : Int32) : ReferenceBase

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build_substituted_reference_base(reference_base : UInt8, mutation_events : Array(MutationEvent), reference_position : Int32) : ReferenceBase

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build_unchanged_reference_base(reference_base : UInt8) : ReferenceBase

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deletion_extension_probability

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deletion_extension_probability=(deletion_extension_probability : Float64)

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deletion_rate

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deletion_rate=(deletion_rate : Float64)

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generate_inserted_bases

Generate inserted bases based on the insertion extension probability.

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insertion_extension_probability

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insertion_extension_probability=(insertion_extension_probability : Float64)

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insertion_rate

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insertion_rate=(insertion_rate : Float64)

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rand(*args, **options)

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rand(*args, **options, &)

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randn(*args, **options)

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randn(*args, **options, &)

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seed

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seed=(seed : UInt64 | Nil)

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simulate_mutations(sequence : Slice(UInt8)) : Tuple(ReferenceSequence, Array(MutationEvent))

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substitution_rate

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substitution_rate=(substitution_rate : Float64)

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