MutationDefinition-class - S4 class defining replacement and silent mutation definitions

Description

MutationDefinition defines a common data structure for defining the whether a mutation is annotated as a replacement or silent mutation.

Slots

name
name of the MutationDefinition.
description
description of the model and its source.
classes
named character vectors with single-letter amino acid codes as names and amino acid classes as values, with NA assigned to set of characters c("X", "*", "-", "."). Replacement (R) is be defined as a change in amino acid class and silent (S) as no change in class.
codonTable
matrix of codons (columns) and substitutions (rows).
citation
publication source.

See also

See MUTATION_SCHEMES for a set of predefined MutationDefinition objects.