SequenceComparator-class {comparator}

Virtual Sequence Comparator Class

Description

Represents a comparator for pairs of sequences.

Slots

.Data

a function that calls the elementwise method for this class, with arguments x, y and ....

symmetric

a logical of length 1. If TRUE, the comparator is symmetric in its arguments—i.e. comparator(x, y) is identical to comparator(y, x).

distance

a logical of length 1. If TRUE, the comparator produces distances and satisfies comparator(x, x) = 0. The comparator may not satisfy all of the properties of a distance metric.

similarity

a logical of length 1. If TRUE, the comparator produces similarity scores.

tri_inequal

a logical of length 1. If TRUE, the comparator satisfies the triangle inequality. This is only possible (but not guaranteed) if distance = TRUE and symmetric = TRUE.