vectorHammingDist: Calculate Hamming Distance between two vectors, using...

In lwaldron/doppelgangR: Identify likely duplicate samples from genomic or meta-data

Calculate Hamming Distance between two vectors, using pairwise complete observations.

Description

Simple function to count the fraction of different elements (in the same position) between two vectors of the same length, after removing elements from both vectors corresponding to positions that are NA in either vector.

Usage

vectorHammingDist(x, y, k, l)

Arguments

x	a matrix
y	a matrix with the same number of columns as x
k	row in x to test for differences
l	row in y to test for differences

Value

Returns a numeric value, the Hamming Distance (the number of non-equal values between x and y).

Author(s)

Levi Waldron, Markus Riester, Marcel Ramos

Examples

(mat <- matrix(c(paste0("A", 1:5), paste0("A", 5:1)),
    nrow = 2, byrow = TRUE))

stopifnot(vectorHammingDist(mat, mat, 1, 2) == 0.8)
stopifnot(vectorHammingDist(mat, mat, 1, 1) == 0)

mat[1, 1] <- NA

stopifnot(vectorHammingDist(mat, mat, 1, 2) == 0.75)
stopifnot(vectorHammingDist(mat, mat, 1, 1) == 0)

mat[1, 3] <- NA

stopifnot(vectorHammingDist(mat, mat, 1, 2) == 1)

lwaldron/doppelgangR documentation built on May 4, 2024, 6:58 p.m.