# vectorHammingDist: Calculate Hamming Distance between two vectors, using... In doppelgangR: Identify likely duplicate samples from genomic or meta-data

## 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

 `1` ```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

 ```1 2 3 4 5 6 7 8``` ```(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) ```

### Example output

```Loading required package: Biobase

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:parallel':

clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from 'package:stats':

The following objects are masked from 'package:base':

Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, cbind, colMeans, colSums, colnames, do.call,
duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
lapply, lengths, mapply, match, mget, order, paste, pmax, pmax.int,
pmin, pmin.int, rank, rbind, rowMeans, rowSums, rownames, sapply,
setdiff, sort, table, tapply, union, unique, unsplit, which,
which.max, which.min

Welcome to Bioconductor

Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.

[,1] [,2] [,3] [,4] [,5]
[1,] "A1" "A2" "A3" "A4" "A5"
[2,] "A5" "A4" "A3" "A2" "A1"
```

doppelgangR documentation built on May 2, 2018, 4:47 a.m.