Manipulation Tools for Class 'dist'

Converts a 'dist' object into vector and vice versa.

Usage

vec2dist(x, size, labels = NULL, diag = FALSE, upper = FALSE, 
call = FALSE, method = NULL)
is.dist(x)
# S3 method for dist
stack(x, dim.names = FALSE, ...)

Arguments

x

A vector or a 'dist' object.

size

Integer, the number of observations in the dataset (see dist).

labels, diag, upper, call, method

Logical, setting attributes of the distance object (see dist).

dim.names

Logical, if TRUE, names stored in the Labels attribute of the dist object are returned as factors instead of row/column indices.

...

Other arguments passed to functions.

Value

vec2dist returns an object of class dist.

is.dist returns a logical statement about the class of the object.

stack.dist returns a data frame with comuns row for row id's, col for column id's and dist for the distance values.

References

S\'olymos P. (2008) mefa: an R package for handling and reporting count data. Community Ecology 9, 125--127.

S\'olymos P. (2009) Processing ecological data in R with the mefa package. Journal of Statistical Software 29(8), 1--28. doi:10.18637/jss.v029.i08

http://mefa.r-forge.r-project.org/

Author

P\'eter S\'olymos, solymos@ualberta.ca

Examples

vec2dist(1:3, 3)
#>   1 2
#> 2 1  
#> 3 2 3
vec2dist(1:3, 3, diag = TRUE)
#>   1 2 3
#> 1 0    
#> 2 1 0  
#> 3 2 3 0
vec2dist(1:3, 3, diag = TRUE, upper = TRUE)
#>   1 2 3
#> 1 0 1 2
#> 2 1 0 3
#> 3 2 3 0
vec2dist(1:3, 3, labels=letters[1:3])
#>   a b
#> b 1  
#> c 2 3
x <- dist(1:5)
attr(x, "Labels") <- LETTERS[1:5]
x
#>   A B C D
#> B 1      
#> C 2 1    
#> D 3 2 1  
#> E 4 3 2 1
is.dist(x)
#> [1] TRUE
stack(x)
#>    row col dist
#> 1    2   1    1
#> 2    3   1    2
#> 3    4   1    3
#> 4    5   1    4
#> 5    3   2    1
#> 6    4   2    2
#> 7    5   2    3
#> 8    4   3    1
#> 9    5   3    2
#> 10   5   4    1
stack(x, dim.names = TRUE)
#>    row col dist
#> 1    B   A    1
#> 2    C   A    2
#> 3    D   A    3
#> 4    E   A    4
#> 5    C   B    1
#> 6    D   B    2
#> 7    E   B    3
#> 8    D   C    1
#> 9    E   C    2
#> 10   E   D    1