dino.dist {fossil} | R Documentation |
Create a distance matrix between any number of locations
dino.dist(x, method = "sorenson", type = "dis")
x |
matrix of taxa (or equivalent data) in rows by columns of localities (or equivalent) |
method |
the distance/similarity index to compute |
type |
if the matrix is to be a distance or similarity matrix |
This will create a distance (or similarity) matrix using any of the provided
indices: sorenson
, simpson
,
bray.curtis
, jaccard
, morisita.horn
,
chao.jaccard
and chao.sorenson
. Creating a
distance matrix will give a value of 1 for the most distantly related sites,
while similarity index will give a value of 1 for the most similar sites.
A distance matrix (lower triangle) giving the pairwise distance indices between all points.
To use a user generated distance index, type the name of the function to be used for method, and the function will use that function instead. Note that the function internally provides two equal length vectors at a time to the distance calculation function.
Matthew Vavrek
~put references to the literature/web site here ~
sorenson
, simpson
,
bray.curtis
, jaccard
, morisita.horn
,
chao.jaccard
and chao.sorenson
##Sample matrix of 3 locations with 3 taxa a <- matrix(c(0,2,1,3,0,1,0,3,0),3,3) dino.dist(a) dino.dist(a,simpson,"sim")