and I believe this whole thread may fit better at the Bioconductor
list rather than here.
Cheers,
Bert
Bert Gunter
"The trouble with having an open mind is that people keep coming along and
sticking things into it."
-- Opus (aka Berkeley Breathed in his "Bloom County" comic strip )
On
> 3x3 subset used
> Locus1 Locus2 Locus3
> Samp1 GG GG
> Samp2 AG CA GA
> Samp3 AG CA GG
>
> The euclidean distance function is defined as:
Hi Cheyenne,
I noticed one thing that might be helpful to you.
First, I took a shortcut to the case of interest:
> m <- matrix(c(2,1,1,0,1,1,NA,1,1,NA,1,1,2,1,2,0,1,0),nrow=3)
> colnames(m) <- c("1.G","1.A","2.C","2.A","3.G","3.A")
> m
# 1.G 1.A 2.C 2.A 3.G 3.A
# [1,] 20 NA
Hello,
I am working with a matrix of multilocus genotypes for ~180 individual snail
samples, with substantial missing data. I am trying to calculate the pairwise
genetic distance between individuals using the stats package 'dist' function,
using euclidean distance. I took a subset of this
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