Thank you very much, everyone!
Dr. Felsenstein, I will check the books, thanks!
Dr. Paradis and Dr. Collins, I will test what you said, thanks!
Cheers,
Pedro
Me. Pedro P. G. Taucce
Universidade Estadual Paulista "Júlio de Mesquita Filho" - UNESP
Instituto de Biociências
Departamento de Zoolog
Dear Pedro,
Take a look at the 'spider' package in R. There are several functions for
these kind of analyses with distances, particularly 'sppDistMatrix()'.
Cheers
On 19 February 2016 at 11:00, wrote:
> Re: Pairwise Distances
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Hi Pedro,
Suppose all the DNA sequences are in a single matrix, say X, and you
have a vector (or factor) identifying the species of each sequence, say
SPECIES. So:
length(SPECIES) == nrow(X)
is TRUE. What you can do is to first compute all pairwise (raw) distances:
D <- dist.dna(X, "n")
an
Pedro --
> Well, for now I just want to estimate the raw distances. But thinking
about coalescents is certainly interesting. Would you have a suggestion for
either ways of thinking?
Well, you must be wanting to use those raw distances to infer something.
Rates of migration?
There are extensive d
Hello, sir
Well, for now I just want to estimate the raw distances. But thinking about
coalescents is certainly interesting. Would you have a suggestion for
either ways of thinking?
Thank you,
Pedro
Em 18/02/2016 20:25, "Joe Felsenstein" escreveu:
>
> Pedro Taucce --
>
>
>> Is there a way to e
Pedro Taucce --
> Is there a way to estimate pairwise distances between and within groups of
> sequences (in my case, each group is a species with lots of individuals)? I
> used to do it with MEGA, but now I use Linux only and MEGA isn't getting
> along with it.
>
> The closest way I figured out
Hello, everyone!
Is there a way to estimate pairwise distances between and within groups of
sequences (in my case, each group is a species with lots of individuals)? I
used to do it with MEGA, but now I use Linux only and MEGA isn't getting
along with it.
The closest way I figured out is the func
