Hi,
Actually, Ranjita can use the number of gene copies if it is reasonable to
assume that these numbers evolve among samples, maybe a stepwise model with
transitions:
n -> n + 1
n -> n - 1
In that case, a simple approach is to calculate the Euclidean distances among
samples and do an NJ or
If you want to use ape for making a phylogenetic tree, I think you need the
actual sequences of the genes, and not only the copy numbers
El sáb., 19 sept. 2020 a las 21:40, Ranjita Thapa ()
escribió:
> Hi,
>
> I want to construct a phylogenetic tree with ape package. I have a csv
> file with
Hi,
I want to construct a phylogenetic tree with ape package. I have a csv file
with gene ids and copy number for each gene across different samples. I want to
construct phylogenetic tree. I am wondering how could I convert the csv file to
input file for ape. Could you please suggest me how
