How to build a phylogenetic tree (breast cancer samples)

Question

[Pin.Bioinf]

I would like to build a phylogenetic tree for around 40-50 patients with breast cancer based on SNP and CNAs I was asked for it by a fellow biologist, I am completely new to phylogenetics and I have no clue where to start. Do you have any recommendations on pipelines or brief steps I should follow as well as any good tools?

Thank you

[Benn]

For hierarchical clustering, you can use hclust in R. Here some examples in a tutorial.