data format for phytools

liamrevell / phytools

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data format for phytools #78

Closed rthapa1 closed 2 years ago

rthapa1 commented 4 years ago

Hi,

I want to construct a phylogenetic tree using a CSV file. I have a CSV file with row names as sample id and column names as gene id. I do have copy number value for all genes across all samples. I wonder how could I make a tree file using CSV file. It seems like phytools doesn't accept CSV file for phylogenetic tree construction. I would appreciate any suggestions.

Thanks

liamrevell commented 2 years ago

phytools doesn't (in general) do phylogenetic inference. You might be more interested in the phangorn package.