Hi, I have an abundance table (each row corresponds to a taxa). I would like to get the tree (newick default format) of the table. The table contains bacteria, archeae and fungi.
How can i get a phylogenetic tree from this table (the original table has around 600 rows)?? The idea is to use the tree for further analysis using R. Note that it is also possible for me to use ncbi taxa ids since i have them (not shown in this table).
SampleA Phylum Class Order Family Genus Species 12 Actinobacteria Actinomycetales Actinobacteria Actinomycetaceae Actinomyces Actinomyces neuii 3 Actinobacteria Actinomycetales Actinobacteria Actinomycetaceae Actinomyces Unknown 34 Actinobacteria Corynebacteriales Actinobacteria Corynebacteriaceae Corynebacterium Corynebacterium sp. HMSC064E10 59 Actinobacteria Corynebacteriales Actinobacteria Corynebacteriaceae Corynebacterium Corynebacterium aquilae 965 Actinobacteria Propionibacteriales Actinobacteria Propionibacteriaceae Tessaracoccus Tessaracoccus sp. NSG39 44 Proteobacteria Unknown Unknown Unknown Unknown Unknown