Closed peflanag closed 5 years ago
No, as you most likely calculated a ml tree. Try a minimum spanning or maximum parsimony tree.
Cheers. Sorry if this sounds stupid, but can I still use the newick file to make a mini spanning or parsimony tree?
No you need the .fasta file alignment and another tool for that. Just google for it.
Perfect cheers!
Hi,
This is more a query than an issue. After running
1) MTBseq --step TBfull 2) MTBseq --step TBjoin .......
I use the .....amended_u95_phylo_w12.plainIDs.fasta file to generate a newick file in FastTree
My query is, is this tree showing SNP differences in the distance between isolates?