How can I get all trees resulting to final parsimonious tree using biopython?
I am using python 3 and Biopython 1.72 . I have been reconstructing a parsimony tree using my aligned protein sequence file with biopython which results in single parsimony tree which is the best scored tree. I need to know what is the way I can have all the initial trees before the best tree was resulted?? I want to track all the trees it goes through to reach the most parsimonious. Should I make some changes in the NNI searcher used by biopython? What is the possible way I can result with all the initial trees?
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mdsiddra •
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As I’ve said in your other threads, I really think you should abandon Biopython for this step and use a dedicated phylogeny package/tool.
alright then.. thankyou for the response.