BranchestFastTree2¶

class BranchestFastTree2(bin_fp='fasttree', cache_dir=None)[source]¶

Branch estimator for phylogenetic trees.

FastTree infers approximately-maximum-likelihood phylogenetic trees from alignments of nucleotide or protein sequences. Price et al. [PDA10]

Parameters

bin_fp (Optional[str]) – Path to ‘fasttree’ executable or None for default.
cache_dir (Optional[str]) – Cache directory to use or None for seamless caching.

Attributes

`last_error`	Latest Error.
`last_out`	Latest Output.

Methods

estimate(alignment, tree, **kwargs)

Estimate branches of on fixed tree topology(param tree) using MSA of representative sequences(param alignment)