A package to compute distances between phylogenetic trees.
Supported distances:
- Robinson-Foulds distance
- Weighted Robinson-Foulds distance
- Euclidean distance
- Geodesic distance
pip install tree_distance
t1 = PhyloTree(b"(a:3,b:4,(c:5,((d:6,e:7):.2,f:8):.3):.4);", False) # rooted = False
t2 = PhyloTree(b"(a:3,b:4,(d:5,((c:6,e:7):.2,f:8):.3):.4);", False)
getRobinsonFouldsDistance(t1, t2, normalise=False) # 4.0
getRobinsonFouldsDistance(t1, t2, normalise=True) # 0.666...
To run the tests:
mkdir build
cd build
cmake ..
make
./tests
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