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Comparing two trees by Robinson-Foulds#
This example shows how to compare/measure two inferred genotype data (trees).
import scphylo as scp
# sphinx_gallery_thumbnail_path = "_static/thumbnails/rf.png"
First, we load two binary test single-cell genotype data.
grnd = scp.io.read(
scp.ul.get_file("scphylo.datasets/test/fp_0-fn_0-na_0.ground.CFMatrix")
)
sol = scp.io.read(
scp.ul.get_file("scphylo.datasets/test/fp_1-fn_0.1-na_0.bnb.CFMatrix")
)
Calculating the Robinson-Foulds similarity score (1 - normalized_distance).
scp.tl.rf(grnd, sol)
0.4864864864864865
Total running time of the script: (0 minutes 0.548 seconds)
Estimated memory usage: 9 MB