tree_distance
A package to compute distances between phylogenetic trees.
Supported distances:
- Robinson-Foulds distance
- Weighted Robinson-Foulds distance
- Euclidean distance
- Geodesic distance
Installation
pip install tree_distance
Example
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...
Tests
To run the tests:
mkdir build
cd build
cmake ..
make
./tests
1 maintainer
Release files for tree-distance 1.0.12
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| tree_distance-1.0.12.tar.gz | 884.3 kB | Details |
Built distributions (wheels)
Total release size: 46.4 MB
Release files / tree_distance-1.0.12.tar.gz
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Release files / tree_distance-1.0.12-cp37-cp37m-manylinux_2_17_x86_64.manylinux2014_x86_64.whl
| Download URL | tree_distance-1.0.12-cp37-cp37m-manylinux_2_17_x86_64.manylinux2014_x86_64.whl |
|---|---|
| Size | 2.2 MB |
| Tags | CPython 3.7 CPython 3.7 pymalloc Linux glibc 2.17+ x86-64 |
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SHA-256 checksum How to use checksums |
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Yes |
| Uploaded via |
twine/5.1.0 CPython/3.12.5
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Release files / tree_distance-1.0.12-cp37-cp37m-macosx_10_9_x86_64.whl
| Download URL | tree_distance-1.0.12-cp37-cp37m-macosx_10_9_x86_64.whl |
|---|---|
| Size | 178.3 kB |
| Tags | CPython 3.7 CPython 3.7 pymalloc macOS 10.9+ x86-64 |
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SHA-256 checksum How to use checksums |
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Yes |
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twine/5.1.0 CPython/3.12.5
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Release files / tree_distance-1.0.12-cp36-cp36m-musllinux_1_2_x86_64.whl
| Download URL | tree_distance-1.0.12-cp36-cp36m-musllinux_1_2_x86_64.whl |
|---|---|
| Size | 3.1 MB |
| Tags | CPython 3.6 CPython 3.6 pymalloc Linux musl 1.2+ x86-64 |
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SHA-256 checksum How to use checksums |
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Yes |
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twine/5.1.0 CPython/3.12.5
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Release files / tree_distance-1.0.12-cp36-cp36m-manylinux_2_17_x86_64.manylinux2014_x86_64.whl
| Download URL | tree_distance-1.0.12-cp36-cp36m-manylinux_2_17_x86_64.manylinux2014_x86_64.whl |
|---|---|
| Size | 2.2 MB |
| Tags | CPython 3.6 CPython 3.6 pymalloc Linux glibc 2.17+ x86-64 |
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SHA-256 checksum How to use checksums |
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Yes |
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twine/5.1.0 CPython/3.12.5
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Release files / tree_distance-1.0.12-cp36-cp36m-macosx_10_9_x86_64.whl
| Download URL | tree_distance-1.0.12-cp36-cp36m-macosx_10_9_x86_64.whl |
|---|---|
| Size | 176.0 kB |
| Tags | CPython 3.6 CPython 3.6 pymalloc macOS 10.9+ x86-64 |
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SHA-256 checksum How to use checksums |
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BLAKE2b-256 checksum How to use checksums |
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Uploaded using Trusted Publishing? What is trusted publishing? |
Yes |
| Uploaded via |
twine/5.1.0 CPython/3.12.5
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