Wrapper for GTP tree distances in c++

Project description

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

Project details

Release history Release notifications | RSS feed

This version

1.0.12

Aug 12, 2024

1.0.9

Aug 9, 2024

1.0.8

Jan 5, 2023

1.0.7

Jan 7, 2021

1.0.6

Aug 9, 2016

1.0.5

May 27, 2016

1.0.4

May 27, 2016

1.0.3

May 27, 2016

1.0.2

May 27, 2016

1.0.0

May 19, 2016

0.0.10

Nov 11, 2015

0.0.9

Nov 6, 2015

0.0.8

Nov 6, 2015

0.0.7

Nov 3, 2015

0.0.6

Apr 30, 2015

0.0.5

Nov 5, 2014

0.0.4

Nov 5, 2014

0.0.3

Nov 4, 2014

0.0.2

Nov 4, 2014

0.0.1

Nov 3, 2014

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Algorithm	Hash digest
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Algorithm	Hash digest
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MD5	`6774d39bc74c9ee7f11ab3390d475d00`
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Algorithm	Hash digest
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Algorithm	Hash digest
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Algorithm	Hash digest
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Algorithm	Hash digest
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Algorithm	Hash digest
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Algorithm	Hash digest
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Algorithm	Hash digest
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Algorithm	Hash digest
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Algorithm	Hash digest
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Hashes for tree_distance-1.0.12-cp37-cp37m-manylinux_2_17_x86_64.manylinux2014_x86_64.whl
Algorithm	Hash digest
SHA256	`3aae7ef20bf93257a90f2c7a108b866ba72c8ba98ec7c42bd53e2d2035d7cb9d`
MD5	`af2388911e02f5e273080c03203c22c9`
BLAKE2b-256	`336ff550664d910134b1e5df68e8bff0a285cb0e93a8622cc4300dcd20c54e97`

Hashes for tree_distance-1.0.12-cp37-cp37m-macosx_10_9_x86_64.whl

Hashes for tree_distance-1.0.12-cp37-cp37m-macosx_10_9_x86_64.whl
Algorithm	Hash digest
SHA256	`c4c2203cdef9620750a2a50afffe9f0028a52a24108b3083cf6508f07a2964f4`
MD5	`be3c07ca6be5c30df96f616ae980905d`
BLAKE2b-256	`bba595d520db6a620bb980596a09cc4a7ab60de0207bdd1d2bcb01504e4303bf`

Hashes for tree_distance-1.0.12-cp36-cp36m-musllinux_1_2_x86_64.whl

Hashes for tree_distance-1.0.12-cp36-cp36m-musllinux_1_2_x86_64.whl
Algorithm	Hash digest
SHA256	`67657a730c8ad6b400df506c21bd9c65ca312a8a793cda74609b8594ad9cfe2e`
MD5	`2869bbadcf9a4ea68ed5b904ea9c01c6`
BLAKE2b-256	`ce0ba5fb99bfb9f977faca6dd039366ad1ec8da4935f56884d7bc625bd3cf199`

Hashes for tree_distance-1.0.12-cp36-cp36m-manylinux_2_17_x86_64.manylinux2014_x86_64.whl

Hashes for tree_distance-1.0.12-cp36-cp36m-manylinux_2_17_x86_64.manylinux2014_x86_64.whl
Algorithm	Hash digest
SHA256	`d6f9213b5da35f361a89f3a626ec5c34cacb0732757679ba192237502116dfeb`
MD5	`58ae6dff003c8f8a9f0e2af7e4017174`
BLAKE2b-256	`07f89bf4bdccea5cbea90305843ac8d9c3f043833cbbec5beac720f9e25ee6f1`

Hashes for tree_distance-1.0.12-cp36-cp36m-macosx_10_9_x86_64.whl

Hashes for tree_distance-1.0.12-cp36-cp36m-macosx_10_9_x86_64.whl
Algorithm	Hash digest
SHA256	`aed499360d47bcaeee6130f1dc5641851814be4d645ea9cfbd657f2cd03b8762`
MD5	`0fcad826bccf7b7da221b733fd22cc1a`
BLAKE2b-256	`59ff665c6aff6c13529d3b7466520c296198fdb5f519acebe7e72253b7db6718`