treeml
Phylogenetic machine learning: scikit-learn estimators that account for evolutionary non-independence among species.
Installation
pip install treeml
Quick Start
from treeml import PhyloRandomForestRegressor, PhyloDistanceCV
from sklearn.model_selection import cross_val_score
from Bio import Phylo
tree = Phylo.read("species.nwk", "newick")
# X = feature matrix (n_species x p_features)
# y = target vector (n_species)
model = PhyloRandomForestRegressor(n_estimators=100)
model.fit(X, y, tree=tree, species_names=names)
cv = PhyloDistanceCV(tree=tree, species_names=names, n_splits=5)
scores = cross_val_score(model, X, y, cv=cv)
1 maintainer
Metadata
1 maintainer
Release files for treeml 0.1.1
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | Provenance | Actions |
|---|---|---|---|---|
| treeml-0.1.1.tar.gz | 27.8 kB | Without provenance | Details for treeml-0.1.1.tar.gz |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Actions Reset |
|---|---|---|---|---|
| treeml-0.1.1-py2.py3-none-any.whl | Python 3, Python 2 | none | any | Details for treeml-0.1.1-py2.py3-none-any.whl |
Total release size: 80.6 kB
Release files / treeml-0.1.1.tar.gz
| Download URL | treeml-0.1.1.tar.gz |
|---|---|
| Size | 27.8 kB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
71e29964d1dd25977c4ded6fb81b5d8b4d4df190b9d5d3009b0ed11a19ca446d
|
|
BLAKE2b-256 checksum How to use checksums |
f2c67e60ea4b3da3c91adc5cfc015811e10ceb6c7e1490859013a22fd17e0022
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/6.2.0 CPython/3.11.10
|
Release files / treeml-0.1.1-py2.py3-none-any.whl
| Download URL | treeml-0.1.1-py2.py3-none-any.whl |
|---|---|
| Size | 52.7 kB |
| Tags | Python 2 Python 3 |
|
SHA-256 checksum How to use checksums |
1ce2c4ddd3783fae93b5dc02a8bfdff36aeb095e80b392abc63d5aa2526de9d6
|
|
BLAKE2b-256 checksum How to use checksums |
6377a4ed8e1b398ccdde67e194701e3e2681ac55501965a8b2568832fb2f551c
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/6.2.0 CPython/3.11.10
|
Security for treeml 0.1.1
Provenance
Provenance describes where a file came from. On PyPI, provenance is shared via attestations, which provide a verifiable record of the build or publishing details. View details, limitations and caveats.
No provenance found
None of the files in this release were uploaded with provenance metadata.
A note on package security
PyPI is a repository for distributing packages, not a service for auditing them. While third-party security researchers and our staff do their best to detect and remove malicious packages, PyPI cannot guarantee the quality, security or suitability of any given package.
To learn more about protecting yourself from malicious actors, visit our package security documentation.
