Machine learning for biomarkers computing
Project description
Biolearn
Biolearn leverages the scikit-learn Python toolbox for biomarkers analysis
Important links
Official source code repo: https://github.com/bio-learn/biolearn/
HTML documentation (stable release): https://bio-learn.github.io/
Install
Latest release
1. Setup a virtual environment
We recommend that you install biolearn in a virtual Python environment. In linux as example you can create one with venv:
python3 -m venv bioenv
source bioenv/bin/activate
After you can install the package in the activated virtual environment:
pip install -U biolearn
Development version
Please find all development setup instructions in the contribution guide.
Check installation
Try importing biolearn in a python / iPython session:
import biolearn
If no error is raised, you have installed biolearn correctly.
Discord server
The biolearn team has a discord server to answer questions, discuss feature requests, or have any biolearn related discussions.
For more information and ways to engage with the biolearn team see How to get help.
Dependencies
The required dependencies to use the software are listed in the file pyproject.toml.
If you are using biolearn plotting functionalities or running the examples, matplotlib >= 3.3.0 is required.
Some plotting functions in biolearn support both matplotlib and plotly as plotting engines.
If you want to run the tests, you need pytest >= 6.0.0 and pytest-cov for coverage reporting.
Development
Detailed instructions on how to contribute are available at http://bio-learn.github.io/stable/development.html
Project details
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.