polars-bio-bench

Benchmarks of various genomic ranges operations

Pre-requisites

• pyenv

➜  polars-bio-bench git:(init) ✗ pyenv --version
pyenv 2.5.0

• poetry

➜  polars-bio-bench git:(init) ✗ poetry --version
Poetry (version 2.0.0)

Setup

pyenv install 3.12.8
pyenv local 3.12.8
poetry env use 3.12
poetry update
pip install poetry-plugin-shell
poetry shell

Run

# export dir where the benchmark data set will be downloaded
export BENCH_DATA_ROOT=/tmp/polars-bio-bench/
python src/run-benchmarks.py