README.md

metadata

title: DNA Benchmark
emoji: 🥇
colorFrom: red
colorTo: indigo
sdk: gradio
app_file: app.py
pinned: true
license: apache-2.0
short_description: DNA Foundational Models leaderboard
sdk_version: 5.19.0

DNA Benchmark Leaderboard

Interactive leaderboard comparing DNA foundation models across genomics classification tasks. Data is loaded from lokahq/genomic-benchmark-metrics on startup.

Development

# Install uv (if not already installed)
curl -LsSf https://astral.sh/uv/install.sh | sh

# Install dependencies
uv sync

# Run locally
make app

# Format code
make style

Context length bubble chart

The bubble chart requires mean sequence lengths per task to be pre-computed once:

make seq-lengths        # computes lengths and writes tools/task_seq_lengths.json
git add tools/task_seq_lengths.json && git commit -m "populate task seq lengths"

The chart is a no-op until tools/task_seq_lengths.json is populated and committed.

Configuration

File	Purpose
src/constants.py	Task categories, metric names, seq length lookup
src/data.py	HF Hub loading, deduplication, filtering
src/plots.py	All Plotly figure factories
tools/task_seq_lengths.json	Mean sequence lengths per task (committed)
.env	HF_TOKEN and LEADERBOARD_DATASET (use HF Spaces secrets in deployment)