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README.md
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AssayLens
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lightweight benchmark and prototype next-assay recommender for testing whether
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explicit assay-frame features improve activity, potency, quantification,
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viability-confounding, and high-frequency artifact prediction.
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evaluation, and artifact upload run on Hugging Face Jobs. Local execution is for
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code editing, tiny smoke tests, and reading compact summaries. Do not download
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or store the full EvE raw dataset locally.
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```bash
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conda env create -f environment.yml
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conda activate assaylens
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python -m pytest
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python scripts/00_check_access.py --no-write
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```
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## CLI and Demo UI
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```bash
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assaylens audit-artifacts --artifact-repo lighteternal/assaylens-artifacts
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assaylens recommend --input examples/tiny_observations.json --artifact-repo lighteternal/assaylens-artifacts
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python scripts/11_gradio_demo.py
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```
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`OPENAI_API_KEY` in the runtime environment and summarize only structured
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AssayLens outputs.
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## Hugging Face Jobs
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```bash
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export HF_NAMESPACE="<username>"
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export ARTIFACT_REPO="<username>/assaylens-artifacts"
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# Optional; defaults to "$HF_NAMESPACE/assaylens-code-snapshot".
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export ASSAYLENS_CODE_REPO="<username>/assaylens-code-snapshot"
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scripts/run_hf_job.sh scripts/00_check_access.py cpu-basic
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scripts/run_hf_job.sh scripts/01_profile_eve.py cpu-upgrade
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scripts/run_hf_job.sh scripts/02_profile_hugging_science.py cpu-basic
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scripts/run_hf_job.sh scripts/03_build_features.py cpu-performance
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scripts/run_hf_job.sh scripts/04_make_splits.py cpu-upgrade
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scripts/run_hf_job.sh scripts/05_train_baselines.py cpu-performance
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scripts/run_hf_job.sh scripts/06_train_assaylens.py a10g-small
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scripts/run_hf_job.sh scripts/07_evaluate.py cpu-upgrade
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scripts/run_hf_job.sh scripts/08_next_assay_policy.py cpu-upgrade
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scripts/run_hf_job.sh scripts/09_make_report.py cpu-basic
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```
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The local shell does not need to expose the token if `hf auth login` is already
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configured, but HF Jobs require an account-side `HF_TOKEN` secret for gated
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dataset access inside the remote container.
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---
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title: AssayLens Demo
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emoji: 🧪
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colorFrom: green
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colorTo: gray
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sdk: docker
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app_port: 7860
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pinned: false
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---
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# AssayLens Demo
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HF Spaces wrapper for the AssayLens Gradio recommender.
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The container runs:
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```bash
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python scripts/11_gradio_demo.py
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```
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Set `OPENAI_API_KEY` as a private Space secret only if optional LLM explanations
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are needed. The app does not ask users to paste an API key.
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