by-experiment-results

Ingest wet-lab readouts and calibrate in-silico predictions against lab outcomes.

104|10|Updated Mar 23, 2026
One-click install
npx skills add https://github.com/001TMF/blatant-why --skill by-experiment-results
Or copy as Structured Prompt for Agent
Please help me install this Agent Skill.
Skill: by-experiment-results
Source: https://github.com/001TMF/blatant-why/tree/main/templates/.claude/skills/by-experiment-results
Command: npx skills add https://github.com/001TMF/blatant-why --skill by-experiment-results

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill requires pandas, numpy, scipy, scikit-learn, and includes scripts (resource) components.

What problem does it solve?

Ingest wet-lab readouts and calibrate in-silico predictions against ground-truth lab outcomes to close the BY wet-lab loop.

Core Features & Use Cases

  • Ingest lab readouts and join them to per-design in-silico features to form a canonical calibration dataset.
  • Compute calibration metrics (Mann-Whitney U, BH correction, AUC) and generate a human-readable calibration report.
  • Push validated/contradicted findings to the knowledge graph and produce an enriched dataset for the next campaign optimizer.

Quick Start

Run ingest_lab_results.py to normalize the lab batch, then diagnose_silico_vs_lab.py to generate calibration results, and finally update_knowledge_from_lab.py to push findings to the knowledge graph.

Frequently Asked Questions about by-experiment-results

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I calibrate in-silico predictions against wet-lab readouts?

You can calibrate in-silico predictions by ingesting wet-lab readouts to form a canonical dataset, then computing calibration metrics like AUC and Mann-Whitney U to generate a calibration report.

What statistical metrics are used for wet-lab and in-silico diagnosis?

The diagnosis applies Mann-Whitney U tests with BH correction and computes AUC values to evaluate in-silico predictions against ground-truth lab outcomes.

Can I use pandas and scikit-learn for lab readout calibration?

Yes, the calibration process relies on pandas, numpy, scipy, and scikit-learn to normalize lab batches, join in-silico features, and compute statistical calibration metrics.

How do I update a knowledge graph with validated lab results?

You can push validated or contradicted wet-lab findings to a knowledge graph by running a dedicated update script that processes the normalized lab results and enriched dataset.

What is the best way to validate round-N predictions against previous lab data?

The best way is to join per-design in-silico features with previous lab readouts to compute calibration metrics, producing an enriched dataset for the next campaign optimizer.

Do I need a specific lab readout file format to close the wet-lab loop?

You need a lab readout file that the ingestion script can normalize and join with in-silico features to produce the canonical calibration dataset required for diagnosis.

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