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by-screening

Apply hard filters and composite ranking to protein designs, outputting PASS/MARGINAL/FAIL verdicts as CSV.

104|10|Updated Mar 23, 2026
Search Tags:#pLDDT#screening#ipTM#ipSAE#developability#liabilities#by-screening
One-click install
npx skills add https://github.com/001TMF/blatant-why --skill by-screening
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: by-screening
Source: https://github.com/001TMF/blatant-why/tree/main/templates/.claude/skills/by-screening
Command: npx skills add https://github.com/001TMF/blatant-why --skill by-screening

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill includes scripts (resource) and references (resource) components.

What problem does it solve?

BY Screening provides a structured, automated evaluation of design sequences and scores to determine PASS/FAIL/MARGINAL verdicts, ensuring reliable triage before lab submission.

Core Features & Use Cases

  • Hard-filter based screening with per-modality thresholds
  • Soft ranking and composite scoring (ipSAE, ipTM, liability) for prioritization
  • Diversity clustering to avoid near-identical top candidates

Quick Start

Run the screening workflow on your designs CSV using the production profile to produce a screened.csv.

Frequently Asked Questions about by-screening

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

FAQPage Schema
How do I automate protein design screening with hard filters for pLDDT and ipTM scores?▼

Protein design screening applies hard filters, liability counts, and composite ranking to per-design scores like pLDDT and ipTM, generating PASS/MARGINAL/FAIL verdicts and a structured CSV report.

What is the best way to triage antibody and nanobody designs before lab submission?▼

Triage antibody and nanobody designs by applying modality-specific batch-level thresholds and soft ranking to produce reliable PASS/FAIL/MARGINAL verdicts prior to lab submission.

Can I run batch screening on de novo binder workflows with liability counts?▼

Batch screening for de novo binder workflows accepts batch inputs of designs with scores, applying hard filters and liability counts to output a structured CSV plus a screening report.

Does automated design triage support composite scoring based on ipSAE and liabilities?▼

Automated design triage supports composite scoring by combining ipSAE, ipTM, and liability metrics to generate a calculated ranking for prioritizing top protein design candidates.

Why does protein design screening output MARGINAL verdicts instead of strictly PASS or FAIL?▼

Protein design screening outputs MARGINAL verdicts for candidates that meet soft ranking criteria but fall near hard filter boundaries, ensuring nuanced triage before lab submission.

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