AL
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alphafold
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Data & Repro
BI
bio-immunoinformatics-epitope-prediction
Maintainer FreedomIntelligence · Last updated April 1, 2026
Predict B-cell and T-cell epitopes using BepiPred, IEDB tools, and structure-based methods for vaccine and antibody design. Identify immunogenic regions in antigens. Use when designing vaccines, mapping antibody binding sites, or predicting immunogenic peptides.
Original source
FreedomIntelligence/OpenClaw-Medical-Skills
https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-immunoinformatics-epitope-prediction
- Maintainer
- FreedomIntelligence
- License
- MIT
- Last updated
- April 1, 2026
Skill Snapshot
Key Details From SKILL.md
Key Notes
- Python: IEDB API for B-cell epitope prediction (BepiPred).
- Python: mhcflurry for T-cell epitope MHC binding prediction.
- Predict B-cell and T-cell epitopes in my protein" → Identify immunogenic regions in antigens for vaccine design using sequence-based and structure-based prediction tools. Python: IEDB API for B-cell epitope prediction (BepiPred) Python: mhcflurry for T-cell epitope MHC binding prediction.
- Goal: Predict linear B-cell epitopes from protein sequence using IEDB prediction tools.
- Approach: Submit sequence to IEDB B-cell prediction API with selectable method (BepiPred-2.0 recommended) and parse tab-separated results.
Source Doc
Excerpt From SKILL.md
T-Cell Epitope Prediction
Goal: Predict T-cell epitopes by MHC-I binding across multiple HLA alleles.
Approach: Query IEDB MHC-I API for each allele-sequence combination and aggregate predictions.
Linear vs Conformational Epitopes
Goal: Classify epitopes as linear (continuous) or conformational (discontinuous) and predict structure-based epitopes.
Approach: Distinguish by residue continuity in primary sequence; for conformational epitopes, use structure-based tools (DiscoTope, ElliPro) via web servers.
Combine Multiple Predictions
Goal: Improve epitope prediction reliability by combining multiple methods into a consensus score.
Approach: Run each method independently, threshold per method, then count agreements per position and assign confidence levels.
Use cases
- Use when designing vaccines, mapping antibody binding sites, or predicting immunogenic peptides.
Not for
- Do not rely on this catalog entry alone for installation or maintenance details.
Upstream Related Skills
- immunoinformatics/mhc-binding-prediction - T-cell epitope prediction
- immunoinformatics/immunogenicity-scoring - Epitope ranking
- structural-biology/geometric-analysis - Structure-based epitopes
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