bindcraft
From the author
End-to-end binder design using BindCraft hallucination. Use this skill when: (1) Designing protein binders with built-in AF2 validation, (2) Running production-quality binder campaigns, (3) Using different design protocols (fast, default, slow), (4) Need joint backbone and sequence optimization, (5) Want high experimental success rate. For backbone-only generation, use rfdiffusion. For QC thresholds, use protein-qc. For tool selection guidance, use binder-design.
Install
npx skills add adaptyvbio/protein-design-skills --skill bindcraft -a claude-code
Installs to .claude/skills/bindcraft/ · Each command fetches the skill straight from GitHub with the open skills CLI.
Byte-identical to the scanned commit, with the repository’s licence and a SOURCE.txt.
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Why 80
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Similar skills
Closest to this one by what they do and when they are used.
- binder-designadaptyvbio/protein-design-skillsGuidance for choosing the right protein binder design tool. Use this skill when: (1) Deciding between BoltzGen, BindCraft, or RFdiffusion, (2) Planning a binder design campaign, (3) Understanding trade-offs between different approaches, (4) Selecting tools for specific target types. For specific tool parameters, use the individual tool skills (boltzgen, bindcraft, rfdiffusion, etc.).Design★ 170
- mosaicadaptyvbio/protein-design-skillsMulti-objective, gradient-based protein binder design with Mosaic. Use this skill when: (1) Composing several structure or sequence models into one design objective, (2) Optimizing binders against a custom loss rather than a fixed pipeline, (3) Wanting gradient descent over sequence space in the style of ColabDesign, RSO, or BindCraft but with interchangeable predictors, (4) Letting the optimizer choose the epitope instead of fixing hotspots. For an end-to-end binder pipeline with default filters, use bindcraft. For all-atom diffusion design, use boltzgen. For backbone-only generation, use rfdiffusion.Design★ 170
- protein-design-workflowadaptyvbio/protein-design-skillsEnd-to-end guidance for protein design pipelines. Use this skill when: (1) Starting a new protein design project, (2) Need step-by-step workflow guidance, (3) Understanding the full design pipeline, (4) Planning compute resources and timelines, (5) Integrating multiple design tools. For tool selection, use binder-design. For QC thresholds, use protein-qc.Design★ 170
- rfdiffusionadaptyvbio/protein-design-skillsGenerate protein backbones using RFdiffusion, a diffusion-based generative model for de novo protein structure generation. Use this skill when: (1) Designing binder scaffolds for a target protein, (2) Generating novel protein backbones from scratch, (3) Scaffolding functional motifs into new proteins, (4) Specifying hotspot residues for interface design, (5) Creating symmetric oligomers. For sequence design after backbone generation, use proteinmpnn. For structure validation, use alphafold or chai. For QC thresholds, use protein-qc.Design★ 170
- proteinmpnnaipoch/open-scienceInverse-fold a protein backbone (PDB structure) into amino-acid sequence with ProteinMPNN (Dauparas et al. 2022, github.com/dauparas/ProteinMPNN). Reach for this skill to run sequence design on RFdiffusion backbones, to redesign one chain of a PDB while holding interface residues fixed, or to generate a temperature-swept set of sequences for downstream folding.Design★ 5.4K
- campaign-manageradaptyvbio/protein-design-skillsGoal-oriented binder design campaign planning and health assessment. Use this skill when: (1) Planning a complete binder design campaign, (2) Converting high-level goals into runnable pipelines, (3) Assessing campaign health and pass rates, (4) Diagnosing why designs are failing QC, (5) Estimating time, cost, and expected yields, (6) Selecting between design tools for a specific target. This skill orchestrates the other protein design tools. For individual tool parameters, use the specific tool skills.Marketing★ 170
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