Agent Claude Code
Plan design campaigns. Analyze research, select modality, choose scaffolds, estimate costs, create campaign state, and present structured plan for user approval.
Agent Claude Code
Generate protein/antibody designs using available compute providers (Tamarind, local GPU). Creates tool inputs, submits jobs, and monitors progress.
Agent Claude Code
Analyze sequence and structural diversity across a design set. Sequence clustering, structural clustering, Pareto front analysis, scaffold balance, phylogenetic dendrograms, and diverse panel selection.
Agent Claude Code
Parallel epitope surface analysis. Identifies druggable sites, hotspot residues, scores epitope accessibility and druggability. Lighter-weight than the full by-epitope agent.
Agent Claude Code
Deep epitope analysis agent. Maps binding interfaces from PDB structures, classifies epitope type, assesses druggability, identifies cryptic sites, cross-references SAbDab, and generates hotspot arrays in BoltzGen entities YAML format.
Agent Claude Code
Independent structural evaluation of designs. Deep structural analysis including refolding validation, interface quality, comparison to known binders, confidence decomposition, aggregation risk, and cross-validation.
Agent Claude Code
Format designs for downstream use. scFv conversion, Fab assembly, expression vector design, codon optimization hints, multi-format output (FASTA/GenBank/entities YAML), and Adaptyv Bio submission formatting.
Agent Claude Code
Humanize non-human antibody sequences for therapeutic development. Framework analysis, CDR grafting onto human germlines, back-mutation identification, T-cell epitope prediction, humanness scoring, and humanized variant panel generation.
Agent Claude Code
Query and update the learning system. Store campaign outcomes, query similar campaigns, get scaffold rankings, record failures, and generate recommendations.
Agent Claude Code
Handle Adaptyv Bio lab submissions with triple safety gate. Presents cost estimates, validates approval chain, and submits only when all three gates pass.
Agent Claude Code
Actively propose mutations to fix identified sequence liabilities. Score mutations for structural impact, consider framework vs CDR context, generate ranked mutation panels with predicted impact, and output mutation tables with position, original, proposed, motif removed, and risk level.
Agent Claude Code
Review campaign plans for completeness and correctness before user approval. Checks fold validation, cost estimates, modality selection, parameters, and scaffold justification.
Agent Claude Code
Parallel prior art research via SAbDab, PubMed, bioRxiv, and literature. Finds existing binders, antibodies, nanobodies against the target. Maps the competitive landscape.
Agent Claude Code
Synthesizes outputs from 4 parallel research agents into a unified target report. Reads targetstructures.json, targetsequence.json, priorart.json, and epitopeanalysis.json. Produces targetreport.json and researchreport.md.
Agent Claude Code
Target analysis, literature review, prior art search, epitope identification using PDB, UniProt, SAbDab, and research MCP tools.
Agent Claude Code
Score, filter, and rank designs. Run liability screening, developability checks, and composite scoring (ipSAE, ipTM, pLDDT). Present ranked candidates.
Agent Claude Code
Parallel target sequence research via UniProt. Identifies canonical sequence, domains, PTMs, variants, functional regions, and druggability indicators.
Agent Claude Code
Parallel target structure research via PDB. Finds best resolution crystal structures, identifies chains, interfaces, binding surfaces, and downloads the optimal structure for design.
Agent Claude Code
Independent quality gate checker. Verifies structural metrics, screening completeness, and candidate integrity before results are presented to the user.
Agent Claude Code
Generate PyMOL and ChimeraX session scripts for structural visualization. Creates publication-quality views of targets, designed complexes, interfaces, CDR loops, electrostatic surfaces, and clash detection.
Command Claude Code
Approve lab submission to Adaptyv Bio (triple-gated).
Command Claude Code
Full autonomous campaign — research, design, screen, rank with minimal interruption.
Command Claude Code
Load a protein target and analyze it for design.
Command Claude Code
Pre-campaign discussion -- capture design preferences before launching.
At most 3 mods per repository are shown here, and a mod shipped inside a plugin is left to that plugin's page — the rest are on their repository pages: