A curated collection of AI agent skills for biomedical research, covering genomics, proteomics, single-cell analysis, clinical AI, and protein design.
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Query RCSB PDB for experimental protein structures. Use when user asks about crystal structures, X-ray, cryo-EM, NMR structures, or PDB IDs. Triggers on "pdb", "crystal structure", "cryo-em", "x-ray structure", "protein crystal", "experimental structure".
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Query Reactome for biological pathways and reactions. Use when user asks about signaling cascades, biological processes, pathway diagrams, or reaction details. Triggers on "reactome", "signaling cascade", "biological pathway", "pathway diagram", "reaction mechanism".
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Query STRING for protein-protein interactions. Use when user asks about protein interactions, interaction networks, binding partners, or interactome. Triggers on "string", "protein interaction", "interaction network", "binding partners", "interactome", "PPI".
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Query UniProt protein database. Use when user asks about protein sequences, functions, annotations, domains, or protein identifiers. Triggers on "uniprot", "protein function", "protein sequence", "gene product", "protein info".
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Publication-quality PDF report generation using Typst templates. Produces professional scientific reports with colored section bands, styled tables, figure captions, callout boxes, and page headers/footers.
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Standard scRNA-seq preprocessing and clustering with Scanpy. Use for QC, normalization, HVG selection, PCA, neighbor graph construction, UMAP, Leiden clustering, and export of an analysis-ready AnnData object.
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Review SDS-PAGE or protein purification gel images using DNA sequence, protein sequence, base-pair length, expected protein size, and lane labels. Use when the user wants to judge whether a gel ran well, whether the main band matches the expected product, or whether there may be impurities, degradation, aggregation…
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
SEC (size-exclusion chromatography) analysis with peak detection, oligomer classification, and publication-quality PDF report generation via Typst templates. Triggers on "SEC", "size exclusion", "chromatography", "oligomer analysis", "protein assembly", "SEC report".
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Analyze DNA/RNA/protein sequences. Use when the user provides a sequence and asks for analysis, translation, GC content, ORFs, motifs, restriction sites, or primer design. Triggers on "sequence", "translate", "GC content", "ORF", "primer", "restriction", "complement", "reverse complement".
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Browse and install community skills from the BioClaw Skills Hub. Use when a user's task is not covered by built-in skills, or when the user asks about available skills, advanced workflows, or specialized analysis pipelines. Triggers on "skills hub", "more skills", "install skill", "community skills", "find a skill…
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Structure retrieval, confidence-aware AlphaFold DB usage, coordinate download, PAE and pLDDT interpretation, and structure-guided biological annotation.
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Workflow for read alignment, sorting, indexing, mapping statistics, and downstream-ready alignment artifacts.
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
AlphaFold2 / AlphaFold-Multimer structure prediction for validation and confidence scoring. Use this skill when: (1) Validating designed sequences fold correctly, (2) Predicting binder-target complex structures, (3) Calculating confidence metrics (pLDDT, pTM, ipTM), (4) Self-consistency validation of designs, (5)…
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Workflow for event-level and isoform-level splicing analysis with sashimi-ready outputs and splice QC.
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Binder design campaign planning, monitoring, and troubleshooting. 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…
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Binder design tool selection and workflow routing guidance. 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…
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Boltz-1 / Boltz-2 structure prediction for proteins, complexes, and ligand-aware validation. Use this skill when: (1) Predicting protein complex structures, (2) Validating designed binders, (3) Need open-source alternative to AF2, (4) Predicting protein-ligand complexes, (5) Using local GPU resources. For QC…
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Python-first workflow for bulk RNA-seq expression intake, normalization, sample QC, and downstream-ready matrices.
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Workflow for fine-mapping, colocalization, mediation, pleiotropy analysis, and Mendelian randomization.
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Workflow for ligand-receptor communication inference in single-cell or spatial data with sender-receiver summaries and cautious interpretation.
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Cell-free protein synthesis (CFPS) planning and optimization guidance. Use when: (1) Planning CFPS experiments, (2) Troubleshooting low yield or aggregation, (3) Optimizing DNA template design for CFPS, (4) Expressing difficult proteins (disulfide-rich, toxic, membrane).
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Chai-1 structure prediction for protein complexes and design validation. Use this skill when: (1) Predicting protein-protein complex structures, (2) Validating designed binders, (3) Predicting protein-ligand complexes, (4) Using the Chai API for high-throughput prediction, (5) Need an alternative to AlphaFold2. For QC…
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Workflow for orthology, synteny, ancestral reconstruction, and evolutionary comparison across genomes.
BioTender-max/awesome-bio-agent-skills
Skill Claude CodeCodex
Workflow for copy-number estimation, segmentation, annotation, and visualization in sequencing-based assays.
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: