Runchuan-BU

Runchuan-BU/BioClaw

Skill Claude CodeCodex

Skill "bio-ppt-generate" from Runchuan-BU/BioClaw, covering bio-ppt-generate, purpose, input format, suggested slide order and output format.

Runchuan-BU/BioClaw

Skill Claude CodeCodex

Skill "bio-task-system" from Runchuan-BU/BioClaw, covering bio-task-system, purpose, input format, workflow and step 2.1: task taxonomy search.

Runchuan-BU/BioClaw

Skill Claude CodeCodex

Biology research tools reference. Always available inside agent containers.

Runchuan-BU/BioClaw

Skill Claude CodeCodex

Run BLAST sequence similarity searches. Use when the user asks to BLAST a sequence, find similar sequences, identify a gene/protein, or do homology search. Triggers on "blast", "sequence similarity", "homology", "identify sequence".

Runchuan-BU/BioClaw

Skill Claude CodeCodex

Automated and marker-guided single-cell cell type annotation using CellTypist, marker review, reference transfer, and confidence-aware label curation.

Runchuan-BU/BioClaw

Skill Claude CodeCodex

ChIP-seq peak calling and downstream interpretation with MACS3, signal track export, annotation, motif analysis, and differential binding review.

Runchuan-BU/BioClaw

Skill Claude CodeCodex

Bulk transcriptomics differential expression with count-aware modeling, design validation, contrast handling, thresholded exports, and publication-ready DE figures.

Runchuan-BU/BioClaw

Skill Claude CodeCodex

Shotgun metagenomics workflow with host-depletion-aware QC, taxonomic profiling, functional profiling, AMR follow-up, and reproducible community output tables.

Runchuan-BU/BioClaw

Skill Claude CodeCodex

Mass spectrometry proteomics QC, quantification, comparative analysis, and export for DDA, DIA, and protein-level result tables.

Runchuan-BU/BioClaw

Skill Claude CodeCodex

Search PubMed for scientific literature. Use when the user asks to find papers, search literature, look up research, find publications, or asks about recent studies. Triggers on "pubmed", "papers", "literature", "publications", "research on", "studies about".

Runchuan-BU/BioClaw

Skill Claude CodeCodex

Query AlphaFold protein structure predictions. Use when user asks about protein structure, 3D structure, protein folding, or structure prediction. Triggers on "alphafold", "protein structure", "3D structure", "folding", "pLDDT", "structure prediction".

Runchuan-BU/BioClaw

Skill Claude CodeCodex

Query ClinVar for clinical variant significance. Use when user asks about variant pathogenicity, genetic variants, clinical significance, or disease-causing mutations. Triggers on "clinvar", "pathogenic", "variant significance", "clinical significance", "disease variant", "mutation pathogenicity".

Runchuan-BU/BioClaw

Skill Claude CodeCodex

Query Ensembl for genomic data. Use when user asks about gene coordinates, genomic sequences, variants, gene structure, exons, transcripts, or species comparison. Triggers on "ensembl", "gene coordinates", "genomic location", "exon", "transcript", "variant location", "rsid", "rs number".

Runchuan-BU/BioClaw

Skill Claude CodeCodex

Predict regulatory features, gene structure, and expression directly from DNA sequence using Genomic Intelligence's hosted transformer DNA models - no local GPU. Use when the user has a gene symbol, genomic region, or DNA/FASTA sequence and wants promoter, splice-site, enhancer, chromatin, expression (log TPM), or…

Runchuan-BU/BioClaw

Skill Claude CodeCodex

Query NCBI GEO for gene expression datasets. Use when user asks about RNA-seq datasets, microarray data, expression data, GEO accessions, or finding public datasets. Triggers on "geo", "gene expression omnibus", "expression dataset", "RNA-seq dataset", "microarray dataset", "GSE", "GDS".

Runchuan-BU/BioClaw

Skill Claude CodeCodex

Query InterPro for protein domains and families. Use when user asks about protein domains, functional sites, protein families, domain architecture, or motifs. Triggers on "interpro", "protein domain", "domain architecture", "protein family", "functional site", "motif".

Runchuan-BU/BioClaw

Skill Claude CodeCodex

Query KEGG for biological pathways and gene info. Use when user asks about metabolic pathways, signaling pathways, pathway genes, or KEGG IDs. Triggers on "kegg", "pathway", "metabolic pathway", "signaling pathway", "pathway genes".

Runchuan-BU/BioClaw

Skill Claude CodeCodex

Query OpenTargets for drug targets, disease associations, and therapeutic evidence. Use when user asks about drug targets, disease mechanisms, target validation, or drug-disease associations. Triggers on "opentarget", "drug target", "target validation", "disease association", "therapeutic target", "drug for disease".

Runchuan-BU/BioClaw

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".

Runchuan-BU/BioClaw

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".

Runchuan-BU/BioClaw

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".

Runchuan-BU/BioClaw

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".

Runchuan-BU/BioClaw

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.

Runchuan-BU/BioClaw

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.