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Runchuan-BU

@runchuan-bu source repo

29 published skills

  1. ▌
    Structural Biology · runchuan-bu bundle
    Structure retrieval, confidence-aware AlphaFold DB usage, coordinate download, PAE and pLDDT interpretation, and structure-guided biological annotation.
    0 installs
  2. ▌
    Sequence Analysis · runchuan-bu
    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".
    0 installs
  3. ▌
    Add Telegram Swarm · runchuan-bu
    Add Agent Swarm (Teams) support to Telegram. Each subagent gets its own bot identity in the group. Requires Telegram channel to be set up first (use /add-telegram). Triggers on "agent swarm", "agent teams telegram", "telegram swarm", "bot pool".
    0 installs
  4. ▌
    Query Opentarget · runchuan-bu
    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".
    0 installs
  5. ▌
    Convert To Docker · runchuan-bu
    Convert BioClaw from Apple Container to Docker for cross-platform support. Use when user wants to run on Linux, switch to Docker, enable cross-platform deployment, or migrate away from Apple Container. Triggers on "docker", "linux support", "convert to docker", "cross-platform", or "replace apple container".
    0 installs
  6. ▌
    Cell Annotation · runchuan-bu bundle
    Automated and marker-guided single-cell cell type annotation using CellTypist, marker review, reference transfer, and confidence-aware label curation.
    0 installs
  7. ▌
    Query Alphafold · runchuan-bu
    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".
    0 installs
  8. ▌
    Report Template · runchuan-bu
    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.
    0 installs
  9. ▌
    Query Interpro · runchuan-bu
    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".
    0 installs
  10. ▌
    Query Reactome · runchuan-bu
    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".
    0 installs
  11. ▌
    Query Stringdb · runchuan-bu
    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".
    0 installs
  12. ▌
    Sds Gel Review · runchuan-bu
    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, or low expression.
    0 installs
  13. ▌
    Query Clinvar · runchuan-bu
    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".
    0 installs
  14. ▌
    Query Ensembl · runchuan-bu
    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".
    0 installs
  15. ▌
    Query Uniprot · runchuan-bu
    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".
    0 installs
  16. ▌
    Blast Search · runchuan-bu
    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".
    0 installs
  17. ▌
    Metagenomics · runchuan-bu bundle
    Shotgun metagenomics workflow with host-depletion-aware QC, taxonomic profiling, functional profiling, AMR follow-up, and reproducible community output tables.
    0 installs
  18. ▌
    X Integration · runchuan-bu
    X (Twitter) integration for BioClaw. Post tweets, like, reply, retweet, and quote. Use for setup, testing, or troubleshooting X functionality. Triggers on "setup x", "x integration", "twitter", "post tweet", "tweet".
    0 installs
  19. ▌
    Proteomics · runchuan-bu bundle
    Mass spectrometry proteomics QC, quantification, comparative analysis, and export for DDA, DIA, and protein-level result tables.
    0 installs
  20. ▌
    Query Kegg · runchuan-bu
    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".
    0 installs
  21. ▌
    Sec Report · runchuan-bu
    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".
    0 installs
  22. ▌
    Skills Hub · runchuan-bu
    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 for".
    0 installs
  23. ▌
    Bio Tools · runchuan-bu
    Biology research tools reference. Always available inside agent containers.
    0 installs
  24. ▌
    Query Geo · runchuan-bu
    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".
    0 installs
  25. ▌
    Query Pdb · runchuan-bu
    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".
    0 installs
  26. ▌
    Add Figure · runchuan-bu
    Add a Python-only figure reference skill to a BioClaw installation. Use when the user wants publication-quality plotting guidance inside agent containers without adding source-code features. Creates `container/skills/figure/` with a Python-only `SKILL.md` and a root-level `seaborn_reference.md`.
    0 installs
  27. ▌
    Atac Seq · runchuan-bu bundle
    ATAC-seq processing with assay QC, MACS3 peak calling, consensus peak matrices, differential accessibility, and motif or footprint follow-up.
    0 installs
  28. ▌
    Chip Seq · runchuan-bu bundle
    ChIP-seq peak calling and downstream interpretation with MACS3, signal track export, annotation, motif analysis, and differential binding review.
    0 installs
  29. ▌
    Add Gmail · runchuan-bu
    Add Gmail integration to BioClaw. Can be configured as a tool (agent reads/sends emails when triggered from WhatsApp) or as a full channel (emails can trigger the agent, schedule tasks, and receive replies). Guides through GCP OAuth setup and implements the integration.
    0 installs