В каталоге 183 730 навыков в 14 категориях.
Infers dynamic gene regulatory networks from bulk time-series expression data using Granger causality (statsmodels), dyn...
Models continuous temporal trajectories from bulk or time-resolved omics data using generalized additive models (mgcv),...
Transcribe DNA to RNA and translate to protein using Biopython. Use when converting between DNA, RNA, and protein sequen...
Query UniProt's REST API (post-2022 endpoint at rest.uniprot.org) for protein sequences, annotations, GO terms, cross-re...
Comprehensive variant annotation using bcftools annotate/csq, VEP, SnpEff, and ANNOVAR. Add database annotations, predic...
Call SNPs and indels from aligned reads using bcftools mpileup and call. Use when detecting variants from BAM files or g...
Clinical variant interpretation using ClinVar, ACMG guidelines, and pathogenicity predictors. Prioritize variants for di...
Calls germline SNPs and indels with Google DeepVariant, which reframes variant calling as CNN image classification over...
Deep learning-based variant calling with Google DeepVariant. Provides high accuracy for germline SNPs and indels from Il...
Comprehensive variant filtering including GATK VQSR, hard filters, bcftools expressions, and quality metric interpretati...
Joint genotype calling across multiple samples using GATK CombineGVCFs and GenotypeGVCFs. Essential for cohort studies,...
Call structural variants (SVs) from sequencing data using Manta, Delly, GRIDSS, and LUMPY. Detects deletions, insertions...
Normalize indel representation, decompose MNPs, and split multiallelic variants using bcftools norm. Use when comparing...
This skill should be used when the user asks to analyze, filter, or inspect VCF/BCF variant files from WGS/WES sequencin...
View, query, and understand VCF/BCF variant files using bcftools and cyvcf2. Use when inspecting variants, extracting sp...
View, query, and interpret VCF/BCF variant files with bcftools and cyvcf2. Use when inspecting variants, extracting fiel...
Merge, concatenate, sort, intersect, and subset VCF files using bcftools. Use when combining variant files, comparing ca...
Generate variant statistics, sample concordance, and quality metrics using bcftools stats and gtcheck. Use when evaluati...
Detect, classify, and QC viral contigs.
Performs structure-based virtual screening using AutoDock Vina, SMINA, GNINA (CNN scoring), and DiffDock-L hybrid workfl...
Create portable, standards-based bioinformatics pipelines with Common Workflow Language (CWL). Use when building workflo...
Create scalable, containerized bioinformatics pipelines with Nextflow DSL2 supporting Docker, Singularity, and cloud exe...
Build reproducible bioinformatics pipelines with Snakemake using rules, wildcards, and automatic dependency resolution....
Create portable bioinformatics pipelines with Workflow Description Language (WDL) using Cromwell or miniwdl execution en...
Generate reproducible bioinformatics/data-science Methods + run documentation from workflow run artifacts (Nextflow/Snak...
End-to-end ATAC-seq workflow from FASTQ files to differential accessibility and TF footprinting. Covers alignment, peak...
End-to-end biomarker discovery workflow from expression data to validated biomarker panels. Covers feature selection wit...
End-to-end post-GWAS causal inference pipeline orchestrating heritability partitioning, genetic correlation, Mendelian r...
End-to-end ChIP-seq workflow from FASTQ files to annotated peaks. Covers QC, alignment, peak calling with MACS3 (or HOME...
End-to-end clinical trial analysis workflow from CDISC SDTM/ADaM loading through ICH E9(R1) estimand-driven primary anal...
End-to-end CLIP-seq pipeline from FASTQ to ENCODE-compliant binding sites, single-nucleotide crosslink maps, annotation,...
End-to-end copy number variant detection workflow from BAM files. Covers CNVkit analysis for exome/targeted sequencing w...
Orchestrates an end-to-end CRISPR editing experiment design from target gene to delivery-ready, validatable constructs....
End-to-end pooled and single-cell CRISPR screen analysis from FASTQ to hit genes. Orchestrates library design QC, guide...
End-to-end flow, spectral, and mass cytometry (CyTOF) pipeline from raw FCS files to differentially abundant/expressed c...
End-to-end eDNA metabarcoding from raw amplicons to community ecology. Covers QC, primer removal (mandatory before DADA2...
Workflow from differential expression results to functional enrichment analysis. Covers GO, KEGG, Reactome enrichment wi...
End-to-end DNA sequencing workflow from FASTQ files to variant calls. Covers QC, alignment with BWA, BAM processing, and...
End-to-end genome annotation pipeline from assembled contigs to functional annotation, covering repeat masking, gene pre...
Orchestrates an end-to-end de novo genome assembly project, routing each step to the right genome-assembly skill rather...
End-to-end gene regulatory network inference pipeline from processed single-cell data to regulon discovery and perturbat...
End-to-end GWAS workflow from VCF to association results. Covers PLINK QC, population structure correction, and associat...
End-to-end Hi-C analysis workflow from FASTQ to compartments, TADs, and loops, with the decision of WHICH features the s...
End-to-end imaging mass cytometry workflow from raw acquisitions to spatial cell analysis. Orchestrates image preprocess...
End-to-end workflow for detecting structural variants from long-read sequencing data. Covers ONT/PacBio alignment with m...
Orchestrates an end-to-end MeRIP-seq / m6A-seq analysis from raw FASTQ to differential m6A peak calls and metagene plots...
End-to-end genome-scale metabolic modeling from genome sequence to flux predictions. Covers automated reconstruction wit...
Orchestrates the untargeted LC-MS metabolomics pipeline end-to-end (xcms 4.x feature extraction, QC/drift/normalization,...
End-to-end metagenomics workflow from FASTQ to taxonomic and functional profiles. Covers Kraken2 classification, Bracken...
End-to-end bisulfite sequencing workflow from FASTQ to differentially methylated regions. Covers Bismark alignment, meth...
End-to-end 16S amplicon workflow from FASTQ reads to differential abundance. Orchestrates DADA2 ASV inference, taxonomy...
End-to-end multi-omics integration workflow. Orchestrates data harmonization, MOFA/mixOmics integration, factor interpre...
End-to-end multiome workflow for joint scRNA-seq + scATAC-seq analysis. Covers data loading, separate modality processin...
End-to-end neoantigen discovery from somatic variants to ranked vaccine candidates. Integrates HLA typing, MHC binding p...
End-to-end outbreak investigation from pathogen isolates to transmission networks. Orchestrates MLST typing, AMR surveil...
End-to-end proteomics workflow from MaxQuant output to differential protein abundance. Orchestrates data import, normali...
End-to-end Ribo-seq analysis from FASTQ to translation efficiency and ORF detection. Use when analyzing ribosome profili...
End-to-end RNA-seq workflow from FASTQ files to differential expression results. Covers QC, quantification (Salmon or ST...
End-to-end single-cell RNA-seq workflow from 10X Genomics data to annotated cell types. Covers QC, normalization, cluste...
End-to-end small RNA-seq analysis from FASTQ to differential miRNA expression. Use when analyzing miRNA, piRNA, or other...
End-to-end somatic variant calling from tumor-normal paired samples using Mutect2 or Strelka2. Covers preprocessing, var...
End-to-end spatial transcriptomics workflow for Visium/Xenium data. Covers data loading, preprocessing, spatial analysis...
End-to-end TCR/BCR repertoire analysis from FASTQ to clonotype diversity metrics. Use when analyzing immune repertoire s...
End-to-end time-course analysis from expression matrix to temporal patterns and enrichment. Covers temporal DE, Mfuzz so...
Write biological sequences to files (FASTA, FASTQ, GenBank, EMBL) using Biopython Bio.SeqIO. Use when saving sequences,...
Bioassay Data Analysis - Analyze bioassay data: PubChem assay summary, ChEMBL activity search, compound properties, and...
给定 PMID/PMCID 取结构化全文（NLM BioC XML/JSON）。封装 BioC PubMed（标题+摘要）和 BioC PMC OA（开放获取全文）端点，输出按章节切分的段落、表格上下文、RAG 友好 chunk，适合大批量...
Reasons from thermodynamics, enzyme mechanisms, and binding energetics; designs orthogonal purification and assay readou...
Expert skill for Biogen Enterprise Skill
Carbon, nitrogen, phosphorus, sulfur, and water cycles — pools, fluxes, residence times, and anthropogenic perturbations...
Use when implementing data analysis pipelines, statistical tests, or bioinformatics workflows in code (Python/R), partic...
Gateway to 400+ bioinformatics skills from bioSkills and ClawBio. Covers genomics, transcriptomics, single-cell, variant...
Use this agent when you need to perform custom bioinformatics analyses on genes or proteins that go beyond standard data...
This skill should be used when conducting bioinformatics research, planning experiments, running analyses, or managing s...
Install bioinformatics tools for ENCODE data analysis. Covers CLI tools (BWA, STAR, samtools, MACS2), R/Bioconductor pac...
Biomedical OS Core & MCP Server
Expert-level biology, biotechnology, genetics, bioinformatics, and computational biology
Analyzes living systems and biological phenomena through biological lens using evolution, molecular biology, ecology, an...
Use when evaluating biological relevance, methodological appropriateness, or scientific validity of bioinformatics appro...
Comprehensive biology expert from molecular biology to ecology, covering cell biology, genetics, evolution, and physiolo...
Extract biology entities from narrative text. Use when analyzing ecosystems, food chains, migration, hibernation, reprod...
Biomarker Discovery Pipeline - Discover biomarkers: TCGA differential expression, NCBI gene data, OpenTargets associatio...
Ralph-Inspired Adaptive Learning Framework for iterative, quality-gated biomarker report analysis
Use when a task involves organizing evidence for a biomarker by intended use, assay, population, validation stage, and c...
Search and retrieve biomedical data - genes, variants, clinical trials, diagnostic tests, articles, drugs, diseases, pat...
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Do biomedical literature and variant research with the BioMCP CLI, and file what you learn about the tool itself as issu...
Deploy and operate the BioMCP server so MCP-compatible clients (Claude Desktop, LobeChat, etc.) can query biomedical dat...
Biome - Fast all-in-one toolchain for web projects (linter + formatter in Rust, 100x faster than ESLint)
Biome 2.x linting and formatting patterns. Use when configuring code quality tools, setting up linting rules, formatting...
Biome fast formatter and linter. Use for code quality.
Use when user asks to lint with Biome, check lint warnings introduced in an MR/branch, run `lint:ref`, or read/triage la...
Use when the user wants to format or lint JavaScript, TypeScript, JSX, TSX, JSON, JSONC, CSS, GraphQL, HTML, Vue, Svelte...
Use only for reviewing completed Biome PRs, branches, commit ranges, diffs, or working trees against business logic and...
Use when biome configuration including biome.json setup, schema versions, VCS integration, and project organization.
Use when formatting JavaScript/TypeScript code with Biome's fast formatter including patterns, options, and code style m...
Creates and manages Biome GritQL custom lint rules to enforce coding patterns. Use when creating linter rules, enforcing...
Create and integrate a new biome pack (docs, data, art stubs)
Biome linter/formatter setup. Use when configuring Biome as an alternative to ESLint + Prettier.