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Affichage de 40 skills collectés sur 100.
Analyse 10x Visium spatial transcriptomics: SpaceRanger outs or spatial h5ad in, then QC, Leiden clustering, Wilcoxon markers, Moran's I, neighbourhood enrichment and co-occurrence in one local report.
Langue du texte source : anglais
Population genetics of pre-aligned DNA sequences or multi-sample VCFs using selected DnaSP 6 methods. Use for diversity, neutrality statistics, linkage disequilibrium, InDel polymorphism, divergence, MK, Ka/Ks and codon usage; not alignment, phasing or…
Langue du texte source : anglais
Pharmacogenomic report from DTC genetic data (23andMe/AncestryDNA) — 12 genes, 31 SNPs, 51 drugs
Langue du texte source : anglais
Personalised nutrition report from consumer genetic data (23andMe, AncestryDNA, VCF) — interrogates nutritionally-relevant SNPs and generates actionable dietary guidance, all computed locally.
Langue du texte source : anglais
Search, browse, and retrieve scientific protocols from protocols.io via REST API. Client token authentication for private protocols. Use when user mentions protocols.io, lab protocols, DOI lookup, protocol search, protocol steps, or scientific methods.
Langue du texte source : anglais
Query and display Labstep electronic lab notebook data — experiments, protocols, resources, and inventory — via labstepPy. Supports offline demo mode with synthetic biology data.
Langue du texte source : anglais
Calculate polygenic risk scores from DTC genetic data using the PGS Catalog
Langue du texte source : anglais
End-to-end WGS to polygenic risk score pipeline. Takes paired-end FASTQ files (or a pre-existing VCF) through nf-core/sarek for variant calling, applies VCF QC (normalisation, hard filtering, Ti/Tv and Het/Hom checks), then computes polygenic risk scores via…
Langue du texte source : anglais
Unified personal genomic profile report — reads a PatientProfile JSON and synthesizes all skill results into a single "Your Genomic Profile" document.
Langue du texte source : anglais
Infers genetic super-population ancestry from a 23andMe/AncestryDNA file and computes ancestry-stratified odds ratios with an exploratory Ancestry Elevation Score (AES) showing where ancestry-specific GWAS effect sizes diverge from European reference…
Langue du texte source : anglais
Import DRAGEN-exported Illumina result bundles into ClawBio for local tertiary analysis and downstream routing.
Langue du texte source : anglais
Wrapper skill for running nf-core/rnastructurome — chemical-probing RNA structure analysis (SHAPE/DMS, RT-stop/MaP readout) from FASTQ to per-base reactivity, secondary-structure predictions, and 2D diagrams.
Langue du texte source : anglais
Scaffold a new ClawBio skill from a spec file (JSON/YAML) or interactively — generates SKILL.md, Python skeleton, tests, and updates catalog.json
Langue du texte source : anglais
Federated variant lookup across 8 genomic databases — GWAS Catalog, Open Targets, PheWeb (UKB, FinnGen, BBJ), GTEx, and more.
Langue du texte source : anglais
Fast genomic interval operations (overlap, nearest, merge, coverage, cluster, complement, subtract, count-overlaps), multi-format bioinformatics I/O, DataFusion SQL, and pileup on Polars DataFrames via polars-bio. A scalable bioframe/bedtools alternative.
Langue du texte source : anglais
Aggregate public target-level evidence across omics and translational sources for research triage.
Langue du texte source : anglais
Fetch a region of cis-eQTL summary statistics from EBI eQTL Catalogue v7+ via tabix-on-FTP. Use when an agent needs eQTL beta / SE / p-value for every variant in a window around a gene's TSS for one specific dataset (study × tissue × quantification method).…
Langue du texte source : anglais
Fetch a region of GWAS summary statistics from the NHGRI-EBI GWAS Catalog harmonised collection via tabix-on-FTP. Use when an agent needs GWAS beta / SE / p-value for every variant in a window for one specific study (GCST accession). Input: accession,…
Langue du texte source : anglais
Compute pairwise r² between a lead variant and every variant in a window using the 1000 Genomes Phase 3 GRCh38 reference panel, ancestry-stratified. Use when an agent needs LD coloring for a regional plot or LD pruning around a candidate causal variant.…
Langue du texte source : anglais
Render a 4-panel regional LocusCompare diagnostic for one (lead variant, exposure study, outcome study) tuple - overlays GWAS Manhattan, QTL Manhattan, GENCODE gene track, and cross-trait scatter colored by LD r². Use when an agent needs visual confirmation…
Langue du texte source : anglais
ClawBio wrapper around nf-core/sarek 3.8.1 covering mapping through annotation for germline, tumor-only, and somatic paired analyses.
Langue du texte source : anglais
Wrapper skill for running nf-core/scrnaseq 4.1.0 upstream single-cell RNA-seq preprocessing from FASTQ with strict preflight, reproducibility outputs, and downstream handoff to ClawBio scRNA skills.
Langue du texte source : anglais
Fetch a regional slice of plasma pQTL summary statistics from the UK Biobank Pharma Proteomics Project (UKB-PPP; Sun 2023 Nature) for a specific (protein, ancestry) measurement. Use when an agent needs per-variant beta / SE / p-value around a coloc-lead…
Langue du texte source : anglais
Galaxy tool discovery, intelligent recommendation, and execution — 8,000+ bioinformatics tools from usegalaxy.org with multi-signal scoring and workflow suggestions
Langue du texte source : anglais
Flow.bio API bridge — authenticate, browse pipelines/samples/projects, search, upload data, launch pipeline executions, and check run status on any Flow instance.
Langue du texte source : anglais
Differential expression analysis for bulk RNA-seq and pseudo-bulk count matrices with QC, PCA, and contrast testing.
Langue du texte source : anglais
Cell segmentation in fluorescence microscopy images. Supports Cellpose/cpsam (Cellpose 4.0) with additional backends planned. Produces segmentation masks, per-cell morphology metrics (area, diameter, centroid, eccentricity), overlay figures, and a report.md.
Langue du texte source : anglais
Semantic search across UK Biobank's 12,000+ data fields and publications — find the right variables for your research question.
Langue du texte source : anglais
Phylogenetic distance matrices and trees from VCF or FASTA data using the fastreeR hybrid Java/Python toolkit (VCF2TREE, VCF2DIST, DIST2TREE, FASTA2DIST).
Langue du texte source : anglais
Deterministic multi-sample QC triage for identity, sex, contamination, and batch-shift outliers
Langue du texte source : anglais
Analyze a single FASTA file (nucleotide or protein), compute sequence-level metrics (GC, ORFs, MW, pI, GRAVY, secondary-structure fractions) with Biopython, and write a Markdown report plus structured JSON for downstream chaining.
Langue du texte source : anglais
Deterministic CRISPR screen hit ranking from local guide-level count tables
Langue du texte source : anglais
Deterministic marker-dominance region mapping from local spot-count CSVs
Langue du texte source : anglais
Blood RNA-seq expression-outlier detection for rare-disease diagnostics. Cases scored against a control reference panel; outliers ranked and filtered by a haploinsufficient disease-gene panel.
Langue du texte source : anglais
Statistical fine-mapping of GWAS loci using SuSiE, SuSiE-inf, and Approximate Bayes Factors to identify credible sets and posterior inclusion probabilities (PIPs) for causal variant discovery. SuSiE-inf adds an infinitesimal polygenic component for improved…
Langue du texte source : anglais
End-to-end ML phylogenetic tree inference — MSA, trimming, ModelFinder, IQ-TREE2/RAxML-NG.
Langue du texte source : anglais
Find clinical trials for a gene, variant, or condition from ClinicalTrials.gov + EUCTR, with FHIR R4 output
Langue du texte source : anglais
Two-sample Mendelian Randomisation from GWAS summary statistics with IVW, MR-Egger, weighted median/mode, and full sensitivity analysis (Cochran Q, Egger intercept, Steiger, F-statistic, leave-one-out).
Langue du texte source : anglais
Meta-agent that routes bioinformatics requests to specialised sub-skills. Handles file type detection, analysis planning, report generation, and reproducibility export.
Langue du texte source : anglais
Search PubMed, preserve complete abstracts and sections, and produce research briefings with abstract openings or optional OpenAI/Ollama summaries.
Langue du texte source : anglais
Copiez ce prompt dans l’assistant IA que vous utilisez.
Follow https://skillsmp.com/skill-install/prompt.md to install Agent Skills from https://github.com/ClawBio/ClawBio.Le README n’a pas pu être chargé. Vous pouvez toujours consulter les Skills du dépôt ci-dessous.