Research & Science · By ClawBio

Query TCGA tumor biology through the ucscxenatoolspy API. An agent skill from ClawBio/ClawBio.

ClawBio/ClawBio

Population genetics of pre-aligned DNA sequences or multi-sample VCFs using selected DnaSP 6 methods.

ClawBio/ClawBio

Compute pairwise r² between a lead variant and every variant in a window using the 1000 Genomes Phase 3 GRCh38 reference panel, ancestry-stratified.

ClawBio/ClawBio

Download genomes, genes, virus sequences, and taxonomy data from NCBI using the datasets and dataformat CLI tools.

ClawBio/ClawBio

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.

ClawBio/ClawBio

Meta-agent that routes bioinformatics requests to specialised sub-skills.

ClawBio/ClawBio

Ancestry decomposition PCA against the Simons Genome Diversity Project

ClawBio/ClawBio

Compute HEIM diversity and equity metrics from VCF or ancestry data.

ClawBio/ClawBio

Shotgun metagenomics profiling — taxonomy, resistome, and functional pathways

ClawBio/ClawBio

Semantic Similarity Index for disease research literature using PubMedBERT embeddings

ClawBio/ClawBio

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…

ClawBio/ClawBio

Export any bioinformatics analysis as a reproducible bundle with Conda environment, Singularity container definition, and Nextflow pipeline.

ClawBio/ClawBio

Query the ClinPGx API for pharmacogenomic gene-drug data, clinical annotations, CPIC guidelines, and FDA drug labels

ClawBio/ClawBio

Medication photo to personalised PGx dosage card via Claude vision — snap a pill, get genotype-informed guidance

ClawBio/ClawBio

Compare your genome to George Church (PGP-1) and estimate ancestry composition via IBS and EM admixture

ClawBio/ClawBio

Galaxy tool discovery, intelligent recommendation, and execution — 8,000+ bioinformatics tools from usegalaxy.org with multi-signal scoring and workflow suggestions

ClawBio/ClawBio

Federated variant lookup across 8 genomic databases — GWAS Catalog, Open Targets, PheWeb (UKB, FinnGen, BBJ), GTEx, and more.

ClawBio/ClawBio

Calculate polygenic risk scores from DTC genetic data using the PGS Catalog

ClawBio/ClawBio

Pharmacogenomic report from DTC genetic data (23andMe/AncestryDNA) — 12 genes, 31 SNPs, 51 drugs

ClawBio/ClawBio

Unified personal genomic profile report — reads a PatientProfile JSON and synthesizes all skill results into a single "Your Genomic Profile" document.

ClawBio/ClawBio

Semantic search across UK Biobank's 12,000+ data fields and publications — find the right variables for your research question.

ClawBio/ClawBio

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…

ClawBio/ClawBio

Find clinical trials for a gene, variant, or condition from ClinicalTrials.gov + EUCTR, with FHIR R4 output

ClawBio/ClawBio

Unified analysis pipeline for affinity-based proteomics platforms — Olink (PEA, NPX) and SomaLogic SomaScan (SOMAmer, RFU).

ClawBio/ClawBio

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…

ClawBio/ClawBio

Detect Neanderthal and Denisovan introgression segments from modern human genomes

ClawBio/ClawBio

Search scientific papers via the BGPT MCP server and retrieve structured experimental data — methods, results, conclusions, quality scores, and 25+ metadata fields per paper.

ClawBio/ClawBio

Bioconductor package discovery, workflow recommendation, setup inspection, and starter code generation grounded in official Bioconductor containers and BiocManager.

ClawBio/ClawBio

Classify germline variants from VCF/BCF files according to the ACMG/AMP 2015 28-criteria evidence framework and generate clinical-grade interpretation reports with per-variant evidence audit trails…

ClawBio/ClawBio

Deterministic CRISPR screen hit ranking from local guide-level count tables

ClawBio/ClawBio

Summarise pre-computed differential expression results with ranked gene lists, biological themes, and publication-ready interpretation.

ClawBio/ClawBio

Rich downstream visualisation and reporting for bulk RNA-seq differential expression and scRNA marker/contrast outputs.

ClawBio/ClawBio

Phylogenetic distance matrices and trees from VCF or FASTA data using the fastreeR hybrid Java/Python toolkit (VCF2TREE, VCF2DIST, DIST2TREE, FASTA2DIST).

ClawBio/ClawBio

Flow.bio API bridge — authenticate, browse pipelines/samples/projects, search, upload data, launch pipeline executions, and check run status on any Flow instance.

ClawBio/ClawBio

Score genetic compatibility across all male-female pairings in a Genomebook generation

ClawBio/ClawBio

End-to-end GWAS automation wrapping PLINK2 for genotype QC and REGENIE for two-step whole-genome regression association testing.

ClawBio/ClawBio

Import DRAGEN-exported Illumina result bundles into ClawBio for local tertiary analysis and downstream routing.

ClawBio/ClawBio

Search PubMed and bioRxiv for bioinformatics literature, synthesise results into a structured report, and build a citation graph — all locally, with a reproducibility bundle.

ClawBio/ClawBio

Compute epigenetic age from DNA methylation arrays using PyAging clocks from GEO accessions or local files.

ClawBio/ClawBio

Aggregates QC reports from any bioinformatics tool outputs (FastQC, fastp, STAR, Picard, samtools, etc.) into a single MultiQC HTML report plus a ClawBio markdown summary with per-sample QC metrics.

ClawBio/ClawBio

Compute organ-specific biological age from Olink proteomic data using Goeminne et al.

ClawBio/ClawBio

Differential expression analysis for label-free quantitative (LFQ) intensity data with standard MaxQuant and DIA-NN output.

ClawBio/ClawBio

Blood RNA-seq expression-outlier detection for rare-disease diagnostics.

ClawBio/ClawBio

Produce offspring genomes from parent pairs via meiotic recombination, mutation, and clinical evaluation

ClawBio/ClawBio

Local scVI/scANVI-based single-cell latent embedding and batch-aware integration from raw-count .h5ad or 10x Matrix Market input, with stable integrated AnnData export for downstream latent analysis.

ClawBio/ClawBio

Local Scanpy pipeline for single-cell RNA-seq QC, optional doublet detection, clustering, marker discovery, optional CellTypist annotation, optional latent downstream mode from…

ClawBio/ClawBio

NGS read QC, alignment, and BAM processing pipeline. An agent skill from ClawBio/ClawBio.

ClawBio/ClawBio

Evidence-grounded target validation scoring with GO/NO-GO decisions for drug discovery campaigns

ClawBio/ClawBio