ClawBio

ClawBio/ClawBio

Skill Claude CodeCodex

Semantic Similarity Index for disease research literature using PubMedBERT embeddings.

ClawBio/ClawBio

Skill Claude CodeCodex

Eval-driven skill tuning. Given a task and an LLM-judge rubric, iteratively rewrites a SKILL.md until a downstream executor agent performs well against the judge. Low-code: all evaluation is LLM-as-judge, not deterministic Python.

ClawBio/ClawBio

Skill Claude CodeCodex

Skill "skill" from ClawBio/ClawBio, covering gwas sumstats analysis — seed and workflow.

ClawBio/ClawBio

Skill Claude CodeCodex

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

ClawBio/ClawBio

Skill Claude CodeCodex

Screen a genotype set (array or WGS-derived) against OMIM-morbid, ACMG-SF and Hereditary-Cancer gene panels and prioritise carried variants by ClinVar significance, gnomAD frequency, inheritance model and zygosity, following the pathogenicity-screening method of Corpas et al. 2021 (Whole Genome Interpretation for a…

ClawBio/ClawBio

Skill Claude CodeCodex

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 and ACMG SF v3.2 secondary findings screening.

ClawBio/ClawBio

Skill Claude CodeCodex

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

ClawBio/ClawBio

Skill Claude CodeCodex

Classify structural variants / copy-number variants (deletions and duplications) using the ClinGen / ACMG 2019 (Riggs et al. 2020) point framework and return a five-tier classification with a per-section evidence trail. Germline CNV interpretation, not SNV/indel.

ClawBio/ClawBio

Skill Claude CodeCodex

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

ClawBio/ClawBio

Skill Claude CodeCodex

Extract numerical data from scientific figure images using Claude vision + OpenCV calibration. Supports 26+ plot types including bar charts, scatter plots, forest plots, Kaplan-Meier curves, box plots, and more.

ClawBio/ClawBio

Skill Claude CodeCodex

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

ClawBio/ClawBio

Skill Claude CodeCodex

Transcriptome-wide virtual spatial transcriptomics from H&E histology with DeepSpot-M. Scores a 224x224 tile and returns per-gene log1p-CPM values for any HGNC symbols you ask for, with a CSV, a report and a reproducibility bundle.

ClawBio/ClawBio

Skill Claude CodeCodex

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

ClawBio/ClawBio

Skill Claude CodeCodex

Full reimplementation of DnaSP 6 for population genetics analysis of aligned DNA sequences. Covers nucleotide diversity, haplotype statistics, neutrality tests (Tajima's D, Fu & Li's D/F, R2), linkage disequilibrium (D, D', R², ZnS, Za, ZZ), minimum recombination (Rm), mismatch distribution, InDel polymorphism…

ClawBio/ClawBio

Skill Claude CodeCodex

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

ClawBio/ClawBio

Skill Claude CodeCodex

Objective-driven pooled viability screen analysis: QC, hit calling, context-selectivity, biomarker sweep, and ranked repurposing candidates. Format-agnostic via schema.yaml + objective.yaml; includes offline demo.

ClawBio/ClawBio

Skill Claude CodeCodex

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). Input: datasetid, chromosome, start, end, optional…

ClawBio/ClawBio

Skill Claude CodeCodex

Compute HEIM diversity and equity metrics from VCF or ancestry data. Generates heterozygosity, FST, PCA plots, and a composite HEIM Equity Score with markdown reports.

ClawBio/ClawBio

Skill Claude CodeCodex

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

ClawBio/ClawBio

Skill Claude CodeCodex

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 calibration at well-powered loci.

ClawBio/ClawBio

Skill Claude CodeCodex

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

Skill Claude CodeCodex

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

ClawBio/ClawBio

Skill Claude CodeCodex

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

ClawBio/ClawBio

Skill Claude CodeCodex

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