Data & Analytics

An end-to-end router that takes bulk RNA-seq from raw FASTQ through QC, quantification, a counts matrix, DESeq2, pathway enrichment, and publication figures.

A pharmacometrics toolkit covering NCA, compartmental fitting, popPK dataset QC, regimen simulation, exposure-response, bioequivalence, DDI and Bayesian TDM.

Builds clinical prediction pipelines (mortality, readmission, drug recommendation, sleep staging) on EHR and signal datasets using PyHealth's standard 5-stage workflow.

Builds and validates research-only CDS artifacts—GRADE evidence profiles, aggregate cohort tables, survival plans, model/biomarker evaluations, and de-identification checklists—with a hard no-patient-care boundary.

Design, build, and audit truthful, accessible, publication-ready scientific figures with Matplotlib, Seaborn, or Plotly.

Queries live GenSpectrum LAPIS instances to report which pathogen lineages are circulating now, how fast they grow, and which mutations they carry — always with provenance.

Set up, run, and analyze protein/ligand MD simulations end-to-end with OpenMM and MDAnalysis.

Guides Claude through DeepChem workflows for molecular property prediction — from SMILES loading and featurization to GNNs and pretrained-model fine-tuning.

An audit-ready workflow for market reports where every claim carries source IDs and TAM/SAM/SOM plus forecasts are treated as scenarios.

A metrology skill that tracks physical units, builds GUM/Monte Carlo uncertainty budgets, and audits Python code for silent unit and correlation bugs.

A rigorous GeoPandas 1.1.4 playbook with correctness gates for CRS, geometry validity, join cardinality and exports, plus six local audit CLIs.

An end-to-end Scanpy workflow skill for scRNA-seq: QC, normalization, PCA/UMAP, Leiden clustering, markers and cell-type annotation.

A skill that guides Claude through scvi-tools deep generative models for batch correction, multimodal integration, and uncertainty-aware differential expression in single-cell data.

Guides Claude through constraint-based metabolic modeling with COBRApy: FBA, FVA, knockouts, media design and flux sampling.

A rigorous skill for validating, converting, and symmetry-analyzing crystal structures with current pymatgen APIs, plus offline phase diagrams and bounded Materials Project queries.

An end-to-end PyMC workflow skill covering hierarchical models, NUTS/variational inference, convergence diagnostics, and LOO/WAIC model comparison.

Run end-to-end proteomics and metabolomics LC-MS/MS analysis with ready-made pyOpenMS CLI scripts.

A skill that guides Claude through choosing SHAP explainers and maskers, computing, validating, and visualizing feature attributions on SHAP 0.52.

A fail-closed EDA skill that profiles authorized local scientific files, audits missingness, leakage and outliers, and drafts a rigorous report without exposing raw values.

Build, test, and analyze bounded process-based discrete-event simulations in SimPy with correct event semantics and replication-based output analysis.