Development

rdkit @K-Dense-AI

Cheminformatics toolkit for fine-grained molecular control. SMILES/SDF parsing, descriptors (MW, LogP, TPSA),...

pyopenms @K-Dense-AI

Complete mass spectrometry analysis platform. Use for proteomics workflows feature detection, peptide...

pydeseq2 @K-Dense-AI

Differential gene expression analysis (Python DESeq2). Identify DE genes from bulk RNA-seq counts, Wald tests, FDR...

peer-review @K-Dense-AI

Structured manuscript/grant review with checklist-based evaluation. Use when writing formal peer reviews with...

paper-2-web @K-Dense-AI

This skill should be used when converting academic papers into promotional and presentation formats including...

opentargets-database @K-Dense-AI

Query Open Targets Platform for target-disease associations, drug target discovery, tractability/safety data,...

networkx @K-Dense-AI

Comprehensive toolkit for creating, analyzing, and visualizing complex networks and graphs in Python. Use when...

matchms @K-Dense-AI

Spectral similarity and compound identification for metabolomics. Use for comparing mass spectra, computing...

latchbio-integration @K-Dense-AI

Latch platform for bioinformatics workflows. Build pipelines with Latch SDK, @workflow/@task decorators, deploy...

iso-13485-certification @K-Dense-AI

Comprehensive toolkit for preparing ISO 13485 certification documentation for medical device Quality Management...

hypothesis-generation @K-Dense-AI

Structured hypothesis formulation from observations. Use when you have experimental observations or data and need to...

hypogenic @K-Dense-AI

Automated LLM-driven hypothesis generation and testing on tabular datasets. Use when you want to systematically...

hmdb-database @K-Dense-AI

Access Human Metabolome Database (220K+ metabolites). Search by name/ID/structure, retrieve chemical properties,...

gwas-database @K-Dense-AI

Query NHGRI-EBI GWAS Catalog for SNP-trait associations. Search variants by rs ID, disease/trait, gene, retrieve...

fluidsim @K-Dense-AI

Framework for computational fluid dynamics simulations using Python. Use when running fluid dynamics simulations...

fda-database @K-Dense-AI

Query openFDA API for drugs, devices, adverse events, recalls, regulatory submissions (510k, PMA), substance...

ena-database @K-Dense-AI

Access European Nucleotide Archive via API/FTP. Retrieve DNA/RNA sequences, raw reads (FASTQ), genome assemblies by...

drugbank-database @K-Dense-AI

Access and analyze comprehensive drug information from the DrugBank database including drug properties,...

diffdock @K-Dense-AI

Diffusion-based molecular docking. Predict protein-ligand binding poses from PDB/SMILES, confidence scores, virtual...

clinpgx-database @K-Dense-AI

Access ClinPGx pharmacogenomics data (successor to PharmGKB). Query gene-drug interactions, CPIC guidelines, allele...

clinical-reports @K-Dense-AI

Write comprehensive clinical reports including case reports (CARE guidelines), diagnostic reports...

clinical-decision-support @K-Dense-AI

Generate professional clinical decision support (CDS) documents for pharmaceutical and clinical research settings,...

brenda-database @K-Dense-AI

Access BRENDA enzyme database via SOAP API. Retrieve kinetic parameters (Km, kcat), reaction equations, organism...

bioservices @K-Dense-AI

Unified Python interface to 40+ bioinformatics services. Use when querying multiple databases (UniProt, KEGG,...