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matchms

1

Spectral similarity and compound identification for metabolomics. Use for comparing mass spectra, computing similarity scores (cosine, modified cosine), and identifying unknown compounds from spectral libraries. Best for metabolite identification, spectral matching, library searching. For full LC-MS/MS proteomics pipelines use pyopenms.

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molecular-dynamics

1

Run and analyze molecular dynamics simulations with OpenMM and MDAnalysis. Set up protein/small molecule systems, define force fields, run energy minimization and production MD, analyze trajectories (RMSD, RMSF, contact maps, free energy surfaces). For structural biology, drug binding, and biophysics.

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molfeat

1

Molecular featurization for ML (100+ featurizers). ECFP, MACCS, descriptors, pretrained models (ChemBERTa), convert SMILES to features, for QSAR and molecular ML.

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medical-imaging-review

1

Write comprehensive literature reviews for medical imaging AI research. Use when writing survey papers, systematic reviews, or literature analyses on topics like segmentation, detection, classification in CT, MRI, X-ray, ultrasound, or pathology imaging. Triggers on requests for \"review paper\", \"survey\", \"literature review\", \"综述\", \"systematic review\", or mentions of writing academic revi

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mcpmed-bioinformatics-server

1

Model Context Protocol (MCP) server for bioinformatics web services like GEO, STRING, and UCSC Cell Browser.

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medical-research-toolkit

1

Query 14+ biomedical databases for drug repurposing, target discovery, clinical trials, and literature research. Access ChEMBL, PubMed, ClinicalTrials.gov, OpenTargets, OpenFDA, OMIM, Reactome, KEGG, UniProt, and more through a unified MCP endpoint. Use when researching disease targets, finding approved/investigational drugs, searching clinical evidence, discovering genetic associations, or analyz

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mental-health-analyzer

1

分析心理健康数据、识别心理模式、评估心理健康状况、提供个性化心理健康建议。支持与睡眠、运动、营养等其他健康数据的关联分析。

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medea-therapeutic-discovery

1

An AI agent for therapeutic discovery that executes transparent, multi-step omics analyses including research planning, code execution, and literature reasoning.

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medical-entity-extractor

1

Extract medical entities (symptoms, medications, lab values, diagnoses) from patient messages.

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mesh-generation

1

Plan and evaluate mesh generation for numerical simulations. Use when choosing grid resolution, checking aspect ratios/skewness, estimating mesh quality constraints, or planning adaptive mesh refinement for PDE discretization.

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multi-reviewer-patterns

1

Coordinate parallel code reviews across multiple quality dimensions with finding deduplication, severity calibration, and consolidated reporting. Use this skill when organizing multi-reviewer code reviews, calibrating finding severity, or consolidating review results.

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modern-drug-rehab-computer

1

Comprehensive knowledge system for addiction recovery environments, supporting both residential and outpatient (IOP/PHP) patients. Expert in evidence-based treatment modalities (CBT, DBT, MI,

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