Ensure accessibility in UI components including semantic HTML, ARIA attributes, keyboard navigation, and WCAG 2.2 AA compliance.
한국어 요약은 준비 중입니다. 원문 설명을 표시하고 있습니다.
Comprehensive scientific research toolkit with 139 specialized skills for biology, chemistry, medicine, data science, and computational research. Transforms Claude into an AI research assistant with access to scientific databases, analysis tools, and domain-specific workflows.
한국어 요약은 준비 중입니다. 원문 설명을 표시하고 있습니다.
설치 방법 보기설치하기 전에 에이전트에게 전달되는 지시 내용을 확인할 수 있습니다.
A comprehensive collection of 139 ready-to-use scientific skills that transform Claude into an AI research assistant capable of executing complex multi-step scientific workflows across biology, chemistry, medicine, and related fields.
Invoke this skill when:
// Invoke the main skill catalog
Skill({ skill: 'scientific-skills' });
// Or invoke specific sub-skills directly
Skill({ skill: 'scientific-skills/rdkit' }); // Cheminformatics
Skill({ skill: 'scientific-skills/scanpy' }); // Single-cell analysis
Skill({ skill: 'scientific-skills/biopython' }); // Bioinformatics
Skill({ skill: 'scientific-skills/literature-review' }); // Literature review
| Skill | Description |
|---|---|
pubchem | Chemical compound database |
chembl-database | Bioactivity database for drug discovery |
uniprot-database | Protein sequence and function database |
pdb | Protein Data Bank structures |
drugbank-database | Drug and drug target information |
kegg | Pathway and genome database |
clinvar-database | Clinical variant interpretations |
cosmic-database | Cancer mutation database |
ensembl-database | Genome browser and annotations |
geo-database | Gene expression data |
gwas-database | Genome-wide association studies |
reactome-database | Biological pathways |
string-database | Protein-protein interactions |
alphafold-database | Protein structure predictions |
biorxiv-database | Preprint server for biology |
clinicaltrials-database | Clinical trial registry |
ena-database | European Nucleotide Archive |
fda-database | FDA drug approvals and labels |
gene-database | Gene information from NCBI |
zinc-database | Commercially available compounds |
brenda-database | Enzyme database |
clinpgx-database | Pharmacogenomics annotations |
uspto-database | Patent database |
| Skill | Description |
|---|---|
rdkit | Cheminformatics toolkit |
scanpy | Single-cell RNA-seq analysis |
anndata | Annotated data matrices |
biopython | Computational biology tools |
pytorch-lightning | Deep learning framework |
scikit-learn | Machine learning library |
transformers | NLP and deep learning models |
pandas / polars / vaex | Data manipulation |
matplotlib / seaborn / plotly | Visualization |
deepchem | Deep learning for chemistry |
esm | Evolutionary Scale Modeling |
datamol | Molecular data processing |
pymatgen | Materials science |
qiskit | Quantum computing |
pymoo | Multi-objective optimization |
statsmodels | Statistical modeling |
sympy | Symbolic mathematics |
networkx | Network analysis |
geopandas | Geospatial analysis |
shap | Model explainability |
| Skill | Description |
|---|---|
gget | Gene and transcript information |
pysam | SAM/BAM file manipulation |
deeptools | NGS data analysis |
pydeseq2 | Differential expression |
scvi-tools | Deep learning for single-cell |
etetoolkit | Phylogenetic analysis |
scikit-bio | Bioinformatics algorithms |
bioservices | Web services for biology |
cellxgene-census | Cell atlas exploration |
| Skill | Description |
|---|---|
rdkit | Molecular manipulation |
datamol | Molecular data handling |
molfeat | Molecular featurization |
diffdock | Molecular docking |
torchdrug | Drug discovery ML |
pytdc | Therapeutics data commons |
cobrapy | Metabolic modeling |
| Skill | Description |
|---|---|
literature-review | Systematic literature reviews |
scientific-writing | Academic writing assistance |
scientific-schematics | AI-generated figures |
scientific-slides | Presentation generation |
hypothesis-generation | Hypothesis development |
venue-templates | Journal-specific formatting |
citation-management | Reference management |
| Skill | Description |
|---|---|
clinical-decision-support | Clinical reasoning |
clinical-reports | Medical report generation |
treatment-plans | Treatment planning |
pyhealth | Healthcare ML |
pydicom | Medical imaging |
| Skill | Description |
|---|---|
benchling-integration | Lab informatics platform |
dnanexus-integration | Genomics cloud platform |
pylabrobot | Laboratory automation |
flowio | Flow cytometry data |
omero-integration | Bioimaging platform |
# 7-phase systematic literature review
# 1. Planning with PICO framework
# 2. Multi-database search execution
# 3. Screening with PRISMA flow
# 4. Data extraction and quality assessment
# 5. Thematic synthesis
# 6. Citation verification
# 7. PDF generation
# Using RDKit + ChEMBL + datamol
from rdkit import Chem
from rdkit.Chem import Descriptors, AllChem
# 1. Query ChEMBL for bioactivity data
# 2. Calculate molecular properties
# 3. Filter by drug-likeness (Lipinski)
# 4. Similarity screening
# 5. Substructure analysis
# Using scanpy + anndata
import scanpy as sc
# 1. Load and QC data
# 2. Normalization and feature selection
# 3. Dimensionality reduction (PCA, UMAP)
# 4. Clustering (Leiden algorithm)
# 5. Marker gene identification
# 6. Cell type annotation
# 8-step systematic process
# 1. Understand phenomenon
# 2. Literature search
# 3. Synthesize evidence
# 4. Generate competing hypotheses
# 5. Evaluate quality
# 6. Design experiments
# 7. Formulate predictions
# 8. Generate report
Each sub-skill follows a consistent structure:
scientific-skills/
├── SKILL.md # This file (catalog/index)
├── skills/ # Individual skill directories
│ ├── rdkit/
│ │ ├── SKILL.md # Skill documentation
│ │ ├── references/ # API references, patterns
│ │ └── scripts/ # Example scripts
│ ├── scanpy/
│ ├── biopython/
│ └── ... (139 total)
// Invoke specific skill
Skill({ skill: 'scientific-skills/rdkit' });
Skill({ skill: 'scientific-skills/scanpy' });
// Multi-skill workflow
Skill({ skill: 'scientific-skills/literature-review' });
Skill({ skill: 'scientific-skills/hypothesis-generation' });
Skill({ skill: 'scientific-skills/scientific-schematics' });
| Agent | Scientific Skills |
|---|---|
data-engineer | polars, dask, vaex, zarr-python |
python-pro | All Python-based skills |
database-architect | Database skills for schema design |
technical-writer | literature-review, scientific-writing |
Task({
task_id: 'task-1',
subagent_type: 'python-pro',
description: 'Analyze molecular dataset with RDKit',
prompt: `You are the PYTHON-PRO agent with scientific research expertise.
## Task
Analyze the molecular dataset for drug-likeness properties.
## Skills to Invoke
1. Skill({ skill: "scientific-skills/rdkit" })
2. Skill({ skill: "scientific-skills/datamol" })
## Workflow
1. Load molecular data
2. Calculate descriptors
3. Apply Lipinski filters
4. Generate visualization
5. Report findings
`,
});
skills/*/SKILL.md - Individual skill documentationskills/*/references/ - API references and patternsskills/*/scripts/ - Example scripts and templates| Anti-Pattern | Why It Fails | Correct Approach |
|---|---|---|
| Performing analysis without querying databases first | Missing context from existing literature duplicates known work and misses prior art | Query PubMed/ChEMBL/UniProt before analysis to ground work in existing scientific knowledge |
| Using a single tool for complex multi-domain analysis | Single-tool analysis misses domain boundary interdependencies | Chain multiple domain-specific skills (rdkit for chemistry, scanpy for single-cell, biopython for genomics) |
| Skipping intermediate visualization during data processing | Errors and outliers propagate silently from preprocessing to final results | Visualize data distribution and quality metrics after each major transformation step |
| Generating hypotheses without reviewing existing literature | Reinvents known solutions and ignores contradictory prior findings | Always invoke literature-review skill first; only generate hypotheses after reviewing existing evidence |
| Reporting findings without documenting analysis provenance | Research cannot be reproduced, verified, or extended by other researchers | Log all data sources, version numbers, parameters, and transformation steps in the research report |
Before starting:
Read .claude/context/memory/learnings.md
After completing:
.claude/context/memory/learnings.md.claude/context/memory/issues.md.claude/context/memory/decisions.mdASSUME INTERRUPTION: If it's not in memory, it didn't happen.
MIT License - Open source and freely available for research and commercial use.
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Ensure accessibility in UI components including semantic HTML, ARIA attributes, keyboard navigation, and WCAG 2.2 AA compliance.
한국어 요약은 준비 중입니다. 원문 설명을 표시하고 있습니다.
Use when you want to improve response quality through meta-cognitive reasoning. Applies 15+ reasoning methods to reconsider and refine initial outputs.
한국어 요약은 준비 중입니다. 원문 설명을 표시하고 있습니다.
N-round opposing-stance debates for trade-off analysis. Assigns pro/con roles to agents, runs structured debate rounds with quality scoring, and produces a moderator synthesis with confidence-rated recommendation. Generalizable to architecture, technology, security, and design decisions.
한국어 요약은 준비 중입니다. 원문 설명을 표시하고 있습니다.
Force adversarial code review stance that eliminates confirmation bias — reviewer must find issues or re-analyze
한국어 요약은 준비 중입니다. 원문 설명을 표시하고 있습니다.
Creates specialized AI agents on-demand when no existing agent matches a request. Use when the Router cannot find a suitable agent for a task. Enables self-evolution by generating persistent agents.
한국어 요약은 준비 중입니다. 원문 설명을 표시하고 있습니다.
LLM-as-judge evaluation framework with 5-dimension rubric (accuracy, groundedness, coherence, completeness, helpfulness) for scoring AI-generated content quality with weighted composite scores and evidence citations
한국어 요약은 준비 중입니다. 원문 설명을 표시하고 있습니다.