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claude-scientific-skills/scientific-skills
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Jeremy Leipzig 3c98f0cada Add TileDB-VCF skill for genomic variant analysis 
- Add comprehensive TileDB-VCF skill by Jeremy Leipzig
- Covers open source TileDB-VCF for learning and moderate-scale work
- Emphasizes TileDB-Cloud for large-scale production genomics (1000+ samples)
- Includes detailed reference documentation:
  * ingestion.md - Dataset creation and VCF ingestion
  * querying.md - Efficient variant queries
  * export.md - Data export and format conversion
  * population_genomics.md - GWAS and population analysis workflows
- Features accurate TileDB-Cloud API patterns from official repository
- Highlights scale transition: open source → TileDB-Cloud for enterprise
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adaptyv
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aeon
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alpha-vantage
Support Alpha Advantage for more financial data
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alphafold-database
Merge pull request #30 from marovole/fix/shell-command-injection-docs
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anndata
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arboreto
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astropy
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benchling-integration
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biopython
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biorxiv-database
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bioservices
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brenda-database
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cellxgene-census
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chembl-database
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cirq
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citation-management
Update allowed-tools formatting in SKILL.md files across multiple scientific skills to improve consistency and readability.
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clinical-decision-support
Update allowed-tools formatting in SKILL.md files across multiple scientific skills to improve consistency and readability.
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clinical-reports
Update allowed-tools formatting in SKILL.md files across multiple scientific skills to improve consistency and readability.
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clinicaltrials-database
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clinpgx-database
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clinvar-database
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cobrapy
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cosmic-database
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dask
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datacommons-client
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datamol
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deepchem
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deeptools
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denario
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diffdock
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dnanexus-integration
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document-skills
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drugbank-database
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edgartools
Support EdgarTools to access and analyze SEC Edgar filings, XBRL financial statements, 10-K, 10-Q, and 8-K reports
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ena-database
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ensembl-database
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esm
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etetoolkit
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exploratory-data-analysis
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fda-database
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flowio
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fluidsim
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fred-economic-data
Add support for economic data form the Federal Reserve using FRED
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gene-database
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generate-image
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geniml
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geo-database
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geopandas
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get-available-resources
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gget
Fix description formatting in SKILL.md
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gtars
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gwas-database
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hedgefundmonitor
Support for Hedge Fund Monitor from the Office of Financial Research
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histolab
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hmdb-database
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hypogenic
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hypothesis-generation
Update allowed-tools formatting in SKILL.md files across multiple scientific skills to improve consistency and readability.
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imaging-data-commons
update to v1.3.1
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infographics
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iso-13485-certification
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kegg-database
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labarchive-integration
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lamindb
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latchbio-integration
Clean description fields
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latex-posters
Update allowed-tools formatting in SKILL.md files across multiple scientific skills to improve consistency and readability.
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literature-review
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markdown-mermaid-writing
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market-research-reports
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markitdown
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matchms
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matlab
Support for writing and executing MATLAB/Octave scripts
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matplotlib
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medchem
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metabolomics-workbench-database
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modal
fix(security): replace shell=True with safe subprocess patterns in documentation
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molfeat
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networkx
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neurokit2
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neuropixels-analysis
Replace all instances of Sonnet to Opus
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offer-k-dense-web
Add K-Dense Web skill
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omero-integration
Clean description fields
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open-notebook
Add open-notebook skill: self-hosted NotebookLM alternative (issue #56)
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openalex-database
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opentargets-database
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opentrons-integration
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paper-2-web
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pathml
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pdb-database
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peer-review
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pennylane
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perplexity-search
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plotly
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polars
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pptx-posters
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protocolsio-integration
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pubchem-database
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pubmed-database
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pufferlib
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pydeseq2
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pydicom
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pyhealth
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pylabrobot
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pymatgen
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pymc
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pymoo
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pyopenms
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pysam
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pytdc
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pytorch-lightning
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qiskit
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qutip
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rdkit
refactor(rdkit): update fingerprint generation to use rdFingerprintGenerator API
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reactome-database
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research-grants
Update allowed-tools formatting in SKILL.md files across multiple scientific skills to improve consistency and readability.
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research-lookup
Update allowed-tools formatting in SKILL.md files across multiple scientific skills to improve consistency and readability.
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rowan
Add support for Rowan computational platform that provides a suite of design and simulation tools for chemical R&D
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scanpy
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scholar-evaluation
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scientific-brainstorming
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scientific-critical-thinking
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scientific-schematics
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scientific-slides
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scientific-visualization
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scientific-writing
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scikit-bio
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scikit-learn
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scikit-survival
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scvi-tools
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seaborn
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shap
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simpy
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stable-baselines3
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statistical-analysis
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statsmodels
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string-database
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sympy
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tiledbvcf
Add TileDB-VCF skill for genomic variant analysis
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timesfm-forecasting
Update allowed-tools formatting in SKILL.md files across multiple scientific skills to improve consistency and readability.
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torch_geometric
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torchdrug
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transformers
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treatment-plans
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umap-learn
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uniprot-database
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usfiscaldata
Add support for FiscalData.treasury.gov
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uspto-database
Add patentsview api key for patent search api
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vaex
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venue-templates
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zarr-python
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zinc-database
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