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Timothy Kassis
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Update license metadata field
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.claude-plugin/marketplace.json

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},
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"metadata": {
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"description": "Claude scientific skills from K-Dense Inc",
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"version": "2.11.1"
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"version": "2.11.2"
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},
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"plugins": [
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{

scientific-skills/adaptyv/SKILL.md

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name: adaptyv
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description: Cloud laboratory platform for automated protein testing and validation. Use when designing proteins and needing experimental validation including binding assays, expression testing, thermostability measurements, enzyme activity assays, or protein sequence optimization. Also use for submitting experiments via API, tracking experiment status, downloading results, optimizing protein sequences for better expression using computational tools (NetSolP, SoluProt, SolubleMPNN, ESM), or managing protein design workflows with wet-lab validation.
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license: Unknown
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metadata:
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skill-author: K-Dense Inc.
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scientific-skills/aeon/SKILL.md

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name: aeon
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description: This skill should be used for time series machine learning tasks including classification, regression, clustering, forecasting, anomaly detection, segmentation, and similarity search. Use when working with temporal data, sequential patterns, or time-indexed observations requiring specialized algorithms beyond standard ML approaches. Particularly suited for univariate and multivariate time series analysis with scikit-learn compatible APIs.
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license: BSD-3-Clause license
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metadata:
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skill-author: K-Dense Inc.
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scientific-skills/alphafold-database/SKILL.md

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name: alphafold-database
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description: "Access AlphaFold's 200M+ AI-predicted protein structures. Retrieve structures by UniProt ID, download PDB/mmCIF files, analyze confidence metrics (pLDDT, PAE), for drug discovery and structural biology."
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license: Unknown
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metadata:
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skill-author: K-Dense Inc.
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scientific-skills/anndata/SKILL.md

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name: anndata
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description: This skill should be used when working with annotated data matrices in Python, particularly for single-cell genomics analysis, managing experimental measurements with metadata, or handling large-scale biological datasets. Use when tasks involve AnnData objects, h5ad files, single-cell RNA-seq data, or integration with scanpy/scverse tools.
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license: BSD-3-Clause license
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metadata:
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skill-author: K-Dense Inc.
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scientific-skills/arboreto/SKILL.md

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name: arboreto
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description: Infer gene regulatory networks (GRNs) from gene expression data using scalable algorithms (GRNBoost2, GENIE3). Use when analyzing transcriptomics data (bulk RNA-seq, single-cell RNA-seq) to identify transcription factor-target gene relationships and regulatory interactions. Supports distributed computation for large-scale datasets.
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license: BSD-3-Clause license
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metadata:
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skill-author: K-Dense Inc.
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scientific-skills/astropy/SKILL.md

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name: astropy
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description: Comprehensive Python library for astronomy and astrophysics. This skill should be used when working with astronomical data including celestial coordinates, physical units, FITS files, cosmological calculations, time systems, tables, world coordinate systems (WCS), and astronomical data analysis. Use when tasks involve coordinate transformations, unit conversions, FITS file manipulation, cosmological distance calculations, time scale conversions, or astronomical data processing.
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license: BSD-3-Clause license
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metadata:
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skill-author: K-Dense Inc.
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scientific-skills/benchling-integration/SKILL.md

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name: benchling-integration
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description: "Benchling R&D platform integration. Access registry (DNA, proteins), inventory, ELN entries, workflows via API, build Benchling Apps, query Data Warehouse, for lab data management automation."
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license: Unknown
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metadata:
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skill-author: K-Dense Inc.
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scientific-skills/biomni/SKILL.md

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name: biomni
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description: Autonomous biomedical AI agent framework for executing complex research tasks across genomics, drug discovery, molecular biology, and clinical analysis. Use this skill when conducting multi-step biomedical research including CRISPR screening design, single-cell RNA-seq analysis, ADMET prediction, GWAS interpretation, rare disease diagnosis, or lab protocol optimization. Leverages LLM reasoning with code execution and integrated biomedical databases.
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license: Apache-2.0 license
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metadata:
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skill-author: K-Dense Inc.
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scientific-skills/biopython/SKILL.md

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name: biopython
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description: "Primary Python toolkit for molecular biology. Preferred for Python-based PubMed/NCBI queries (Bio.Entrez), sequence manipulation, file parsing (FASTA, GenBank, FASTQ, PDB), advanced BLAST workflows, structures, phylogenetics. For quick BLAST, use gget. For direct REST API, use pubmed-database."
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license: Unknown
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metadata:
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skill-author: K-Dense Inc.
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