drshailesh88/integrated_content_os

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histolab Digital pathology image processing toolkit for whole slide images (WSI). Use this skill when working with histopathol…

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kegg-database Direct REST API access to KEGG (academic use only). Pathway analysis, gene-pathway mapping, metabolic pathways, drug …

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latex-posters Create professional research posters in LaTeX using beamerposter, tikzposter, or baposter. Support for conference pre…

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matchms Mass spectrometry analysis. Process mzML/MGF/MSP, spectral similarity (cosine, modified cosine), metadata harmonizati…

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multi-model-writer Unified writing system with intelligent model routing. Default: Claude. Options: GLM-4.7 (cheapest), GPT-4o/mini, Gem…

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pufferlib This skill should be used when working with reinforcement learning tasks including high-performance RL training, cust…

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pytorch-lightning Deep learning framework (PyTorch Lightning). Organize PyTorch code into LightningModules, configure Trainers for mult…

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

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research-grants Write competitive research proposals for NSF, NIH, DOE, and DARPA. Agency-specific formatting, review criteria, budge…

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scikit-bio Biological data toolkit. Sequence analysis, alignments, phylogenetic trees, diversity metrics (alpha/beta, UniFrac), …

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statistical-analysis Statistical analysis toolkit. Hypothesis tests (t-test, ANOVA, chi-square), regression, correlation, Bayesian stats, …

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uspto-database Access USPTO APIs for patent/trademark searches, examination history (PEDS), assignments, citations, office actions, …

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x-post-creator-skill Create scientifically rigorous, engaging X (Twitter) posts for cardiology thought leadership. Use when generating soc…

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zinc-database Access ZINC (230M+ purchasable compounds). Search by ZINC ID/SMILES, similarity searches, 3D-ready structures for doc…

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astropy Comprehensive Python library for astronomy and astrophysics. This skill should be used when working with astronomical…

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cardiology-content-repurposer Transform long-form cardiology content (YouTube transcripts, newsletters, PDFs, knowledge bases) into high-quality th…

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cardiology-newsletter-writer Create evidence-based cardiology newsletters for thought leadership in Eric Topol's authoritative Ground Truths style…

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cardiology-tweet-writer Generate scientifically accurate, engaging cardiology tweets for thought leadership. Use when creating social media c…

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cobrapy Constraint-based metabolic modeling (COBRA). FBA, FVA, gene knockouts, flux sampling, SBML models, for systems biolog…

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cremieux-cardio Write data-driven, evidence-first long-form Twitter posts on medicine and cardiology. Use when the user wants to: (1)…

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docx Document toolkit (.docx). Create/edit documents, tracked changes, comments, formatting preservation, text extraction,…

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drugbank-database Access and analyze comprehensive drug information from the DrugBank database including drug properties, interactions,…

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

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esm Comprehensive toolkit for protein language models including ESM3 (generative multimodal protein design across sequenc…

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exploratory-data-analysis Perform comprehensive exploratory data analysis on scientific data files across 200+ file formats. This skill should …

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flowio Parse FCS (Flow Cytometry Standard) files v2.0-3.1. Extract events as NumPy arrays, read metadata/channels, convert t…

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

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geopandas Python library for working with geospatial vector data including shapefiles, GeoJSON, and GeoPackage files. Use when …

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gget CLI/Python toolkit for rapid bioinformatics queries. Preferred for quick BLAST searches. Access to 20+ databases: gen…

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

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literature-review Conduct comprehensive, systematic literature reviews using multiple academic databases (PubMed, arXiv, bioRxiv, Seman…

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matplotlib Foundational plotting library. Create line plots, scatter, bar, histograms, heatmaps, 3D, subplots, export PNG/PDF/SV…

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metabolomics-workbench-database Access NIH Metabolomics Workbench via REST API (4,200+ studies). Query metabolites, RefMet nomenclature, MS/NMR data,…

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

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neurokit2 Comprehensive biosignal processing toolkit for analyzing physiological data including ECG, EEG, EDA, RSP, PPG, EMG, a…

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omero-integration Microscopy data management platform. Access images via Python, retrieve datasets, analyze pixels, manage ROIs/annotat…

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opentargets-database Query Open Targets Platform for target-disease associations, drug target discovery, tractability/safety data, genetic…

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peer-review Systematic peer review toolkit. Evaluate methodology, statistics, design, reproducibility, ethics, figure integrity, …

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perplexity-search Perform AI-powered web searches with real-time information using Perplexity models via LiteLLM and OpenRouter. This s…

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plotly Interactive scientific and statistical data visualization library for Python. Use when creating charts, plots, or vis…

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protocolsio-integration Integration with protocols.io API for managing scientific protocols. This skill should be used when working with prot…

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pubchem-database Query PubChem via PUG-REST API/PubChemPy (110M+ compounds). Search by name/CID/SMILES, retrieve properties, similarit…

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pylabrobot Laboratory automation toolkit for controlling liquid handlers, plate readers, pumps, heater shakers, incubators, cent…

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pymatgen Materials science toolkit. Crystal structures (CIF, POSCAR), phase diagrams, band structure, DOS, Materials Project i…

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pyopenms Python interface to OpenMS for mass spectrometry data analysis. Use for LC-MS/MS proteomics and metabolomics workflow…

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pysam Genomic file toolkit. Read/write SAM/BAM/CRAM alignments, VCF/BCF variants, FASTA/FASTQ sequences, extract regions, c…

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research-lookup Look up current research information using Perplexity's Sonar Pro Search or Sonar Reasoning Pro models through OpenRo…

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scientific-brainstorming Research ideation partner. Generate hypotheses, explore interdisciplinary connections, challenge assumptions, develop…

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scientific-critical-thinking Evaluate research rigor. Assess methodology, experimental design, statistical validity, biases, confounding, evidence…

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scientific-writing Core skill for the deep research and writing tool. Write scientific manuscripts in full paragraphs (never bullet poin…

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