🔬🦞 A self-evolving AI research colleague for scientists. 285 skills, zero hallucination, persistent memory.
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Skill Claude CodeCodex needs its repo
Low-level plotting library for full customization. Use when you need fine-grained control over every plot element, creating novel plot types, or integrating with specific scientific workflows. Export to PNG/PDF/SVG for publication. For quick statistical plots use seaborn; for interactive plots use plotly; for…
Skill Claude CodeCodex
Use the mcporter CLI to list, configure, auth, and call MCP servers/tools directly (HTTP or stdio), including ad-hoc servers, config edits, and CLI/type generation.
Skill Claude CodeCodex
Medical question answering using structured biomedical knowledge bases and clinical datasets.
Skill Claude Code
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.
Skill Claude CodeCodex
Perform quantitative meta-analysis with effect size calculation, forest plots, funnel plots, and heterogeneity assessment. Use when: user asks to combine results from multiple studies, calculate pooled effect sizes, assess publication bias, or create forest/funnel plots. NOT for: systematic review protocol (use…
Skill Claude CodeCodex
Use CodexBar CLI local cost usage to summarize per-model usage for Codex or Claude, including the current (most recent) model or a full model breakdown. Trigger when asked for model-level usage/cost data from codexbar, or when you need a scriptable per-model summary from codexbar cost JSON.
Skill Claude CodeCodex
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.
Skill Claude CodeCodex
Multi search engine integration with 17 engines (8 CN + 9 Global). Supports advanced search operators, time filters, site search, privacy engines, and WolframAlpha knowledge queries. No API keys required.
Skill Claude CodeCodex
Generate or edit images via Gemini 3 Pro Image (Nano Banana Pro).
Skill Claude CodeCodex
Edit PDFs with natural-language instructions using the nano-pdf CLI.
Skill Claude CodeCodex
Query NCBI E-utilities for GenBank sequences, gene info, SNPs, ClinVar variants, and literature links. Use when the user needs nucleotide/protein sequences from GenBank, gene summaries, variant data, or cross-database links. NOT for protein annotations (use UniProt), 3D structures (use PDB), or pathway mapping (use…
Skill Claude CodeCodex
Social network and graph analysis via NetworkX. Use when: graph analysis, community detection, centrality measures, network visualization, knowledge graphs, bipartite networks, graph I/O. NOT for: large-scale graph processing (>1M nodes), GPU graph analytics (use cuGraph).
Skill Claude CodeCodex
Comprehensive toolkit for creating, analyzing, and visualizing complex networks and graphs in Python. Use when working with network/graph data structures, analyzing relationships between entities, computing graph algorithms (shortest paths, centrality, clustering), detecting communities, generating synthetic networks…
Skill Claude CodeCodex
Supports neuroscience research including brain imaging analysis (fMRI, EEG), neural circuit modeling, cognitive experiment design, and neurological disorder investigation; trigger when users discuss brain regions, neural signals, cognitive tasks, or neuroimaging data.
Skill Claude CodeCodex
NLP and corpus analysis via NLTK. Use when: user asks about tokenization, POS tagging, parsing, sentiment, or corpus statistics. NOT for: deep learning NLP or transformer models.
Skill Claude Code
Select and configure nonlinear solvers for f(x)=0 or min F(x). Use for Newton methods, quasi-Newton (BFGS, L-BFGS), Broyden, Anderson acceleration, diagnosing convergence issues, choosing line search vs trust region, and analyzing Jacobian quality.
Skill Claude CodeCodex
Notion API for creating and managing pages, databases, and blocks.
Skill Claude Code
Select and configure time integration methods for ODE/PDE simulations. Use when choosing explicit/implicit schemes, setting error tolerances, adapting time steps, diagnosing integration accuracy, planning IMEX splitting, or handling stiff/non-stiff coupled systems.
Skill Claude Code
Analyze and enforce numerical stability for time-dependent PDE simulations. Use when selecting time steps, choosing explicit/implicit schemes, diagnosing numerical blow-up, checking CFL/Fourier criteria, von Neumann analysis, matrix conditioning, or detecting stiffness in advection/diffusion/reaction problems.
Skill Claude CodeCodex
Work with Obsidian vaults (plain Markdown notes) and automate via obsidian-cli.
Skill Claude CodeCodex
Self-hosted, open-source alternative to Google NotebookLM for AI-powered research and document analysis. Use when organizing research materials into notebooks, ingesting diverse content sources (PDFs, videos, audio, web pages, Office documents), generating AI-powered notes and summaries, creating multi-speaker…
Skill Claude CodeCodex
Query the Open Targets Platform GraphQL API for gene-drug-disease associations, evidence scores, and therapeutic target validation. Use when the user needs disease associations for a gene, drug evidence for a target, or target prioritization for a disease. NOT for compound property lookup (use pubchem-compound), NOT…
Skill Claude CodeCodex needs its repo
Batch-generate images via OpenAI Images API. Random prompt sampler + index.html gallery.
Skill Claude CodeCodex
Transcribe audio via OpenAI Audio Transcriptions API (Whisper).
At most 3 mods per repository are shown here, and a mod shipped inside a plugin is left to that plugin's page — the rest are on their repository pages: