GitHub
scverse-compact
Compact single-cell analysis patterns with AnnData and Scanpy. Essential patterns for QC, preprocessing, clustering, and visualization.
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databases bioinformatics AI Skills
Discover databases bioinformatics skills, compare source repositories and read the instructions for each workflow.
Categories: databases bioinformatics
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GitHub
scverse
Single-cell analysis patterns with AnnData and Scanpy. Use when working with single-cell RNA-seq data, creating or manipulating AnnData objects, performing quality control, normalization, dimensionality reducti...
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GitHub
dendrite-reforging-protocol
Reforge neural dendrite patterns after catastrophic failure.
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GitHub
classify
Full ACMG/AMP variant classification workflow. Validates input, gathers evidence, applies rules, and generates classification. Invoked via /classify .
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GitHub
research
Run structured research experiments for Sunaba creature evolution. Use for creating experiments, investigating problems, making code changes, running training, and tracking progress across physics, morphology,...
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GitHub
design-synthesis
Synthesizes research findings into design decisions via codebase investigation. Use when (1) translating research into implementation approaches, (2) selecting between design alternatives, (3) executing after /...
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GitHub
experiment-design-checklist
Generates a rigorous experiment design given a hypothesis. Use when asked to design experiments, plan experiments, create an experimental setup, or figure out how to test a research hypothesis. Covers controls,...
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GitHub
implement-paper-from-scratch
Guides you through implementing a research paper step-by-step from scratch. Use when asked to implement a paper, code up a paper, reproduce research results, or build a model from a paper. Focuses on building u...
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GitHub
research-synthesis
Synthesize research findings for OAK planning using the oak.plan-research workflow. Use when consolidating findings from codebase exploration, comparing approaches, or creating research/*.md documents.
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GitHub
slime-strategy
Use when user wants to set up slime mold exploration strategy with parallel autonomy branches for genetic algorithm approach to problem-solving
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GitHub
fabric-ai
Guides pattern selection through decomposition, exploration, and diverse approach generation
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GitHub
memgraph-aco-queries
Query and analyze ACO pheromone graphs in Memgraph. Use for prime candidate queries, pheromone analysis, path validation, and convergence monitoring.
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GitHub
exploratory-data-analysis
Perform comprehensive exploratory data analysis on research data. Automatically analyze data structure, quality, distributions, and generate insights. Use when the user provides a dataset, asks to "explore data...
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GitHub
lammps-simulation
Run LAMMPS molecular dynamics simulations. Use when asked to run MD simulations, energy minimization, equilibration, production runs, or calculate properties like diffusion, RDF, MSD. Supports both CPU and GPU...
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GitHub
research-strategy
Conduct systematic research with confidence scoring, source validation, and structured reporting for technology decisions and codebase analysis. Use for complex research tasks, technology selection, or best pra...
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GitHub
research-memory-cleanup
Defragment and clean research agent memory - consolidate paper info, organize research domains, remove redundancy from research tracking.
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GitHub
matchms
Spectral similarity and compound identification for metabolomics. Use for comparing mass spectra, computing similarity scores (cosine, modified cosine), and identifying unknown compounds from spectral libraries...
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GitHub
batfish-playbook
Batfish 네트워크 분석 도구 사용법
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GitHub
airalogy-protocol
Expert guide for creating Airalogy Protocols (AIMD), Assigners (Python logic), and Validation Models. Use this to design digital workflows and experiments.
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GitHub
similarity
Use when working with component similarity calculations - comparing MPNs, finding equivalent parts, implementing new similarity calculators, or understanding how component matching works.
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GitHub
sparse-expression-visualization
Visualization patterns for sparse single-cell gene expression data. Trigger: boxplots flat at zero, single-cell expression plots, sparse data visualization
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GitHub
gpu-correlation-caching
GPU-accelerated correlation matrix computation with persistent SQLite caching to eliminate bottleneck at correlation calculation during symbol selection
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GitHub
multiplex-imaging-analysis
Optimizing segmentation feature extraction, SOM clustering, and spatial analysis for multiplex immunofluorescence imaging with cell compartment and ECM features
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GitHub
region-aware-matching
Spatial region-aware cell matching for CODEX/scRNAseq integration
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The default order uses GitHub repository stars from our indexed data. Stars belong to the source repository and may be shared by multiple skills. They indicate repository interest, not skill installs or an independent quality score.