bioinformatics
1
gwas-database
Query NHGRI-EBI GWAS Catalog for SNP-trait associations. Search variants by rs ID, disease/trait, gene, retrieve p-values and summary statistics, for genetic epidemiology and polygenic risk scores.
hxk622
research
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bioinformatics
1
reactree-agent-coordination-patterns
"Hierarchical task decomposition with control flow nodes and dual memory systems from ReAcTree research. Trigger keywords: ReAcTree, parallel execution, working memory, episodic memory, LOOP, CONDITIONAL, FEEDBACK, hierarchical agents, coordination, control flow, agent trees"
Kaakati
research
bioinformatics
1
histolab
Lightweight WSI tile extraction and preprocessing. Use for basic slide processing tissue detection, tile extraction, stain normalization for H&E images. Best for simple pipelines, dataset preparation, quick tile-based analysis. For advanced spatial proteomics, multiplexed imaging, or deep learning pipelines use pathml.
hxk622
research
bioinformatics
1
dendrite-reforging-protocol
Reforge neural dendrite patterns after catastrophic failure.
starwreckntx
research
bioinformatics
0
pipeline-insights
AI-powered pipeline diagnostics. Explains why faces weren't detected, tracked, embedded, or clustered using OpenAI GPT-4o analysis. Use when debugging pipeline issues, reviewing unclustered tracks, or understanding why quality gates rejected faces.
therealityreport
research
bioinformatics
0
dependency-mapping
Identifies, visualizes, and optimizes task dependencies for parallel execution and critical path analysis. Use when analyzing task relationships, finding parallelization opportunities, detecting circular dependencies, or optimizing execution order.
mgd34msu
research
bioinformatics
0
meta-analysis
Use when performing meta-analysis, pooling study data, generating forest plots, funnel plots, assessing heterogeneity, or conducting subgroup and sensitivity analyses. Invoke for any statistical synthesis of multiple studies.
matheus-rech
research
bioinformatics
0
taxonomist
Expert taxonomist that creates comprehensive, well-structured taxonomies with hierarchical classification systems and optional semantic relationships. Use this when users need to build taxonomies, ontologies, or classification systems for any domain (data management, financial services, healthcare, technology, etc.). Outputs text files with relations in the format `source|is a|target`
Hoogkamer
research
bioinformatics
0
graph
Use when extracting entities and relationships, building ontologies, compressing large graphs, or analyzing knowledge structures - provides structural equivalence-based compression achieving 57-95% size reduction, k-bisimulation summarization, categorical quotient constructions, and metagraph hierarchical modeling with scale-invariant properties. Supports recursive refinement through graph topology metrics including |R|/|E| ratios and automorphism analysis.
Zpankz
research
bioinformatics
0
security-agent
Deep security analysis with high reasoning effort for threat detection
Unicorn
research
bioinformatics
0
ipd-meta-analysis
Teach Individual Patient Data (IPD) meta-analysis methods for analyzing raw participant-level data from multiple studies. Use when users have access to original datasets, need to explore treatment-effect modifiers, or want to conduct time-to-event analyses.
matheus-rech
research
bioinformatics
0
telos
Teleological physiology analysis framework for understanding biological systems through multi-constraint optimization. Use when analyzing physiological mechanisms, explaining apparent biological "inefficiencies", preparing for medical examinations (CICM/ANZCA Primary), understanding why biological systems are designed the way they are, or when seeking deeper mechanistic understanding beyond descriptive knowledge. Triggers on questions like "why is X designed this way", "what purpose does Y serve", "how is Z optimized", analysis of physiological trade-offs, or exploration of evolutionary/design constraints.
Zpankz
research
bioinformatics
0
rrna-prediction-patterns
Guidelines for rRNA detection and prediction including prokaryotic (16S, 23S, 5S) and eukaryotic (18S, 28S, 5.8S, 5S) ribosomal RNA. Covers sequence patterns, secondary structure, HMM models, blast-based detection, length validation, and quality scoring for rRNA identification.
roeimed0
research
bioinformatics
0
meta-analysis
Bayesian meta-analysis models including fixed effects, random effects, and network meta-analysis with Stan and JAGS implementations.
choxos
research
bioinformatics
0
monocle3-truly-complete
Monocle3 单细胞轨迹分析工具包 - 100%覆盖文档（18个文件：完整教程+API+轨迹推断）
Ketomihine
research
bioinformatics
0
scvitools-complete
scvi-tools 单细胞深度学习框架 - 100%覆盖文档（完整API+教程+模型训练+多模态整合）
Ketomihine
research
bioinformatics
0
tree-visualization
Comprehensive guide to phylogenetic tree visualization including matplotlib (Python), ggtree (R), and publication-quality figure generation. Covers rectangular, circular, radial layouts, bootstrap annotations, branch coloring, clade highlighting, and interactive visualizations. Based on best practices from Yulab's Tree Data Book.
roeimed0
research
bioinformatics
0
giottosuite-local
Giotto Suite 空间转录组学分析工具包 - 100%覆盖718个文件（37个教程+285个核心API+4个数据文档+344个扩展函数+49个工具函数）
Ketomihine
research
bioinformatics
0
dem-pipeline
Run DEM lineament analysis to identify unmapped fault structures. Use when visually confirming orphan earthquake clusters, mapping fault extensions, or finding dark earthquake sources. Triggers on "DEM analysis", "lineament", "edge detection", "drainage analysis".
DrSatsuma1
research
bioinformatics
0
developing-heart-local-improved
Developing Heart Atlas - comprehensive cardiac development analysis with spatial multi-omics integration
Ketomihine
research
bioinformatics
0
scvitools-docs-truly-complete
scvi-tools 深度学习单细胞分析工具包 - 100%覆盖文档（321个文件：完整API+用户指南+教程+开发者文档）
Ketomihine
research
bioinformatics
0
spatialdata-docs-local
SpatialData 空间组学数据框架 - 100%覆盖271个核心文件（API文档+教程+示例+核心概念）
Ketomihine
research