bio-arboreto
OfficialInfer gene regulatory networks.
Education & Research#bioinformatics#gene regulatory network#rna-seq#transcriptomics#grn#network inference
Authorbiomaps-infra
Version1.0.0
Installs0
System Documentation
What problem does it solve?
This Skill automates the complex process of inferring gene regulatory networks (GRNs) from gene expression data, which is crucial for understanding biological systems.
Core Features & Use Cases
- GRN Inference: Uses scalable algorithms like GRNBoost2 and GENIE3 to identify transcription factor-target gene relationships.
- Data Analysis: Supports bulk and single-cell RNA-seq data for transcriptomics analysis.
- Distributed Computing: Scales to large datasets using Dask for parallel processing.
- Use Case: Analyze single-cell RNA-seq data to discover key regulatory interactions driving cell differentiation or response to stimuli.
Quick Start
Use the bio-arboreto skill to infer a gene regulatory network from the provided expression data file 'expression_data.tsv' and save the output to 'network.tsv'.
Dependency Matrix
Required Modules
arboretopandasdaskdistributed
Components
scriptsreferences
💻 Claude Code Installation
Recommended: Let Claude install automatically. Simply copy and paste the text below to Claude Code.
Please help me install this Skill: Name: bio-arboreto Download link: https://github.com/biomaps-infra/blender-opencode/archive/main.zip#bio-arboreto Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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