bulkrna-deconvolution
OfficialEstimate cell type proportions from bulk RNA-seq.
AuthorTianGzlab
Version1.0.0
Installs0
System Documentation
What problem does it solve?
This Skill automates the estimation of cell type proportions within bulk RNA sequencing data, a crucial step for understanding tissue composition and cellular heterogeneity without needing single-cell resolution.
Core Features & Use Cases
- Cell Type Proportion Estimation: Utilizes Non-Negative Least Squares (NNLS) to deconvolve bulk RNA-seq data using a provided cell type signature matrix.
- Bridging to Advanced Tools: Offers guidance on integrating with more sophisticated methods like CIBERSORTx and MuSiC for enhanced accuracy.
- Use Case: A researcher has bulk RNA-seq data from tumor samples and wants to know the relative abundance of immune cells (T cells, B cells, macrophages) within each sample to correlate with treatment response. This Skill provides those proportions.
Quick Start
Run the bulkrna deconvolution skill on your counts data using the provided signature matrix.
Dependency Matrix
Required Modules
numpypandasscipymatplotlib
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: bulkrna-deconvolution Download link: https://github.com/TianGzlab/OmicsClaw/archive/main.zip#bulkrna-deconvolution Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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