proteomics-analysis
CommunityDetect differential proteins in proteomics data.
Data & Analytics#normalization#mass-spectrometry#proteomics#differential-expression#heatmap#qc#volcano-plot
AuthorMDhewei
Version1.0.0
Installs0
System Documentation
What problem does it solve?
Analyze mass spectrometry proteomics data to QC, normalize, impute missing values, and identify differentially expressed proteins, producing publication-ready visualizations.
Core Features & Use Cases
- QC metrics per sample (missing value patterns, CV, correlations) to assess data quality and reliability.
- Normalization and imputation workflows (median, quantile, log2-median, VSN-like) to produce comparable protein abundances.
- Differential expression analysis using Welch's t-test with FDR correction, plus visualization (volcano plots, heatmaps) for group comparisons.
- Use Case: Compare treated vs control proteomics samples to discover upregulated proteins and generate publication-ready figures.
Quick Start
Provide a protein intensity matrix and corresponding metadata, then run the tool to obtain DE results, QC metrics, and visualizations.
Dependency Matrix
Required Modules
pandasnumpymatplotlibscipy
Components
scripts
💻 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: proteomics-analysis Download link: https://github.com/MDhewei/bioinfor-claw/archive/main.zip#proteomics-analysis Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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