Individual skill
differential-expression-analysis
Use when analyzing bulk RNA-seq or microarray expression data to identify differentially expressed genes between two biological groups (case vs control), with volcano plots and heatmap visualization. NOT for:single-cell RNA-seq, methylation analysis, non-expression data.
awesome-med-research-skills/Data Analysis/differential-expression-analysis/SKILL.md
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- Last checked
- Nov 9, 2026
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- Repository last updated
- Sep 17, 2026
- License
- MIT
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- bioinformatics Repository topic
- computational-biology Repository topic
- data-analysis Repository topic
- ai Repository topic
- biology Repository topic
- cancer-genomics Repository topic
- data-visualization Repository topic
- differential-expression Repository topic
- genomics Repository topic
- medical Repository topic
- data Derived category
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SKILL.mdcore · 6,086 bytesSKILL.mdcore · 6,086 bytesSKILL.mdcore · 6,086 bytesSKILL.mdcore · 6,086 bytesSKILL.mdcore · 6,086 bytesSKILL.mdcore · 6,086 bytesSKILL.mdcore · 6,086 byteseval_report_differential-expression-analysis_result.jsonasset · 15,994 bytesreferences/algorithm.mddoc · 2,033 bytesreferences/cli-guide.mddoc · 1,737 bytesreferences/troubleshooting.mddoc · 2,134 bytesscripts/diff_methods.Rasset · 3,005 bytesscripts/diff_visualization.Rasset · 3,408 bytesscripts/functions.Rasset · 2,092 bytesscripts/main.Rruns · 3,277 bytesscripts/run_analysis.Rasset · 2,103 bytesscripts/utils.Rasset · 1,664 bytestests/data/Combined_Datasets_Matrix_mus.csvasset · 6,913,032 bytestests/data/Combined_Datasets_mus_Group.csvasset · 618 bytes
Read excerpt
> **Source**: [https://github.com/aipoch/medical-research-skills](https://github.com/aipoch/medical-research-skills)
# Differential Expression Analysis
## When to Read External Files
| Situation | File to Read | Purpose |
|-----------|--------------|---------|
| **Need algorithm details** | `references/algorithm.md` | Statistical methods, formulas, assumptions |
| **Need to run analysis** | `scripts/main.R` | Execute: `Rscript scripts/main.R --input_file ... --group_file ...` |
| **Encounter errors** | `references/troubleshooting.md` | Common errors and solutions |
| **Need CLI examples** | `references/cli-guide.md` | Detailed CLI usage examples |
| **Need test data** | `tests/data/` | Sample input files for testing |
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