Individual skill
ssgsea-immune-infiltration-analysis
Use when estimating immune infiltration from bulk RNA-seq expression matrices with ssGSEA/GSVA, comparing case versus control groups, and generating downstream immune-score visualizations. NOT for single-cell RNA-seq, absolute cell proportion estimation, or clinical decision making.
awesome-med-research-skills/Data Analysis/ssgsea-immune-infiltration-analysis/SKILL.md
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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
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SKILL.mdcore · 6,960 bytesSKILL.mdcore · 6,960 bytesSKILL.mdcore · 6,960 bytesSKILL.mdcore · 6,960 byteseval_report_ssgsea-immune-infiltration-analysis_result.jsonasset · 13,639 bytesreferences/algorithm.mddoc · 1,426 bytesreferences/cli-guide.mddoc · 7,477 bytesreferences/troubleshooting.mddoc · 2,210 bytesscripts/cli_options.Rasset · 3,793 bytesscripts/functions.Rasset · 3,720 bytesscripts/io.Rasset · 5,311 bytesscripts/main.Rruns · 1,580 bytesscripts/recording.Rasset · 1,023 bytesscripts/run_analysis.Rasset · 7,726 bytesscripts/utils.Rasset · 2,872 bytesscripts/visualization.Rasset · 4,242 bytestests/data/expression_matrix.csvasset · 25,533,296 bytestests/data/group_info.csvasset · 2,778 bytestests/data/immune_gene_sets.csvasset · 28,226 bytestests/run_tests.Rruns · 3,890 bytes
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> **Source**: [https://github.com/aipoch/medical-research-skills](https://github.com/aipoch/medical-research-skills)
# ssGSEA Immune Infiltration Analysis
## When to Use
- Estimate relative immune infiltration from a bulk RNA-seq expression matrix.
- Compare immune enrichment scores between one case group and one control group.
- Generate structured result tables plus optional PDF visualizations for downstream review.
## When Not to Use
- Single-cell RNA-seq or spatial transcriptomics.
- Absolute immune cell proportion estimation or deconvolution.
- Clinical diagnosis, treatment recommendation, or any other medical decision making.