Source: https://github.com/aipoch/medical-research-skills

CIBERSORT Immune Infiltration Analysis

When to Use

• Estimate relative immune cell fractions from a bulk expression matrix.
• Compare one case group against one control group after deconvolution.
• Generate structured tables, a serialized result object, and optional PDF plots.

When Not to Use

• Single-cell RNA-seq, spatial transcriptomics, or clustering tasks.
• Absolute clinical interpretation or treatment recommendation.
• Workflows that require the original online CIBERSORT service instead of a local R implementation.

Workflow