Individual skill
cibersort-immune-infiltration-analysis
Use when estimating relative immune cell infiltration from a bulk expression matrix with a CIBERSORT-style nu-SVR deconvolution workflow based on an LM22 signature matrix, comparing one case group against one control group, and generating structured tables plus immune-fraction plots. NOT for single-cell RNA-seq, spatial data, clinical diagnosis, or workflows that require the original hosted CIBERSORT web service.
awesome-med-research-skills/Data Analysis/cibersort-immune-infiltration-analysis/SKILL.md
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- bioinformatics Repository topic
- computational-biology Repository topic
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- cancer-genomics Repository topic
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- differential-expression Repository topic
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SKILL.mdcore · 10,458 bytesSKILL.mdcore · 10,458 bytesSKILL.mdcore · 10,458 bytesSKILL.mdcore · 10,458 byteseval_report_cibersort-immune-infiltration-analysis_result.jsonasset · 19,401 bytesreferences/algorithm.mddoc · 3,799 bytesreferences/cli-guide.mddoc · 7,940 bytesreferences/troubleshooting.mddoc · 5,153 bytesscripts/cli_options.Rasset · 4,041 bytesscripts/deconvolution.Rasset · 2,776 bytesscripts/functions.Rasset · 4,737 bytesscripts/io.Rasset · 6,063 bytesscripts/main.Rruns · 2,689 bytesscripts/recording.Rasset · 106 bytesscripts/recording_helpers.Rasset · 2,230 bytesscripts/recording_reports.Rasset · 5,632 bytesscripts/run_analysis.Rasset · 9,327 bytesscripts/utils.Rasset · 3,204 bytesscripts/visualization.Rasset · 2,612 bytestests/data/LM22.txtdoc · 146,759 bytestests/data/expression_matrix.csvasset · 40,163 bytestests/data/group_info.csvasset · 202 bytestests/run_tests.Rruns · 4,212 bytes
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> **Source**: [https://github.com/aipoch/medical-research-skills](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.