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fix typo in docs
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sreichl committed Apr 6, 2023
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Expand Up @@ -72,8 +72,6 @@ The workflow performs the following steps that produce the outlined results:
- statistical significance (<= adjusted p-value: adj_pval)
- effect size (>= absolute log 2 fold change: lfc)
- average expression (>= ave_expr) in the data (to skip this filter use `-Inf`)
- Log Fold Change (LFC) matrix of filtered features by comparison groups (CSV).
- (optional) annotated LFC matrix with suffix "_annot" (CSV)
- Visualizations
- filtered DEA result statistics ie number of features and direction (stacked bar plots)
- volanco plots per comparison with effect size on the x-axis and raw p-value(rawp)/adjusted p-value (adjp) on the y-axis
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# Resources
- Recommended [MR.PARETO](https://github.com/epigen/mr.pareto) modules for downstream analyses:
- [Enrichment Analysis](https://github.com/epigen/enrichment_analysis) for biodecial interpretation of results.
- [Enrichment Analysis](https://github.com/epigen/enrichment_analysis) for biomedical interpretation of results.
- [Genome Tracks](https://github.com/epigen/genome_tracks) for visualization of top hits.
- [Bioconductor - limma](http://bioconductor.org/packages/release/bioc/html/limma.html) includes a 150 page userguides
- [R Manual on Model Formulae](https://stat.ethz.ch/R-manual/R-patched/library/stats/html/formula.html)
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