annotatedCluster | Annotated hierarchical clustering |
annotatedHeatmap | Annotated heatmaps |
annotatedPCA | Annotated PCA plots. |
differentialMethylation | Differential methylation analysis. |
DMR_detection-methods | Method DMR_detection. |
genotypeSamples | Sample genotyping. |
gr2bed | GenomicRanges to BED-like data frame. |
guessArrayType | Guess array type from list of probes. |
inspector | Data inspection plotting functions. |
pca_report | Produces a report with annotated PCA plots. |
plotBetaDensityHeatmap | Density heatmap |
plotControlProbes | Control probes plots. |
plotSampleCorrelation | Plot samples correlation |
plotSamplesDistribution | Per sample density plot |
plotSimplifiedQC | Median intensities plot. |
preprocess | Array correction, filtering and QC. |
report_DMRs | Report DMR analysis. |
report_enrichment | Report GO/KEGG analysis. |
report_significance | Report significant results |
run | Execution of SKIMA. |
run_limma | Run limma on a dataset |
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