All functions |
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DESeq2 differential expression analysis |
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DESeq2 differential expression analysis |
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List containing related DESeq2 analyses |
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List containing related DESeq2 analyses |
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List containing related DESeqResults objects |
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List containing related DESeqResults objects |
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Alpha level cutoff summary statistics |
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Alpha threshold |
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Run a quick pairwise contrast using lfcShrink with apeglm |
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Force an object to belong to a class |
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Base mean threshold |
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Combine multiple objects |
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Contrast name |
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Samples corresponding to a differential expression contrast |
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Correlation |
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List of DESeqDataSet example objects |
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Differentially expressed genes |
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Intersection of differentially expressed genes |
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Base mean threshold |
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DESeq2 example analysis |
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Export |
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Extract or replace parts of an object |
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Import pairwise contrasts from a file |
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Interesting groups |
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Shrink log2 fold changes |
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Shrunken log2 fold change (LFC) type |
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Log2 fold change threshold |
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Match user metadata to file names used for tximport |
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Plot base mean distribution |
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Plot counts |
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Differentially expressed gene heatmap |
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Plot differentially expressed gene principal component analysis |
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Stacked bar plot of DEGs |
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UpSet plot of directional DEG intersections across contrasts |
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Heatmap |
MA plot |
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Principal component analysis plot |
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Volcano plot |
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Prepare quant files for tximport |
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Results |
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Relative difference of results |
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DESeq aggregate results matrix |
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Results names |
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Results tables |
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Sample data |
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Show an object |
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Top tables |
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Variance-stabilizing transformation type |
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Update object |