Jamma packageAbout the jamma package |
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jamma: MA-plots for omics data |
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Plot functionsFunctions that assist with R plotting |
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Produce MA-plot of omics data. |
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Volcano plot |
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Matrix functionsFunctions that manipulate numeric matrix data |
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Center gene data |
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Calculate MA-plot data |
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Normalize data using MA-plot logic |
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Convert numeric matrix to column-rank data |
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Utility functionsFunctions that are used internally by jamma functions |
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Draw block arrows in plot margins |
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Find colname by string or pattern |
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Convert normal signed fold change to log2 fold change |
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Get SummarizedExperiment assay matrix data |
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Rectangle with color gradient fill |
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Handle highlightPoints argument to jammaplot() |
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Convert log2 fold change to signed fold change |
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Log-scaled axis including transformed P-values |
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Add legend in the outer margin |
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define a polygon hull around points |
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Update function default parameters |
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Update a subset of list elements (deprecated) |
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ggtext functionsFunctions that are dependent upon the ggtext package |
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Custom ggplot2 element textbox highlight grob |
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Custom ggplot2 element textbox highlight |
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Deprecated functionsFunctions that will be removed in a future release |
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Center gene data |