degMA {DEGreport} | R Documentation |
MA-plot addaptation to show the shrinking effect.
degMA(results, title = NULL, label_points = NULL, label_column = "symbol", limit = NULL, diff = 5, raw = FALSE, correlation = FALSE)
results |
DEGSet class. |
title |
Optional. Plot title. |
label_points |
Optionally label these particular points. |
label_column |
Match label_points to this column in the results. |
limit |
Absolute maximum to plot on the log2FoldChange. |
diff |
Minimum difference between logFoldChange before and after shrinking. |
raw |
Whether to plot just the unshrunken log2FC. |
correlation |
Whether to plot the correlation of the two logFCs. |
MA-plot ggplot.
Victor Barrera
Rory Kirchner
Lorena Pantano
library(DESeq2) dds <- makeExampleDESeqDataSet(betaSD=1) dds <- DESeq(dds) res <- degComps(dds, contrast = list("condition_B_vs_A")) degMA(res[["condition_B_vs_A"]])