fold_enhancer_plot | R Documentation |
A quick plot to visualize the distribution of the significant alleles with all alleles as background. Yellow lines are added to indicate the fold change cut off.
fold_enhancer_plot(object, ...)
## S4 method for signature 'DESeqResults'
fold_enhancer_plot(
object,
alpha = 0.05,
bw = 0.01,
breaks = waiver(),
foldchange = 0.5,
yadjust = 100,
ladjust = 0.25,
radjust = 0.25,
xmin,
xmax,
ymax,
main = NULL
)
object |
a |
... |
additional arguments |
alpha |
the significance level for thresholding adjusted p-values |
bw |
bandwidth |
breaks |
One of: - 'NULL' for no breaks - 'waiver()' for the default breaks computed by the transformation object - A numeric vector of positions - A function that takes the limits as input and returns breaks as output |
foldchange |
the fold change of the yellow line |
yadjust |
the y location of fold change text |
ladjust |
the adjustment for the left yellow line |
radjust |
the adjustment for the right yellow line |
xmin |
the minimum value for the x-axis |
xmax |
the maximum value for the x-axis |
ymax |
the maximum value for the y-axis |
main |
the title of the figure. |
dds <- DESeqDataSetFromMatrix()
dds <- DESeq(dds)
res <- results(dds, contrast=c("condition","exp","ctrl"))
fold_enhancer_plot(res)
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