plotBaseMean | R Documentation |
The base mean is the mean of normalized counts of all samples, normalizing for sequencing depth.
plotBaseMean(object, ...) ## S4 method for signature 'DESeqAnalysis' plotBaseMean( object, nonzero = TRUE, trans = c("log10", "log2", "identity"), summary = TRUE, labels = list(title = "Base mean distribution", subtitle = NULL) ) ## S4 method for signature 'DESeqDataSet' plotBaseMean( object, nonzero = TRUE, trans = c("log10", "log2", "identity"), summary = TRUE, labels = list(title = "Base mean distribution", subtitle = NULL) ) ## S4 method for signature 'DESeqResults' plotBaseMean( object, nonzero = TRUE, trans = c("log10", "log2", "identity"), summary = TRUE, labels = list(title = "Base mean distribution", subtitle = NULL) )
object |
Object. |
nonzero |
|
trans |
For more information: help(topic = "scale_x_continuous", package = "ggplot2") |
summary |
|
labels |
|
... |
Additional arguments. |
ggplot
.
plotBaseMean,DESeqAnalysis-method
: Passes to DESeqDataSet
method.
plotBaseMean,DESeqDataSet-method
: Generates row means of normalized counts.
This value corresponds to the baseMean
column of DESeqResults
.
plotBaseMean,DESeqResults-method
: Uses baseMean
column of results.
Updated 2022-05-17.
https://support.bioconductor.org/p/75244/
summary()
.
data(deseq) ## DESeqAnalysis ==== plotBaseMean(deseq)
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