Description Usage Arguments Value
Adds a "status" column to a data frame using a specific cutoff.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 | addStatusByCutoff(
resDf,
splitUpDown,
splitCol = "logFc",
splitMidPoint = 0,
metricCol = "logFc",
metricCutoff = 1,
sigCol = "pAdj",
sigCutoff = 0.05,
noChangeLabel = "No change",
statusCol = "status",
upLabel = "Up",
downLabel = "Down",
sigLabel = "Significant"
)
|
resDf |
The data frame to annotate. |
splitUpDown |
Split annotation into up and down features? If TRUE, splitCol and splitMidPoint should be provided. |
splitCol |
If splitUpDown = TRUE, the column used to split features into up and down. |
splitMidPoint |
If splitUpDown = TRUE, the splitCol value considered as midpoint. |
metricCol |
Column containing a metric to stablish the cutoff. |
metricCutoff |
The metric cutoff value. Rows with an absolute metricCol value above it will be annotated. |
sigCol |
Column containing a significance value to stablish the cutoff. |
sigCutoff |
The significance cutoff value. Rows with an sigCol value below it will be annotated. |
noChangeLabel |
Label to be used in not annotated rows. |
statusCol |
Name of the status column. |
upLabel |
Label for up-regulated features. |
downLabel |
Label for down-regulated features. |
sigLabel |
Label for significant features. Only used if splitUpDown = FALSE. |
The annotated data frame.
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