| ct.signalSummary {gCrisprTools} | R Documentation |
Given one or more targets of interest, this function generates a summary image contextualizing the corresponding signals within the contest of the provided contrast. This takes the form of an annotated ranking curve of target-level signals, supplemented with horizontal Q-value cutoffs and an inset volcano plot of gRNA behavior.
Limited annotation is provided for the specified targets using the following logic:
- If a character vector is provided, up to five targets are annotated; longer lists are highlighted without specifying individual elements. - If a list is provided, the 'names' element is used as the annotation. This is similarly constrained to a total of 5 annotated elements.
ct.signalSummary(
summaryDF,
targets,
direction = c("enrich", "deplete"),
callout = FALSE
)
summaryDF |
A dataframe summarizing the results of the screen, returned by the function |
targets |
A list or character vector containing the names of the targets to be displayed. Only targets contained in the |
direction |
Should enrichment or depletion be considered? Must be one of |
callout |
Logical indicating whether lines should be plotted indicating individual gene sets to augment the point highlighting. |
A summary plot on the current device.
Russell Bainer
data('resultsDF')
ct.signalSummary(resultsDF, list('CandidateA' = 'Target229', 'Pathway3' = resultsDF$geneSymbol[c(42,116,1138,5508)]), 'enrich')
data('es')
data('ann')
data('fit')
ct.GCbias(es, ann)
ct.GCbias(fit, ann)