Description Usage Arguments Details Value Author(s)
Plot a visual representation of a NucDyn object.
1 2 3 4 5 6 | plotDynamics(dyn, ...)
## S4 method for signature 'NucDyn'
plotDynamics(dyn, plot.range = NULL, chr = NULL,
dyn.name = "Dyn", expA.name = "Ref 1", expB.name = "Ref 2",
norm.factor = 1, ...)
|
dyn |
|
... |
Other parameters passed to |
plot.range |
Range from the |
chr |
Chromosome from the |
dyn.name |
Name to be given to the dyanamics that will be displayed in the plot. |
expA.name |
Name to be given to the first data set of the dyanamics that will be displayed in the plot. |
expB.name |
Name to be given to the second data set of the dyanamics that will be displayed in the plot. |
norm.factor |
Normalization factor between ref1 and ref2. Use it to visualize both coverages profiles on a similar scale if one of them has a significantly higher coverage. |
Plotting offers a visual representation of the dynamics between two reference states.
Coverage profile for ref1 will be shown as a solid grey background and coverage profile for ref2 will be shown as a dotted profile. Superimposed, arrows showing read shifts (upstream in blue and downstream in red). Indels will appear as a small coverage profile at the bottom part of the plot (insertions in green and deletions in red).
Void
Oscar Flores, Ricard Illa Diana Buitrago diana.buitrago@irbbarcelona.org
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