plotRNA {RNAprobR} | R Documentation |
Function plotting normalized values over transcript positions.
plotRNA(norm_GR, RNAid, norm_method, stat_method, stat_cutoff, main, type, ylab, xlab, ...)
norm_GR |
norm_GR GRanges with data to be exported, required |
RNAid |
Transcript identifier, for which transcript plot should be generated. |
norm_method |
Which normalization method should be to be used for plotting (column name). |
stat_method |
Name of a column to be used for adding significance asterisks. If stat_method not provided, function tries to match with "norm_method", if no guess - empty vector. |
stat_cutoff |
below what value of statistics (from stat_method, p-value or standard deviation) report significance. If not provided - minimal value from stat_method used. To suppress reporting significant sites provide negative value |
main |
an overall title for the plot: see |
type |
what type of plot should be drawn. See |
ylab |
a title for the y axis: see |
xlab |
a title for the x axis: see |
... |
Arguments to be passed to methods, such as
|
Plotting function.
Lukasz Jan Kielpinski
plot
, plot.default
, dtcr
,
slograt
, swinsor
, compdata
dummy_euc_GR_treated <- GRanges(seqnames="DummyRNA", IRanges(start=round(runif(100)*100), width=round(runif(100)*100+1)), strand="+", EUC=round(runif(100)*100)) dummy_comp_GR_treated <- comp(dummy_euc_GR_treated) dummy_swinsor <- swinsor(dummy_comp_GR_treated) plotRNA(dummy_swinsor, RNAid="DummyRNA")