gettRNAscanSummary {tRNAscanImport} | R Documentation |
gettRNAscanSummary()
: creates an DataFrame with aggregated information
from the tRNAscan information.
gettRNAscanPlots()
: If ggplot2 is installed a plot of the data
is generated and returned.
plottRNAscan()
: If ggplot2 is installed a plot of the data
is generated and ploted directly.
gettRNAscanSummary(gr) plottRNAscan(grl) gettRNAscanPlots(grl) ## S4 method for signature 'GRanges' gettRNAscanSummary(gr) ## S4 method for signature 'GRangesList' plottRNAscan(grl) ## S4 method for signature 'GRangesList' gettRNAscanPlots(grl)
gr |
a GRanges object created by |
grl |
a GRangesList object created with GRanges created by
|
gettRNAscanSummary()
: returns a DataFrame with the summarized results
used for plotting internally.
gettRNAscanPlots()
: returns a list of ggplots per column of data
returned by gettRNAscanSummary()
.
plottRNAscan()
: the function plots the output of gettRNAscanPlots
directly to the current plotting device.
library(GenomicRanges, quietly = TRUE) sce <- import.tRNAscanAsGRanges(system.file("extdata", file = "sacCer3-tRNAs.ss.sort", package = "tRNAscanImport")) eco <- import.tRNAscanAsGRanges(system.file("extdata", file = "eschColi_K_12_MG1655-tRNAs.ss.sort", package = "tRNAscanImport")) gettRNAscanSummary(sce) plots <- gettRNAscanPlots(GRangesList(Sce = sce, Eco = eco))