tx_plot_metageneExons: Plot metagene exons

In AngelCampos/txtools: An R package facilitating analysis of RNA modifications, structures, and interactions

Plot metagene exons

Description

Plot metagene exons

Usage

tx_plot_metageneExons(
  txDT,
  colVars,
  nBins,
  geneAnnot = NULL,
  nCores = 1,
  summ_fun = "mean",
  smooth = TRUE,
  spar = 0.5,
  plot_type = "lineplot",
  xLabelJump = 10,
  normalize = FALSE
)

Arguments

txDT	data.table. A table as output by the tx_makeDT_coverage(), tx_makeDT_nucFreq() or tx_makeDT_covNucFreq() functions.
colVars	character. Names of columns for which values will be extracted
nBins	integer. Number of bins into which exon data will be allocated.
geneAnnot	GRanges. Gene annotation as loaded by tx_load_bed().
nCores	integer. Number of cores to run the function with.
summ_fun	character. Summarizing function either "sum" or "mean". Default: "mean".
smooth	logical. Set to FALSE for not smoothing line.
spar	numeric. Smoothing parameter, typically (but not necessarily) in (0,1].
plot_type	character. Type of plot to be output, either "lineplot" or "boxplot".
xLabelJump	Number of bins to be skipped for label plotting
normalize	logical. If set to TRUE, values are normalized so that the area bellow the curve approximates to 1 for each variable.

Value

ggplot

AngelCampos/txtools documentation built on Sept. 16, 2024, 10:25 p.m.