hlp_plot_metageneRegions: Plot an extracted metaGeneMatrix

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

Plot an extracted metaGeneMatrix

Description

It plots an extracted metagene matrix from tx_get_metageneRegions(). Useful when modifying the metagene matrix, like filtering genes out.

Usage

hlp_plot_metageneRegions(
  metaGeneMatrix,
  colVars,
  nBins_5UTR,
  nBins_CDS,
  nBins_3UTR,
  summ_fun = "mean",
  smooth = TRUE,
  spar = 0.5,
  plot_type = "lineplot",
  normalize = FALSE
)

Arguments

metaGeneMatrix	matrix. As obtained by tx_get_metageneRegions()
colVars	character. Names of columns for which values will be extracted
nBins_5UTR	integer. Number of bins into which allocate data on 5'UTR regions
nBins_CDS	integer. Number of bins into which allocate data on CDS regions
nBins_3UTR	integer. Number of bins into which allocate data on 3'UTR regions
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".
normalize	logical. If set to TRUE, values are normalized so that the area bellow the curve approximates to 1 for each variable.

Details

Note It must have the same nBins arguments as the ones used to generate the metagene matrix.

Value

ggplot

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