plot_runscatter: RunScatter plot

In SLINGhub/SLINGtools: Mass Spectrometry and Lipidomics Data Analysis in R

RunScatter plot

Description

RunScatter plot

Usage

plot_runscatter(
  data,
  y_var,
  transition_filter,
  filter_exclude = FALSE,
  cap_values,
  cap_SPL_SD,
  cap_QC_SD,
  cap_top_n,
  QC_TYPE_fit,
  show_driftcorrection,
  trend_samples_fun = "loess",
  trend_samples_col,
  after_correction,
  plot_other_qc = TRUE,
  show_batches,
  batches_as_shades,
  batch_line_color,
  batch_shading_color,
  outputPDF,
  filename,
  cols_page,
  rows_page,
  annot_scale,
  paper_orientation = "LANDSCAPE",
  point_transparency = 1,
  point_size = 2,
  point_stroke_width = 0.8,
  page_no = NA,
  y_label_text = NA,
  silent = FALSE,
  return_plot_list = TRUE,
  base_size = 7
)

Arguments

data	MidarExperiment object
y_var	Variable to plot
transition_filter	Filter features containing
filter_exclude	Exclude or include transition_filter
cap_values	Cap y axis to ignore outliers
cap_SPL_SD	Minimum s.d. of samples
cap_QC_SD	Minimum s.d. of QCs
cap_top_n	Cap top n values
QC_TYPE_fit	QC TYPE used for loess fit
show_driftcorrection	Show drift correction
trend_samples_fun	Function used for drift correction. Default 'loess'
trend_samples_col	Color of drift line
after_correction	Show before/after correction
plot_other_qc	Plot all QCS
show_batches	Show batches
batches_as_shades	Show batches as shades
batch_line_color	batch separator color
batch_shading_color	batch shade color
outputPDF	save as PDF
filename	file name of PDF
cols_page	columns per page
rows_page	rows per page
annot_scale	scale factor of text elements
paper_orientation	Landscape/Portrait
point_transparency	Alpha of points
point_size	point size
point_stroke_width	point stroke width
page_no	Show page number
y_label_text	Overwrite y label with this text
silent	Verbose or silent
return_plot_list	return list with plots
base_size	base font size of plot

Value

A list of ggplot2 plots or NULL

SLINGhub/SLINGtools documentation built on April 20, 2023, 5:09 a.m.