featureReport: featureReport

In mjhelf/Mosaic: Metaboseek platform

featureReport

Description

Generates a report on a selected molecular feature with MS1 ands MS2 spectra, EICs and SIRIUS results.

Usage

featureReport(
  pdf_settings = list(file = "testReport.pdf", width = NULL, height = NULL),
  layout_settings = 3,
  EICplots = NULL,
  MS1 = NULL,
  MS2 = NULL,
  tree = NULL,
  fragments = NULL,
  cx = 1,
  selectMS2 = NULL
)

Arguments

pdf_settings	if NULL, plot to current device, otherwise takes list with items file, height and width. If height and/ or width are NULL, plot to A4 format pdf with some safeguards increasing width and hieght as necessary
layout_settings	list of arguments passed to layout(), OR an integer defining how many columns to use for the EIC plots
EICplots	list of arguments passed to EICgeneral()
MS1	list of arguments passed to specplot()
MS2	list of arguments passed to specplot()
tree	list of arguments passed to plotTree()
fragments	labels for known fragments, currently not used!
cx	font size factor
selectMS2	if not NULL, and if one of the groups in EICplots is called "MS2", only the EIC for this file will be shown in the MS2 EIC group

Value

plots MS1 and MS2 spectra, EICs and SIRIUS results, optimized for A4 sized pdf pages

mjhelf/Mosaic documentation built on April 28, 2022, 11:32 a.m.