featureReport: featureReport
In mjhelf/Metaboseek: Metaboseek platform

View source: R/Functions_featureReport.R

featureReport

R Documentation

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