openMSfile: Create and check mzR objects from netCDF, mzXML, mzData or...

In sneumann/mzR-playground: parser for netCDF, mzXML, mzData and mzML files (mass spectrometry data)

Description

The openMSfile constructor will create a new format-specifc mzR object, open 'filename' file and all header information is loaded as a Rcpp module and made accessible through the ramp slot of the resulting object.

Usage

 openMSfile(filename, backend=c("Ramp", "netCDF"), verbose = FALSE)

 initializeRamp(object)

 isInitialized(object)

 fileName(object)

Arguments

filename	Path name of the netCDF, mzData, mzXML or mzML file to read.
backend	A character specifiying with backend API to use. Currently only 'Ramp' and 'netCDF' are available. 'pwiz' will be added in future version.
object	An instantiated mzR object.
verbose	Enable verbose output.

Author(s)

Steffen Neumann and Laurent Gatto

Examples

 library(msdata)
 filepath <- system.file("microtofq", package = "msdata")
 file <- list.files(filepath, pattern="MM14.mzML",
                    full.names=TRUE, recursive = TRUE)
  mz <- openMSfile(file)
  fileName(mz)
  isInitialized(mz)
  runInfo(mz)
  close(mz)

sneumann/mzR-playground documentation built on May 30, 2019, 6 a.m.