fix_mzml: Fix mzML file

In ricoderks/eisaCIM: Single Quadrupole Multiple Fragment Ion Monitoring Quantitative Mass Spectrometry

Description

Fix a mzML file with SIM data for reading.

Usage

fix_mzml(mzml_file, new_mzml_file)

Arguments

mzml_file	character vector containing the filename of the mzML.
new_mzml_file	character vector containing the filename of the new to create mzML file.

Details

mzML files made with more recent versions of ProteoWizard can generate the following error: 'Error: Can not open file <filename>! Original error was: Error in pwizModule$open(filename): [IO::HandlerBinaryDataArray] Unknown binary data type.'

This is error is caused by the usage of an older ProteoWizard library by the package mzR (for more information see https://github.com/lgatto/MSnbase/issues/517).

This function uses the 'xml2' package to remove the part which is giving problems.

Author(s)

Rico Derks

ricoderks/eisaCIM documentation built on Dec. 22, 2021, 4:09 p.m.