RawConverter - An Improved Mass Spectrometry Data Converter

RawConverter provides the ability to take advantage of the high resolution and accuracy provided by the latest Thermo Fisher instruments. RawConverter extracts MS and tandem mass spectrometry (MS/MS) data from RAW files like its predecessor RawXtract but also selects the correct precursor mass-to-charge (m/z) ratios. It accepts RAW data generated by either data-dependent acquisition (DDA) or data-independent acquisition (DIA). The output file format can be MS1/MS2, MGF or mzXML.

Input

The input of RawConverter including:

Install RawConverter:

    - Download and install Thermo MSFileReader;
        Notes:
          When installing Thermo MSFileReader, please make sure both "MS FileReader for 64 bit" and "MS FileReader for 32 Bit" are selected if you see the following dialog:
                 Screen shot of MSFileReader Installation

    - Latest version of RawConverter 1.1.0.21 is available here:
    Click HERE to download 32-bit version.
    Click HERE to download 64-bit version.

    - Previous version of RawConverter 1.1.0.20 is available here:
    Click HERE to download 32-bit version.
    Click HERE to download 64-bit version.

    - Previous version of RawConverter 1.1.0.19 is available here:
     note: mono isotopic correction was added to spectral files
    Click HERE to download 32-bit version.
    Click HERE to download 64-bit version.

    - Previous version of RawConverter 1.1.0.18 is available here:
     note: mono isotopic correction was added to spectral files
    Click HERE to download 32-bit version.
    Click HERE to download 64-bit version.

    - Redirect to HERE to download older version (RawConverter 1.1.0.17).

        Notes:
     - Make sure to install Microsoft.NET Framework 4.0 or above.     - If you want to run RawConverter in Linux, HERE is the procedure in OpenSUSE.

Run RawConverter:

    - Inside the RawConverter folder, double click RawConverter.exe. Here is a screen shot of the user interface:
                 Screen shot of RawConverter
    - Add files, select output folder and formats, set all necessary parameters, and click "Go" to start the conversion.

Contact: Robin Park (rpark [at] scripps [dot] edu)

Your comments or suggestion are highly appreciated! If you want to cite this work, please use the following as the reference:

He, L., Diedrich, J. K., Chu, Y. Y., & Yates, J. R. (2015). Extracting Accurate Precursor Information for Tandem Mass Spectra by RawConverter. Analytical chemistry.