RAW to mzML
RAW to mzML
Description
Convert Thermo Finnigan RAW files to the open mzML format. This script only runs on computers that have the Thermo Finnigan XDK installed.
Input files
- at least 1 RAW data file (.raw)
Output files
This is a converter script which produces a mzML files file for every input RAW data file.
Context
No context information available.
Common problems
If the file conversion does not work, you probably need to install the MS File Converter from Thermo: http://sjsupport.thermofinnigan.com/public/detail.asp?id=703.
In addition, the following packages are required:
Parameters
- m/z precision
-
Choices: 32 bits (default), 64 bits
- Intensity precision
-
Choices: 32 bits (default), 64 bits
- Write index
-
Choices: yes (default), no
- Compress spectra
-
Choices: yes, no (default)
- Compress result file
-
Choices: no compression, gzip (default), bzip2
- Strip MS1 scans
-
Choices: no (default), yes
Source code
raw-to-mzml.rb, raw-to-mzml.yaml (GitHub)