OpenSwathAnalyzer

Picks peaks and finds features in an SWATH-MS or SRM experiment.

Web Documentation for OpenSwathAnalyzer

Input ports

1. Type: URI Object
   in [mzML]
   input file containing the chromatograms. [mzML]
2. Type: URI Object
   tr [traML]
   transition file [traML]
3. Type: URI Object
   rt_norm [trafoXML]
   RT normalization file (how to map the RTs of this run to the ones stored in the library) [trafoXML,opt.]
4. Type: URI Object
   swath_files [mzML]
   [applies only if you have full MS2 spectra maps] Swath files that were used to extract the transitions. If present, SWATH specific scoring will be used. [mzML,opt.]

Output ports

1. Type: URI Object
   out [featureXML]
   output file [featureXML]