On top of Jimmy's comments - you might consider using the Waters PLGS software to export the MSe data. Then go to mgf or mzXML etc. Hopefully msconvert will support MSe (if not already?)
-----Original Message----- From: [email protected] [mailto:[email protected]] On Behalf Of hw Sent: Tuesday, April 12, 2011 5:15 AM To: spctools-discuss Subject: [spctools-discuss] MassWolf MSe data I have trouble to convert Masslynx's MSe data file to mzXML then to .mgf file with TPP. Here is the command I used: masswolf --mzXML --nolockspray --MSe C:\data.raw C:\data.mzXML The output file data.mzXML can be viewed with InsilicoView and it looked ok. However, when TPP was used to convert .data.mzXML to .mgf, there was no peak in it. In MSe mode, low energy was set at 2 and high energy was set to 20-30V. I don't have much experience on Masslynx software. Is it possible that some settings in MSe mode was not correct? or is it possible masswolf requires some special settings? any comment is appreciated. By the way, I have no problem to convert masslynx's DDA data file to mzXML then to .mgf using TPP. Mascort search with this .mgf file yielded positive results. In processing DDA data, masswolf command was masswolf --mzXML --nolockspray C:\data.raw C:\data.mzXML -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send email to [email protected]. To unsubscribe from this group, send email to [email protected]. For more options, visit this group at http://groups.google.com/group/spctools-discuss?hl=en. This communication is intended only for the named recipient and may contain information that is confidential, legally privileged or subject to copyright; the Ludwig Institute for Cancer Research Ltd does not waive any rights if you have received this communication in error. The views expressed in this communication are those of the sender and do not necessarily reflect the views of the Ludwig Institute for Cancer Research Ltd. -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send email to [email protected]. To unsubscribe from this group, send email to [email protected]. For more options, visit this group at http://groups.google.com/group/spctools-discuss?hl=en.
