Have you had any luck with ReAdW? It works well with regular Exactive, not sure if it works with q.

Hi Eugene,

it did not worked with q.

Cheers,

Frank

MSConvert may work...does with Velos data...

Cheers, Roman

mscovert works for me with QExactive. dont forget to install the software on the same PC as Xcalibur. usually those convertion tools need some files from the original software

To be correct, N- and O- chains have to be removed and analyzed separately. For methods, see e.g., papers of A. Dell and H. Morris

yes MSFilereader needs to be there and the newest version also works with Win7 32/64 bit. XCalibur will only work on Win7 32 bit though.

If you have MSFilereader and MSConvert installed, you can simply use this script:

@ECHO OFF

FOR %%A IN (%*) DO (

ECHO **

ECHO ** Converting %%A to mgf

ECHO ** Output to %%~dpA

ECHO **"

"C:\Documents and Settings\Administrator\Desktop\thermo_msconvert\pwiz\msconvert" %%A -o %%~fsA\..\ --mgf --verbose --filter "threshold count 200 most-intense [2,2]"

)

ECHO DONE

here you have to change the path for the msconvert.exe on your computer. Just open a texteditor...paste the lines above and save as anyname.cmd ...then you can drag an drop your rawfile onto the .cmd file and it will generate a mgf in the same folder where your raw file is. It will only use the top200 peaks per MSMS. If you need mzxml simply replace mgf with mzxml...this script was written by David Trudgian.

Cheers,

Roman

Windows Solution:

Here is an other in one

http://compbio.cs.princeton.edu/pview/thermo2pview_win32_06oct2010.zip

of course it uses MSFileReader from ThermoFisher

On Linux:

Install wine then install MSFileReader and MSConvert under wine, it will work but there are some problem with this approach