Hi Julian, It depends on the file. Is it in centroid or profile mode? I'm not familiar with .d files so I don't know which it would be. If it is in profile mode you need to use the peak picking filter. Also, are you using the msconvertGUI.exe or running it through a shell like R?
Cheers, Gavin. ________________________________ From: Julian Kang [manduma...@gmail.com] Sent: 12 October 2011 22:04 To: mzmine-devel@lists.sourceforge.net Subject: Re: [Mzmine-devel] Missing peaks in MzMine Thanks for the quick response! I did open the mzXML file with the insilicos viewer, and saw that it must be a problem with the conversion from .d to .mzXML. Are there any alternatives to proteowizard that can do that or are there specific setting in proteowizard that I should be aware of to maximize conversion? Again thanks a bunch! -Julian Hi Julian, Is that before or after processing with MzMine? You could try opening the mzXML file with the insilicos viewer (http://insilicos.com/products/insilicos-viewer-1) and compare that to the original .d file to check it is being converted properly. Cheers, Gavin. From: Julian Kang [mailto:manduman88@<mailto:manduman88@>...] Sent: 11 October 2011 19:25 To: mzmine-devel@... Subject: [Mzmine-devel] Missing peaks in MzMine Hi, I converted an Agilent MS file (.d) to .mzXML using proteowizard so I can analyze the data using MzMine. However, when I compare some of the spectra from MzMine to Agilent Qualitative Analysis (4.0), I see that there are some very noticeable peaks in the Agilent Qual which are missing in MzMine. Is there any fix to this by chance? Thanks! -Julian -- Cornell University Class of 2010 B.A. in Chemistry -- Cornell University Class of 2010 B.A. in Chemistry ------------------------------------------------------------------------------ All the data continuously generated in your IT infrastructure contains a definitive record of customers, application performance, security threats, fraudulent activity and more. Splunk takes this data and makes sense of it. Business sense. IT sense. Common sense. http://p.sf.net/sfu/splunk-d2d-oct _______________________________________________ Mzmine-devel mailing list Mzmine-devel@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/mzmine-devel
