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Re: [proteowizard-support] Issue with Waters MSe conversion
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From: Brian P. <bs...@pr...> - 2023-07-11 16:09:26
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<html><head><meta http-equiv="content-type" content="text/html; charset=utf-8"></head><body dir="auto">I’d recommend eyeballing the mzXML - you’ll find that it’s all MS1, I think. How mzmine deals with displaying that, I don’t know.<br><div dir="ltr"><br><blockquote type="cite">On Jul 11, 2023, at 8:05 AM, Taylor, MJC, Mnr [mt...@su...] <mt...@su...> wrote:<br><br></blockquote></div><blockquote type="cite"><div dir="ltr">
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<p class="MsoNormal"><span style="mso-fareast-language:EN-US">Thanks. So the chromatogram is then a blend of MS1 data at the top of the peaks and MS2 data at the bottom of the peaks?
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<p class="MsoNormal"><b><span lang="EN-US">From:</span></b><span lang="EN-US"> Brian Pratt
<a href="mailto:bs...@pr...">bs...@pr...</a> <br>
<b>Sent:</b> Tuesday, July 11, 2023 5:02 PM<br>
<b>To:</b> Taylor, MJC, Mnr [mt...@su...] <mt...@su...><br>
<b>Cc:</b> su...@pr...<br>
<b>Subject:</b> Re: [proteowizard-support] Issue with Waters MSe conversion<o:p></o:p></span></p>
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<p class="MsoNormal" style="margin-bottom:12.0pt">That’s correct. Note that the window is extremely wide - it’s an all ions fragmentation. There’s no single precursor per se, but mzXML expects some value there.<o:p></o:p></p>
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<p class="MsoNormal">Sent from my phone, with apologies for brevity and strange autocorrections<o:p></o:p></p>
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<p class="MsoNormal" style="margin-bottom:12.0pt">On Jul 11, 2023, at 6:05 AM, Taylor, MJC, Mnr [mtaylor--- via proteowizard-support <<a href="mailto:pro...@li...">pro...@li...</a>> wrote:<o:p></o:p></p>
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<p class="MsoNormal"> <o:p></o:p></p>
<p class="MsoNormal">Good afternoon,<o:p></o:p></p>
<p class="MsoNormal"> <o:p></o:p></p>
<p class="MsoNormal">I am having some issues converting my Waters MSe data to mzXML. As can be seen in the screenshot below, the Precursor ion for all scans is 770. The raw data from a Waters G2 qTOF was converted using MSConvert 3.0.23191-2fd18c2 using 64-bit
precision with Peak Picking as the only subset.<o:p></o:p></p>
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<p class="MsoNormal">Please can you comment.<o:p></o:p></p>
<p class="MsoNormal"> <o:p></o:p></p>
<p class="MsoNormal">Thanks<o:p></o:p></p>
<p class="MsoNormal"> <o:p></o:p></p>
<p class="MsoNormal">Malcolm Taylor<o:p></o:p></p>
<p class="MsoNormal">University of Stellenbosch<o:p></o:p></p>
<p class="MsoNormal"> <o:p></o:p></p>
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