Recent Posts

1

MS-DIAL / Re: MS-Dial is giving very noisy data in comparison to Masshunter Qual (Help!)

Last post by romanas chaleckis - July 09, 2020, 08:59:40 PM

Hi Marites, can you please send the original .d files? The height/area might be slightly different due to smoothing parameters/integration in different softwares. What do you exactly mean by "irreproducibility"?

2

MS-DIAL / Re: MS-Dial is giving very noisy data in comparison to Masshunter Qual (Help!)

Last post by 7clouds7 - July 09, 2020, 12:57:14 PM

Hi Romanas,
I did what you have asked me and I am seeing the same irreproducibility. Please check my attachment. Maybe I should check the converter. Thanks!

Marites

3

MS-DIAL / Re: MS-Dial is giving very noisy data in comparison to Masshunter Qual (Help!)

Last post by 7clouds7 - July 09, 2020, 12:08:23 PM

Good morning, Romanas! Thank you. I will try that. But I am seeing that you are not getting reproducible EIC for phenylalanine either using MS-Dial even with the new experiment setting. Can you please verify? Should I send a non-converted files? I appreciate your help with this. Thank you, Romanas!

Please see attached picture of the EIC of phenylalanine from masshunter.

4

MS-DIAL / Re: MS-Dial is giving very noisy data in comparison to Masshunter Qual (Help!)

Last post by romanas chaleckis - July 09, 2020, 07:16:10 AM

I think the problem is the SCAN order (e.g. use mzML to check in SeeMS from ProteoWizard or MZmine). We are also using Agilent QTOF - the MS files start with AIF scans. Try the experiment settings as in attached screenshot.

5

MS-DIAL / converting from ABF format to mzML

Last post by romanas chaleckis - July 08, 2020, 06:49:56 PM

does anybody know how convert the ABF format files to mzML?

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MS-DIAL / Re: MS-Dial is giving very noisy data in comparison to Masshunter Qual (Help!)

Last post by 7clouds7 - July 08, 2020, 12:09:07 PM

HI Romanas! Good morning. =) I just sent you 6 files of negative mode all ions data. These are separate injections of 2 mg/L standard concentration from different vials. Please keep me posted. Thank you and keep safe.

7

MS-DIAL / Re: MS-Dial is giving very noisy data in comparison to Masshunter Qual (Help!)

Last post by 7clouds7 - July 07, 2020, 03:10:32 PM

Hello! Ok. CAn you please send me your email address so I can put in the dropbox and send it to you? Thank you!

8

MS-DIAL / Re: MS/MS Spectra in mzML File

Last post by romanas chaleckis - July 06, 2020, 07:48:58 PM

do you have the right precursor mass in the MS2 spectra data? in your screenshot it looks like all the MS2 spectra are for m/z ~764 ion

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MS-DIAL / Re: MS-Dial is giving very noisy data in comparison to Masshunter Qual (Help!)

Last post by romanas chaleckis - July 06, 2020, 06:29:53 PM

can you share a raw data file (google drive, dropbox etc.) to reproduce the problem with your MS-DIAL parameters?

10

MS-DIAL / Re: MS-Dial is giving very noisy data in comparison to Masshunter Qual (Help!)

Last post by 7clouds7 - July 06, 2020, 12:57:04 PM

Hello! Thank you for the reply. I ran my samples in Agilent 6545 and so I used their tool to extract the ion chromatograms. And so I know that the peaks are there consistently but MS-Dial is not picking them up consistently. Hence, I am getting noisy data. I have sent my MS-Dial parameters in the attachment. Can someone please check them? Thanks!