Re: MS-Dial is giving very noisy data in comparison to Masshunter Qual (Help!) Reply #15 – September 01, 2020, 03:10:07 PM Thanks, Romanas! And so you recommend for us to use proteowizard to convert our files and not use ABF converter?Also, we usually do not acquire anything from 0-0.2. It just goes to waste. And so, just to be clear, currently, there is no remedy yet for this. I am glad we found the culprit but too bad there is no remedy yet. What is the process for requesting this for MSDial? Thanks and keep safe. Quote Selected
Re: MS-Dial is giving very noisy data in comparison to Masshunter Qual (Help!) Reply #16 – September 01, 2020, 05:03:54 PM HI Romanas, I tried using proteowizard and just only focusing on data from 50-500 seconds. But unfortunately, I am still seeing the high %CV's. This is a bummer. I have included the picture of the proteowizard parameters and also some of the amino acids that normally had low %CV's (phenylalanine and glutamic acid) using Masshunter but I am still seeing high variation in MSDial. But when I did just regular MS1 without any deconvolution, I am getting really good %CV's. Quote Selected
Re: MS-Dial is giving very noisy data in comparison to Masshunter Qual (Help!) Reply #17 – September 02, 2020, 07:51:10 PM Hi Marites, instead filtering by seconds in ProteoWizard, filter by scans. The key point is to set the beginning of the filtering range so that output file matches the MS-DIAL settings. Quote Selected
Re: MS-Dial is giving very noisy data in comparison to Masshunter Qual (Help!) Reply #18 – September 03, 2020, 10:51:47 AM Thanks, Romanas! Can you please guide me as to how to filter by scans instead of by seconds? I have not done this before. How would I get the # of scans at 0.25 minutes? I have the acquisition rate which is 4 spectra/seconds, which means there are 60 spectra at 0.25 minutes. Should I then filter from 80 scans - 2000 scans? I chose 80 just to make sure I am out of the inconsistent range. Thanks! Quote Selected