From fragment.Quant.Raw to Precursor.Quantity

[FDelalande]

Hello,

How does DIA-NN 1.9.2 switch from “Fragment.Quant.Raw” to “Precursor.Quantity” in the "report.tsv"?

With the old version of DIA-NN, it added the 3 most intense fragments. With 1.9.2, I don't understand the logic?

Thanks for your reply,

François

[vdemichev]

Hi Francois,

For the legacy quantification, please see https://www.nature.com/articles/s41592-019-0638-x
For QuantUMS, it's described in https://www.biorxiv.org/content/10.1101/2023.06.20.545604v1 (although the algorithm has been updated signficantly in 1.9).

Best,
Vadim

[FDelalande]

Hi Vadim, Thanks for your reply. I'm currently reading your QuantUMS publication. And my colleague was telling me how much she enjoyed your conference at Eubic this winter. Would it be possible to have the slides or a document of what you said (which obviously seemed easier to understand than the publication)? Best François De : Vadim Demichev ***@***.***> Envoyé : jeudi 31 octobre 2024 12:04 À : vdemichev/DiaNN ***@***.***> Cc : FDelalande ***@***.***>; Author ***@***.***> Objet : Re: [vdemichev/DiaNN] From fragment.Quant.Raw to Precursor.Quantity (Issue #1237) Hi Francois, For the legacy quantification, please see https://www.nature.com/articles/s41592-019-0638-x For QuantUMS, it's described in https://www.biorxiv.org/content/10.1101/2023.06.20.545604v1 (although the algorithm has been updated signficantly in 1.9). Best, Vadim — Reply to this email directly, view it on GitHub <#1237 (comment)> , or unsubscribe <https://github.com/notifications/unsubscribe-auth/BG4WGDBPMTIEJOEJ3VBJFSDZ6IFARAVCNFSM6AAAAABQ6AWXSGVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDINBZGU4DMOBUGE> . You are receiving this because you authored the thread. <https://github.com/notifications/beacon/BG4WGDD5DYV3WMJTUPTVOYLZ6IFARA5CNFSM6AAAAABQ6AWXSGWGG33NNVSW45C7OR4XAZNMJFZXG5LFINXW23LFNZ2KUY3PNVWWK3TUL5UWJTUSAG5JS.gif> Message ID: ***@***.*** ***@***.***> >

[vdemichev]

Hi François,

Sure, please email me.

Best,
Vadim