Feature request: isotopic multiplexing

[cutleraging]

Hello,

I am using DIA-NN to process multiplexed samples using dimethyl labeling. I would like to request a feature where your program can be used to derive the protein intensities for each of the channels within a sample. Please let me know if you need an example of this.

Best,
Ronnie

[ammarcsj]

Hi Ronnie,

thanks for your comment. Please feel free to check out our RefQuant package: https://github.com/MannLabs/refquant

It is designed to do exactly what you describe. There is no GUI for it, but there are example notebooks that you can follow.

Best
Constantin

[cutleraging]

Right, I was aware of that. But does it produce directLFQ for quantification?

[ammarcsj]

Yes, the .protein_intensities.tsv table is directLFQ quantified

[cutleraging]

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________________________________ From: ammarcsj ***@***.***> Sent: Tuesday, November 19, 2024 11:44:49 AM To: MannLabs/directlfq ***@***.***> Cc: Ronald Cutler ***@***.***>; Author ***@***.***> Subject: Re: [MannLabs/directlfq] Feature request: isotopic multiplexing (Issue #55) CAUTION: This email comes from an external source; the attachments and/or links may compromise our secure environment. Do not open or click on suspicious emails. Please click on the “Phish Alert” button on the top right of the Outlook dashboard to report any suspicious emails. Yes, the .protein_intensities.tsv table is directLFQ quantified — Reply to this email directly, view it on GitHub<#55 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/AUCDKM4RTHDXBIIUYYVGSVT2BNTIDAVCNFSM6AAAAABSCOOZLWVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDIOBWGIZDOMZQHA>. You are receiving this because you authored the thread.Message ID: ***@***.***>