sample-specific database search

[andrewyy677]

Hi vdem,

I'm analyzing approximately 300 bacterial sample raw datasets, each with a sample-specific database, using the DIANN library-free mode. Could you please provide some guidance on how to perform cross-run normalization and protein quantification, and then integrate these search results into a comprehensive quantification matrix?

Sincerely,
Yingying

[vdemichev]

Hi Yingying,

There's no universal way to do this, maybe you should normalise by matching different genes across strains or something like that. In any case this will require some custom scripts in R or Python.

Best,
Vadim

[andrewyy677]

Thank you for the suggestion. We will give it a try. Best, Yingying

…

________________________________ From: Vadim Demichev ***@***.***> Sent: Thursday, December 26, 2024 18:44 To: vdemichev/DiaNN ***@***.***> Cc: Yingying SUN 孙莹莹 ***@***.***>; Author ***@***.***> Subject: Re: [vdemichev/DiaNN] sample-specific database search (Issue #1320) Hi Yingying, There's no universal way to do this, maybe you should normalise by matching different genes across strains or something like that. In any case this will require some custom scripts in R or Python. Best, Vadim ― Reply to this email directly, view it on GitHub<#1320 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/A2UR3JP6IL4YILC2BC6T2V32HPMZRAVCNFSM6AAAAABUGTXDCOVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDKNRSGQZDQNBQGQ>. You are receiving this because you authored the thread.Message ID: ***@***.***>