Background correction with noobsb

[CGerhauser]

Hi,
I have previously used the noobsb background correction method on EPIC array data. For a manuscript revision including a classifier for breast cancer, we need to process an additional dataset. Now I realized that noobsb is no longer available.
Would it be possible to include noobsb back as an option for background correction?
Thank you!

[zwdzwd]

Hi, sorry I am currently struggling to find time to reimplement and test noobsb in the new SigDF infrastructure. If you need it for reproducibility, you can revert back to version 1.10 or 1.8. But thanks for the reminder.

[CGerhauser]

Hi Wanding, Thank you for your kind response. I tried to revert back to the older versions, but then ran into problems with Experimental hub and missing annotation files. Other people reported these problems already. I will try more. But it would be great if you could reimplement noobsb into the new SigDF infrastructure. All the best and thank you, Clarissa Von: Wanding Zhou - Bioinformatics ***@***.***> Gesendet: Freitag, 26. April 2024 14:00 An: zwdzwd/sesame ***@***.***> Cc: Gerhäuser, Clarissa ***@***.***>; Author ***@***.***> Betreff: [Extern] - Re: [zwdzwd/sesame] Background correction with noobsb (Issue #159) Hi, sorry I am currently struggling to find time to reimplement and test noobsb in the new SigDF infrastructure. If you need it for reproducibility, you can revert back to version 1.10 or 1.8. But thanks for the reminder. — Reply to this email directly, view it on GitHub<#159 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/AY2BZH3UQDLVNQAXBEINWTTY7I6SZAVCNFSM6AAAAABGMJA3GGVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDANZZGI2DOMJXGI>. You are receiving this because you authored the thread.Message ID: ***@***.******@***.***>>

[CGerhauser]

Hi Wanding, I was wondering whether you meanwhile found the time to reimplement noobsb into the new Sesame SigDF infrastructure. It would be very important for a resubmission of a manuscript. Thank you and all the best, Clarissa Dr. Clarissa Gerhäuser German Cancer Research Center Division Cancer Epigenomics Im Neuenheimer Feld 280 69121 Heidelberg Phone +6221 423306 Fax +49 6221 423359

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________________________________ Von: Gerhäuser, Clarissa ***@***.***> Gesendet: Freitag, April 26, 2024 4:03:00 PM An: zwdzwd/sesame ***@***.***>; zwdzwd/sesame ***@***.***> Cc: Author ***@***.***> Betreff: AW: [Extern] - Re: [zwdzwd/sesame] Background correction with noobsb (Issue #159) Hi Wanding, Thank you for your kind response. I tried to revert back to the older versions, but then ran into problems with Experimental hub and missing annotation files. Other people reported these problems already. I will try more. But it would be great if you could reimplement noobsb into the new SigDF infrastructure. All the best and thank you, Clarissa Von: Wanding Zhou - Bioinformatics ***@***.***> Gesendet: Freitag, 26. April 2024 14:00 An: zwdzwd/sesame ***@***.***> Cc: Gerhäuser, Clarissa ***@***.***>; Author ***@***.***> Betreff: [Extern] - Re: [zwdzwd/sesame] Background correction with noobsb (Issue #159) Hi, sorry I am currently struggling to find time to reimplement and test noobsb in the new SigDF infrastructure. If you need it for reproducibility, you can revert back to version 1.10 or 1.8. But thanks for the reminder. — Reply to this email directly, view it on GitHub<#159 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/AY2BZH3UQDLVNQAXBEINWTTY7I6SZAVCNFSM6AAAAABGMJA3GGVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDANZZGI2DOMJXGI>. You are receiving this because you authored the thread.Message ID: ***@***.******@***.***>>