Warning: Large values detected, is data log transformed?

[mumdark]

Thank you for developing such an excellent tool.

I am conducting single-cell analysis, and when running the following code:

pdac_epi_result <- CoGAPS(pdac_epi_counts, pdac_params)

I receive the following warning:

Warning: Large values detected, is data log transformed?

Meanwhile, I noticed the following line of code in the vignette, but the generated norm_pdac_epi_counts does not seem to be used:

norm_pdac_epi_counts <- log1p(pdac_epi_counts)

Is there any mistake in my analysis?

Thanks for your help!

[ejfertig]

You should probably use the normalized values as input instead of counts Get Outlook for iOS<https://aka.ms/o0ukef>

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________________________________ From: 酩酊 ***@***.***> Sent: Tuesday, July 9, 2024 6:03:02 AM To: FertigLab/CoGAPS ***@***.***> Cc: Subscribed ***@***.***> Subject: [FertigLab/CoGAPS] Warning: Large values detected, is data log transformed? (Issue #113) Thank you for developing such an excellent tool. I am conducting single-cell analysis, and when running the following code: pdac_epi_result <- CoGAPS(pdac_epi_counts, pdac_params) I receive the following warning: Warning: Large values detected, is data log transformed? Meanwhile, I noticed the following line of code in the vignette, but the generated norm_pdac_epi_counts does not seem to be used: norm_pdac_epi_counts <- log1p(pdac_epi_counts) Is there any mistake in my analysis? Thanks for your help! — Reply to this email directly, view it on GitHub<#113>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/AATMMK7T6NTAS7UHRYSJP4TZLOYNNAVCNFSM6AAAAABKSQTI5OVHI2DSMVQWIX3LMV43ASLTON2WKOZSGM4TONZTGM4DKNA>. You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>