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Retire Illumina merged platforms and switch directly to generic gene platforms instead

Open arteymix opened this issue 1 year ago • 1 comments

We use merged platform because adding RNA-Seq data require that the same platform is used for all the samples. This is unnecessary because ultimately these platforms get replaced by a generic expression platform.

  • human_illumina_rnaseq
  • mouse_illumina_rnaseq
  • rat_illumina_rnaseq

It also creates a burden on curators who have to switch to these generic sequencing platform before switching to a generic gene platform.

Given that this step is superfluous, we don't need to check for multi-platform when adding RNA-Seq data, and we should switch directly to the gene platforms.

arteymix avatar Apr 24 '24 18:04 arteymix

I agree that this makes more sense than my proposal in #1105, as long as it's always the correct thing to do.

ppavlidis avatar Apr 24 '24 18:04 ppavlidis

We're switching directly to the generic platform for single-cell experiments. I think we should reuse that logic for bulk RNA-Seq.

arteymix avatar Jan 31 '25 22:01 arteymix