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uc-bd2k / GREIN

GREIN : GEO RNA-seq Experiments Interactive Navigator
https://shiny.ilincs.org/grein
GNU General Public License v2.0
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Combine multiple dataset from GREIN #14

Closed ngutrinh closed 3 years ago

ngutrinh commented 3 years ago

I have one question about combination results, as I know a combination of the different datasets will get the batch effect. I want to ask how to avoid the batch effect when combining results from GREIN? actually, I want to combine gene count or normalized count results. Thank you

Mario-Medvedovic commented 3 years ago

Batch adjustment issues are complex and beyond the scope of GREIN support. Many papers have been written on this topic and tools developed (eg ComBat, sva). These may be a good place to start, but beware that these topics are statistically complex. Sorry we cannot be of more use. Best, Mario

ngutrinh commented 3 years ago

Thank you so much Mario