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The geo samples is not having sentrix id and sentrix position. But this information is needed for RnBeads workflow. How to proceed?

Error in Rnbeads workflow The sample annotation file needs sentrix id and sentrix position which is not available for the samples that I'm analysing. How to proceed further?

Thanks in advance

r next-gen sequencing
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updated by yura.grabovska • yura.grabovska • written by preethibagopi28 • preethibagopi28

Hello! I’m wondering how you figured out this issue. Tnx!

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written by Betul • Betul

I suggest you open a new proper question, with code and exact errors plus software versions. This here does not help getting more information.

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written by ATpoint ATpoint

1 answer

Crosspost from related question: Finding Sentrix ID in HM450K arrays

##Using R, illuminaio from Bioconductor     

library(illuminaio)
temp.idat <- readIDAT(file = "200379120087_R02C02_Grn.idat")
temp.idat$Barcode
[1] "200379120087"
temp.idat$Unknowns$MostlyA
[1] "R02C02"
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written by yura.grabovska • yura.grabovska

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