What is present and absent calling in high-throughput data?
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4.8 years ago

Hi

I have an expression dataset, It has a column entitled absent/present calling (values 0 or 1), I have two questions:

1- Should I treat different on expression columns based on 0 or 1 ?

2- Is this column just used for Microarray or it could be used for RNA-SEQ too?

Thanks.

RNA-Seq microarray R • 1.1k views
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4.8 years ago

Can you send a few lines of your data set? I guess "absent/present calling" correspond to certain variants (SNP).

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If it is an expression dataset, and not a SNP array, it could indicate whether the signal was above a certain minimum threshold, perhaps after adjusting for background. This would only be used for microarrays, where each call refers to a specific location on the chip.

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thanks @mastal511, it is expression data. and from 1700 have 0 value from 33K gene ids. So I should cut 0 value?

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dear Nazanin, my data is expression profile.

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