Minimum number of genes to use R package "nondetects"
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@garciaii_antuerpia-13729
Last seen 4.1 years ago

I'm traying to use the R package "nondetects" to impute Ct values for the non-detects I have obtained on my RT-qPCR results. Is there a minimum number of genes I should have in my qPCR to provide enough data so than this R package is able to replace non-detects with
an imputed Ct value? Is this package just applied when you have a large scale analyses such as microarray?

nondetects R PCR • 821 views
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@matthew-mccall-4459
Last seen 2.3 years ago
United States

You need to have enough genes (and samples) to get a decent estimate of the missing data mechanism. This package is designed for qPCR data (not microarrays). The 3 example data sets included with the package should provide a sense of the size / type of data sets that can be used. 

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