Does edgeR accept decimal / integer read counts for differential expression ?
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@padhmanandsudhakar-13976
Last seen 4.1 years ago

Hi 

I have read counts (based on multiple mapping) for small RNAs. Since it is normalized for multiple mapping, some of the read counts have decimalized values on which I would like to perform differential expression (condition A vs B). 

 

My specific question is if edgeR accept decimal / integer read counts for differential expression ?

 

Best regards

Paddy

edger differential gene expression • 488 views
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@gordon-smyth
Last seen 5 hours ago
WEHI, Melbourne, Australia

Yes it does. All the edgeR analysis pipelines accept fractional counts. edgeR uses a continuous version of the negative binomial distribution so that it can work directly with fractional counts without rounding them to integers.

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