paired test for EBSeq

[Guangan Hu]

How to design the pattern for a paired test in EBSeq like edgeR does?
Such as data like:
patient1_pretreat, patient1_posttreat, patient2_pretreat, patient2_posttreat
By edgeR:
patient<-factor(c("patient1","patient1","patient2","patient2"))
treat<-factor(c("pre","post","pre","post"))
design<-model.matrix(~patient+treat)

Best
Guangan

[Ning Leng]

Hi Guangan,
Unfortunately, EBSeq currently doesn't implement a paired test. You
may consider the multiple condition model instead.
hth,
Ning

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Ning Leng, Ph.D
Computational Biologist / Biostatistician
Regenerative Biology Laboratory
Morgridge Institute for Research

[Rose Du]

Ning,

Using the above example, is it correct to use Condition 1 as patient and Condition 2 as treatment to achieve a paired design?

Thanks,

Rose