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Posts by zoe.ward
... Hi all, I'm very new to using GenomicFeatures and I'm trying to download a NCBI hg38 transcript annotation package (I want to use the built in functions such as promoters() etc). Can someone direct me to where I can get this? I have tried > makeTxDbFromBiomart but this isn't working for m ...
... I have 85 paired samples i.e. before and after ischemia so my question is how would I run the DEXSeq and DRIMSeq on paired samples? I’ve had a look in the relevant vignettes but cannot find any example of paired analysis. I have a design matrix like so: sample_id cond pair ...
... I have tried to find a beginners guide/tutorial on how to do a paired analysis in Ballgown. I have several samples pre and post treatment: ID<- seq(1,170, by=1) cond<-rep(c("post","pre"),85) pair<- rep(1:85, each = 2) design_matrix <- data.frame(id=ID,cond=cond, pair=factor(pair)) ...
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