User: burcu.atasu

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Posts by burcu.atasu

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filtering lowly expressed genes before or after normalization?
... Hi, I need to figure out which approach is more appropriate regarding filtering lowly expressed genes. According to tximport manual, it is recommended to follow following commands for EdgeR analysis: library(edgeR) cts <- txi$counts normMat <- txi$length normMat <- normMat/exp(rowMeans(lo ...
edger tximport written 8 months ago by burcu.atasu0 • updated 8 months ago by Michael Love20k
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correlated known batch effect correction using svaseq
... Hi! I've been performing RNAseq analysis by using svaseq package for batch effect correction. I have identified two slightly correlated known batch effect variables (such as; flowcell, date of data prep.). My question is if I use those two  correlated (r=0.81) known batch effect varaibles in my mod ...
batcheffectcorrection svaseq written 13 months ago by burcu.atasu0

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