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Posts by maya.kappil
... Hello, My understanding is that it is possible to add a flag for GC content correction when quantifying reads using salmon but that this is really meant for paired-end data. I'm wondering about what options there are to perform GC content correction on single-end RNA-seq data and to what extent it ...
... Hello! If I wanted to conduct WGCNA analysis following a salmon/DESeq2 workflow, would it be appropriate to use the matrix generated after applying the vst function on the dds object? Something akin to the following script: dds<- DESeqDataSetFromTximport(txi, coldata, design = ~ batch + Sex + B ...
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