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Thanks Geraldine. Very helpful input as usual.
@Sheila Hi Sheila, Thanks for the reply. Yes I do understand that the Best Practice doc for RNA-seq is for germline variant calling. However, should I use the data cleaning process (2-pass Star alignment, mark duplicate, sort, split"N"tr…
Hi, thanks for the wonderful article. I wonder whether you have a similar piece for calling the differences (SNPs, Indels) between two samples using RNA-seq? Say I have one cancer cell line and expose it to a drug and RNA seq both the original and a…