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Hi all,
I am trying to analyze RNA_seq data for the first time and I am very confused.
I am looking for a good protocol I can trust..
My main issue with the protocol I tried before was that after I aligned reads to rRNA to remove them, when I took the unaligned reads to re-align them to the genome with TopHat, there were few read pairs that were both aligned (using --no-mix in TopHat).
So, I am looking for both insight and a new protocol
Any help would be greatly appreciated
I am trying to analyze RNA_seq data for the first time and I am very confused.
I am looking for a good protocol I can trust..
My main issue with the protocol I tried before was that after I aligned reads to rRNA to remove them, when I took the unaligned reads to re-align them to the genome with TopHat, there were few read pairs that were both aligned (using --no-mix in TopHat).
So, I am looking for both insight and a new protocol
Any help would be greatly appreciated