Dear EGAPX developers,
I would like to ask whether the EGAPX genome annotation pipeline takes the strand information of RNA-seq data into account.
From my understanding, STAR alignment does not require specifying strand information. However, for annotation tasks (e.g., assigning the correct orientation of ncRNAs or defining 3′ UTRs when they overlap with other genes), I would expect strand information to improve accuracy.
Could you please clarify whether strand information is incorporated into the EGAPX pipeline when stranded RNA-seq data are provided, or if I am missing something here?
Best regards,
Bitao
Dear EGAPX developers,
I would like to ask whether the EGAPX genome annotation pipeline takes the strand information of RNA-seq data into account.
From my understanding, STAR alignment does not require specifying strand information. However, for annotation tasks (e.g., assigning the correct orientation of ncRNAs or defining 3′ UTRs when they overlap with other genes), I would expect strand information to improve accuracy.
Could you please clarify whether strand information is incorporated into the EGAPX pipeline when stranded RNA-seq data are provided, or if I am missing something here?
Best regards,
Bitao