Summarize the basic steps in Differential Expression analysis starting with a directory of un-trimmed RNA-Seq reads and a genome. I’m looking for general descriptions of the steps, not code. Thank you!

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Genome annotation

The technique of linking biological information to genome sequences is termed genome annotation. Gene annotation is the method of identifying gene locations and coding sections. It helps us understand what these genes are doing in the body through establishing structural characteristics and linking them to the actions of various proteins.