I am new to the land of NGS and I have been tasked with some work that involves sequencing of paired : normal vs tumor samples by RNA-Seq and Whole Genome Sequencing.
As much as I have read and understood about NGS, I believe these are the data types that will be available for me to work with, could someone tell me if I missed something:
RNA-Seq----> SNPs, RNA edits, Isoforms, ncRNA, Gene Expression, Novel/Fusion transcripts.
Whole Genome Seq (WGS)----> SNPs, Indels, CNVs, LOH, SVs
Also could someone tell me how to determine the mutation rates for each sample either from RNA-Seq or WGS (normal vs tumor)??