Creating reference genome for mapping and then selecting
I will be analyzing PDx RNA-seq data and whatever information I could gather is that I need couple of things before I start:-
- Combined reference genome of mouse and human (hg38 and mm10).
How can I generate this from hg38.fa and mm10.fa files?
- Using combined reference genome for alignment using STAR.
What special features do I need to use so that only the reads that exclusively map to hg38 are selected and a Gene count can be generated.
Could anyone of you help me.
Thank you in advance
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