Hello everyone, I have human RNA-seq data that are reading by MiniON. I have many questions first, when I aligned all FASTQ files with the reference sequence I can not look at the human genome, do I have to align with the hg38 Reference genome for the look at the human chromosome?
If yes why I have a reference file from the reading? and Also let say I aligned with hg38 of my Fastq file, the nanopore sequencing accuracy 20 percent Will this give true results?
Should I align with a specific chr or location in hg38 for correct analysis?
If you have tutorial or article please share with me thank you.