I want to do mapping with bwa mem. I downloaded a reference genome from ncbi database which is (Danaus plexippus). I got one
ncbi_database.zip file which contain 2 folders and 3 files of doc,assembly_report_json file. I read one file named
read.md which came after downloading but its not helping. What should be done in this case?
I don't have an issue with using bwa-mem; the problem is with the reference genome from NCBI. I downloaded it from https://ncbi.nlm.nih.gov/datasets/genome/GCF_009731565.1 but after that I checked the downloaded file and I got 5 folders into it and I'm confused which one to use. 2 files have
.fna extension and the rest are reports that are in the json file format.