Hi, I'm a baby at this field, and trying to do some tutorials like GATK best practice, CNV analysis, HLA-typing etc.
I have a question about files that are split by chromosome.
What advantages do they have?
And If I use them, is my command correct like below?
ex) bwa mem REF_Chr1.fa A_1.fastq A_2.fastq > A.sam
After many process, do I have to merge them at the end?