BAM/CRAM reads are often mapped against a genome, but they needn't be. It's not uncommon in industry to convert FASTQ to unmapped BAM in order to only have a si

BAM/CRAM reads are often mapped against a genome, but they needn't be. It's not uncommon in industry to convert FASTQ to unmapped BAM in order to only have a single file format, improve compression, etc.