Hi,

I am working with some whole exome data, which was received as cram files. I am facing some problems converting the cram files to either bam or fastq. I would like to know if anyone has tried to remove duplicates and call variants from the cram file. I am certainly going to give this a shot regardless, but I would like to be careful of any intricate changes that need to be made in order to achieve this.

Thanks in advance