Calculate TMB from BAM file
Given BAM file and its BAI file, how can I calculate the TMB for the patient? This bam file is the result of target sequencing, so I would like to calculate the TMB over the genomic region of interest. Is there any package or software that can do this?
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Tumour mutation burden is calculated by counting the number of somatic mutations above a threshold frequency in data derived from whole genome sequencing, whole exome sequencing (WES) or panel sequencing and dividing by the size of the target region [20]
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