The coverage report is generated with cacao version 0.3.1, using the following key settings:
Genome assembly: grch37
Mode: Hereditary cancer AND actionable somatic loci AND somatic hotspots
Data sources - cancer loci:
Alignment quality threshold (MAPQ): 0
Alignment filename: 143B.filtered_alignments.bam
Target regions filename: NA
Callability levels (somatic):
NO_COVERAGE: No coverage (zero sequencing depth)
LOW_COVERAGE: Sequencing depth from 1 to 29
CALLABLE: Sequencing depth from 30 to 199
HIGH_COVERAGE: Sequencing depth above 200
Callability levels (germline):
NO_COVERAGE: No coverage (zero sequencing depth)
LOW_COVERAGE: Sequencing depth from 1 to 9
CALLABLE: Sequencing depth from 10 to 99
HIGH_COVERAGE: Sequencing depth above 100