On Target Coverage

Confirming adequate coverage of ACCESS genomic targets

Theoretical Method

Unlike other coverage metrics from this report which report coverage for bait regions, this graph shows the coverage of actual genomic target regions of the ACCESS A panel

Technical Methods

• Tool Used:

  • Marianas

  • Waltz CountReads

  • aggregate_bam_metrics.sh

  • tables_module.py

  • plots_module.r

• Input

  • Duplex Bams

  • pool A bed file

• Output

  • waltz_duplex_a_exon_level_files (directory of Pool A Exon Targets QC results)

  • waltz-coverage.txt

Interpretations

Coverage in this graph should be slightly higher than for the probe-level coverage results, as the calculation is limited to a smaller window of the histogram of coverage values. This metric is relevant for analysts who are more interested in coverage for a particular gene rather than coverage of the baits used to target that gene.