# Average Coverage, Sample Level, Pool B Targets

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**Theoretical Method**

Similarly to the Pool A Targets, coverage is calculated for each UMI family type, over the Pool B genomic bait regions. These coverage values are lower for cfDNA samples (which use a 50:1 pool ratio) but should be comparable for buffy coat samples (which use a 1:1 pool ratio). 

**Technical Methods**

* Tool Used:
  * Marianas
  * Waltz CountReads
  * aggregate\_bam\_metrics.sh
  * tables\_module.py
  * plots\_module.r
* Input
  * 4 bams per sample (Standard, U, S, D)
* Output
  * sample\_id-intervals.txt (sample level, included for all 4 bam types)
  * waltz-coverage.txt (aggregated across samples, for a single bam type)
  * coverage\_agg.txt (aggregated across all samples, all bam types, pools A / B)

**Interpretations**\
Aim is to have high coverage, and as much duplex “saturation” as possible. See title page for specific pass / fail criteria.