dnanexus-rnd / GLnexus / 1179

93%

push

travis-ci

Further revisions to unifier quality thresholds (#86)

Trifurcate `unifier_config::min_quality` to `min_AQ1`, `min_AQ2`, and `min_GQ`.

The AQ thresholds control adjudication of allele existence. The unifier includes alleles having any
observation with AQ > min_AQ1, or having more than one observation each with AQ > min_AQ2 (min_AQ1 >= min_AQ2).

The GQ threshold affects estimates of allele copy number. Genotype calls with GQ >= min_GQ count towards the copy number estimates of the constituent alleles.

105 of 105 new or added lines in 5 files covered. (100.0%)

2839 of 3031 relevant lines covered (93.67%)

205458.71 hits per line