openvax / isovar / 25875420802

94%

master: 94%

Pull #183

github

read_phasing: rename threshold test; document has_evidence/partners interface

* Rename test_adapter_respects_min_shared_fragments_threshold to
  test_threshold_filter_propagates_through_adapter and explain that
  the adapter is passive here -- the test asserts the threshold
  propagates rather than being silently undone.
* Document in the module Contract that partners_in_cis and
  has_evidence answer independent questions and are not
  cross-checked. Note that outputs from run_isovar /
  annotate_phased_variants never exhibit a has_evidence=False with a
  non-empty partners_in_cis, since the upstream pipeline only
  populates partners for variants with shared supporting reads.

16 of 16 new or added lines in 2 files covered. (100.0%)

2556 of 2731 relevant lines covered (93.59%)

0.94 hits per line