codecov[bot]
commented
1 year ago Codecov Report
Base: 82.28% // Head: 83.00% // Increases project coverage by +0.72% :tada:
Coverage data is based on head (
11a4c71) compared to base (9a939de). Patch coverage: 100.00% of modified lines in pull request are covered.
Additional details and impacted files
```diff @@ Coverage Diff @@ ## develop #77 +/- ## =========================================== + Coverage 82.28% 83.00% +0.72% =========================================== Files 46 46 Lines 4024 4173 +149 =========================================== + Hits 3311 3464 +153 + Misses 713 709 -4 ``` | [Impacted Files](https://codecov.io/gh/TRON-Bioinformatics/covigator/pull/77?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=TRON-Bioinformatics) | Coverage Δ | | |---|---|---| | [covigator/pipeline/ena\_pipeline.py](https://codecov.io/gh/TRON-Bioinformatics/covigator/pull/77/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=TRON-Bioinformatics#diff-Y292aWdhdG9yL3BpcGVsaW5lL2VuYV9waXBlbGluZS5weQ==) | `47.82% <ø> (ø)` | | | [covigator/configuration.py](https://codecov.io/gh/TRON-Bioinformatics/covigator/pull/77/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=TRON-Bioinformatics#diff-Y292aWdhdG9yL2NvbmZpZ3VyYXRpb24ucHk=) | `85.83% <100.00%> (+0.36%)` | :arrow_up: | | [covigator/database/model.py](https://codecov.io/gh/TRON-Bioinformatics/covigator/pull/77/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=TRON-Bioinformatics#diff-Y292aWdhdG9yL2RhdGFiYXNlL21vZGVsLnB5) | `98.76% <100.00%> (+0.28%)` | :arrow_up: | | [covigator/pipeline/vcf\_loader.py](https://codecov.io/gh/TRON-Bioinformatics/covigator/pull/77/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=TRON-Bioinformatics#diff-Y292aWdhdG9yL3BpcGVsaW5lL3ZjZl9sb2FkZXIucHk=) | `94.82% <100.00%> (+2.86%)` | :arrow_up: | | [covigator/tests/unit\_tests/abstract\_test.py](https://codecov.io/gh/TRON-Bioinformatics/covigator/pull/77/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=TRON-Bioinformatics#diff-Y292aWdhdG9yL3Rlc3RzL3VuaXRfdGVzdHMvYWJzdHJhY3RfdGVzdC5weQ==) | `94.73% <100.00%> (+0.50%)` | :arrow_up: | | [covigator/tests/unit\_tests/test\_vcf\_loader.py](https://codecov.io/gh/TRON-Bioinformatics/covigator/pull/77/diff?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=TRON-Bioinformatics#diff-Y292aWdhdG9yL3Rlc3RzL3VuaXRfdGVzdHMvdGVzdF92Y2ZfbG9hZGVyLnB5) | `100.00% <100.00%> (ø)` | | Help us with your feedback. Take ten seconds to tell us [how you rate us](https://about.codecov.io/nps?utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=TRON-Bioinformatics). Have a feature suggestion? [Share it here.](https://app.codecov.io/gh/feedback/?utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=TRON-Bioinformatics):umbrella: View full report at Codecov.
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priesgo
Changes the classification of mutations from filter to VAF. The new thresholds are:
Related to #56 and https://github.com/TRON-Bioinformatics/covigator-ngs-pipeline/pull/42