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bihealth / auto-acmg

Automatic classification of sequence variants and CNVs according to ACMG criteria.
GNU General Public License v3.0
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Implement `BA1`, `BS1`, `BS2`, `PS4`, `PM2` criteria #106

Closed gromdimon closed 5 months ago

gromdimon commented 5 months ago

Issue:

Description:

codecov[bot] commented 5 months ago

Codecov Report

Attention: Patch coverage is 54.78261% with 52 lines in your changes are missing coverage. Please review.

Project coverage is 79.37%. Comparing base (8f47260) to head (13ab9f4).

Additional details and impacted files ```diff @@ Coverage Diff @@ ## main #106 +/- ## ========================================== - Coverage 81.24% 79.37% -1.88% ========================================== Files 20 21 +1 Lines 1578 1687 +109 ========================================== + Hits 1282 1339 +57 - Misses 296 348 +52 ``` | [Files](https://app.codecov.io/gh/bihealth/auto-acmg/pull/106?dropdown=coverage&src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bihealth) | Coverage Δ | | |---|---|---| | [src/api/annonars.py](https://app.codecov.io/gh/bihealth/auto-acmg/pull/106?src=pr&el=tree&filepath=src%2Fapi%2Fannonars.py&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bihealth#diff-c3JjL2FwaS9hbm5vbmFycy5weQ==) | `85.00% <100.00%> (ø)` | | | [src/defs/annonars\_variant.py](https://app.codecov.io/gh/bihealth/auto-acmg/pull/106?src=pr&el=tree&filepath=src%2Fdefs%2Fannonars_variant.py&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bihealth#diff-c3JjL2RlZnMvYW5ub25hcnNfdmFyaWFudC5weQ==) | `100.00% <100.00%> (ø)` | | | [src/defs/auto\_acmg.py](https://app.codecov.io/gh/bihealth/auto-acmg/pull/106?src=pr&el=tree&filepath=src%2Fdefs%2Fauto_acmg.py&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bihealth#diff-c3JjL2RlZnMvYXV0b19hY21nLnB5) | `97.91% <100.00%> (+0.29%)` | :arrow_up: | | [src/auto\_ps1\_pm5.py](https://app.codecov.io/gh/bihealth/auto-acmg/pull/106?src=pr&el=tree&filepath=src%2Fauto_ps1_pm5.py&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bihealth#diff-c3JjL2F1dG9fcHMxX3BtNS5weQ==) | `65.27% <85.71%> (+0.57%)` | :arrow_up: | | [src/auto\_acmg.py](https://app.codecov.io/gh/bihealth/auto-acmg/pull/106?src=pr&el=tree&filepath=src%2Fauto_acmg.py&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bihealth#diff-c3JjL2F1dG9fYWNtZy5weQ==) | `70.47% <63.63%> (-0.81%)` | :arrow_down: | | [src/atuo\_ba1\_bs1\_bs\_2\_pm2.py](https://app.codecov.io/gh/bihealth/auto-acmg/pull/106?src=pr&el=tree&filepath=src%2Fatuo_ba1_bs1_bs_2_pm2.py&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bihealth#diff-c3JjL2F0dW9fYmExX2JzMV9ic18yX3BtMi5weQ==) | `45.34% <45.34%> (ø)` | |