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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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Enhance general output of acmg prediction #128

Closed gromdimon closed 3 months ago

gromdimon commented 3 months ago

Issue:

Description:

TODO:

codecov[bot] commented 3 months ago

Codecov Report

Attention: Patch coverage is 43.66925% with 218 lines in your changes missing coverage. Please review.

Project coverage is 60.87%. Comparing base (0c41cfd) to head (3ea454b).

:exclamation: Current head 3ea454b differs from pull request most recent head 14d2627

Please upload reports for the commit 14d2627 to get more accurate results.

Additional details and impacted files ```diff @@ Coverage Diff @@ ## main #128 +/- ## ========================================== - Coverage 65.09% 60.87% -4.23% ========================================== Files 28 28 Lines 2467 2538 +71 ========================================== - Hits 1606 1545 -61 - Misses 861 993 +132 ``` | [Files](https://app.codecov.io/gh/bihealth/auto-acmg/pull/128?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/defs/auto\_pvs1.py](https://app.codecov.io/gh/bihealth/auto-acmg/pull/128?src=pr&el=tree&filepath=src%2Fdefs%2Fauto_pvs1.py&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bihealth#diff-c3JjL2RlZnMvYXV0b19wdnMxLnB5) | `98.87% <100.00%> (+0.01%)` | :arrow_up: | | [src/pvs1/auto\_pvs1.py](https://app.codecov.io/gh/bihealth/auto-acmg/pull/128?src=pr&el=tree&filepath=src%2Fpvs1%2Fauto_pvs1.py&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bihealth#diff-c3JjL3B2czEvYXV0b19wdnMxLnB5) | `80.00% <100.00%> (-4.10%)` | :arrow_down: | | [src/auto\_acmg.py](https://app.codecov.io/gh/bihealth/auto-acmg/pull/128?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==) | `84.44% <78.57%> (-3.20%)` | :arrow_down: | | [src/criteria/auto\_ba1\_bs1\_bs2\_pm2.py](https://app.codecov.io/gh/bihealth/auto-acmg/pull/128?src=pr&el=tree&filepath=src%2Fcriteria%2Fauto_ba1_bs1_bs2_pm2.py&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bihealth#diff-c3JjL2NyaXRlcmlhL2F1dG9fYmExX2JzMV9iczJfcG0yLnB5) | `23.25% <40.00%> (-0.56%)` | :arrow_down: | | [src/pvs1/strucvar\_pvs1.py](https://app.codecov.io/gh/bihealth/auto-acmg/pull/128?src=pr&el=tree&filepath=src%2Fpvs1%2Fstrucvar_pvs1.py&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bihealth#diff-c3JjL3B2czEvc3RydWN2YXJfcHZzMS5weQ==) | `33.00% <50.00%> (+0.35%)` | :arrow_up: | | [src/defs/auto\_acmg.py](https://app.codecov.io/gh/bihealth/auto-acmg/pull/128?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) | `95.39% <91.17%> (-3.93%)` | :arrow_down: | | [src/criteria/auto\_pm4\_bp3.py](https://app.codecov.io/gh/bihealth/auto-acmg/pull/128?src=pr&el=tree&filepath=src%2Fcriteria%2Fauto_pm4_bp3.py&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bihealth#diff-c3JjL2NyaXRlcmlhL2F1dG9fcG00X2JwMy5weQ==) | `30.35% <20.00%> (-4.34%)` | :arrow_down: | | [src/criteria/auto\_ps1\_pm5.py](https://app.codecov.io/gh/bihealth/auto-acmg/pull/128?src=pr&el=tree&filepath=src%2Fcriteria%2Fauto_ps1_pm5.py&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bihealth#diff-c3JjL2NyaXRlcmlhL2F1dG9fcHMxX3BtNS5weQ==) | `58.75% <33.33%> (-7.92%)` | :arrow_down: | | [src/criteria/auto\_bp7.py](https://app.codecov.io/gh/bihealth/auto-acmg/pull/128?src=pr&el=tree&filepath=src%2Fcriteria%2Fauto_bp7.py&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bihealth#diff-c3JjL2NyaXRlcmlhL2F1dG9fYnA3LnB5) | `22.98% <10.52%> (-3.68%)` | :arrow_down: | | [src/criteria/auto\_pp2\_bp1.py](https://app.codecov.io/gh/bihealth/auto-acmg/pull/128?src=pr&el=tree&filepath=src%2Fcriteria%2Fauto_pp2_bp1.py&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bihealth#diff-c3JjL2NyaXRlcmlhL2F1dG9fcHAyX2JwMS5weQ==) | `20.83% <19.04%> (-4.46%)` | :arrow_down: | | ... and [4 more](https://app.codecov.io/gh/bihealth/auto-acmg/pull/128?src=pr&el=tree-more&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=bihealth) | |