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Implement custom PP3 and BP4 rules #196

Merged
merged 4 commits into from
Sep 6, 2024
Merged

Implement custom PP3 and BP4 rules #196

merged 4 commits into from
Sep 6, 2024

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gromdimon
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Issue:

Description:

  • Implement
  • Test

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codecov bot commented Sep 5, 2024

Codecov Report

Attention: Patch coverage is 88.66571% with 79 lines in your changes missing coverage. Please review.

Project coverage is 86.44%. Comparing base (93f6066) to head (1efddc2).
Report is 1 commits behind head on main.

Files with missing lines Patch % Lines
src/vcep/myeloid_malignancy.py 23.07% 20 Missing ⚠️
src/auto_acmg.py 0.00% 9 Missing ⚠️
src/vcep/acadvl.py 86.20% 4 Missing ⚠️
src/vcep/coagulation_factor_deficiency.py 87.50% 3 Missing ⚠️
src/vcep/congenital_myopathies.py 88.00% 3 Missing ⚠️
src/vcep/insight_colorectal_cancer.py 86.36% 3 Missing ⚠️
src/vcep/leber_congenital_amaurosis.py 86.95% 3 Missing ⚠️
src/vcep/lysosomal_diseases.py 88.00% 3 Missing ⚠️
src/vcep/monogenic_diabetes.py 88.00% 3 Missing ⚠️
src/vcep/pku.py 88.00% 3 Missing ⚠️
... and 10 more
Additional details and impacted files
@@            Coverage Diff             @@
##             main     #196      +/-   ##
==========================================
+ Coverage   86.22%   86.44%   +0.21%     
==========================================
  Files          65       65              
  Lines        4858     5510     +652     
==========================================
+ Hits         4189     4763     +574     
- Misses        669      747      +78     
Files with missing lines Coverage Δ
src/defs/annonars_variant.py 100.00% <100.00%> (ø)
src/defs/auto_acmg.py 99.63% <100.00%> (+0.01%) ⬆️
src/vcep/cardiomyopathy.py 100.00% <100.00%> (ø)
src/vcep/cdh1.py 100.00% <100.00%> (ø)
src/vcep/dicer1.py 100.00% <100.00%> (ø)
src/vcep/enigma.py 86.55% <100.00%> (+5.60%) ⬆️
src/vcep/epilepsy_sodium_channel.py 100.00% <100.00%> (ø)
src/vcep/familial_hypercholesterolemia.py 100.00% <100.00%> (ø)
src/vcep/fbn1.py 100.00% <100.00%> (ø)
src/vcep/glaucoma.py 100.00% <100.00%> (ø)
... and 28 more

@gromdimon gromdimon marked this pull request as draft September 5, 2024 14:47
@gromdimon gromdimon marked this pull request as ready for review September 6, 2024 09:48
@gromdimon gromdimon merged commit a555a1d into main Sep 6, 2024
5 checks passed
@gromdimon gromdimon deleted the pp3-bp4-vceps branch September 6, 2024 09:49
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Implement PP3 and BP4 VCEP rules
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