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GitHub / jeremiahwander / automated-interpretation-pipeline
Rare Disease variant prioritisation MVP
Fork of populationgenomics/automated-interpretation-pipeline
Stars: 0
Forks: 0
Open Issues: 0
License: mit
Language: Python
Repo Size: 2.47 MB
Dependencies:
43
Created: almost 2 years ago
Updated: 6 days ago
Last pushed: 6 days ago
Last synced: 6 days ago
Files
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Readme
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Dependencies
- actions/checkout main composite
- azure/docker-login v1 composite
.github/workflows/docker.yaml
actions
- actions/checkout main composite
- google-github-actions/auth v0 composite
- google-github-actions/setup-gcloud v0 composite
.github/workflows/lint.yaml
actions
- actions/checkout v2 composite
- actions/setup-python v2 composite
.github/workflows/test.yaml
actions
- actions/checkout v2 composite
- actions/setup-python v2 composite
- actions/checkout main composite
- google-github-actions/auth v0 composite
- google-github-actions/setup-gcloud v0 composite
Dockerfile
docker
- $BASE_CR/cpg-common/images/cpg_workflows latest build
requirements-dev.txt
pypi
- bump2version >=1.0.1 development
- pytest >=7.0.1 development
- pytest-cov >=3.0.0 development
- pytest-xdist >=2.5.0 development
- requests_mock >=1.9.3 development
- black ==22.3.0
- pre-commit >=2.21.0
- pylint >=2.15.0
requirements.txt
pypi
- Jinja2 ==3.0.3
- analysis-runner-ms >=0.9.8
- cloudpathlib >=0.9.0
- cpg-utils-ms >=1.2.4
- cpg-workflows-ms >=0.1.7
- cyvcf2 >=0.30.18
- dill >=0.3.5.1
- hail >=0.2.105
- networkx >=2.8.3
- obonet >=0.3.1
- pandas >=1.4.3
- peddy >=0.4.8
- requests >=2.25.1
- sample-metadata-ms >=0.7.1
- seqr-loader >=1.2.5
- tabulate >=0.8.9
- google-github-actions/auth v1 composite
- google-github-actions/setup-gcloud v1 composite
- google-github-actions/auth v1 composite
- google-github-actions/setup-gcloud v1 composite
pyproject.toml
pypi