Preview

PGScatalog-pgscatalog_utils-b5962bf
- .github
  - workflows
    - main.yml
      
      516 Bytes
    - push_dev_image.yml
      
      2.6 kB
    - push_image_release.yml
      
      3.0 kB
    - pypi_publish.yml
      
      1.3 kB
- .gitignore
  
  3.1 kB
- .pre-commit-config.yaml
  
  184 Bytes
- Dockerfile
  
  480 Bytes
- LICENSE
  
  11.4 kB
- Makefile
  
  135 Bytes
- README.md
  
  3.6 kB
- conftest.py
  
  5.6 kB
- install.sh
  
  247 Bytes
- pgscatalog_utils
  - __init__.py
    
    22 Bytes
  - aggregate
    - __init__.py
      
      0 Bytes
    - aggregate_scores.py
      
      4.7 kB
  - ancestry
    - __init__.py
      
      0 Bytes
    - ancestry_analysis.py
      
      9.4 kB
    - read.py
      
      3.2 kB
    - tools.py
      
      26.2 kB
  - config.py
    
    2.5 kB
  - download
    - Catalog.py
      
      6.8 kB
    - CatalogCategory.py
      
      122 Bytes
    - GenomeBuild.py
      
      700 Bytes
    - ScoringFile.py
      
      1.4 kB
    - ScoringFileChecksum.py
      
      2.0 kB
    - ScoringFileDownloader.py
      
      2.4 kB
    - __init__.py
      
      0 Bytes
    - download_file.py
      
      3.0 kB
    - download_scorefile.py
      
      7.0 kB
  - match
    - __init__.py
      
      0 Bytes
    - combine_matches.py
      
      4.7 kB
    - filter.py
      
      2.8 kB
    - label.py
      
      14.9 kB
    - log.py
      
      3.9 kB
    - match.py
      
      4.4 kB
    - match_variants.py
      
      14.9 kB
    - preprocess.py
      
      2.1 kB
    - read.py
      
      2.2 kB
    - tempdir.py
      
      1.7 kB
    - write.py
      
      7.5 kB
  - pgsexceptions.py
    
    4.1 kB
  - relabel
    - relabel_ids.py
      
      6.6 kB
  - scorefile
    - __init__.py
      
      0 Bytes
    - combine_scorefiles.py
      
      5.2 kB
    - config.py
      
      302 Bytes
    - effectallele.py
      
      1.8 kB
    - effecttype.py
      
      338 Bytes
    - liftover.py
      
      2.5 kB
    - qc.py
      
      7.2 kB
    - scorevariant.py
      
      4.7 kB
    - scoringfile.py
      
      6.4 kB
    - scoringfileheader.py
      
      2.9 kB
    - write.py
      
      6.0 kB
  - target.py
    
    10.3 kB
  - validate
    - __init__.py
      
      0 Bytes
    - common_constants.py
      
      1.9 kB
    - formatted
      - __init__.py
        
        0 Bytes
      - validator.py
        
        8.9 kB
    - harmonized_position
      - __init__.py
        
        0 Bytes
      - validator.py
        
        4.6 kB
    - helpers.py
      
      916 Bytes
    - schemas.py
      
      8.9 kB
    - validate_scorefile.py
      
      7.0 kB
    - validator_base.py
      
      17.1 kB
- poetry.lock
  
  261.9 kB
- poetry.toml
  
  46 Bytes
- pyproject.toml
  
  1.6 kB
- tests
  - __init__.py
    
    0 Bytes
  - data
    - cineca_22_additive_0.sscore.zst
      
      33.5 kB
    - combine
      - PGS000802_hmPOS_GRCh37.txt
        
        2.6 kB
      - PGS001229_22.txt
        
        41.1 kB
      - scorefile.txt
        
        23.5 kB
    - hg19ToHg38.over.chain.gz
      
      227.7 kB
    - hg38ToHg19.over.chain.gz
      
      1.2 MB
    - test_scoring_file_1.txt.gz
      
      1.1 kB
    - test_scoring_file_2.txt.gz
      
      877 Bytes
    - test_scoring_file_3.txt.gz
      
      876 Bytes
    - test_scoring_file_4.txt.gz
      
      1.1 kB
    - test_scoring_file_hmpos_37_1.txt.gz
      
      1.3 kB
    - test_scoring_file_hmpos_37_2.txt.gz
      
      1.2 kB
    - test_scoring_file_hmpos_37_3.txt.gz
      
      973 Bytes
    - test_scoring_file_hmpos_38_1.txt.gz
      
      1.3 kB
    - test_scoring_file_hmpos_38_2.txt.gz
      
      1.2 kB
    - test_scoring_file_hmpos_38_3.txt.gz
      
      975 Bytes
  - match
    - __init__.py
      
      0 Bytes
    - test_combine.py
      
      2.5 kB
    - test_label.py
      
      8.8 kB
    - test_match.py
      
      6.8 kB
  - test_aggregate.py
    
    751 Bytes
  - test_combine.py
    
    4.4 kB
  - test_download.py
    
    4.5 kB
  - test_liftover.py
    
    1.2 kB
  - test_validate.py
    
    4.9 kB

PGScatalog/pgscatalog_utils-v0.5.3.zip