https://github.com/dridk/vcf-parser

vcf parser with annotation
https://github.com/dridk/vcf-parser

Last synced: about 1 month ago
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vcf parser with annotation

• Host: GitHub
• URL: https://github.com/dridk/vcf-parser
• Owner: dridk
• License: agpl-3.0
• Created: 2020-07-03T13:10:16.000Z (almost 5 years ago)
• Default Branch: master
• Last Pushed: 2021-10-01T13:48:52.000Z (over 3 years ago)
• Last Synced: 2025-01-31T17:52:25.373Z (3 months ago)
• Language: Python
• Size: 32.2 KB
• Stars: 1
• Watchers: 3
• Forks: 1
• Open Issues: 0
• Metadata Files:
  • Readme: Readme.md
  • License: LICENSE

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README

        
## Annotated VCF parser 

It supports vep and snpeff annotations

```python

from vcfReader import VcfReader

reader = VcfReader("myvcf.vcf", "vep")

for variant in reader.get_variants(): 

  print(variant["annotations"][0]["impact"]

 

```