├── .github └── workflows │ └── test vcf simplify.yml ├── .gitignore ├── LICENSE ├── README.md ├── VcfSimplify.py ├── assign_task ├── __init__.py ├── author_name.py ├── build_arg.py ├── perform_operation.py ├── simplify_arg.py └── sub_argparsers.py ├── conftest.py ├── exampleInput ├── big_input_test.vcf.zip ├── input_test.vcf ├── logs.txt ├── testOutput.dict ├── testOutput.json └── testOutput.table ├── exampleOutput ├── VCFspecAndSample.txt ├── hapToVCF.vcf ├── modified_haplotype.txt ├── simple_haplotype.txt ├── simple_table.txt ├── tableToVCF.vcf ├── tableToVcf.vcf ├── testOutput.dict ├── testOutput.json ├── testOutput.table ├── vcf_header.txt └── vcf_header02.txt ├── metadata_parser ├── __init__.py ├── utils.py ├── vcf_metadata_parser.py └── vcf_metadata_writer.py ├── records_parser ├── __init__.py ├── buildvcf │ ├── __init__.py │ ├── from_haplotype.py │ └── from_table.py ├── simplifyvcf │ ├── __init__.py │ ├── to_haplotype.py │ └── to_table.py ├── vcf_records_parser.py └── 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