vcf_writer.close() Note that this example assumes a simple JSON structure with a list of variants, each containing chr , pos , ref , and alt fields.
Converting JSON data to VCF format is often necessary when working with genetic data stored in JSON format, such as data from the JSON-based format used by the Genome Analysis Toolkit (GATK) . There are several tools and libraries available for this conversion. json to vcf converter
References:
[1] DePristo, M. A., Banks, E., Poplin, R., Gabriel, S., Abecasis, G. R., Gabriel, S., ... & Gabriel, S. (2011). The variant call format (VCF) version 4.0. Nature Precedings, 1-10. doi: 10.1038/npre.2011.6406.1 vcf_writer
You're looking for a JSON to VCF (Variant Call Format) converter and an informative paper on the topic. Here's some information: References: [1] DePristo, M
# Load JSON data with open('input.json') as f: data = json.load(f)
# Create a VCF writer vcf_writer = vcf.Writer(open('output.vcf', 'w'), vcf.VCFHeader())