Convert GWAS summary statistics to the variant call format

A common format to store GWAS summary data and associated metadata to aid with data sharing and tool development (manuscript in preparation)

The VCF format has a number of benefits:

Requirements

This tool expects GWAS summary statistics in tabular format, one variant per row. The minimum required fields are:

Usage

Users may run the tool on their own hardware by downloading Gwas2VCF

For online submissions:

  1. Fill in the form below, provide as much information as possible
  2. Record the unique job identifier
  3. Check job status
  4. Download GWAS-VCF
  5. Parse GWAS-VCF in R or Python and connect to downstream analyses using gwasglue
Example
  1. Download a subset of the GLGC (Willer CJ et al, 2013) GWAS of LDL cholesterol:
  2. curl -o 'example.txt' 'https://raw.githubusercontent.com/MRCIEU/gwas2vcfweb/master/app/tests/data/example.1k.txt'
  3. Complete submission fields or click populate
  4. Select file for upload
  5. Submit form
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