VariantGrid is a database and web application for storing, analysing and classifying variants.
Upload VCFs to:
- Automatically annotate with Ensembl VEP
- See samples from all VCFs that share a variant
- Analyse and filter samples, trios or cohorts via real time drag & drop interactive analyses
- Classify variants using customisable ACMG form
- GRCh37 (hg19), GRCh38, Ensembl and RefSeq in the same database (some automatic conversion)
- Manage and curate data, including patient phenotypes
It is free to use for research and evaluation, while production commercial use requires a licence, before code becomes fully free/open source in 4 years. This is our attempt to obtain sustainable funding to for future development. See Licence discussion
Private servers:
- Clinical/diagnostic use by SA Pathology, the South Australian public pathology service.
- Research exomes by labs at the Centre for Cancer Biology
Public data sharing sites:
- https://shariant.org.au - Australian Genomics variant classification sharing server
- https://runx1db.runx1-fpd.org - Rare blood disease data sharing
This wiki is for a technical audience looking to install/modify VariantGrid code. For users of the software, please see:
- User guide at read the docs
- VariantGrid.com main site, and research cloud server
- Contact us and we can setup and manage a cloud instance for you
- Install from source/scratch
- Clone a VM (AWS, VirtualBox, NECTAR, NCBI instances)
Written in Python3, using Django and PostgreSQL. See wiki for technical details