Single Variant Report
The OpenCRAVAT Variant Report is an annotation viewer for a single variant. It includes information from most OpenCRAVAT annotators. Because it requires most annotators to be installed, it is not recommended to install it locally. Instead, the Variant Report can be viewed on run.opencravat.org.
Adding a variant
Variants can be viewed by inputing their chromosome, position, reference allele, and alternate allele in the input fields at the top left of the page. Alternatively, an HGVS g. or c. string can be provided. Variants must be on the GRCh38/hg38 assembly. To convert variants from other assemblies, we recommend LiftOver.
Using a URL
Variants can also be directly linked. Simple include the allele infomation in the URL according to the template.
https://run.opencravat.org/webapps/variantreport/index.html?chrom=<Chromosome>&pos=<Position>&ref_base=<RefAllele>&alt_base=<AltAllele>
The input fields in the page will be pre-filled with the variant from the URL.
HGVS strings can also be used in the URL according to this template. Note that HGVS contains reserved characters, so they need to be URL Encoded, which can be done from a tool such as URL Encoder.
https://run.opencravat.org/webapps/variantreport/index.html?hgvs=<HGVS_String>
The direct links can be used to easily link to the Variant Report from other pages.