variantsToVRanges: Convert variants to VRanges.
In Bioconductor/GoogleGenomics: R Client for Google Genomics API

Description Usage Arguments Value See Also Examples

Note that the Global Alliance for Genomics and Health API uses a 0-based coordinate system. For more detail, please see GA4GH discussions such as the following:

1	variantsToVRanges(variants, oneBasedCoord = TRUE, slStyle = "UCSC")

`variants`	A list of R objects corresponding to the JSON objects returned by the Google Genomics Variants API.
`oneBasedCoord`	Convert genomic positions to 1-based coordinates.
`slStyle`	The style for seqnames (chrN or N or...). Default is UCSC.

VRanges

Other variants converter functions: variantsToGRanges

# Authenticated on package load from the env variable GOOGLE_API_KEY.
variants1 <- getVariants(converter=variantsToVRanges)
summary(variants1)
variants2 <- variantsToVRanges(getVariants())
print(identical(variants1, variants2))