getVariantSet: getVariantSet function.

In GA4GHclient: A Bioconductor package for accessing GA4GH API data servers

Description

Get a variant set by its ID.

Usage

getVariantSet(host, variantSetId, asVCFHeader = TRUE)

Arguments

host	URL of GA4GH API data server.
variantSetId	The ID of the VariantSet to be retrieved.
asVCFHeader	If TRUE the function will return an VCFHeader object (default), otherwise it will return an DataFrame.

Details

This function requests GET host/variantsets/variantSetId.

Value

DataFrame object. It can be converted into VCFHeader object.

See Also

DataFrame, searchVariantSets, VCFHeader, makeVCFHeaderFromGA4GHResponse

Examples

host <- "http://1kgenomes.ga4gh.org/"
## Not run: 
datasetId <- searchDatasets(host, nrows = 1)$id
variantSetId <- searchVariantSets(host, datasetId, nrows = 1)$id
getVariantSet(host, variantSetId)

getVariantSet(host, variantSetId, asVCF = FALSE)

## End(Not run)

GA4GHclient documentation built on Nov. 8, 2020, 5:47 p.m.