getVariantCalls: Elaborate the result of getVariants as a VRanges with all...

In Bioconductor/GoogleGenomics: R Client for Google Genomics API

Description

Elaborate the result of getVariants as a VRanges with all calls for all samples

Usage

getVariantCalls(variantSetId = "10473108253681171589", chromosome = "22",
  start = 16051400, end = 16051500, fields = NULL, converter = c,
  oneBasedCoord = TRUE, nullAction = "stop")

Arguments

variantSetId	The dataset ID.
chromosome	The chromosome.
start	Start position on the chromosome in 0-based coordinates.
end	End position on the chromosome in 0-based coordinates.
fields	A subset of fields to retrieve. The default (NULL) will return all fields.
converter	A function that takes a list of variant R objects and returns them converted to the desired type.
oneBasedCoord	Convert returned addresses to 1-based address system
nullAction	either "stop" or "warn" telling how to deal with event in which request yields no variants; for "warn" we return NULL

Value

By default, the return value is a VRanges object. If a converter is passed, object(s) of the type returned by the converter will be returned by this function.

Examples

## Not run: 
getVariantCalls()

## End(Not run)

Bioconductor/GoogleGenomics documentation built on May 6, 2019, 7:51 a.m.