Initialize GenomicDataStream

Read file info from path to initialise stream. If already initialized, return to the beginning of the stream

Usage

initializeStream(x, region = NULL)

Arguments

x

GenomicDataStream

region

target in the format chr2:1-12345. Multiple regions can be separated by one of ",\n\t", for example "chr2:1-12345, chr3:1000-8000". Setting region to "" includes all variants

Value

initialized GenomicDataStream

Examples

file <- system.file("extdata", "test.vcf.gz", package = "GenomicDataStream")

obj <- GenomicDataStream(file, "DS", chunkSize = 5)

# by default, GenomicDataStream is not initialized
isInitialized(obj)
#> [1] FALSE

# initialize
obj <- initializeStream(obj)

isInitialized(obj)
#> [1] TRUE