Given a folder containing region collections in subfolders, this function will either read the annotation file if one exists, or create a generic annotation file.

Given a folder containing region collections in subfolders, this function will either read the annotation file if one exists, or create a generic annotation file.

readRegionSetAnnotation(dbLocation, collections = NULL,
  refreshCaches = FALSE, refreshSizes = TRUE, useCache = TRUE)

Arguments

dbLocation

folder where your regionDB is stored.
collections

Restrict the database loading to this list of collections Leave NULL to load the entire database (Default).
refreshCaches

should I recreate the caches? Default: FALSE
refreshSizes

should I refresh the size files? Default:TRUE
useCache

Use simpleCache to store results and load them?

Value

Region set annotation (data.table)

Examples

dbPath = system.file("extdata", "hg19", package="LOLA")
regionAnno = readRegionSetAnnotation(dbLocation=dbPath)
#> Reading region annotations...
#> ::Loading cache::	/sfs/lustre/scratch/ns5bc/code/LOLA/inst/extdata/hg19/ucsc_example//ucsc_example_files.RData