bedr.setup: Initialize some config settings for bedr

In bedr: Genomic Region Processing using Tools Such as 'BEDTools', 'BEDOPS' and 'Tabix'

Description

Initialize some config settings for bedr. This includes downloading useful datasets if requested.

Usage

bedr.setup(datasets = "all", data.dir = paste0(Sys.getenv("HOME"), "/bedr/data"))

Arguments

datasets	A list of datasets to download. Defaults to "all" i.e. c("refgene","hg19","b37","hugo", "cosmic","clinvar")
data.dir	A directory to put the data. Defaults to ~/bedr/data

Details

The default config file is at ~/bedr/config.yml. It's in yaml format.

Author(s)

Daryl Waggott

Examples

## Not run: 
  bedr.setup()
  
## End(Not run)

bedr documentation built on May 2, 2019, 11:36 a.m.