get_tracks_dir: get_tracks_dir Get the directory where tracks are stored. The...

In paul-shannon/igvShiny: igvShiny: a wrapper of Integrative Genomics Viewer (IGV - an interactive tool for visualization and exploration integrated genomic data)

get_tracks_dir Get the directory where tracks are stored. The directory can be defined with environmental variable. If not defined the default is a directory called "tracks" in the temp directory. We need a local directory to write files - for instance, a vcf file representing a genomic region of interest. We then tell shiny about that directory, so that shiny's built-in http server can serve up files we write there, ultimately consumed by igv.js

Description

get_tracks_dir Get the directory where tracks are stored. The directory can be defined with environmental variable. If not defined the default is a directory called "tracks" in the temp directory. We need a local directory to write files - for instance, a vcf file representing a genomic region of interest. We then tell shiny about that directory, so that shiny's built-in http server can serve up files we write there, ultimately consumed by igv.js

Usage

get_tracks_dir(env_var = "TRACKS_DIR")

Arguments

env_var

The name of the environmental variable to use.

Value

string with the path to the tracks directory.

Examples

gtd <- get_tracks_dir(env_var = "TRACKS_DIR")

paul-shannon/igvShiny documentation built on April 25, 2024, 7:38 a.m.