hubGenerator: hubGenerator
In msubirana/ucschubgenerator: What the Package Does (One Line, Title Case)

Description Usage Arguments Value Examples

View source: R/hubGenerator.R

Generates a local folder with the basic hub structure

hubGenerator(
  path_local_hub,
  hub_name,
  hub_short_label,
  hub_long_label,
  email_address,
  description_url = NULL,
  assembly_database,
  gattaca_html = "http://gattaca.imppc.org/genome_browser/lplab",
  gattaca_folder_hub
)

`path_local_hub`	Local folder of the hub where the files generated will be saved. A folder with the `hub_name` will be generated.
`hub_name`	Single-word name of the directory containing the track hub files. Not displayed to hub users.
`hub_short_label`	The short name for the track hub. Suggested maximum length is 17 characters. Displayed as the hub name on the Track Hubs page and the track group name on the browser tracks page.
`hub_long_label`	Longer descriptive label for the track hub. Suggested maximum length is 80 characters. Displayed in the description field on the Track Hubs page.
`email_address`	Email that will be provided in the hub for contact info.
`description_url`	URL to HTML page with a description of the hub's contents.
`assembly_database`	Reference genome used for alignment.
`gattaca_folder_hub`	Folder in the server where to save hub directory

Creates a folder with the basics (hub.txt and genomes.txt) for the generation of a UCSC hub (based on gattaca server).

path_tracks <- path
hub_name <- 'example_hub_multiple'
path_local_hub <- file.path(path, 'hubs')
dir.create(path_local_hub)
hub_short_label <- hub_name
hub_long_label <- 'Example of ucschubgenerator using different type of files and parameters'
email_address <- 'example@email.com'
assembly_database <- 'hg38'
gattaca_folder_hub <- 'exampleHub'
hubGenerator(path_local_hub = path_local_hub,
            hub_name = hub_name,
            hub_short_label = hub_short_label,
            hub_long_label = hub_long_label,
            email_address = email_address,
            description_url = NULL,
            assembly_database = assembly_database,
            gattaca_folder_hub = gattaca_folder_hub)