Oncoanalyser Object

Oncoanalyser file parsing and manipulation.

Super class

tidywigits::Workflow -> Oncoanalyser

Methods

Public methods

• Oncoanalyser$new()

• Oncoanalyser$clone()

Inherited methods

• tidywigits::Workflow$filter_files()
• tidywigits::Workflow$get_raw_schemas_all()
• tidywigits::Workflow$get_tbls()
• tidywigits::Workflow$get_tidy_schemas_all()
• tidywigits::Workflow$list_files()
• tidywigits::Workflow$nemofy()
• tidywigits::Workflow$print()
• tidywigits::Workflow$tidy()
• tidywigits::Workflow$write()

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Method new()

Create a new Oncoanalyser object.

Usage

Oncoanalyser$new(path = NULL)

Arguments

path

(character(n))
Path(s) to Oncoanalyser results.

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Method clone()

The objects of this class are cloneable with this method.

Usage

Oncoanalyser$clone(deep = FALSE)

Arguments

deep

Whether to make a deep clone.

Examples

if (FALSE) { # \dontrun{
path <- here::here("nogit/oa_v2")
oa <- Oncoanalyser$new(path)
x <-
  oa$nemofy(
    odir = "nogit/test_data",
    format = "parquet",
    id = "run1"
)
dbconn <- DBI::dbConnect(
  drv = RPostgres::Postgres(),
  dbname = "nemo",
  user = "orcabus"
)
x <-
  oa$nemofy(
    format = "db",
    id = "runABC456",
    dbconn = dbconn
)
} # }