Teal Object

Teal file parsing and manipulation.

Super class

nemo::Tool -> Teal

Methods

Public methods

• Teal$new()

• Teal$parse_breakend()

• Teal$tidy_breakend()

• Teal$parse_tellength()

• Teal$tidy_tellength()

• Teal$clone()

Inherited methods

• nemo::Tool$.eval_func()
• nemo::Tool$.parse_file()
• nemo::Tool$.parse_file_keyvalue()
• nemo::Tool$.parse_file_nohead()
• nemo::Tool$.tidy_file()
• nemo::Tool$filter_files()
• nemo::Tool$list_files()
• nemo::Tool$nemofy()
• nemo::Tool$print()
• nemo::Tool$tidy()
• nemo::Tool$write()

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Method new()

Create a new Teal object.

Usage

Teal$new(path = NULL, files_tbl = NULL)

Arguments

path

(character(1))
Output directory of tool. If files_tbl is supplied, this basically gets ignored.

files_tbl

(tibble(n))
Tibble of files from nemo::list_files_dir().

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Method parse_breakend()

Read breakend.tsv file.

Usage

Teal$parse_breakend(x)

Arguments

x

(character(1))
Path to file.

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Method tidy_breakend()

Tidy breakend.tsv file.

Usage

Teal$tidy_breakend(x)

Arguments

x

(character(1))
Path to file.

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Method parse_tellength()

Read tellength.tsv file.

Usage

Teal$parse_tellength(x)

Arguments

x

(character(1))
Path to file.

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Method tidy_tellength()

Tidy tellength.tsv file.

Usage

Teal$tidy_tellength(x)

Arguments

x

(character(1))
Path to file.

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Method clone()

The objects of this class are cloneable with this method.

Usage

Teal$clone(deep = FALSE)

Arguments

deep

Whether to make a deep clone.

Examples

cls <- Teal
indir <- system.file("extdata/oa", package = "tidywigits")
odir <- tempdir()
id <- "teal_run1"
obj <- cls$new(indir)
obj$nemofy(diro = odir, format = "parquet", input_id = id)
#> NULL
(lf <- list.files(odir, pattern = "teal.*parquet", full.names = FALSE))
#> character(0)