TsoTmbTraceTsvFile R6 Class

Contains methods for reading and displaying contents of the TMB_Trace.tsv file output from TSO.

Super class

dracarys::File -> TsoTmbTraceTsvFile

Methods

Public methods

• TsoTmbTraceTsvFile$read()

• TsoTmbTraceTsvFile$write()

• TsoTmbTraceTsvFile$clone()

Inherited methods

• dracarys::File$bname()
• dracarys::File$initialize()
• dracarys::File$print()
• dracarys::File$type()

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Method read()

Reads the TMB_Trace.tsv file output from TSO.

Usage

TsoTmbTraceTsvFile$read()

Returns

tibble with variants.

---

Method write()

Writes a tidy version of the TMB_Trace.tsv file output from TSO.

Usage

TsoTmbTraceTsvFile$write(
  d,
  out_dir = NULL,
  prefix,
  out_format = "tsv",
  drid = NULL
)

Arguments

d

Parsed object from self$read().

out_dir

Output directory.

prefix

Prefix of output file(s).

out_format

Format of output file(s).

drid

dracarys ID to use for the dataset (e.g. wfrid.123, prid.456).

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Method clone()

The objects of this class are cloneable with this method.

Usage

TsoTmbTraceTsvFile$clone(deep = FALSE)

Arguments

deep

Whether to make a deep clone.

Examples

x <- system.file("extdata/tso/sample705_TMB_Trace.tsv", package = "dracarys")
d <- TsoTmbTraceTsvFile$new(x)
d_parsed <- d$read() # or read(d)
d$write(d_parsed, out_dir = tempdir(), prefix = "sample705", out_format = "tsv")