rTResult-class {rTANDEM} | R Documentation

## Class "rTResult" and "rTResult_s"

### Description

A rTResult object is designed to contain the information of a X!Tandem analysis and allow data mining of this information. rTResult_s is a sub-class that adds a data.table slot for holding spectra.

### Objects from the Class

Objects can be created by calls to `new("rTResult", ...)` or `new("rTResult_s", ...)`.

### Slots

`result.file`:

  Object of class `"character"` ~~

`proteins`:

  Object of class `"data.table"` ~~

`peptides`:

  Object of class `"data.table"` ~~

`ptm`:

  Object of class `"data.table"` ~~

`spectra`:

  Object of class `"data.table"` ~~

`used.parameters`:

  Object of class `"data.frame"` ~~

`unused.parameters`:

  Object of class `"vector"` ~~

`sequence.source.paths`:

  Object of class `"vector"` ~~

`estimated.false.positive`:

  Object of class `"integer"` ~~

`total.peptides.used`:

  Object of class `"integer"` ~~

`total.proteins.used`:

  Object of class `"integer"` ~~

`total.spectra.assigned`:

  Object of class `"integer"` ~~

`total.spectra.used`:

  Object of class `"integer"` ~~

`total.unique.assigned`:

  Object of class `"integer"` ~~

`start.time`:

  Object of class `"character"` ~~

`xtandem.version`:

  Object of class `"character"` ~~

`quality.values`:

  Object of class `"vector"` ~~

`nb.input.models`:

  Object of class `"integer"` ~~

`nb.input.spectra`:

  Object of class `"integer"` ~~

`nb.partial.cleavages`:

  Object of class `"integer"` ~~

`nb.point.mutations`:

  Object of class `"integer"` ~~

`nb.potential.C.terminii`:

  Object of class `"integer"` ~~

`nb.potential.N.terminii`:

  Object of class `"integer"` ~~

`nb.unanticipated.cleavages`:

  Object of class `"integer"` ~~

`initial.modelling.time.total`:

  Object of class `"numeric"` ~~

`initial.modelling.time.per.spectrum`:

  Object of class `"numeric"` ~~

`load.sequence.models.time`:

  Object of class `"numeric"` ~~

`refinement.per.spectrum.time`:

  Object of class `"numeric"` ~~

### Methods

No methods defined with class "rTResult" in the signature.

### Author(s)

Authors: Frederic Fournier, Charles Joly Beauparlant, Rene Paradis, Arnaud Droit Maintainer: Frederic Fournier <frederic.fournier@crchuq.ulaval.ca>, Charles Joly Beauparlant <charles.joly-beauparlant@crchul.ulaval.ca>

### Examples

    showClass("rTResult")

[Package rTANDEM version 1.24.0 Index]