instrument: Get and set instrument in msgfPar objects

In MSGFplus: An interface between R and MS-GF+

Description

These functions allow you to retrieve and set the instrument type used for acquisition

Usage

instrument(object)

instrument(object) <- value

## S4 method for signature 'msgfPar'
instrument(object)

## S4 replacement method for signature 'msgfPar,numeric'
instrument(object) <- value

## S4 replacement method for signature 'msgfPar,character'
instrument(object) <- value

## S4 replacement method for signature 'msgfPar,msgfParInstrument'
instrument(object) <- value

Arguments

object	An msgfPar object
value	Either an integer, string or msgfParInstrument object

Value

In case of the getter a named integer

Methods (by class)

• msgfPar: Get the instrument currently used

• object = msgfPar,value = numeric: Set the instrument using the key for the instrument

• object = msgfPar,value = character: Set the instrument using the name of the instrument

• object = msgfPar,value = msgfParInstrument: Set the instrument using an msgfParInstrument object

See Also

Other msgfPar-getter_setter: chargeRange, db, enzyme, fragmentation, isotopeError, lengthRange, matches, mods, ntt, protocol, tda, tolerance

Examples

parameters <- msgfPar(system.file(package='MSGFplus', 'extdata', 'milk-proteins.fasta'))
instrument(parameters) <- 'TOF'
instrument(parameters) <- 3
instrument(parameters)

MSGFplus documentation built on Nov. 8, 2020, 6:48 p.m.