isotopeError: Get and set isotope error in msgfPar objects

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

Description

These functions allow you to retrieve and set the isotope error used when calculating the parent ion error range

Usage

isotopeError(object)

isotopeError(object) <- value

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

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

## S4 replacement method for signature 'msgfPar,msgfParIsotopeError'
isotopeError(object) <- value

Arguments

object	An msgfPar object
value	Either an integer vector or an msgfParIsotopeError object

Value

In case of the getter an integer vector

Methods (by class)

• msgfPar: Get the isotope error currently used

• object = msgfPar,value = numeric: Set the isotope error with an integer vector

• object = msgfPar,value = msgfParIsotopeError: Set the isotope error with an msgfParIsotopeError object

See Also

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

Examples

parameters <- msgfPar(system.file(package='MSGFplus', 'extdata', 'milk-proteins.fasta'))
isotopeError(parameters) <- c(0, 3)
isotopeError(parameters)

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