ntt: Get and set cleavage specificity in msgfPar objects

Description Usage Arguments Value Methods (by class) See Also Examples

Description

These functions allow you to retrieve and set the quality of cleavage allowed during search in MS-GF+ (number of tolerable termini - ntt)

Usage

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ntt(object)

ntt(object) <- value

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

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

## S4 replacement method for signature 'msgfPar,msgfParNtt'
ntt(object) <- value

Arguments

object

An msgfPar object

value

An integer or an msgfParNtt object

Value

In case of the getter an integer between 0 and 2

Methods (by class)

See Also

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

Examples

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parameters <- msgfPar(system.file(package='MSGFplus', 'extdata', 'milk-proteins.fasta'))
ntt(parameters) <- 2
ntt(parameters)

MSGFplus documentation built on June 23, 2017, 4:41 a.m.

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