msgfParNtt-class: A class handling cleavage specificity

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

Description

This class defines cleavage specificity and provides methods to get correct system call parameters.

Usage

## S4 method for signature 'msgfParNtt'
show(object)

## S4 method for signature 'msgfParNtt'
length(x)

## S4 method for signature 'msgfParNtt'
getMSGFpar(object)

msgfParNtt(value)

Arguments

object	An msgfParNtt object
x	An msgfParNtt object
value	An integer between 0 and 2 that specifies the specificity (2: full cleavage, 1: semi specific cleavage, 0: no specificity)

Value

For length() An integer.

For getMSGFpar() A string.

For msgfParNtt() An msgfParNtt object.

Methods (by generic)

• show: Short summary of msgfParNtt object

• length: Report the length of an msgfParNtt object

• getMSGFpar: Get system compliant function call

Slots

value

An integer between 0 and 2 that specifies the specificity (2: full cleavage, 1: semi specific cleavage, 0: no specificity)

See Also

Other msgfParClasses: msgfPar-class, msgfParChargeRange-class, msgfParEnzyme-class, msgfParFragmentation-class, msgfParInstrument-class, msgfParIsotopeError-class, msgfParLengthRange-class, msgfParMatches-class, msgfParModification-class, msgfParModificationList-class, msgfParProtocol-class, msgfParTda-class, msgfParTolerance-class, msgfPar

Examples

ntt <- msgfParNtt(2)

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