msgfParNtt-class: A class handling cleavage specificity

Description Usage Arguments Value Methods (by generic) Slots See Also Examples

Description

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

Usage

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## 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: [[,msgfParModificationList,numeric,missing-method, [[<-,msgfParModificationList,numeric,missing,msgfParModification-method, getMSGFpar,msgfParModificationList-method, length,msgfParModificationList-method, msgfParModificationList, msgfParModificationList-class, show,msgfParModificationList-method; getMSGFpar,msgfPar-method, length,msgfPar-method, msgfPar-class, runMSGF,msgfPar-method, show,msgfPar-method; getMSGFpar,msgfParChargeRange-method, length,msgfParChargeRange-method, msgfParChargeRange, msgfParChargeRange-class, show,msgfParChargeRange-method; getMSGFpar,msgfParEnzyme-method, length,msgfParEnzyme-method, msgfParEnzyme, msgfParEnzyme-class, show,msgfParEnzyme-method; getMSGFpar,msgfParFragmentation-method, length,msgfParFragmentation-method, msgfParFragmentation, msgfParFragmentation-class, show,msgfParFragmentation-method; getMSGFpar,msgfParInstrument-method, length,msgfParInstrument-method, msgfParInstrument, msgfParInstrument-class, show,msgfParInstrument-method; getMSGFpar,msgfParIsotopeError-method, length,msgfParIsotopeError-method, msgfParIsotopeError, msgfParIsotopeError-class, show,msgfParIsotopeError-method; getMSGFpar,msgfParLengthRange-method, length,msgfParLengthRange-method, msgfParLengthRange, msgfParLengthRange-class, show,msgfParLengthRange-method; getMSGFpar,msgfParMatches-method, length,msgfParMatches-method, msgfParMatches, msgfParMatches-class, show,msgfParMatches-method; getMSGFpar,msgfParModification-method, msgfParModification, msgfParModification-class, show,msgfParModification-method; getMSGFpar,msgfParProtocol-method, length,msgfParProtocol-method, msgfParProtocol, msgfParProtocol-class, show,msgfParProtocol-method; getMSGFpar,msgfParTda-method, length,msgfParTda-method, msgfParTda, msgfParTda-class, show,msgfParTda-method; getMSGFpar,msgfParTolerance-method, length,msgfParTolerance-method, msgfParTolerance, msgfParTolerance-class, show,msgfParTolerance-method; msgfPar

Examples

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MSGFplus documentation built on May 20, 2017, 10:12 p.m.
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