msgfParTda-class: A class handling use of target-decoy approach for FDR...

In thomasp85/MSGFplus: An interface between R and MS-GF+

A class handling use of target-decoy approach for FDR estimation

Description

This class defines whether to use target-decoy approach and provides methods to get correct system call parameters.

Usage

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

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

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

msgfParTda(value)

Arguments

object	An msgfParTda object
x	An msgfParTda object
value	A boolean defining whether to use tda or not

Value

For length() An integer.

For getMSGFpar() A string.

For msgfParTda() An msgfParTda object.

Methods (by generic)

• show: Short summary of msgfParTda object

• length: Report the length of an msgfParTda object

• getMSGFpar: Get system compliant function call

Slots

tda

A boolean defining whether to use tda or not

See Also

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

Examples

tda <- msgfParTda(TRUE)

thomasp85/MSGFplus documentation built on Oct. 2, 2024, 9:26 a.m.