db: Get and set database in msgfPar objects

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

Description

These functions allow you to retrieve and set the location of the database fasta file in the msgfPar object of interest

Usage

db(object)

db(object) <- value

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

## S4 replacement method for signature 'msgfPar,character'
db(object) <- value

Arguments

object	An msgfPar object
value	A string matching the location of a fasta file

Value

In case of the getter a character vector with the location of the database file

Methods (by class)

• msgfPar: Get the database location

• object = msgfPar,value = character: Set the database location

See Also

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

Examples

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

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