Get and set fragmentation in msgfPar objects
These functions allow you to retrieve and set the fragmentation method used during acquisition
fragmentation(object) fragmentation(object) <- value ## S4 method for signature 'msgfPar' fragmentation(object) ## S4 replacement method for signature 'msgfPar,numeric' fragmentation(object) <- value ## S4 replacement method for signature 'msgfPar,character' fragmentation(object) <- value ## S4 replacement method for signature 'msgfPar,msgfParFragmentation' fragmentation(object) <- value
object |
An msgfPar object |
value |
Either an integer, string or msgfParFragmentation object |
In case of the getter a named integer
msgfPar: Get the fragmentation method currently used
object = msgfPar,value = numeric: Set the fragmentation method using the key for the
method
object = msgfPar,value = character: Set the fragmentation method using the name of the
method
object = msgfPar,value = msgfParFragmentation: Set the fragmentation method using an
msgfParFragmentation object
Other msgfPar-getter_setter: chargeRange,
db, enzyme,
instrument, isotopeError,
lengthRange, matches,
mods, ntt,
protocol, tda,
tolerance
parameters <- msgfPar(system.file(package='MSGFplus', 'extdata', 'milk-proteins.fasta')) fragmentation(parameters) <- 'CID' fragmentation(parameters) <- 3 fragmentation(parameters)
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