Get and set the parent tolerance in msgfPar objects
These functions allow you to retrieve and set the tolerance used for matching parent ions to peptides in the database
tolerance(object) tolerance(object) <- value toleranceRange(object) toleranceRange(object) <- value toleranceUnit(object) toleranceUnit(object) <- value ## S4 method for signature 'msgfPar' tolerance(object) ## S4 method for signature 'msgfPar' toleranceRange(object) ## S4 method for signature 'msgfPar' toleranceUnit(object) ## S4 replacement method for signature 'msgfPar,numeric' toleranceRange(object) <- value ## S4 replacement method for signature 'msgfPar,character' toleranceUnit(object) <- value ## S4 replacement method for signature 'msgfPar,character' tolerance(object) <- value ## S4 replacement method for signature 'msgfPar,msgfParTolerance' tolerance(object) <- value
object |
An msgfPar object |
value |
For tolerance a character vector of length 2, each element of the form '<value> <unit>'. For toleranceUnit a string. For toleranceRange a numeric vector of length 2. |
For tolerance a character vector with the lower and upper tolerance limit with unit. For toleranceUnit a string with the unit used. For toleranceRange a numeric vector with lower and upper tolerance limit.
msgfPar: Get the lower and upper bounds of the tolerance
msgfPar: Get the lower and upper bounds of the tolerance
msgfPar: Get the unit the tolerance is measured in
object = msgfPar,value = numeric: Set the lower and upper bounds of the tolerance using a
numeric vector of length 2
object = msgfPar,value = character: Set the unit the tolerance is meassured in
object = msgfPar,value = character: Set the lower and upper bounds of the tolerance using a
character vector of length 2, where each element is of the form '<value>
<unit>'
object = msgfPar,value = msgfParTolerance: Set the lower and upper bounds of the tolerance using
an msgfParTolerance object
Other msgfPar-getter_setter: chargeRange,
db, enzyme,
fragmentation, instrument,
isotopeError, lengthRange,
matches, mods,
ntt, protocol,
tda
parameters <- msgfPar(system.file(package='MSGFplus', 'extdata', 'milk-proteins.fasta'))
tolerance(parameters) <- c('20 ppm', '20 ppm')
toleranceUnit(parameters) <- 'Da'
toleranceRange(parameters) <- c(1.5, 1.5)
tolerance(parameters)Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.