openMSfile | R Documentation |
The openMSfile
constructor will create a new format-specifc
mzR
object, open 'filename' file and all header information is
loaded as a Rcpp module and made accessible through the pwiz
slot of the resulting object.
The openIDfile
constructor will create a new format-specifc
mzR
object, open 'filename' file and all information is
loaded as a Rcpp module. The mzid format is supported throught
pwiz
backend. Only mzIdentML 1.1 is supported.
openMSfile(filename, backend = NULL, verbose = FALSE) isInitialized(object) fileName(object, ...) openIDfile(filename, verbose = FALSE)
filename |
Path name of the netCDF, mzData, mzXML or mzML file to read/write. |
backend |
A |
object |
An instantiated mzR object. |
verbose |
Enable verbose output. |
... |
Additional arguments, currently ignored. |
Steffen Neumann, Laurent Gatto, Qiang Kou
library(msdata) filepath <- system.file("microtofq", package = "msdata") file <- list.files(filepath, pattern="MM14.mzML", full.names=TRUE, recursive = TRUE) mz <- openMSfile(file) fileName(mz) runInfo(mz) close(mz) ## Not run: ## to use another backend mz <- openMSfile(file, backend = "pwiz") mz ## End(Not run) file <- system.file("mzid", "Tandem.mzid.gz", package="msdata") mzid <- openIDfile(file) softwareInfo(mzid) enzymes(mzid)
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