MS Data Analysis

Description Objects from the Class Slots Extends Methods Author(s) See Also Examples

An implementation of xcmsSource which can load from netCDF files.

Objects can be created by calling new("rampSource", path). Upon creation, the presence and format of the file at path is checked.

.Data:: Object of class "character". File path of a file from which to read raw data as the object's data part.
cdf:: Object of class "integer". Internal file descriptor of netCDF file. There is no need to access this slot.

Class "xcmsFileSource", directly. Class "character", by class "xcmsFileSource", distance 2. Class "xcmsSource", by class "xcmsFileSource", distance 2.

initialize: signature(.Object = "rampSource", path = "character"): Create a new rampSource and try to open the file at path
loadRaw: signature(object = "rampSource"): Read and return the data from the file. Value is that of loadRaw

Daniel Hackney, dan@haxney.org

xcmsSource, loadRaw-methods

## Not run: 
library(xcms)
library(msdata)

mzpath <- system.file("iontrap", package = "msdata")
mzfile <- list.files(mzpath, pattern = "extracted.mzData",
                        recursive = TRUE, full.names = TRUE)[[1]]

## nc is a reference to the netCDF file
ramp <- new("rampSource", mzfile)

rawdata <- loadRaw(ramp)
## The raw data has over 1,000 scans, so don't try to print them all out!
summary(rawdata)

## End(Not run)