faahko {faahKO} | R Documentation

## FAAH knockout LC/MS data xcmsSet

### Description

`xcmsSet` object containing quantitated LC/MS peaks from the spinal cords of 6 wild-type and 6 FAAH knockout mice. The data is a subset of the original data from 200-600 m/z and 2500-4500 seconds. It was collected in positive ionization mode.

### Usage

    data(faahko)

### Format

The format is:

    Formal class 'xcmsSet' [package "xcms"] with 8 slots
      ..@ peaks    : num [1:4776, 1:11] 200 201 205 206 207 ...
      ..@ groups   : logi[0 , 0 ]
      ..@ groupidx : list()
      ..@ sampnames: chr [1:12] "ko15" "ko16" "ko18" "ko19" ...
      ..@ sampclass: Factor w/ 2 levels "KO","WT": 1 1 1 1 1 1 2 2 2 2 ...
      ..@ rt       :List of 2
      .. ..$ raw      :List of 12
      .. ..$ corrected:List of 12
      ..@ cdfpaths : chr [1:12] ...
      ..@ profinfo :List of 2
      .. ..$ method: chr "bin"
      .. ..$ step  : num 0.1

### Details

The corresponding raw NetCDF files are located in the `cdf` subdirectory of this package.

### Source

http://dx.doi.org/10.1021/bi0480335

### References

Saghatelian A, Trauger SA, Want EJ, Hawkins EG, Siuzdak G, Cravatt BF. Assignment of endogenous substrates to enzymes by global metabolite profiling. Biochemistry. 2004 Nov 16;43(45):14332-9.

### See Also

`xcmsSet`, `xcmsRaw`

### Examples

    ## The directory with the NetCDF LC/MS files
    cdfpath <- file.path(.find.package("faahKO"), "cdf")
    cdfpath
    list.files(cdfpath, recursive = TRUE)

    if (require(xcms)) {

    ## xcmsSet Summary
    show(faahko)

    ## Access raw data file
    ko15 <- xcmsRaw(cdfpaths(faahko)[1], profmethod = "bin", profstep = 0.1)
    ko15

    }

[Package faahKO version 1.2.0 Index]