GCIMS Generics

Generics defined at the GCIMS package. We are open to moving them to an existing generics-only package if you need so.

dtime(object, ...)

getTIS(object, ...)

getRIC(object, ...)

plotTIS(object, ...)

plotRIC(object, ...)

filterDt(object, ...)

decimate(object, ...)

align(object, ...)

prealign(object, ...)

estimateBaseline(object, ...)

baseline(object, ...)

baseline(object) <- value

integratePeaks(object, ...)

Arguments

object

An object to get the baseline

...

Additional arguments for downstream methods

value

baseline to set

Value

A numeric vector with the drift time

The Total Ion Spectrum as a numeric vector or a matrix (depending if the object is one sample or several)

The Reverse Ion Chromatogram, as a numeric vector or a matrix (depending if the object is one sample or several)

A plot

A plot

The object, modified

The object, modified

The object, modified

The object, modified

The object, with a baseline estimated

The baseline of the object

The object

The object, with integrated peaks

Functions

  • dtime(): Get drift time vector

  • getTIS(): Get the Total Ion Spectrum

  • getRIC(): Get the Reverse Ion Chromatogram

  • plotTIS(): Plot total ion spectrum

  • plotRIC(): Plot Reverse Ion Chromatogram

  • filterDt(): Filter in Drift time

  • decimate(): Decimate an object

  • align(): Align an object

  • prealign(): Align an object in drift time

  • estimateBaseline(): Estimate the baseline in an object

  • baseline(): Get the baseline of an object

  • baseline(object) <- value: Set the baseline of an object

  • integratePeaks(): Integrate peaks of an object

Examples

x <- GCIMSSample(
  drift_time = 1:2,
  retention_time = 1:3,
  data = matrix(1:6, nrow = 2, ncol = 3)
)
dtime(x) # c(1,2)
#> [1] 1 2