MSImagingExperiment#

class pyopenms.MSImagingExperiment(*args, **kwargs)#

Bases: object

In-memory model for a 2D imaging mass spectrometry dataset.

Owns an MSExperiment (spectra) and an MSImagingGeometry (pixel grid + pixel -> spectrum index mapping). Provides pixel-based spectrum access and a simple sum-based ion image extraction.

__init__(self) → None#

__init__(self, exp: pyopenms._pyopenms_experiment.MSExperiment) → None

__init__(self, arg: pyopenms._pyopenms_experiment.MSImagingExperiment, /) → None

Overloaded function.

__init__(self) -> None
__init__(self, exp: pyopenms._pyopenms_experiment.MSExperiment) -> None

Wrap an MSExperiment with an empty geometry.

__init__(self, arg: pyopenms._pyopenms_experiment.MSImagingExperiment, /) -> None

Attributes

`extractIonImage`
`getGeometry`	Returns a copy of the imaging geometry
`getMSExperiment`	Returns a copy of the owned MSExperiment
`getNumberOfPixels`
`getNumberOfSpectra`
`getRegionSpectrumIndices`
`getSpectrum`	Returns a copy of the spectrum at pixel (x, y)
`hasPixel`
`setGeometry`
`setMSExperiment`	Replaces the owned MSExperiment without touching the geometry.
`setSpectrum`	Replaces the spectrum at pixel (x, y)
`validate`

extractIonImage#

getGeometry#: Returns a copy of the imaging geometry

getMSExperiment#: Returns a copy of the owned MSExperiment

getNumberOfPixels#

getNumberOfSpectra#

getRegionSpectrumIndices#

getSpectrum#: Returns a copy of the spectrum at pixel (x, y)

hasPixel#

setGeometry#

setMSExperiment#: Replaces the owned MSExperiment without touching the geometry.

setSpectrum#: Replaces the spectrum at pixel (x, y)

validate#