PCAImage,msi.dataset-method

PCAImage

<a rd-options="" href="/link/msi.dataset-class?package=SPUTNIK&version=1.4" data-mini-rdoc="SPUTNIK::msi.dataset-class">msi.dataset-class</a> object.

object

boolean (default = TRUE). If TRUE, the principal component
scores are aligned to the pixel mean intensity.

alignToSample

Generates an RGB msImage representing the first 3 principal components. This
image can be used to qualitatively evaluate the spatial heterogeneity of the
sample.

A set of tools for the peak filtering of mass spectrometry
imaging data (MSI or IMS) based on spatial distribution of signal. Given a
region-of-interest (ROI), representing the spatial region where the informative
signal is expected to be localized, a series of filters determine which peak
signals are characterized by an implausible spatial distribution. The filters
reduce the dataset dimensionality and increase its information vs noise ratio,
improving the quality of the unsupervised analysis results, reducing data
dimensionality and simplifying the chemical interpretation.

Paolo Inglese

SPUTNIK

SPatially aUTomatic deNoising for Ims toolKit

Goncalo Correia

PCAImage,msi.dataset-method function

<dl><dt>object</dt>
<dd>msi.dataset-class object.</dd>
<dt>alignToSample</dt>
<dd>boolean (default = TRUE). If TRUE, the principal component
scores are aligned to the pixel mean intensity.</dd></dl>

Arguments

Generates an RGB msImage representing the first 3 principal components. This
image can be used to qualitatively evaluate the spatial heterogeneity of the
sample. — PCAImage,msi.dataset-method

<dl>

<dt>object</dt>
<dd>msi.dataset-class object.</dd>


<dt>alignToSample</dt>
<dd>boolean (default = TRUE). If TRUE, the principal component
scores are aligned to the pixel mean intensity.</dd>

</dl>

Generates an RGB msImage representing the first 3 principal components. This
image can be used to qualitatively evaluate the spatial heterogeneity of the
sample.

PCAImage,msi.dataset-method: Generates an RGB msImage representing the first 3 principal components. This image can be used to qualitatively evaluate the spatial heterogeneity of the sample.

Description

Usage

Value

Arguments