Package 'CardinalWorkflows'

Datasets and workflows for the Cardinal mass spectrometry imaging package

Description

Datasets and workflows for Cardinal: MS imaging data examples including cardinal painting, pig fetus, and human RCC.

Usage

# Load and return an example MSI dataset
exampleMSIData(name = c("cardinal", "pig206", "rcc"))

Arguments

name	The name of the dataset.

Details

CardinalWorkflows provides datasets and example workflows of mass spectrometry imaging experiments using the Cardinal package for MS imaging analysis.

To view the example workflows, use browseVignettes("CardinalWorkflows").

Value

The dataset as an MSImagingExperiment.

Author(s)

Kylie A. Bemis

See Also

cardinal, pig206, rcc

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Cardinal Painting

Description

DESI-imaging mass spectra collected from the oil painting of a cardinal. Should be loaded with exampleMSIData().

Source

Aston Labs (Livia S. Eberlin, Christina Ferreira, and R. Graham Cooks).

Examples

cardinal <- exampleMSIData("cardinal")
cardinal

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Cross-Section of a Whole Pig Fetus

Description

DESI-imaging mass spectra collected from the cross-section of a whole pig fetus. Should be loaded with exampleMSIData().

Source

Aston Labs (Livia S. Eberlin, Christina Ferreira, and R. Graham Cooks).

Examples

pig206 <- exampleMSIData("pig206")
pig206

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Human Renal Cell Carcinoma

Description

Eight matched pairs of human renal cell carcinoma (RCC) labeled as cancer or normal.

Data are DESI-imaging mass spectra with each matched pair as a separate sample on a separate slide.

Should be loaded with exampleMSIData().

Source

Aston Labs (Livia S. Eberlin and R. Graham Cooks).

References

Dill, A. L., Eberlin, L. S., Zheng, C., Costa, A. B., Ifa, D. R., Cheng, L., et al. (2010). Multivariate statistical differentiation of renal cell carcinomas based on lipidomic analysis by amvient ionization imaging mas spectrometry. Analytical and Bioanalystical Chemistry, 298(7-8), 2969-2978.

Dill, A. L., Eberlin, L. S., Zheng, C., Costa, A. B., Ifa, D. R., Cheng, L., et al. (2010). Multivariate Statistical Identification of Human Bladder Cardinomas Using Ambient Ionization Imaging Mass Spectrometry. Chemistry - a European Journal, 17(10), 2897-2902.

Examples

rcc <- exampleMSIData("rcc")
rcc

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