Cardinal

DOI: 10.18129/B9.bioc.Cardinal  

A mass spectrometry imaging toolbox for statistical analysis

Bioconductor version: Release (3.16)

Implements statistical & computational tools for analyzing mass spectrometry imaging datasets, including methods for efficient pre-processing, spatial segmentation, and classification.

Author: Kylie A. Bemis <k.bemis at northeastern.edu>

Maintainer: Kylie A. Bemis <k.bemis at northeastern.edu>

Installation

To install this package, start R (version "4.2") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("Cardinal")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("Cardinal")

 

HTML	R Script	1. Cardinal 2: User guide for mass spectrometry imaging analysis
HTML	R Script	2. Cardinal 3: Statistical methods for mass spectrometry imaging
PDF		Reference Manual
Text		NEWS

Details

biocViews	Classification, Clustering, ImagingMassSpectrometry, ImmunoOncology, Infrastructure, Lipidomics, MassSpectrometry, Normalization, Proteomics, Regression, Software
Version	3.0.1
In Bioconductor since	BioC 3.1 (R-3.2) (8 years)
License	Artistic-2.0
Depends	ProtGenerics, BiocGenerics, BiocParallel, EBImage, graphics, methods, S4Vectors(>= 0.27.3), stats
Imports	Biobase, irlba, Matrix, matter, magrittr, mclust, nlme, parallel, signal, sp, stats4, utils, viridisLite
LinkingTo
Suggests	BiocStyle, testthat, knitr, rmarkdown
SystemRequirements
Enhances
URL	http://www.cardinalmsi.org
Depends On Me	CardinalWorkflows
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	Cardinal_3.0.1.tar.gz
Windows Binary	Cardinal_3.0.1.zip (64-bit only)
macOS Binary (x86_64)	Cardinal_3.0.1.tgz
macOS Binary (arm64)	Cardinal_3.0.1.tgz
Source Repository	git clone https://git.bioconductor.org/packages/Cardinal
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/Cardinal
Bioc Package Browser	https://code.bioconductor.org/browse/Cardinal/
Package Short Url	https://bioconductor.org/packages/Cardinal/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.16	Source Archive