Cardinal

DOI: 10.18129/B9.bioc.Cardinal    

This is the development version of Cardinal; for the stable release version, see Cardinal.

A mass spectrometry imaging toolbox for statistical analysis

Bioconductor version: Development (3.17)

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 "4.3") and enter:

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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

Details

biocViews	Classification, Clustering, ImagingMassSpectrometry, ImmunoOncology, Infrastructure, Lipidomics, MassSpectrometry, Normalization, Proteomics, Regression, Software
Version	3.1.0
In Bioconductor since	BioC 3.1 (R-3.2) (7.5 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_3.1.0.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/Cardinal
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/Cardinal
Package Short Url	https://bioconductor.org/packages/Cardinal/
Package Downloads Report	Download Stats