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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 (3.18)

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>

Citation (from within R, enter citation("Cardinal")):

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

Details

biocViews Classification, Clustering, ImagingMassSpectrometry, ImmunoOncology, Infrastructure, Lipidomics, MassSpectrometry, Normalization, Proteomics, Regression, Software
Version 3.3.2
In Bioconductor since BioC 3.1 (R-3.2) (8.5 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
Linking To
Suggests BiocStyle, testthat, knitr, rmarkdown
System Requirements
Enhances
URL http://www.cardinalmsi.org
See More
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_3.3.2.tar.gz
Windows Binary Cardinal_3.3.2.zip (64-bit only)
macOS Binary (x86_64) Cardinal_3.3.2.tgz
macOS Binary (arm64) Cardinal_3.3.1.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