Cardinal

This is the released version of Cardinal; for the devel version, see Cardinal.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1

A mass spectrometry imaging toolbox for statistical analysis

Bioconductor version: Release (3.23)

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

Author: Kylie Ariel Bemis [aut, cre]

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

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

Kylie Ariel Bemis. Cardinal: A mass spectrometry imaging toolbox for statistical analysis. doi:10.18129/B9.bioc.Cardinal, R package version 3.14.0, https://bioconductor.org/packages/Cardinal.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") 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")

1. Cardinal 3: 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
LICENSE	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Classification, Clustering, ImagingMassSpectrometry, ImmunoOncology, Infrastructure, Lipidomics, MassSpectrometry, Normalization, Proteomics, Regression, Software
Version	3.14.0
In Bioconductor since	BioC 3.1 (R-3.2) (11.5 years)
License	Artistic-2.0 \| file LICENSE
Depends	R (>= 4.4), BiocParallel, BiocGenerics, ProtGenerics, S4Vectors, methods, stats, stats4
Imports	CardinalIO, Biobase, graphics, grDevices, irlba, Matrix, matter (>= 2.7.10), nlme, parallel, utils
System Requirements
URL	http://www.cardinalmsi.org
Bug Reports	https://github.com/kuwisdelu/Cardinal/issues

Suggests	BiocStyle, testthat, knitr, rmarkdown, emmeans, lme4, lmerTest
Linking To
Enhances
Depends On Me	CardinalWorkflows
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	Cardinal_3.14.0.tar.gz
Windows Binary (x86_64)	Cardinal_3.14.0.zip
macOS Binary (big-sur-x86_64)	Cardinal_3.14.0.tgz
macOS Binary (sonoma-arm64)	Cardinal_3.14.0.tgz
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