Cardinal
A mass spectrometry imaging toolbox for statistical analysis
Bioconductor version: Release (3.19)
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")):
Installation
To install this package, start R (version "4.4") 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 | ||
| NEWS | Text |
Details
| biocViews | Classification, Clustering, ImagingMassSpectrometry, ImmunoOncology, Infrastructure, Lipidomics, MassSpectrometry, Normalization, Proteomics, Regression, Software |
| Version | 3.6.5 |
| In Bioconductor since | BioC 3.1 (R-3.2) (9.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 4.3), ProtGenerics, BiocGenerics, BiocParallel, S4Vectors(>= 0.27.3), methods, stats, stats4 |
| Imports | CardinalIO, Biobase, EBImage, graphics, grDevices, irlba, Matrix, matter(>= 2.6.2), nlme, parallel, utils |
| System Requirements | |
| URL | http://www.cardinalmsi.org |
| Bug Reports | https://github.com/kuwisdelu/Cardinal/issues |
See More
| Suggests | BiocStyle, testthat, knitr, rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | CardinalWorkflows |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | Cardinal_3.6.5.tar.gz |
| Windows Binary (x86_64) | Cardinal_3.6.5.zip (64-bit only) |
| macOS Binary (x86_64) | Cardinal_3.6.5.tgz |
| macOS Binary (arm64) | Cardinal_3.6.5.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/Cardinal |
| Source Repository (Developer Access) | git clone [email protected]: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 3.19 | Source Archive |