STROMA4
This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.
This package is for version 3.19 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see STROMA4.
Assign Properties to TNBC Patients
Bioconductor version: Release (3.19)
This package estimates four stromal properties identified in TNBC patients in each patient of a gene expression datasets. These stromal property assignments can be combined to subtype patients. These four stromal properties were identified in Triple negative breast cancer (TNBC) patients and represent the presence of different cells in the stroma: T-cells (T), B-cells (B), stromal infiltrating epithelial cells (E), and desmoplasia (D). Additionally this package can also be used to estimate generative properties for the Lehmann subtypes, an alternative TNBC subtyping scheme (PMID: 21633166).
Author: Sadiq Saleh [aut, cre], Michael Hallett [aut]
Maintainer: Sadiq Saleh <sadiq.mehdiismailsaleh at mail.mcgill.ca>
citation("STROMA4")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("STROMA4")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual |
Details
| biocViews | BiomedicalInformatics, Classification, GeneExpression, ImmunoOncology, Microarray, RNASeq, Software |
| Version | 1.28.0 |
| In Bioconductor since | BioC 3.5 (R-3.4) (7.5 years) |
| License | GPL-3 |
| Depends | R (>= 3.4), Biobase, BiocParallel, cluster, matrixStats, stats, graphics, utils |
| Imports | |
| System Requirements | |
| URL |
See More
| Suggests | breastCancerMAINZ |
| Linking To | |
| Enhances | |
| Depends On Me | |
| 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 | |
| Windows Binary (x86_64) | STROMA4_1.28.0.zip |
| macOS Binary (x86_64) | STROMA4_1.28.0.tgz |
| macOS Binary (arm64) | STROMA4_1.28.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/STROMA4 |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/STROMA4 |
| Package Short Url | https://bioconductor.org/packages/STROMA4/ |
| Package Downloads Report | Download Stats |