BreastSubtypeR
This is the development version of BreastSubtypeR; to use it, please install the devel version of Bioconductor.
Methods for breast cancer intrinsic subtyping
Bioconductor version: Development (3.21)
BreastSubtypeR is an R package that provides a collection of methods for intrinsic molecular subtyping of breast cancer. It includes subtyping methods for nearest centroid-based subtyping (NC-based) and single sample predictor (SSP-based), along with tools for integrating clinical data and visualizing results.
Author: Qiao Yang [aut, cre, fnd]
Maintainer: Qiao Yang <yq.kiuo at gmail.com>
citation("BreastSubtypeR")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("BreastSubtypeR")
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("BreastSubtypeR")| BreastSubtypeR | HTML | R Script |
| Reference Manual |
Details
| biocViews | Classification, GeneExpression, RNASeq, Software |
| Version | 0.99.9 |
| In Bioconductor since | BioC 3.21 (R-4.5) |
| License | GPL (>= 3) |
| Depends | R (>= 4.5.0) |
| Imports | methods, Biobase, tidyselect, dplyr, ggplot2, magrittr, rlang, stringr, withr, ComplexHeatmap, impute(>= 1.80.0), data.table (>= 1.16.0), RColorBrewer (>= 1.1-3), circlize (>= 0.4.16), ggrepel (>= 0.9.6), e1071 (>= 1.7-8), SummarizedExperiment |
| System Requirements | |
| URL | https://github.com/yqkiuo/BreastSubtypeR |
| Bug Reports | https://github.com/yqkiuo/BreastSubtypeR/issues |
See More
| Suggests | shiny (>= 1.9.1), bslib (>= 0.8.0), knitr, rmarkdown, BiocStyle, testthat |
| 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 | BreastSubtypeR_0.99.9.tar.gz |
| Windows Binary (x86_64) | BreastSubtypeR_0.99.9.zip |
| macOS Binary (x86_64) | BreastSubtypeR_0.99.9.tgz |
| macOS Binary (arm64) | BreastSubtypeR_0.99.9.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/BreastSubtypeR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/BreastSubtypeR |
| Bioc Package Browser | https://code.bioconductor.org/browse/BreastSubtypeR/ |
| Package Short Url | https://bioconductor.org/packages/BreastSubtypeR/ |
| Package Downloads Report | Download Stats |