PCAPAM50: Enhanced 'PAM50' Subtyping of Breast Cancer

Accurate classification of breast cancer tumors based on gene expression data is not a trivial task, and it lacks standard practices.The 'PAM50' classifier, which uses 50 gene centroid correlation distances to classify tumors, faces challenges with balancing estrogen receptor (ER) status and gene centering. The 'PCAPAM50' package leverages principal component analysis and iterative 'PAM50' calls to create a gene expression-based ER-balanced subset for gene centering, avoiding the use of protein expression-based ER data resulting into an enhanced Breast Cancer subtyping.

Version:	1.0.2
Imports:	Biobase, lattice, ComplexHeatmap, impute
Suggests:	testthat, knitr, rmarkdown
Published:	2024-11-24
DOI:	10.32614/CRAN.package.PCAPAM50
Author:	Praveen-Kumar Raj-Kumar [aut, cre, cph], Boyi Chen [aut], Ming-Wen Hu [aut], Tyler Hohenstein [aut], Jianfang Liu [aut], Craig D. Shriver [aut], Xiaoying Lin [aut, cph], Hai Hu [aut, cph]
Maintainer:	Praveen-Kumar Raj-Kumar <p.rajkumar at wriwindber.org>
License:	GPL (≥ 3)
Copyright:	2024 Windber Research Institute, Windber, PA - 15963. All Rights Reserved.
NeedsCompilation:	no
Citation:	PCAPAM50 citation info
Materials:	README NEWS
CRAN checks:	PCAPAM50 results

Documentation:

Reference manual:	PCAPAM50.pdf
Vignettes:	PCA-PAM50 (source, R code)

Downloads:

Package source:	PCAPAM50_1.0.2.tar.gz
Windows binaries:	r-devel: PCAPAM50_1.0.2.zip, r-release: PCAPAM50_1.0.2.zip, r-oldrel: PCAPAM50_1.0.2.zip
macOS binaries:	r-release (arm64): PCAPAM50_1.0.2.tgz, r-oldrel (arm64): PCAPAM50_1.0.2.tgz, r-release (x86_64): PCAPAM50_1.0.2.tgz, r-oldrel (x86_64): PCAPAM50_1.0.2.tgz
Old sources:	PCAPAM50 archive

Linking:

Please use the canonical form https://CRAN.R-project.org/package=PCAPAM50 to link to this page.