Package: PCAPAM50
Type: Package
Title: Enhanced 'PAM50' Subtyping of Breast Cancer
Version: 1.0.3
Authors@R: c(person("Praveen-Kumar", "Raj-Kumar", role = c("aut", "cre", "cph"), email = "p.rajkumar@wriwindber.org"), person("Boyi", "Chen", role = "aut"), person("Ming-Wen", "Hu", role = "aut"), person("Tyler", "Hohenstein", role = "aut"), person("Jianfang", "Liu", role = "aut"), person("Craig D.", "Shriver", role = "aut"), person("Xiaoying", "Lin", role = c("aut", "cph")), person("Hai", "Hu", role = c("aut", "cph")))
Maintainer: Praveen-Kumar Raj-Kumar <p.rajkumar@wriwindber.org>
Description: 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.
License: GPL (>= 3)
Copyright: 2024 Windber Research Institute, Windber, PA - 15963. All
        Rights Reserved.
Encoding: UTF-8
Suggests: testthat, knitr, rmarkdown
Config/testthat/edition: 3
RoxygenNote: 7.2.3
Imports: Biobase, lattice, ComplexHeatmap, impute
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-01-09 16:34:45 UTC; praveen
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]
Repository: CRAN
Date/Publication: 2025-01-09 17:10:05 UTC
Built: R 4.6.0; ; 2026-04-25 21:05:05 UTC; unix
