Package: oncomix
Title: Identifying Genes Overexpressed in Subsets of Tumors from
        Tumor-Normal mRNA Expression Data
Version: 1.34.0
Author: Daniel Pique, John Greally, Jessica Mar
Maintainer: Daniel Pique <daniel.pique@med.einstein.yu.edu>
Description: This package helps identify mRNAs that are overexpressed
        in subsets of tumors relative to normal tissue. Ideal inputs
        would be paired tumor-normal data from the same tissue from
        many patients (>15 pairs). This unsupervised approach relies on
        the observation that oncogenes are characteristically
        overexpressed in only a subset of tumors in the population, and
        may help identify oncogene candidates purely based on
        differences in mRNA expression between previously unknown
        subtypes.
Depends: R (>= 3.4.0)
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.0.1
Suggests: knitr, rmarkdown, testthat, RMySQL
Imports: ggplot2, ggrepel, RColorBrewer, mclust, stats,
        SummarizedExperiment
VignetteBuilder: knitr
biocViews: GeneExpression, Sequencing
Config/pak/sysreqs: zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2026-04-28 12:46:48 UTC
RemoteUrl: https://github.com/bioc/oncomix
RemoteRef: RELEASE_3_23
RemoteSha: 26778874c57bc2b7a569d466984cf073d1a24732
NeedsCompilation: no
Packaged: 2026-04-29 23:41:50 UTC; root
Built: R 4.6.0; ; 2026-04-29 23:44:56 UTC; windows
