DESCRIPTION

Package: subtypeHeterogeneity
Version: 1.0.6
Date: 2025-01-07
Title: Tumor subclonality of expression-based cancer subtypes 
Author: Ludwig Geistlinger, Seyhun Oh, Markus Riester, Levi Waldron
Maintainer: Ludwig Geistlinger <ludwig.geistlinger@sph.cuny.edu>
Depends: 
    R(>= 4.0.0), 
    SingleCellExperiment
Imports: 
    AnnotationDbi,
    AnnotationFilter,
    AnnotationHub,
    Biobase,
    BiocGenerics,
    BiocParallel,
    ComplexHeatmap,
    EnsDb.Hsapiens.v75,
    GenomicFeatures,
    GenomeInfoDb,
    GenomicRanges,
    IRanges, 
    RCurl, 
    RaggedExperiment, 
    S4Vectors,
    SingleR, 
    TCGAutils, 
    TxDb.Hsapiens.UCSC.hg38.knownGene,
    circlize,
    consensusOV,
    gam,
    ggplot2, 
    ggpubr,
    igraph,
    infercnv,
    methods,
    plotly,
    org.Hs.eg.db,
    readr,
    reshape2,
    scater,
    scran,
    viridis,
    DropletUtils,
    EnrichmentBrowser,
    EnsDb.Hsapiens.v86,
    MetaGxOvarian,
    RTCGAToolbox,
    curatedTCGAData,
    dplyr,
    pheatmap,
    rtracklayer
Suggests:
    knitr, 
    rmarkdown,
    pkgdown
Description: Multi-omic analysis of HGS ovarian cancer subtypes.
License: Artistic-2.0
URL: https://waldronlab.github.io/subtypeHeterogeneity
DockerImage: ludwigg/subtypeheterogeneity:latest
VignetteBuilder: knitr
biocViews: CopyNumberVariation, DifferentialExpression, GeneExpression, 
    GenomeWideAssociation, GenomicVariation, SomaticMutation