DESCRIPTION

Package: K2Taxonomer
Type: Package
Title: Creating annotated submodules of high-throughput data through recursive partitioning
Version: 1.0.7
Date: 2023-11-14
Authors@R: person("Eric", "Reed", email="reeder@bu.edu",
                  role=c("aut", "cre"))
Description: Perform and annotate subgroups of high-throughput data by repeated partioning of bootstrapped features. User may input any clustering method that splits observations into 2 clusters. Results can be summarized in a interactive dashboard.
License: GPL-3 + file LICENSE
VignetteBuilder: knitr
biocViews: StatisticalMethod, Clustering
Imports:
  BiocManager,
  plotly,
  limma,
  parallel,
  flexdashboard,
  heatmaply,
  visNetwork,
  shiny,
  DT,
  robustbase,
  magrittr,
  conclust,
  Biobase,
  GSVA,
  dendextend,
  scRNAseq,
  Rdpack,
  statmod,
  stats,
  methods
Suggests:
    ggdendro,
    BiocStyle,
    knitr,
    rmarkdown,
    RUnit, 
    BiocGenerics
Depends:
  R (>= 4.0)
BugReports: https://github.com/montilab/K2Taxonomer
RoxygenNote: 7.2.3
RdMacros: Rdpack
Collate:
    'data.R'
    'AllClasses.R'
    'AllGenerics.R'
    'K2tax.R'
    'K2dashboard.R'
    'K2dendro.R'
    'K2visNetwork.R'
    'getGenePathways.R'
    'hclustWrapper.R'
    'cKmeansWrapper.R'
    'cKmeansWrapperSubsample.R'
    'K2preproc.R'
    'runTestsMods.R'
    'runDGEmods.R'
    'runGSEmods.R'
    'runGSVAmods.R'
    'runDSSEmods.R'
    'runK2Taxonomer.R'
    'runFisher1sided.R'
    'runFisher2sided.R'
    'runWilcox.R'
    'runTtest.R'
    'signatureWrapper.R'
    'fixFDR.R'
    'dgeWrapper.R'
    'doSplit.R'
    'isK2.R'
    'formatCov.R'
    'checkK2.R'
    'getEnrichmentTable.R'
    'aggregateGSVAscores.R'
    'getDGETable.R'
    'getTestsModTable.R'