DESCRIPTION

Package: ribiosExpression
Type: Package
Title: Expression Analysis with RibiosExpression
Version: 1.3.5
Date: 2025-01-30
Authors@R:
  person(given = "Jitao David",
         family = "Zhang",
         role = c("aut", "cre", "ctb"),
         email = "jitao_david.zhang@roche.com",
         comment = c(ORCID="0000-0002-3085-0909"))
Description: Data structures and functions for expression analysis.
Depends: R (>= 3.5.0)
Imports:
    methods,
    stats,
    utils,
    Biobase,
    ribiosIO (>= 1.0-18),
    ribiosUtils (>= 1.0-5),
    ribiosPlot,
    limma,
    ribiosArg,
    Matrix,
    ribiosAnnotation (>= 1.0-8),
    ComplexHeatmap,
    circlize,
    openxlsx
Suggests:
    testthat,
    grid
License: GPL-3
Encoding: UTF-8
RoxygenNote: 7.3.2
Collate: 
    'AllClasses.R'
    'AllGenerics.R'
    'AllMethods.R'
    'DesignContrast.R'
    'annotate.R'
    'assertFullRank.R'
    'filter.R'
    'fixDesignMatrixColnames.R'
    'import.R'
    'io_gct_cls.R'
    'io_gmt.R'
    'io_tab.R'
    'limmaDgeTable.R'
    'mergeEset.R'
    'obsolete.R'
    'readAnnotationFile.R'
    'readFKtable.R'
    'removeAllZeroVar.R'
    'ribiosExpression-package.R'
    'ribiosExpressionSet.R'
    'sniffFeatureType.R'
    'splitPCA.R'
    'summarizeProbesets.R'
    'summarizeSamples.R'
    'transformations.R'
    'truncateDgeTable.R'
    'writeVarMetadata.R'
Remotes:
    github::bedapub/ribiosIO,
    github::bedapub/ribiosUtils,
    github::bedapub/ribiosPlot,
    github::bedapub/ribiosArg,
    github::bedapub/ribiosAnnotation