Package: bulkAnalyseR
Title: Interactive Shiny App for Bulk Sequencing Data
Version: 1.1.0
Authors@R: c(
            person("Ilias", "Moutsopoulos", , "im383@cam.ac.uk", c("aut", "cre")),
            person("Eleanor", "Williams", , "ecw63@cam.ac.uk", role = c("aut", "ctb")),
            person("Irina", "Mohorianu", , "iim22@cam.ac.uk", role = c("aut", "ctb"))
            )
Maintainer: Ilias Moutsopoulos <im383@cam.ac.uk>
Description: Given an expression matrix from a bulk sequencing experiment,
        pre-processes it and creates a shiny app for interactive data 
        analysis and visualisation. The app contains quality checks,
        differential expression analysis, volcano and cross plots,
        enrichment analysis and gene regulatory network inference,
        and can be customised to contain more panels by the user.
License: GPL-2
Encoding: UTF-8
URL: https://github.com/Core-Bioinformatics/bulkAnalyseR
BugReports: https://github.com/Core-Bioinformatics/bulkAnalyseR/issues
RoxygenNote: 7.2.3
Depends: R (>= 4.0)
Imports: ggplot2, shiny, gprofiler2, edgeR, DESeq2, stats, ggrepel,
        utils, RColorBrewer, ComplexHeatmap, circlize, grid,
        shinyWidgets, shinyjqui, dplyr, magrittr, ggforce, rlang, glue,
        preprocessCore, matrixStats, noisyr, tibble, ggnewscale,
        ggrastr, GENIE3, visNetwork, DT, scales, shinyjs, tidyr,
        shinyLP, UpSetR, stringr, ggVennDiagram
Suggests: rmarkdown, knitr, shinythemes, BiocManager, AnnotationDbi,
        org.Hs.eg.db, org.Mm.eg.db, readxl, testthat (>= 3.0.0)
VignetteBuilder: knitr
Config/testthat/edition: 3
NeedsCompilation: no
Packaged: 2022-12-15 11:49:47 UTC; emouts
Author: Ilias Moutsopoulos [aut, cre],
  Eleanor Williams [aut, ctb],
  Irina Mohorianu [aut, ctb]
Repository: CRAN
Date/Publication: 2022-12-15 12:20:02 UTC
Built: R 4.4.3; ; 2025-12-08 05:04:55 UTC; windows
