A GUI for Dual and Bulk RNA-Sequencing Analysis R package inDAGO version 1.0.3 A 'shiny' app that supports both dual and bulk RNA-seq, with the dual RNA-seq functionality offering the flexibility to perform either a sequential approach (where reads are mapped separately to each genome) or a combined approach (where reads are aligned to a single merged genome). The user-friendly interface automates the analysis process, providing step-by-step guidance, making it easy for users to navigate between different analysis steps, and download intermediate results and publication-ready plots. Software Imports: bigtabulate, bsicons, bslib, callr, checkmate, data.table, dplyr, DT, fs, ggplot2, ggrepel, grDevices, heatmaply, Hmisc, htmltools, magrittr, matrixStats, memuse, methods, paletteer, parallel, pheatmap, plotly, R.devices, readr, reshape2, rintrojs, seqinr, shiny, shinycssloaders, shinyFiles, shinyjs, shinyWidgets, spsComps, stats, svglite, tibble, tidyr, tools, upsetjs, UpSetR, utils Suggests: BiocGenerics, BiocManager, Biostrings, edgeR, harrypotter, HTSFilter, limma, oompaBase, palr, Rsamtools, Rsubread, rtracklayer, S4Vectors, ShortRead, testthat (>= 3.0.0), XVector Carmine Fruggiero <fruggierocarmine3@gmail.com> Comprehensive R Archive Network (CRAN) Carmine Fruggiero [aut, cre], Gaetano Aufiero [aut] GPL (>= 3) 2025-10-21 application/tgz https://CRAN.R-project.org/package=inDAGO doi:10.32614/CRAN.package.inDAGO