Package: dittoSeq
Type: Package
Title: User Friendly Single-Cell and Bulk RNA Sequencing Visualization
Version: 1.22.0
Authors@R: c(person("Daniel", "Bunis", email = "daniel.bunis@ucsf.edu", role=c("aut", "cre")),
    person("Jared", "Andrews", email = "jared.andrews07@gmail.com", role=c("aut", "ctb")))
Description: A universal, user friendly, single-cell and bulk RNA
        sequencing visualization toolkit that allows highly
        customizable creation of color blindness friendly,
        publication-quality figures. dittoSeq accepts both
        SingleCellExperiment (SCE) and Seurat objects, as well as the
        import and usage, via conversion to an SCE, of
        SummarizedExperiment or DGEList bulk data. Visualizations
        include dimensionality reduction plots, heatmaps, scatterplots,
        percent composition or expression across groups, and more.
        Customizations range from size and title adjustments to
        automatic generation of annotations for heatmaps, overlay of
        trajectory analysis onto any dimensionality reduciton plot,
        hidden data overlay upon cursor hovering via ggplotly
        conversion, and many more. All with simple, discrete inputs.
        Color blindness friendliness is powered by legend adjustments
        (enlarged keys), and by allowing the use of shapes or
        letter-overlay in addition to the carefully selected
        dittoColors().
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.3.3
Depends: ggplot2
Imports: methods, colorspace (>= 1.4), gridExtra, cowplot, reshape2,
        pheatmap, grDevices, ggrepel, ggridges, stats, utils,
        SummarizedExperiment, SingleCellExperiment, S4Vectors
Suggests: plotly, testthat, Seurat (>= 2.2), DESeq2, edgeR,
        ggplot.multistats, knitr, rmarkdown, BiocStyle, scRNAseq,
        ggrastr (>= 0.2.0), ComplexHeatmap, bluster, scater, scran,
        MASS
biocViews: Software, Visualization, RNASeq, SingleCell, GeneExpression,
        Transcriptomics, DataImport
VignetteBuilder: knitr
Config/pak/sysreqs: libicu-dev zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 14:57:12 UTC
RemoteUrl: https://github.com/bioc/dittoSeq
RemoteRef: RELEASE_3_22
RemoteSha: d79c5f235adca16c70933a65ec46c2871eb677a0
NeedsCompilation: no
Packaged: 2026-02-23 08:58:59 UTC; root
Author: Daniel Bunis [aut, cre],
  Jared Andrews [aut, ctb]
Maintainer: Daniel Bunis <daniel.bunis@ucsf.edu>
Built: R 4.5.2; ; 2026-02-23 09:02:10 UTC; windows
