Package: SlimR
Title: Marker-Based Package for Single-Cell and Spatial-Transcriptomic
        Annotation
Version: 1.0.3
Authors@R: 
    person(given = "Zhao qing",family = "Wang",
           role = c("aut", "cre"),
           email = c("851091628@qq.com","zhaoqingwang@mail.sdu.edu.cn"),
           comment = c(ORCID = "0000-0001-8348-7245"))
Description: Annotating single-cell and spatial-transcriptomic (ST) data based on the Marker dataset. It supports the creation of a unified marker list, Markers_list, using sources including: the package's built-in curated species-specific cell type and marker reference databases (e.g., 'Cellmarker2', 'PanglaoDB'), Seurat objects containing cell label information, or user-provided Excel tables mapping cell types to markers.
    Based on the Markers_list, 'SlimR' can iterate through different cell types to generate corresponding annotation reference plots (e.g., 'Markers_Dotplot', 'Metric_Heatmap', 'Mean_expression_Box_plot'). Furthermore, it enables one-click generation of an annotation heatmap ('Annotation_Heatmap') visualizing the relationship between input cell types and the reference marker list. For more details see Kabacoff (2015, ISBN:9781617291388) and Hu et al. (2023) <doi:10.1093/nar/gkac947> and Franzén et al. (2019) <doi:10.1093/database/baz046>.
License: GPL-3
Encoding: UTF-8
RoxygenNote: 7.3.2
Depends: R (>= 3.5)
LazyData: true
Date: 2025-07-27
Imports: cowplot, dplyr, ggplot2, patchwork, pheatmap, readxl, scales,
        Seurat, tidyr, tools, magrittr, tibble
Suggests: crayon
NeedsCompilation: no
Packaged: 2025-07-26 18:21:51 UTC; Runaw
Author: Zhao qing Wang [aut, cre] (ORCID:
    <https://orcid.org/0000-0001-8348-7245>)
Maintainer: Zhao qing Wang <851091628@qq.com>
Repository: CRAN
Date/Publication: 2025-07-29 13:20:02 UTC
Built: R 4.3.3; ; 2025-07-29 14:25:38 UTC; unix
