Provides a 'Seurat'-compatible toolkit for marker gene identification, expression summarization, and visualization of annotated single-cell transcriptomic data. 'CellWindX' identifies top cell-type-enriched markers, calculates marker expression percentages and average expression values across cell groups, and generates publication-oriented dimensional reduction plots, marker heatmaps, and gene-level radar plots. The package includes built-in aesthetic palettes and supports both exploratory analysis and downstream figure preparation for single-cell atlas studies. The workflow is designed to complement single-cell analysis frameworks such as 'Seurat' described by Satija et al. (2015) <doi:10.1038/nbt.3192> and Hao et al. (2021) <doi:10.1016/j.cell.2021.04.048>, as well as heatmap visualization methods implemented in 'ComplexHeatmap' described by Gu et al. (2016) <doi:10.1093/bioinformatics/btw313>.
| Version: | 1.0.0 |
| Depends: | R (≥ 4.1.0) |
| Imports: | circlize, ComplexHeatmap, dplyr, ggplot2, grDevices, grid, Matrix, patchwork, Seurat, tidyr, stats |
| Suggests: | SeuratObject |
| Published: | 2026-05-27 |
| DOI: | 10.32614/CRAN.package.CellWindX |
| Author: | Xiaofeng Yang [aut, cre] (affiliation: Chongqing Medical University), Shan Li [aut] (affiliation: Chongqing Medical University) |
| Maintainer: | Xiaofeng Yang <Youngxf02 at 163.com> |
| License: | GPL-3 |
| NeedsCompilation: | no |
| CRAN checks: | CellWindX results |
| Reference manual: | CellWindX.html , CellWindX.pdf |
| Package source: | CellWindX_1.0.0.tar.gz |
| Windows binaries: | r-devel: CellWindX_1.0.0.zip, r-release: CellWindX_1.0.0.zip, r-oldrel: CellWindX_1.0.0.zip |
| macOS binaries: | r-release (arm64): CellWindX_1.0.0.tgz, r-oldrel (arm64): CellWindX_1.0.0.tgz, r-release (x86_64): CellWindX_1.0.0.tgz, r-oldrel (x86_64): CellWindX_1.0.0.tgz |
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