CellWindX: Marker Gene Analysis and Visualization for Single-Cell Data

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 (may not be active yet)
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

Documentation:

Reference manual:

CellWindX.html , CellWindX.pdf

Downloads:

Package source:	CellWindX_1.0.0.tar.gz
Windows binaries:	r-devel: not available, r-release: CellWindX_1.0.0.zip, r-oldrel: not available
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

Linking:

Please use the canonical form https://CRAN.R-project.org/package=CellWindX to link to this page.