CrossExpression: Cross-Expression Analysis of Spatial Transcriptomics Data

Analyzes spatial transcriptomic data using cells-by-genes and cell location matrices to find gene pairs that coordinate their expression between spatially adjacent cells. It enables quantitative analysis and graphical assessment of these cross-expression patterns. See Sarwar et al. (2025) <doi:10.1101/2024.09.17.613579> and <https://github.com/gillislab/CrossExpression/> for more details.

Version:	1.0.0
Depends:	R (≥ 3.5.0)
Imports:	Rfast, RANN, Matrix, ggplot2, dplyr, stats, stringr
Published:	2025-07-28
DOI:	10.32614/CRAN.package.CrossExpression
Author:	Ameer Sarwar [aut, cre], Sarah Choi [ctb], Leon French [ctb], Jesse Gillis [aut]
Maintainer:	Ameer Sarwar <dogar.ameer at gmail.com>
License:	MIT + file LICENSE
NeedsCompilation:	no
CRAN checks:	CrossExpression results

Documentation:

Reference manual:

CrossExpression.html , CrossExpression.pdf

Downloads:

Package source:	CrossExpression_1.0.0.tar.gz
Windows binaries:	r-devel: CrossExpression_1.0.0.zip, r-release: CrossExpression_1.0.0.zip, r-oldrel: CrossExpression_1.0.0.zip
macOS binaries:	r-release (arm64): CrossExpression_1.0.0.tgz, r-oldrel (arm64): CrossExpression_1.0.0.tgz, r-release (x86_64): CrossExpression_1.0.0.tgz, r-oldrel (x86_64): CrossExpression_1.0.0.tgz

Linking:

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