Package: CTSV Type: Package Title: Identification of cell-type-specific spatially variable genes accounting for excess zeros Version: 1.15.0 Authors@R: c(person("Jinge Yu", "Developer", role = c("aut","cre"), email = "yjgruc@ruc.edu.cn"), person("Xiangyu Luo", "Developer", role = "aut", email = "xiangyuluo@ruc.edu.cn")) Description: The R package CTSV implements the CTSV approach developed by Jinge Yu and Xiangyu Luo that detects cell-type-specific spatially variable genes accounting for excess zeros. CTSV directly models sparse raw count data through a zero-inflated negative binomial regression model, incorporates cell-type proportions, and performs hypothesis testing based on R package pscl. The package outputs p-values and q-values for genes in each cell type, and CTSV is scalable to datasets with tens of thousands of genes measured on hundreds of spots. CTSV can be installed in Windows, Linux, and Mac OS. License: GPL-3 Encoding: UTF-8 RoxygenNote: 7.2.0 Depends: R (>= 4.2), URL: https://github.com/jingeyu/CTSV BugReports: https://github.com/jingeyu/CTSV/issues Imports: stats, pscl, qvalue, BiocParallel, methods, knitr, SpatialExperiment, SummarizedExperiment Suggests: testthat, BiocStyle biocViews: GeneExpression, StatisticalMethod, Regression, Spatial, Genetics NeedsCompilation: yes VignetteBuilder: knitr Config/pak/sysreqs: libmagick++-dev gsfonts libicu-dev libssl-dev zlib1g-dev Repository: https://bioc.r-universe.dev Date/Publication: 2026-04-28 12:58:34 UTC RemoteUrl: https://github.com/bioc/CTSV RemoteRef: HEAD RemoteSha: 1e985ac52e7ed05b0798b50b529524b161e87e46 Packaged: 2026-07-03 23:44:32 UTC; root Author: Jinge Yu Developer [aut, cre], Xiangyu Luo Developer [aut] Maintainer: Jinge Yu Developer