Package: tomoda
Title: Tomo-seq data analysis
Version: 1.19.0
Authors@R: 
    person(given = "Wendao",
           family = "Liu",
           role = c("aut", "cre"),
           email = "liuwd15@tsinghua.org.cn",
		   comment = c(ORCID = "0000-0002-5124-9338"))
Description: This package provides many easy-to-use methods to analyze and 
	visualize tomo-seq data. The tomo-seq technique is based on cryosectioning 
	of tissue and performing RNA-seq on consecutive sections. (Reference: Kruse 
	F, Junker JP, van Oudenaarden A, Bakkers J. Tomo-seq: A method to obtain 
	genome-wide expression data with spatial resolution. Methods Cell Biol. 
	2016;135:299-307. doi:10.1016/bs.mcb.2016.01.006)
	The main purpose of the package is to find zones with similar 
	transcriptional profiles and spatially expressed genes in a tomo-seq sample.
	Several visulization functions are available to create easy-to-modify plots.
Depends: R (>= 4.0.0)
Imports: methods, stats, grDevices, reshape2, Rtsne, umap,
        RColorBrewer, ggplot2, ggrepel, SummarizedExperiment
License: MIT + file LICENSE
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.1.2
Suggests: knitr, rmarkdown, BiocStyle, testthat
URL: https://github.com/liuwd15/tomoda
BugReports: https://github.com/liuwd15/tomoda/issues
biocViews: GeneExpression, Sequencing, RNASeq, Transcriptomics,
        Spatial, Clustering, Visualization
VignetteBuilder: knitr
git_url: https://git.bioconductor.org/packages/tomoda
git_branch: devel
git_last_commit: 487041e
git_last_commit_date: 2025-04-15
Repository: Bioconductor 3.22
Date/Publication: 2025-06-04
NeedsCompilation: no
Packaged: 2025-06-05 02:37:35 UTC; biocbuild
Author: Wendao Liu [aut, cre] (ORCID: <https://orcid.org/0000-0002-5124-9338>)
Maintainer: Wendao Liu <liuwd15@tsinghua.org.cn>
Built: R 4.5.0; ; 2025-06-05 14:13:48 UTC; windows
