DOI: 10.18129/B9.bioc.tomoseqr    

This is the development version of tomoseqr; for the stable release version, see tomoseqr.

R Package for Analyzing Tomo-seq Data

Bioconductor version: Development (3.17)

`tomoseqr` is an R package for analyzing Tomo-seq data. Tomo-seq is a genome-wide RNA tomography method that combines combining high-throughput RNA sequencing with cryosectioning for spatially resolved transcriptomics. `tomoseqr` reconstructs 3D expression patterns from tomo-seq data and visualizes the reconstructed 3D expression patterns.

Author: Ryosuke Matsuzawa [aut, cre]

Maintainer: Ryosuke Matsuzawa < at>

Citation (from within R, enter citation("tomoseqr")):


To install this package, start R (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


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biocViews GeneExpression, RNASeq, Sequencing, Software, Spatial, Transcriptomics, Visualization
Version 1.3.0
In Bioconductor since BioC 3.15 (R-4.2) (0.5 years)
License MIT + file LICENSE
Depends R (>= 4.2)
Imports grDevices, graphics, animation, tibble, dplyr, stringr, purrr, methods, shiny, BiocFileCache, readr, tools, plotly, ggplot2
Suggests rmarkdown, knitr, BiocStyle, testthat (>= 3.0.0)
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