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Bioconductor - tomoseqr (development version)

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 (3.22)

`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] ORCID: 0000-0003-2999-4734

Maintainer: Ryosuke Matsuzawa <kinakomochi.work at gmail.com>

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

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("tomoseqr")

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

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("tomoseqr")
Details biocViews GeneExpression, RNASeq, Sequencing, Software, Spatial, Transcriptomics, Visualization Version 1.13.0 In Bioconductor since BioC 3.15 (R-4.2) (3 years) License MIT + file LICENSE Depends R (>= 4.2) Imports grDevices, graphics, animation, tibble, dplyr, stringr, purrr, methods, shiny, BiocFileCache, readr, tools, plotly, ggplot2 System Requirements URL See More Package Archives

Follow Installation instructions to use this package in your R session.

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