tomoseqr
R Package for Analyzing Tomo-seq Data
Bioconductor version: Release (3.19)
`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 <kinakomochi.work at gmail.com>
citation("tomoseqr")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
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")
tomoseqr | HTML | R Script |
Reference Manual | ||
NEWS | Text | |
LICENSE | Text |
Details
biocViews | GeneExpression, RNASeq, Sequencing, Software, Spatial, Transcriptomics, Visualization |
Version | 1.8.0 |
In Bioconductor since | BioC 3.15 (R-4.2) (2.5 years) |
License | MIT + file LICENSE |
Depends | R (>= 4.2) |
Imports | grDevices, graphics, animation, tibble, dplyr, stringr, purrr, methods, shiny, BiocFileCache, readr, tools, plotly, ggplot2 |
System Requirements | |
URL |
See More
Suggests | rmarkdown, knitr, BiocStyle, testthat (>= 3.0.0) |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | tomoseqr_1.8.0.tar.gz |
Windows Binary | tomoseqr_1.8.0.zip |
macOS Binary (x86_64) | tomoseqr_1.8.0.tgz |
macOS Binary (arm64) | tomoseqr_1.8.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/tomoseqr |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/tomoseqr |
Bioc Package Browser | https://code.bioconductor.org/browse/tomoseqr/ |
Package Short Url | https://bioconductor.org/packages/tomoseqr/ |
Package Downloads Report | Download Stats |