MouseThymusAgeing
This is the released version of MouseThymusAgeing; for the devel version, see MouseThymusAgeing.
Single-cell Transcriptomics Data of the Ageing Mouse Thymus
Bioconductor version: Release (3.23)
This package provides data access to counts matrices and meta-data for single-cell RNA sequencing data of thymic epithlial cells across mouse ageing using SMARTseq2 and 10X Genommics chemistries. Access is provided as a data package via ExperimentHub. It is designed to facilitate the re-use of data from Baran-Gale _et al._ in a consistent format that includes relevant and informative meta-data.
Author: Mike Morgan [aut, cre], Jeanette Baran-Gale [aut]
Maintainer: Mike Morgan <michael.morgan at abdn.ac.uk>
citation("MouseThymusAgeing")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("MouseThymusAgeing")
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("MouseThymusAgeing")| Available datasets | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | ExperimentData, ExperimentHub, ExpressionData, SingleCellData |
| Version | 1.20.0 |
| License | GPL-3 |
| Depends | SingleCellExperiment, SummarizedExperiment |
| Imports | ExperimentHub, methods, BiocGenerics, S4Vectors |
| System Requirements | |
| URL | |
| Bug Reports | https://github.com/MarioniLab/MouseThymusAgeing/issues |
See More
| Suggests | knitr, scuttle, rmarkdown, BiocStyle |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | miloR |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | MouseThymusAgeing_1.20.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (sonoma-arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/MouseThymusAgeing |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MouseThymusAgeing |
| Package Short Url | https://bioconductor.org/packages/MouseThymusAgeing/ |
| Package Downloads Report | Download Stats |