Single.mTEC.Transcriptomes
Single Cell Transcriptome Data and Analysis of Mouse mTEC cells
Bioconductor version: Release (3.19)
This data package contains the code used to analyse the single-cell RNA-seq and the bulk ATAC-seq data from the manuscript titled: Single-cell transcriptome analysis reveals coordinated ectopic-gene expression patterns in medullary thymic epithelial cells. This paper was published in Nature Immunology 16,933-941(2015). The data objects provided in this package has been pre-processed: the raw data files can be downloaded from ArrayExpress under the accession identifiers E-MTAB-3346 and E-MTAB-3624. The vignette of this data package provides a documented and reproducible workflow that includes the code that was used to generate each statistic and figure from the manuscript.
Author: Alejandro Reyes
Maintainer: Alejandro Reyes <alejandro.reyes.ds at gmail.com>
citation("Single.mTEC.Transcriptomes")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("Single.mTEC.Transcriptomes")
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("Single.mTEC.Transcriptomes")
Analysis of single cell mTEC data. | R Script | |
Reference Manual |
Details
biocViews | ExperimentData |
Version | 1.32.0 |
License | LGPL |
Depends | R (>= 3.5.0) |
Imports | |
System Requirements | |
URL |
See More
Suggests | DESeq2, GenomicRanges, GenomicFeatures, genefilter, statmod, gdata, RColorBrewer, ggplot2, gplots, cluster, clue, grid, gridExtra, ggbio, Gviz, geneplotter, matrixStats, pheatmap, BiocStyle, knitr, BiocParallel |
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 | Single.mTEC.Transcriptomes_1.32.0.tar.gz |
Windows Binary | |
macOS Binary (x86_64) | |
macOS Binary (arm64) | |
Source Repository | git clone https://git.bioconductor.org/packages/Single.mTEC.Transcriptomes |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/Single.mTEC.Transcriptomes |
Package Short Url | https://bioconductor.org/packages/Single.mTEC.Transcriptomes/ |
Package Downloads Report | Download Stats |