recipe bioconductor-single.mtec.transcriptomes

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.






package bioconductor-single.mtec.transcriptomes

(downloads) docker_bioconductor-single.mtec.transcriptomes


1.12.0-0, 1.10.0-0

Required By


With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-single.mtec.transcriptomes

and update with:

conda update bioconductor-single.mtec.transcriptomes

or use the docker container:

docker pull<tag>

(see bioconductor-single.mtec.transcriptomes/tags for valid values for <tag>)