Table of Contents
Overview
RIRA is a multi-tissue single-cell RNA-seq atlas from Rhesus macaque cells, including data from 7 tissues and 47 animals. It provides highly annotated reference data, and a number of pipelines to assign cell type to your data using RIRA’s built-in models. Finally, it includes pipelines to replicate the process used to generate RIRA’s reference labels, which might be useful for generating a similar reference for another species.
The raw expression data are available, including a seurat object, through the NIH GEO database under accession GSE277821.
Please see our documentation for more detail and usage examples
Installation
# Make sure to update your Rprofile to include Bioconductor repos, such as adding this line to ~/.Rprofile:
local({options(repos = BiocManager::repositories())})
#Latest version:
devtools::install_github(repo = 'bimberlab/RIRA', ref = 'master', dependencies = TRUE, upgrade = 'always')Pre-packaged Docker images with all needed dependencies installed can be found on our GitHub Packages page:
docker pull ghcr.io/bimberlab/rira:latest