vireoSNP - donor deconvolution for multiplexed scRNA-seq data
vireo: donor deconvolution for pooled single-cell data
Vireo: Variational Inference for Reconstructing Ensemble Origin by expressed SNPs in multiplexed scRNA-seq data.
Vireo is available through PyPI. To install, type the following command line, and add -U for upgrading:
pip install -U vireoSNP
Alternatively, you can install from this GitHub repository for latest (often development) version by following command line
pip install -U git+https://github.com/single-cell-genetics/vireo
In either case, add --user if you don’t have the write permission for your Python environment.
For more instructions, see the installation manual.
Manual and examples
Test example data is included in this repo and demos can be found in examples/demo.sh.
Also, type vireo -h for all arguments with the version you are using.
Yuanhua Huang, Davis J. McCarthy, and Oliver Stegle. Vireo: Bayesian demultiplexing of pooled single-cell RNA-seq data without genotype reference. Genome Biology 20, 273 (2019)
Release history Release notifications | RSS feed
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
|Filename, size||File type||Python version||Upload date||Hashes|
|Filename, size vireoSNP-0.5.6.tar.gz (1.8 MB)||File type Source||Python version None||Upload date||Hashes View|