FR-Match

Getting Started

Prerequisites

• R, Shiny
• Data class: Bioconductor-SingleCellExperiment
• Feature selection: JCVenterInstitute/NSForest (suggested)

Installation

install.packages("devtools")
devtools::install_github("JCVenterInstitute/FRmatch")

Tutorial

To start with a tutorial.

Shiny App

To start with a demo Shiny App:

FRmatch::runShiny()

Versioning

This repo is going through CI/CD (continuous integration and continuous delivery) code development. Stable releases are managed in Releases.

Please report issues using the issue traker.

Citations

Zhang et al. 2022. Cell type matching in single-cell RNA-sequencing data using FR-Match. Scientific Reports, https://doi.org/10.1038/s41598-022-14192-z.

Zhang et al. 2020. FR-Match: robust matching of cell type clusters from single cell RNA sequencing data using the Friedman–Rafsky non-parametric test. Briefings in Bioinformatics, https://doi.org/10.1093/bib/bbaa339.

Authors

• Yun (Renee) Zhang zhangy@jcvi.org
• Richard Scheuermann RScheuermann@jcvi.org

License

This project is licensed under the MIT License.

Acknowledgments

• Allen Institute for Brain Science
• Chan Zuckerberg Initiative (DAF 2018–182730)
• The NIH BRAIN Initiative (1RF1MH123220)