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README.Rmd
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---
output: github_document
---
```{r, include = FALSE}
knitr::opts_chunk$set(
collapse = TRUE,
comment = "#>",
fig.path = "man/figures/README-",
out.width = "100%"
)
```
# Rcongas <a href='militeee.github.io/rcongas'><img src='man/figures/logo.png' align="right" height="120" /></a>
<!-- badges: start -->
[](https://travis-ci.org/militeee/Rcongas)
[](https://travis-ci.org/militeee/Rcongas)
[](https://www.tidyverse.org/lifecycle/#maturing)
[](https://caravagn.github.io/evoverse)
<!-- badges: end -->
The package provides an R interface for the Python
[Congas](https://github.com/Militeee/congas) package, which implements
multiple statistical models to genotype Copy Number Alterations from
single-cell RNA sequencing.
The package implements S3 objects to visualize the data, create and
visualise model fits.
`Rcongas` is part of the `evoverse` set of [R
packages](https://caravagnlab.github.io/evoverse) to implement Cancer
Evolution analyses.
#### Citation
[](https://doi.org/10.1101/2021.02.02.429335)
If you use `Rcongas`, please cite:
- Milite, Salvatore, et al. *"A Bayesian method to cluster single-cell RNA sequencing data using Copy Number Alterations."* Bioinformatics (2022).
#### Help and support
[](https://militeee.github.io/rcongas)
### Installation
You can install the released version of `Rcongas` from
[GitHub](https://github.com/) with:
``` r
# install.packages("devtools")
devtools::install_github("militeee/Rcongas")
```
-----
#### Copyright and contacts
Salvatore Milite, MSc, and Giulio Caravagna, PhD. _University of Trieste, Trieste, Italy_.
[](mailto:[email protected])
[](https://github.com/caravagn)
[](https://twitter.com/gcaravagna)
[](https://sites.google.com/site/giuliocaravagna/)