README.Rmd

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# SelectSim <img src="man/figures/logo.png" align="right" height="138" alt="" />
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The goal of SelectSim package is to implement the methodology to infer inter-dependencies between functional alterations in cancer. SelectSim estimates the expected number of mutations in a given gene and a given sample from the mutation frequency of the gene, f(g), and the tumor mutation burden (TMB) of the sample, $\mu$(t). These values can be estimated within specific mutation and tumor subsets, to account for heterogeneous tumor types, tissue specificities, and distinct mutational processes

![SelectSim Method](vignettes/SelectSim_method.png)

## Installation

- You can install the development version of SelectSim from [GitHub](https://github.com/CSOgroup/SelectSim) with:

``` r
# install.packages("devtools")
devtools::install_github("CSOgroup/SelectSim",dependencies = TRUE, build_vignettes = TRUE)
```

- For more details on installation refer to [INSTALLATION](INSTALLATION.md)


## Example

Check the the Vignettes folder or visit [website](https://csogroup.github.io/SelectSim/)

### Who do I talk to? ###

* For any bugs or feature support in using SelectSim, please use the [issue tracker](https://github.com/CSOgroup/SelectSim/issues).
* For any other question related to SelectSim, please contact Prof Giovanni Ciriello (giovanni.ciriello@unil.ch) or Arvind Iyer (arvind.iyer@unil.ch).