# HTRfit

## Installation

* method A:
To install the latest version of HTRfit, run the following in your R console :
```
if (!requireNamespace("remotes", quietly = TRUE))
    install.packages("remotes")
remotes::install_git("https://gitbio.ens-lyon.fr/aduvermy/HTRfit")
```

* method B:

Alternatively, you can download a release on https://gitbio.ens-lyon.fr/aduvermy/HTRfit/-/releases. 
Then, run the following in your R console:

```
## -- example with release HTRfit-v1.0.0
install.packages('/HTRfit-v1.0.0', repos = NULL, type='source')
```

When dependencies are met, installation should take a few minutes.


## CRAN packages dependencies

The following depandencies are mandatory:

```
install.packages(c('car', 'parallel', 'data.table', 'ggplot2', 'gridExtra', 'glmmTMB', 'magrittr', 'MASS', 'plotROC', 'reshape2', 'rlang', 'stats', 'utils', 'BiocManager'))
BiocManager::install('S4Vectors', update = FALSE)
## -- optional 
BiocManager::install('DESeq2', update = FALSE)
```

### System requirements



### Getting started

You can access the package's main vignette from your R console with

```
library(HTRfit)
vignette("HTRfit")
vignette("HTRfit-pdf")
```