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README.Rmd
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README.Rmd
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---
output: github_document
---
<!-- README.md is generated from README.Rmd. Please edit that file -->
```{r, include = FALSE}
knitr::opts_chunk$set(
collapse = TRUE,
comment = "#>",
fig.path = "man/figures/README-",
out.width = "100%"
)
```
# TissueTMDD
<!-- badges: start -->
[![Lifecycle: experimental](https://img.shields.io/badge/lifecycle-experimental-orange.svg)](https://lifecycle.r-lib.org/articles/stages.html#experimental)
<!-- badges: end -->
TissueTMDD is a shiny that provide an interactive way to run simulations of drug-target binding in tissue interstitial space.
Using TissueTMDD, you can:
- Setup simulation parameters,
- Run simulations,
- Compare simulations,
- Export and import simulation settings
![](vignettes/assets/tmdd_preview.gif)
## Installation
### Prerequisites
- Git Installation and GitHub setup ([instructions](https://gist.github.com/z3tt/3dab3535007acf108391649766409421)),
- R Installation (>= 4.3.0),
- (optional) RTools Installation (for Windows users, [instructions](https://cran.r-project.org/bin/windows/Rtools/rtools40.html)).
### Install {rClr}
rClr cannot be installed from github or from CRAN directly, use the following code to do so:
```r
install.packages("https://github.com/Open-Systems-Pharmacology/rClr/releases/download/v0.9.2/rClr_0.9.2.zip",
type = "binary")
```
### Install TissueTMDD
```r
# install.packages("remotes")
remotes::install_github("esqLABS/TissueTMDD@release")
```
To install the latest development version, use:
```r
# install.packages("remotes")
remotes::install_github("esqLABS/TissueTMDD")
```
## Installation (bis)
If the previous solution did not work, you can try the following
1. Download the source code [here](https://github.com/esqLABS/TissueTMDD/archive/refs/heads/main.zip)
2. Unzip it and open the `.Rproj` file with RStudio.
3. Run `install.packages("renv")` in the R console.
4. Run `renv::restore()` in the R console.
## Run the App
```r
library(TissueTMDD)
run_app()
```
## Code of Conduct
Please note that the TissueTMDD project is released with a [Contributor Code of Conduct](https://contributor-covenant.org/version/2/1/CODE_OF_CONDUCT.html). By contributing to this project, you agree to abide by its terms.