add installation form git, docker is missing

docs/installation.md

@@ -2,26 +2,117 @@
 layout: default
 title: "Local Installation"
 nav_order: 5
+editor_options: 
+  markdown: 
+    wrap: 72
 ---
+
 # Introduction
-![A comic about a cat finding cOmicsART](/OmicShiny/assets/images/cOmicsTurtle.png)
-*Image generated using DALL-E by OpenAI. Adjusted by Lea Seep*
 
-Why do you want to install cOmicsART locally? If you just want to use it make sure to checkout the website: [cOmicsART](https://comicsart.org/). For this there is no installation effort required.
-If you know you are right here, let's get started.
+![A comic about a cat finding
+cOmicsART](/OmicShiny/assets/images/cOmicsTurtle.png) *Image generated
+using DALL-E by OpenAI. Adjusted by Lea Seep*
+
+Why do you want to install cOmicsART locally? If you just want to use it
+make sure to checkout the website:
+[cOmicsART](https://shiny.iaas.uni-bonn.de/OmicShiny/). For this there
+is no installation effort required. If you know you are right here,
+let's get started.
+
+# Running a cOmicsART locally within RStudio
+
+# Installing and Running the Shiny App Locally
+
+This guide provides detailed instructions on how to install and run the
+Shiny app from the provided GitHub repository.
+
+## Prerequisites
+
+Ensure you have the following software installed on your system: -
+[Git](https://git-scm.com/) - [R](https://www.r-project.org/) -
+[RStudio](https://rstudio.com/products/rstudio/download/) -
+[renv](https://rstudio.github.io/renv/articles/renv.html) package in R
+
+## Steps to Install and Run the Shiny App
+
+### 1. Clone the GitHub Repository
+
+Open a terminal or command prompt and use the following command to clone
+the repository:
+
+``` bash
+git clone https://github.com/leaseep/OmicShiny.git
+```
+
+### 2. Navigate to the Project Directory
+
+Change the directory to the cloned repository:
+
+``` bash
+cd OmicShiny
+```
+
+## 3. Restore the R Environment
+
+The project uses renv to manage dependencies. Restore the required R
+packages using the renv.lock file. Open R or RStudio. Ensure the package
+`renv` is installed in your R environment.Test with
+
+``` r
+library(renv)
+```
+
+If you get an error, install it using the following command:
+
+``` r
+install.packages("renv")
+```
+
+Then set the working directory to the root directory to install the
+environment from the lock file:
+
+``` r
+renv::restore(lockfile="renv.lock")
+```
+
+This will install all the necessary packages as specified in the
+renv.lock file. **Note:** This takes quite some time as there are a lot of packages to retrieve. 
+Some of those need specific system dependencies. 
+
+## 4. Start the Shiny App
+
+From the R console, start the Shiny app using the following command.
+Note that you will need to be in the `program` directory.
+
+``` r
+shiny::runApp('shinyApp',port=3939)
+```
+
+After starting the Shiny app, you will see an IP address printed in the
+R console:
+
+``` r
+Listening on http://127.0.0.1:3939
+```
+
+Open your web browser and go to the provided IP address to access the
+Shiny app.
 
 # Running a cOmicsART Using Docker
 
-This guide will help you use the provided Docker image to start your Shiny app.
+This guide will help you use the provided Docker image to start your
+Shiny app.
 
 ## Prerequisites
 
-1. **Install Docker**: Ensure Docker is installed on your system. You can download and install Docker from [Docker's official website](https://www.docker.com/get-started).
+1.  **Install Docker**: Ensure Docker is installed on your system. You
+    can download and install Docker from [Docker's official
+    website](https://www.docker.com/get-started).
 
 ## Steps to Run the ShinyApp
 
 .....
 
 # Local deploy the App from github
 
-....
+....