> For the complete documentation index, see [llms.txt](https://cmo-ci.gitbook.io/cmo-access-data-analysis/llms.txt). Markdown versions of documentation pages are available by appending `.md` to page URLs; this page is available as [Markdown](https://cmo-ci.gitbook.io/cmo-access-data-analysis/setup/installation.md).

# Installation

Creating a conda environment for running the pipeline

## 1. Installing conda

Conda installation tutorial can be found [here](https://docs.conda.io/projects/conda/en/latest/user-guide/install/linux.html)

## 2. Creating conda environment and installing R/python packages

```bash
conda create --name access_data_analysis python=3
conda activate access_data_analysis
conda install r-essentials r-base r-argparse r-ggpubr r-ggthemes r-plotly r-kableextra r-htmlwidgets r-dt
pip install genotype-variants
```