locigenesis/README.org

• locigenesis
  • Installation
    • Using Nix
    • Without Nix
  • Usage

locigenesis

locigenesis is a tool that generates an immune repertoire and runs it through a sequence reader simulation tool, to generate sequencing errors.

Installation

This project uses Nix to ensure reproducible builds.

Using Nix

1. Install Nix (compatible with MacOS and Linux):

curl -L https://nixos.org/nix/install | sh

1. Clone the repository:

git clone https://git.coolneng.duckdns.org/coolneng/locigenesis

1. Change the working directory to the project:

cd locigenesis

1. Enter the nix-shell:

nix-shell

After running these commands, you will find yourself in a shell that contains all the needed dependencies.

Without Nix

The following dependencies need to be installed:

• R
• immuneSIM
• stringr
• Java Development Kit (JDK)

Usage