SalainDNA: A Pre-alignment Filter for DNA Read Mapping on a Multi-core Environment

Prerequisites

To run the system, make sure that the following packages are installed:

• OpenMP
• GCC
• CMake

To install the prerequisites in Ubuntu, update first the Ubuntu repository indexes by running the command:

sudo apt update

Once the Ubuntu repository indexes are updated, run the following commands:

sudo apt install libomp-dev # for OpenMP
sudo apt install build-essentials # for GCC
sudo apt install cmake # for CMake

Installation

To install, build the latest version found at the GitHub repository. In order to do this, run the following commands:

git clone https://github.com/sairakaye/salainDNA
cd salainDNA
cmake .
make
./salainDNA

After executing the last command, the name and steps included in the system as well as the set of arguments should show on the console.

For the usage guide of SalainDNA, please check the user manual.