elforjani13 / bamtool

bamtool

A Rust-based genomics tool for processing BAM files and performing operations on chromosomal regions.

Features

• Processes BAM files, aggregates chromosomal data.
• Efficient serialization with "bincode" crate.
• Includes bin.sh script for seamless data handling.

Configure the Bash script

In the bin.sh script, there is a configuration section where you need to set up the data directory. Locate the following lines and customize them based on your project structure:

# Define the data directory
DATA_DIR="$DIR/"

# Define the centromeres file path
CENTROMERES="$DIR/"

Building and Running

# Clone the repository
   git clone https://github.com/elforjani13/bamtool.git
   cd bamtool
   
# Build the Rust program
   cargo build
   
# Run the Bash script
   ./bin.sh [sample_dir] [output_dir]