gaf2pack

Convert GAF alignments (https://github.com/lh3/gfatools/blob/master/doc/rGFA.md) to pack format. Processing cigar string for additional information. Multithreading via rayon. Pack (coverage) output is base-level. Run it with multiple threads to speed up the process otherwise it will take a long time.

Installation

git clone https://github.com/MoinSebi/gaf2pack
cd gaf2pack
cargo build --release
./target/release/gaf2pack -h 

Usage

./gaf2pack -g input.gfa -o output.pack -a alignment.gaf -t 10