LCSKPOA

LCSKPOA: Enabling banded semi-global partial order alignments via efficient and accurate backbone generation through extended lcsk++.

Setting up / Requirements

Rust 1.65.0+ should be installed.

Usage

Download the repository.

git clone https://github.com/lorewar2/lcskgraph.git
cd LCSKGRAPH

Replicate the results in paper:

bash replicate_results.sh

Run bam file:

cargo run --release -- -p "data/sample_pacbio.bam" "output.fa" -b 200 -k 12

Run fasta file:

cargo run --release -- -p "data/pacbio.fa" "output.fa" -b 200 -k 12

How to cite

If you are using LCSKPOA in your work, please cite:

LCSKPOA: Enabling banded semi-global partial order alignments via efficient and accurate backbone generation through extended lcsk++