requirements

• samtools : https://www.htslib.org/download/

# install samtools

cd samtools-1.x    # and similarly for bcftools and htslib
./configure --prefix=/usr/
make
make install

cargo install mm2

gsmm2 align -q query.fa --target target.fa -p query2target

changelog

0.6.0

• if the query file is bam format, it will try to dump np & ch & rq to the result bam

0.5.0

• if the query file is bam format, it will try to dump np & ch to the result bam