The MASA-OpenMP extension is used with the MASA architecture to align DNA sequences of unrestricted size with the Smith-Waterman/Needleman-Wunsch algorithms combined with Myers-Miller. It uses the OpenMP framework to accelerate the computation time in CPU.
Latest Version: masa-openmp-1.0.1.1024.tar.gz
tar -xvzf masa-openmp-1.0.1.1024.tar.gz
cd masa-openmp-1.0.1.1024
./configure
make
./masa-openmp [options] seq1.fasta seq2.fasta
All the command line arguments can be retrieved using the --help parameter. See the wiki for a list of command line examples.
MASA-OpenMP is an open source project with public license (GPLv3). A copy of the LICENSE is maintained in this repository.