Run LinearSankoff with default setting:
cat sample.fasta | ./linearsankoff
Arguments:
-
w: weight on alignment (DEFAULT=0.3)
-
b: beam size (DEFAULT=100, 0 for exact search)
-
branch: allow to add extra branch in one sequence (DEFAULT=FALSE)
Run LinearSankoff with specific requirements:
cat sample.fasta | ./linearsankoff -w 0.4 -b 200 --branch