Algorithm | Commandline arguments | Node alignment | Notes |
---|---|---|---|
IsoRankN | --K 30 --thresh 1e-4 --alpha 0.9 --maxveclen 1000000 | many-to-many | native MNA |
NETAL | -a 0.0001 -b 0 -c 0.5 -i 2 | one-to-one | no BLAST |
PINALOG | none | primarily one-to-one | Â |
SMETANA | none | many-to-many | native MNA |