PathBLAST [93]

Local

Pairwise

Manytomany

http://www.pathblast.org

NetworkBLAST [46]

Local

Pairwise

Manytomany

http://www.cs.tau.ac.il/~bnet/networkblast.htm

MaWISh [48]

Local

Pairwise

Manytomany

http://compbio.case.edu/koyuturk/software/mawish

Graemlin 1.0 [47]

Local

Multiple

Manytomany

http://graemlin.stanford.edu

NetworkBLASTM [94]

Local

Multiple

Manytomany

http://www.cs.tau.ac.il/~bnet/Licensenbm.htm

NetAligner [54]

Local

Pairwise

Manytomany

http://netaligner.irbbarcelona.org

AlignNemo [52]

Local

Pairwise

Manytomany

http://www.sourceforge.net/p/alignnemo/home/Home

AlignMCL [53]

Local

Pairwise

Manytomany

http://sites.google.com/site/alignmcl

IsoRank [55]

Global

Pairwise

Onetoone

http://groups.csail.mit.edu/cb/mna

IsoRankN [59]

Global

Multiple

Manytomany

http://groups.csail.mit.edu/cb/mna

GRAAL [38]

Global

Pairwise

Onetoone

http://bionets.doc.ic.ac.uk/GRAAL_suppl_inf

HGRAAL [39]

Global

Pairwise

Onetoone

http://www.nd.edu/~cone/software_data.html

MIGRAAL [40]

Global

Pairwise

Onetoone

http://bionets.doc.ic.ac.uk/MIGRAAL

GHOST [60]

Global

Pairwise

Onetoone

http://www.cs.cmu.edu/~ckingsf/software/ghost

SPINAL [67]

Global

Pairwise

Onetoone

http://code.google.com/p/spinal

SMETANA [74]

Global

Multiple

Manytomany

http://www.ece.tamu.edu/~bjyoon/SMETANA

BEAMS [75]

Global

Multiple

Manytomany

http://webprs.khas.edu.tr/~cesim/BEAMS.tar.gz

NetCoffee [76]

Global

Multiple

Manytomany

http://code.google.com/p/netcoffee

FUSE [78]

Global

Multiple

Onetoone

Available upon email request until formally published

NETAL [68]

Global

Pairwise

Onetoone

http://bioinf.modares.ac.ir/software/netal

GraphM [58]

Global

Pairwise

Onetoone

http://cbio.ensmp.fr/~mzaslavskiy/pwp_projects.html

NATALIE 2.0 [64]

Global

Pairwise

Onetoone

http://www.mi.fuberlin.de/w/LiSA/Natalie

GEDEVOM [77]

Global

Multiple

Onetoone

http://gedevo.mpiinf.mpg.de/multiplenetworkalignment

MAGNA [69]

Global

Pairwise

Onetoone

http://www.nd.edu/~cone/MAGNA

WAVE [73]

Global

Pairwise

Onetoone

Available upon email request until formally published

GREAT [72]

Global

Pairwise

Onetoone

Available upon email request until formally published

PINALOG [65]

Global

Pairwise

Onetoone

http://www.sbg.bio.ic.ac.uk/~pinalog
