What type of analysis do you wish to perform on this graph? Depending on the task the complexity may vary quite a lot! :-)

Try cytoscape

http://cytoscape.org/

Hey Mahdieh!

Gephi is thought to be used for very large graphs (see link).

Greetings, David

https://gephi.org/

Pajek is another software used for large graphs. Here is the link:

http://vlado.fmf.uni-lj.si/pub/networks/pajek/howto.htm

ocaml will be a good choice I guess. following is the link

http://ocamlgraph.lri.fr/index.en.html