Hello,

[joscarhuguet]

Hello There!
I am starting an evaluation of free softwares in order to assembly solexa reads. I have money to buy a new good computer. I've noticed that most of the software for assembling require lot of memory. I need some advice about the computer requirements to run these programs.
Thanks
Jose

[[email protected]]

Hello Jose!
I am new and also searching some good free softwares for assembly of genomes from solexa reads. Yes, these softwares requires lot of memory. I think atleast Mac's 3 GHz processor, 12 GB RAM, 300+ Hard disk will work for you. What do u say on it?

[joscarhuguet]

Hello Jose!
I am new and also searching some good free softwares for assembly of genomes from solexa reads. Yes, these softwares requires lot of memory. I think atleast Mac's 3 GHz processor, 12 GB RAM, 300+ Hard disk will work for you. What do u say on it?

Thanks for your comments,
Yeah I already did some simulations with some programs (Velvet and ssake) in my old Mac Pro, 8 GB memory. It is fine with 2 million of reads (~50 bp length), but more than that the computer is out of memory. 12 GB RAM sounds a decent amount to start so.

[[email protected]]

Great I am looking for mapping/reference based assembly software for bacterial genome. Have you any idea which one is better to use, coz Velvet and SSake does de novo assembly. Any idea ???