How to run SOAPdenovo-127mer in normal PC

Question

[wpwupingwp]

I want to use soapdenovo-127mer to assembly chloroplast genome, but when it was running at half, Linux shows "out of memory", and I got the informations from htop that soapdenovo-127mer used more than 20G RAM, which is larger than my computer(16GB).

Please tell me how to do it on my computer. I try to apply for some supercomputers, but since I am not American, I got reject from XSEDE, and Chinese native supercomputers seems do not open for personal.

P.S.: I don't know whether it is about /swap size, I have 8GB and I can't change the size or I have to reinstall the system.

Answer 1

[orange]

Increasing the swap may be useful, but run slower. And I am doubt that why assembly of chloroplast genomeuse so many memory.What type of reads do you have?If you have 454 reads,maybe you can see How To Assemble Chloroplast Genome?