RAM limitation on trinity using DIAG computational resource

[sckinta]

Hi,

Any one used DIAG grid resource to run trinity? I am wondering what is maximum RAM request in grid.

Since trinity recommends to combine all your samples from different conditions and construct only one transcriptome for expression analysis, I want to combine my 36 samples (each sample can be 50M to 100M) reads. It seems I need 4TB RAM if I followed 1GB per 1M reads standard.

Also, I am wondering whether normalization will compromise the assembly quality a lot or not, especially considering that I want to detect low expressed factors.

Thank you

[jevcampe]

Hi,

May I ask how you managed to run trinity. Did you run it on DIAG?

Cheers