Question: Alternatives to my own server to run 16S rDNA amplicon sequencing data using MOTHUR pipeline
gravatar for antonioggsousa
3.3 years ago by
antonioggsousa90 wrote:

Hi everyone!

I have 9 samples of 16S rDNA amplicon sequencing data (1 million reads) that I have been trying to run in MOTHUR pipeline using my own computer. The problem is that i don't have more space available and due to long running times one of the last commands aborts automatically past some hours ≈ 18 hours (I think that is due to memory RAM usage/limitation).

I would like to question if someone can help me with alternatives to this.

I know that there is cloud computing resources, but there is other options beyond this one? And if this is the only solution, which one (type of cloud computing - compute engine form Google services) is the best choice?

Thank you. Best regards, António

next-gen • 882 views
ADD COMMENTlink written 3.3 years ago by antonioggsousa90

Do you have any university/institutional compute resources available? I'd go there before AWS/Google for a project of this scale. mothur shouldn't require more than a reasonably powerful desktop computer for that number of samples.

ADD REPLYlink written 3.3 years ago by fanli.gcb690

Hi fali.gcb,

meanwhile I got a server in my institution that seems reasonably good to deal with this job.

Thank you for your attention. Best wishes, António

ADD REPLYlink written 3.2 years ago by antonioggsousa90
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