Hi,
I was wondering if anyone has ever run Qiime in a MacBook Pro M4 (16 GB RAM, 512 GB storage). I’m having trouble analyzing microbiome data from 140 samples and am looking for a more suitable option to get a new laptop. I would appreciate any recommendations.
Thank you.
Hi Ana!
Just to understand your situation a bit better: could you clarify what kind of data you’re analyzing? For example, are you working with amplicon data (16S/ITS) or shotgun metagenomic data, and roughly what steps of the pipeline you’re running in QIIME?
The computational requirements can vary quite a lot depending on that, so it would help to give more tailored advice.
Thanks!
Paula
Hi Paula!
It’s a 16S microbiome amplicon from soil samples.
Hi Ana,
Thanks for the clarification! For 16S amplicon data, your MacBook specs honestly sound totally reasonable.
The only thing that might make it heavier is sequencing depth. Steps like DADA2 (denoising) and building the phylogenetic tree can use more memory, especially if you have very high read counts per sample.
Which kind of errors are you running into? are these memory related errors? If you are, then using an HPC/cluster just for the heavier steps could be a good workaround.
If you feel like sharing roughly how many reads per sample you have and some error longs we could think it through a bit more.
Cheers,
Paula
This topic was automatically closed 31 days after the last reply. New replies are no longer allowed.