Memory Issue while doing single cell seq analysis
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Entering edit mode
3 months ago
cogen859 • 0

Hi,

I am new to scrna seq analysis and other type of analyses on single cell data. My current dataset contains roughly 90K cells and 23K genes and I want to perform LR interaction analysis. I have been running into memory issues while running these analysis pipelines- SingleCellSignalR and Omnipath. I also wanted to test if my seurat cluster analysis is optimal, therefore decided to use R package-ChooseR. And again I ran into memory issues.

Machine Details: Azure Windows VM (64GB RAM and 128GB Temp Storage) and R 64bit version.

Please suggest any steps how I can overcome this type of memory issues. Thank you in advance for your help :)

LR interaction analysis scrna scran-seq • 249 views
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Entering edit mode
3 months ago
GenoMax 107k

If you are running out of memory then using a VM with more RAM is the only option.

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