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iaconogi / bigSCale2

Framework for clustering, phenotyping, pseudotiming and inferring gene regulatory networks from single cell data
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Error: vector memory exhausted (limit reached?) #31

Closed skim245 closed 4 years ago

skim245 commented 4 years ago

Thank you for developing this tool ! I'm trying to use bigSCale 2 Gene Regulatory Networks with big dataset

"37625 features across 34419 samples"

and gets below error !

results.ctl=compute.network(expr.data = counts.data, gene.names = gene.names, clustering = "direct") [1] "Pre-processing) Removing null rows " Error: vector memory exhausted (limit reached?) In addition: Warning message: In compute.network(expr.data = counts.data, gene.names = gene.names, : It seems you are running compute.network on a kind of large dataset, it it failed for memory issues you should try the compute.network for large datasets

are there anyways to bypass this memory issues?

Thank you in advance!

iaconogi commented 4 years ago

Dear user, unfortunately bigSCale2 is no longer maintained, as I now state in the ReadMe webpage. I leave the project to the community.