User: klkeysb

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klkeysb0
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Posts by klkeysb

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Comment: C: Estimating required memory for WGCNA analysis
... I have seen that article before. The operative line is here: > 16 GB memory should be able to handle up to about 24,000 nodes; 32 GB should be enough (perhaps barely so) for 40,000 and so on. By that calculation, 80k transcripts require 64GB of memory. Imagine our surprise when moving to ~90k t ...
written 8 weeks ago by klkeysb0
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Estimating required memory for WGCNA analysis
... We are running WGCNA on ~90,000 genes in a single block with 48 threads and 192GB of memory using the `blockwiseModules` function. WGCNA takes several dozen hours to compute the topological overlap matrix. We thought that 192GB would be sufficient for the analysis. But WGCNA chokes when exporting ...
R wgcna rna-seq coexpression written 8 weeks ago by klkeysb0 • updated 8 weeks ago by Kevin Blighe32k

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