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petitmingchang / TO-GCN

Pipeline of time-ordered gene coexpression network (TO-GCN) construction from three-dimensional (gene expression, condition, and time) data
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Cutoff program failed (Segmentation fault (core dumped)) #11

Closed huangziyan11111 closed 1 year ago

huangziyan11111 commented 3 years ago

I refered this solution to put the input and program Cutoff into same local path, but it still failed without any error. Could you help me? these are the input file, I want to analysis all genes, so the third and fourth expression matrix are the same. https://github.com/petitmingchang/TO-GCN/issues/7 ./Cutoff 4 4 genes.matrix genes.matrix &>Cutoff.log genes.matrix.txt

xiuru commented 2 years ago

Hi @huangziyan11111. I was wondering if you were able to figure this out? Thanks!

petitmingchang commented 2 years ago

@huangziyan11111

Since there are 72,389 genes in the genes.matrix.txt, the Cutoff program has to process more than 5 billion correlation values which exceed the limitation. However, the GCN or TO-GCN programs still work for this gene matrix.

petitmingchang