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pangenome / odgi

Optimized Dynamic Genome/Graph Implementation: understanding pangenome graphs
https://doi.org/10.1093/bioinformatics/btac308
MIT License
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odgi heaps #579

Closed jwli-code closed 4 months ago

jwli-code commented 4 months ago

Hi, “Summing up, we called odgi heaps -i -S -n200 to generate pangenome saturation curves for 200 permutations. ” From the article “A draft human pangenome reference”。 But when I try to run with my data, the result is empty, what is going on. odgi heaps -i XXX.og -S -n200 -t 40 -P

subwaystation commented 4 months ago

Without having access to your data it's hard to tell. I would recommend https://github.com/marschall-lab/panacus instead. It will give you the exact result (no permutations required!) much faster.