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Based on the program, it appears that wfmash performs all-vs-all alignment on a single node. From my trials, this is indeed the case.
I am trying to speed up the wfmash process on multiple nodes (PBSpro) by running parallel jobs. My idea is to perform one-vs-all alignments for each node from an input full genome dataset (120 human pangenomes), and then merge the results into a single paf file for further analysis.
Do you have any recommendations for tweaking the wfmash code to achieve this?
If I run one-vs-all alignments on each node, will the merged paf file be equivalent to an all-vs-all alignment? Theoretically, I assume the final outcome should be the same.
Looking forward to your insights.
Kind regards,
Taek
The text was updated successfully, but these errors were encountered:
Dear PGGB team,
I have a few questions about your great program.
Based on the program, it appears that wfmash performs all-vs-all alignment on a single node. From my trials, this is indeed the case.
I am trying to speed up the wfmash process on multiple nodes (PBSpro) by running parallel jobs. My idea is to perform one-vs-all alignments for each node from an input full genome dataset (120 human pangenomes), and then merge the results into a single paf file for further analysis.
Looking forward to your insights.
Kind regards,
Taek
The text was updated successfully, but these errors were encountered: