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oscar-franzen / oclust

A pipeline for clustering of PacBio CCS reads into Operational Taxonomic Units.
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time complexity #2

Open homopolymer opened 7 years ago

homopolymer commented 7 years ago

We are running oclust on ~7,000 PacBio CCS 16S reads. How long will oclust take to finish computing similarity matrix? Can you give us some hints about the runtime complexity?

oscar-franzen commented 7 years ago

It will take a long time. The global alignments are very time consuming. If you are interested in sharing your data, then I can run it on our cluster and forward the results to you.