What assembler is appropriate for High-Fidelity PacBio reads?
For example, canu is good for high-error PacBio reads. But what algorithm to use for HiFi reads? Would it be OK to use canu without the error-correction step?
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As recently tweeted by A. Phillippy, Canu v1.9 now supports HiFi reads.
Therefore you should just read their manual and look for the implementation
From the group of Heng Li there is hifiasm.
The HiFi de novo assembly tool that PacBio has been developing is called IPA.
It’s available on pbbioconda for command line use, and as a push-button pipeline in their SMRT Link software.
I looked at a few examples of runtimes of IPA for different genome sizes:
3 Gb human genome – ~600 CPU hours 800 Mb complex plant – ~430 CPU hours 400 Mb plant - ~100 CPU hours