Samtool Supported Models -

Note: For PacBio specifically, users often prefer deepvariant or pbsv for the model logic, but SAMtools is essential for the sort and index steps.

Mathematically, the likelihood of a genotype $G$ given read data $D$ is approximated as: $$P(D|G) \propto \prod_reads P(read|G, \textbase qual, \textmap qual)$$ samtool supported models

Standard parameters are tuned for short reads. You must adjust for the long-read model. Note: For PacBio specifically

Optimized for mobile and web deployment (50x smaller than SAM-H). samtool supported models

And to propose a new model for inclusion, submit a request via the model zoo GitHub repository. The ecosystem lives through community contributions.