Hello @jianshu93
Welcome to the forums! 
Yes, you could cite both the original DADA2 paper (PMC4927377) and the CCS followup paper (PMC6765137).
Error models depend on sequencing method, which is why the current plugin has methods for Illumina single, Illumina paired, Pyrosequencing, and PacBio CCS.
https://docs.qiime2.org/2024.10/plugins/available/dada2/
The Qiime2 plugin for DADA2 PacBio CCS was added back in 2022, so I feel I may be misunderstanding your question...
Let me know if that helps!
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