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PacBio sequencers produce two types of characteristic reads (continuous long reads: long and high error rate and circular consensus sequencing: short and low error rate), both of which could be useful for de novo assembly of genomes. Currently, there is no available simulator that targets the specific generation of PacBio libraries. PBSIM simulates those PacBio reads by using either a model-based or sampling-based simulation.

Software type:
Package
Interface:
Command line interface
Restrictions to use:
None
Operating system:
Unix/Linux
License:
GNU General Public License version 2.0
Computer skills:
Advanced
Stability:
Stable
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  • (Ono et al., 2013) PBSIM: PacBio reads simulator–toward accurate genome assembly. Bioinformatics.
    PMID: 23129296

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