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racon container

Main tool : racon

Code repository: https://github.com/lbcb-sci/racon

Basic information on how to use this tool:

  • executable: racon
  • help: -h
  • version: -v
  • description: Polishes long read assemblies

Racon is intended as a standalone consensus module to correct raw contigs generated by rapid assembly methods which do not include a consensus step.

Example Usage

# general
racon <sequences> <overlaps> <target sequences>

# more specific
racon --match 8 --mismatch -6 --gap -8 --window-length 500 --threads {threads} {input.reads} {input.alignment} {input.assembly}