new module: circlator

[cwoodside1278]

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Further Information

Tool information

• Tool: circlator
• Subcommand: circlator all
• Conda/Bioconda package: circlator
• License: GPL-3.0
• Publication: Hunt et al., Genome Biology 2015. https://doi.org/10.1186/s13059-015-0849-0

Description

circlator all runs the full Circlator pipeline to automate circularization of genome assemblies
from long sequencing reads (PacBio / Oxford Nanopore). It sequentially runs: mapreads, bam2reads,
assemble, merge, clean, and fixstart.

Inputs:

• Assembly (FASTA)
• Long reads (FASTA/FASTQ)

Outputs:

• Circularized assembly (FASTA)
• Log files

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