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Young edited this page May 5, 2023 · 5 revisions

hybrid assembly subworkflow

Hybrid assembly using Illumina and Nanopore reads remains widely popular.

There are several hybrid assemblers included in this workflow that must be specified with 'params.assembler'

This subworkflow is fairly straightforward because these assemblers perform QC on both the Illumina and Nanopore reads.

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Donut Falls
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flowchart LR

A[nanopore fastq] --> B[hybrid assembly]
C[illumina fastq] --> B
B --> E[consensus fasta]
B --> F[Bandage]
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Relevant parameters (params) and their default values

params.assembler                   = 'unicycler'
params.bandage_options             = ''
params.masurca_options             = ''
params.unicycler_options           = ''
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