hybrid

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'

• unicycler (params.assembler = 'unicycler')

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           = ''