Quality Assessment

Quality Assessment subworkflow

This subworkflow does not use species information, but contains useful tools to evaluate the quality of the input files.

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Quality Assessment Subworkflow
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flowchart LR
fastq --> fastqc
fastq --> circulocov
fasta --> circulocov
fasta --> quast
fasta --> MSLT
fasta --> plasmidfinder

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Relevant params with their default values:

# to skip all these processes, set this to true
params.skip_extras   = false