Research Object Crate for Combined workflows for large genome assembly

Combined workflow for large genome assembly The tutorial document for this workflow is here: https://doi.org/10.5281/zenodo.5655813 What it does: A workflow for genome assembly, containing subworkflows: * Data QC * Kmer counting * Trim and filter reads * Assembly with Flye * Assembly polishing * Assess genome quality Inputs: * long reads and short reads in fastq format * reference genome for Quast Outputs: * Data information - QC, kmers * Filtered, trimmed reads * Genome assembly, assembly graph, stats * Polished assembly, stats * Quality metrics - Busco, Quast Options * Omit some steps - e.g. Data QC and kmer counting * Replace a module with one using a different tool - e.g. change assembly tool Infrastructure_deployment_metadata: Galaxy Australia (Galaxy)

Author

Anna Syme

License

Apache-2.0

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