subworkflows

Subworkflows

Grandeur is split into several subworkflows. Each subworkflow has its own wiki page.

• de_novo_alignment (fastq file inputs only)

• quality_assessment

• average_nucleotide_identity

• blobtools (fastq file inputs only)

• kraken2 (fastq file inputs only)

• min_hash_distance

• information

• phylogenetic_analysis (skipped by default, set params.msa = true)

• report

• test (downloads files from ENA)