v0.4.0
This release adds MLST profiling to the TheiaProk_Illumina_PE workflow.
- MLST profiling is performed using @tseemann's mlst workflow
Additional updates to TheiaProk_Illumina_PE:
- Data screening task added to avoid workflow failures caused by low-quality input read data
- QC metrics adjusted for WGS bacterial data
- Capture of n50 from Quast report (Thanks, @erikwolfsohn!)
- Exposure of minimum percent length and coverage parameters exposed in Abricate task
- Replacing the Quast assembly length with the Mash estimated genome size for the
cg-pipelineread coverage calculations - Allow for additional fields of metadata to be exported to taxon tables:
collection_date,originating_lab,city,county,zip