A simple pipeline for bacterial assembly and quality control

Estimate the relative abundance of sequence reads originating from different species in a sample.

Measles Sequence Analysis and Automation

SNVPhyl nf-core Pipeline (Development)

An example pipeline for running on IRIDA Next

Pipeline for submitting data to INSDC databases for IRIDA Next

Quickly refines a reference set of samples based on distance.

Genotyping Quality Control (typingQC)

Nomenclature assignment pipeline

EPS suite Arborator pipeline

nf-core StarAMR

An example pipeline for running on IRIDA-Next with nf-schema

Pipeline for downloading data from INSDC databases for IRIDA Next.