Workflows

Introduction

https://github.com/rodtheo/nf-core-assemblyeval

Assemblyeval accepts genome assemblies (FASTA), paired-end Illumina reads, and long reads (ONT or PacBio) via a YAML samplesheet, optionally cleaning them of contamination before evaluation. The pipeline systematically assesses contiguity (QUAST), completeness (COMPLEASM/BUSCO, Merfin), and correctness (ALE, REAPR, CRAQ) — combining read-alignment-based and k-mer-based evidence ...