Abstract
Background Genome sequence assemblies provide the basis for our understanding of biology. Generating error-free assemblies is therefore the ultimate, but sadly still unachieved goal of a multitude of research projects. Despite the ever-advancing improvements in data generation, assembly algorithms and pipelines, no automated approach has so far reliably generated near error-free genome assemblies for eukaryotes.
Results Whilst working towards improved data sets and fully automated pipelines, assembly evaluation and curation is actively employed to bridge this shortcoming and significantly reduce the number of assembly errors. In addition to this increase in product value, the insights gained from assembly curation are fed back into the automated assembly strategy and contribute to notable improvements in genome assembly quality.
Conclusions We describe our tried and tested approach for assembly curation using gEVAL, the genome evaluation browser. We outline the procedures applied to genome curation using gEVAL and also our recommendations for assembly curation in an gEVAL-independent context to facilitate the uptake of genome curation in the wider community.
Competing Interest Statement
The authors have declared no competing interest.
Footnotes
Autor details:
William Chow wc2{at}sanger.ac.uk
Joanna Collins jcc{at}sanger.ac.uk
Sarah Pelan sb2{at}sanger.ac.uk
Damon-Lee Pointon dp24{at}sanger.ac.uk
Ying Sims yy5{at}sanger.ac.uk
James Torrance jt8{at}sanger.ac.uk
Alan Tracey alt{at}sanger.ac.uk
Jonathan Wood jmdw{at}sanger.ac.uk