De novo likelihood-based measures for comparing genome assemblies.

ABSTRACT:

Background

The current revolution in genomics has been made possible by software tools called genome assemblers, which stitch together DNA fragments "read" by sequencing machines into complete or nearly complete genome sequences. Despite decades of research in this field and the development of dozens of genome assemblers, assessing and comparing the quality of assembled genome sequences still relies on the availability of independently determined standards, such as manually curated genome sequences, or independently produced mapping data. These "gold standards" can be expensive to produce and may only cover a small fraction of the genome, which limits their applicability to newly generated genome sequences. Here we introduce a de novo  probabilistic measure of assembly quality whic

SUBMITTER: Ghodsi M 

PROVIDER: S-EPMC3765854 | biostudies-literature | 2013 Aug

REPOSITORIES: biostudies-literature