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. 2010 Jun;7(6):455-7.
doi: 10.1038/nmeth.1457. Epub 2010 May 2.

GenePRIMP: a gene prediction improvement pipeline for prokaryotic genomes

Amrita Pati  1 , Natalia N Ivanova, Natalia Mikhailova, Galina Ovchinnikova, Sean D Hooper, Athanasios Lykidis, Nikos C Kyrpides
Affiliations
Free article

GenePRIMP: a gene prediction improvement pipeline for prokaryotic genomes

Amrita Pati et al. Nat Methods. 2010 Jun.
Free article

Abstract

We present 'gene prediction improvement pipeline' (GenePRIMP; http://geneprimp.jgi-psf.org/), a computational process that performs evidence-based evaluation of gene models in prokaryotic genomes and reports anomalies including inconsistent start sites, missed genes and split genes. We found that manual curation of gene models using the anomaly reports generated by GenePRIMP improved their quality, and demonstrate the applicability of GenePRIMP in improving finishing quality and comparing different genome-sequencing and annotation technologies.

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