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Updated: Jun 13, 2026

Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations
Published on: December 7, 2021
GenePRIMP: a gene prediction improvement pipeline for prokaryotic genomes
Amrita Pati1, Natalia N Ivanova, Natalia Mikhailova
1Genome Biology Program, Department of Energy, Joint Genome Institute, Walnut Creek, California, USA. apati@lbl.gov
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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