GeneValidator

GeneValidator (GV) is a tool developed to automatically identify problematic gene predictions and aid manual curation of genomes of emerging model organisms. It performs multiple analyses based on comparisons to gene sequences from large databases and generates a report that includes extensive statistics and graphs for each prediction to guide manual curation efforts.

Topic

Sequence analysis;DNA;Data submission, annotation and curation

Detail

  • Operation: Sequence annotation

  • Software interface: Command-line user interface;Web user interface

  • Language: Ruby

  • License: GNU Affero General Public License version 3

  • Cost: Free

  • Version name: 2.1.11

  • Credit: The Sciruby community, NESCent Google Summer of Code, the NESCent “Building non-model species genome curation communities” working group, Biotechnology and Biological Sciences Research Council, Natural Environment Research Counciland QMUL Apocrita Midplus.

  • Input: FASTA

  • Output: -

  • Contact: y.wurm@qmul.ac.uk

  • Collection: -

  • Maturity: Stable

Publications

  • Choosing the Best Gene Predictions with GeneValidator.
  • Moghul I, et al. Choosing the Best Gene Predictions with GeneValidator. Choosing the Best Gene Predictions with GeneValidator. 2019; 1962:257-267. doi: 10.1007/978-1-4939-9173-0_16
  • https://doi.org/10.1007/978-1-4939-9173-0_16
  • PMID: 31020566
  • PMC: -
  • Correction to: Choosing the Best Gene Predictions with GeneValidator.
  • Moghul I, et al. Correction to: Choosing the Best Gene Predictions with GeneValidator. Correction to: Choosing the Best Gene Predictions with GeneValidator. 2019; 1962:C1. doi: 10.1007/978-1-4939-9173-0_18
  • https://doi.org/10.1007/978-1-4939-9173-0_18
  • PMID: 31667803
  • PMC: -
  • GeneValidator: identify problems with protein-coding gene predictions.
  • Drăgan MA, et al. GeneValidator: identify problems with protein-coding gene predictions. GeneValidator: identify problems with protein-coding gene predictions. 2016; 32:1559-61. doi: 10.1093/bioinformatics/btw015
  • https://doi.org/10.1093/bioinformatics/btw015
  • PMID: 26787666
  • PMC: PMC4866521

Download and documentation

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