ErrorTracer

ErrorTracer is a software tool designed to identify and classify inconsistencies in genome-scale metabolic models efficiently. It addresses modelers' challenges in quality control of increasingly complex models, particularly in identifying reactions that cannot carry flux.

Key features of ErrorTracer:

1. Speed: ErrorTracer is approximately 100 times faster than current standard methods, taking only seconds to analyze even large-scale models.

2. Inconsistency detection: The algorithm searches for inconsistencies in the model and classifies them based on their type.

3. Origin identification: ErrorTracer identifies the origins of the inconsistencies, helping modelers pinpoint the sources of errors.

4. Interactive exploration: The tool's speed allows for interactive exploration of the model, simplifying the error identification and correction workflow when combined with model visualization.

Topic

Endocrinology and metabolism;Bioinformatics;Statistics and probability

Detail

  • Operation: Metabolic network modelling;Loop modelling

  • Software interface: Command-line user interface

  • Language: C++

  • License: Eclipse Public License 2.0

  • Cost: Free of charge

  • Version name: -

  • Credit: The Research Council of Norway.

  • Input: -

  • Output: -

  • Contact: Nikolay Martyushenko nikolay.martyushenko@ntnu.no, Eivind Almaas eivind.almaas@ntnu.no

  • Collection: -

  • Maturity: -

Publications

  • ErrorTracer: an algorithm for identifying the origins of inconsistencies in genome-scale metabolic models.
  • Martyushenko N and Almaas E. ErrorTracer: an algorithm for identifying the origins of inconsistencies in genome-scale metabolic models. ErrorTracer: an algorithm for identifying the origins of inconsistencies in genome-scale metabolic models. 2020; 36:1644-1646. doi: 10.1093/bioinformatics/btz761
  • https://doi.org/10.1093/BIOINFORMATICS/BTZ761
  • PMID: 31598631
  • PMC: PMC7703767

Download and documentation


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