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
Documentation: https://github.com/TheAngryFox/ModelExplorer/blob/master/README.md
Home page: https://github.com/TheAngryFox/ModelExplorer
Links: https://github.com/TheAngryFox/ModelExplorer/tree/master/docs
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