GEMtractor: extracting views into genome-scale metabolic models.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 32003785.
- Also identified by DOI 10.1093/bioinformatics/btaa068.
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Abstract
Computational metabolic models typically encode for graphs of species, reactions and enzymes. Comparing genome-scale models through topological analysis of multipartite graphs is challenging. However, in many practical cases it is not necessary to compare the full networks. The GEMtractor is a web-based tool to trim models encoded in SBML. It can be used to extract subnetworks, for example focusing on reaction- and enzyme-centric views into the model. The GEMtractor is licensed under the terms of GPLv3 and developed at github.com/binfalse/GEMtractor-a public version is available at sbi.uni-rostock.de/gemtractor.
Medical subject headings
- Genome
- Metabolic Networks and Pathways