ArticleJournal of computational biology : a journal of computational molecular cell biology2022
Efficient Minimum Flow Decomposition via Integer Linear Programming.
Article in Journal of computational biology : a journal of computational molecular cell biology, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.
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5 citing papers in PubMed.
- Minimum flow decomposition guided by saturating subflows.bioRxiv : the preprint server for biology · 2026Article
- Revisiting the complexity of and algorithms for the graph traversal edit distance and its variants.Algorithms for molecular biology : AMB · 2024Article
- Transcript assembly and annotations: Bias and adjustment.PLoS computational biology · 2023Article
- Phables: from fragmented assemblies to high-quality bacteriophage genomes.Bioinformatics (Oxford, England) · 2023Article
- Phables: from fragmented assemblies to high-quality bacteriophage genomes.bioRxiv : the preprint server for biology · 2023Article
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4 authors.
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Abstract
Minimum flow decomposition (MFD) is an NP-hard problem asking to decompose a network flow into a minimum set of paths (together with associated weights). Variants of it are powerful models in multiassembly problems in Bioinformatics, such as RNA assembly. Owing to its hardness, practical multiassembly tools either use heuristics or solve simpler, polynomial time-solvable versions of the problem, which may yield solutions that are not minimal or do not perfectly decompose the flow. Here, we provide the first fast and exact solver for MFD on acyclic flow networks, based on Integer Linear Programming (ILP). Key to our approach is an encoding of
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