ArticleFrontiers in genetics2013
GraphML specializations to codify ancestral recombinant graphs.
Article in Frontiers in genetics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed.
- Article
- A general and efficient representation of ancestral recombination graphs.bioRxiv : the preprint server for biology · 2024Article
- Global and Local Ancestry and its Importance: A Review.Current genomics · 2024Review
- Measurably recombining malaria parasites.Trends in parasitology · 2023Review
- Efficient ancestry and mutation simulation with msprime 1.0.Genetics · 2022Article
- Efficient Coalescent Simulation and Genealogical Analysis for Large Sample Sizes.PLoS computational biology · 2016Article
- Inferences from tip-calibrated phylogenies: a review and a practical guide.Molecular ecology · 2016Review
- Eight challenges in phylodynamic inference.Epidemics · 2015Article
- The importance and application of the ancestral recombination graph.Frontiers in genetics · 2013Article
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Authors and funding
3 authors.
Funding
Abstract
Software which simulates, infers, or analyzes ancestral recombination graphs (ARGs) faces the problem of communicating them. Existing formats omit information either about the location of recombinations along the chromosome or the position of recombinations relative to the branching topology. We present a specialization of GraphML, an XML-based standard for mathematical graphs, for communication of ARGs. The GraphML <node> type is specialized to contain the node type, time, recombination location, and name. The GraphML <edge> type is specialized to contain the ancestral material passed along that edge. This approach, which we call ArgML, retains all information in the original ARG. Due to its use of established formats ArgML can be parsed, checked and displayed by existing software.
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