Inferring Pareto-optimal reconciliations across multiple event costs under the duplication-loss-coalescence model
Abstract Background Reconciliation methods are widely used to explain incongruence between a gene tree and species tree. However, the common approach of inferring maximum parsimony reconciliations (MPRs) relies on user-defined costs for each type of event, which can be difficult to estimate. Prior w...
Main Authors: | Ross Mawhorter, Nuo Liu, Ran Libeskind-Hadas, Yi-Chieh Wu |
---|---|
Format: | Article |
Language: | English |
Published: |
BMC
2019-12-01
|
Series: | BMC Bioinformatics |
Subjects: | |
Online Access: | https://doi.org/10.1186/s12859-019-3206-6 |
Similar Items
-
Reconciliation feasibility in the presence of gene duplication, loss, and coalescence with multiple individuals per species
by: Jennifer Rogers, et al.
Published: (2017-06-01) -
Hierarchical clustering of maximum parsimony reconciliations
by: Ross Mawhorter, et al.
Published: (2019-11-01) -
Phylogenomic Coalescent Analyses of Avian Retroelements Infer Zero-Length Branches at the Base of Neoaves, Emergent Support for Controversial Clades, and Ancient Introgressive Hybridization in Afroaves
by: John Gatesy, et al.
Published: (2022-06-01) -
Maximum parsimony reconciliation in the DTLOR model
by: Jingyi Liu, et al.
Published: (2021-08-01) -
Exact median-tree inference for unrooted reconciliation costs
by: Paweł Górecki, et al.
Published: (2020-10-01)