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PADRE: a package for analyzing and displaying reticulate evolution
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1002/0471650129.dob0522openalex-snapshot
PAUP * [Phylogenetic Analysis Using Parsimony (and Other Methods)]
inferredcites →https://doi.org/10.1006/mpev.2001.0977openalex-snapshot
Inferring the History of the Polyploid Silene aegaea (Caryophyllaceae) Using Plastid and Homoeologous Nuclear DNA Sequences
inferredcites →https://doi.org/10.1007/s00285-005-0365-zopenalex-snapshot
Phylogenetic networks from multi-labelled trees
inferredcites →https://doi.org/10.1080/10635150701424553openalex-snapshot
Untangling Complex Histories of Genome Mergings in High Polyploids
inferredcites →https://doi.org/10.1089/cmb.2008.0088openalex-snapshot
The Complexity of Deriving Multi-Labeled Trees from Bipartitions
inferredcites →https://doi.org/10.1090/dimacs/061/11openalex-snapshot
A classification of consensus methods for phylogenetics
inferredcites →https://doi.org/10.1093/molbev/msj030openalex-snapshot
Application of Phylogenetic Networks in Evolutionary Studies
inferredcites →https://doi.org/10.1093/molbev/msl045openalex-snapshot
Reconstructing the Evolutionary History of Polyploids from Multilabeled Trees
inferredcites →https://doi.org/10.1186/1471-2148-9-216openalex-snapshot
Inferring polyploid phylogenies from multiply-labeled gene trees
inferredcites →https://doi.org/10.1600/0363644054223648openalex-snapshot
Origin and Evolution of a Circumpolar Polyploid Species Complex in Silene (Caryophyllaceae) Inferred from Low Copy Nuclear RNA Polymerase Introns, rDNA, and Chloroplast DNA
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.11646/phytotaxa.480.1.3zenodo-depositor-declared
Species delimitation of Hymenasplenium obliquissimum group (Aspleniaceae) in southwestern China
inferred← citeshttps://doi.org/10.1002/9781119078845.ch22openalex-snapshot
Pattern Recognition in Phylogenetics: Trees and Networks
inferred← citeshttps://doi.org/10.1002/tax.602004openalex-snapshot
Challenges in polyploid phylogenetic reconstruction: A case story from the arctic‐alpine Cerastium alpinum complex
inferred← citeshttps://doi.org/10.1007/978-3-642-25591-5_76openalex-snapshot
Algorithms for Building Consensus MUL-trees
inferred← citeshttps://doi.org/10.1007/s10265-014-0652-0openalex-snapshot
Reticulate evolution in the apogamous Dryopteris varia complex (Dryopteridaceae, subg. Erythrovariae, sect. Variae) and its related sexual species in Japan
inferred← citeshttps://doi.org/10.1007/s11538-023-01140-9openalex-snapshot
Autopolyploidy, Allopolyploidy, and Phylogenetic Networks with Horizontal Arcs
inferred← citeshttps://doi.org/10.1016/j.ympev.2012.05.009openalex-snapshot
Reticulate evolution on a global scale: A nuclear phylogeny for New World Dryopteris (Dryopteridaceae)
inferred← citeshttps://doi.org/10.1089/cmb.2008.0088openalex-snapshot
The Complexity of Deriving Multi-Labeled Trees from Bipartitions
inferred← citeshttps://doi.org/10.1089/cmb.2012.0008openalex-snapshot
Polynomial-Time Algorithms for Building a Consensus MUL-Tree
inferred← citeshttps://doi.org/10.1093/molbev/msae241openalex-snapshot
Accurate Inference of the Polyploid Continuum Using Forward-Time Simulations
inferred← citeshttps://doi.org/10.1093/molbev/msw068openalex-snapshot
TriLoNet: Piecing Together Small Networks to Reconstruct Reticulate Evolutionary Histories
inferred← citeshttps://doi.org/10.1093/sysbio/syae024openalex-snapshot
Benefits and Limits of Phasing Alleles for Network Inference of Allopolyploid Complexes
inferred← citeshttps://doi.org/10.1093/sysbio/syr096openalex-snapshot
Inferring Species Networks from Gene Trees in High-Polyploid North American and Hawaiian Violets (Viola, Violaceae)
inferred← citeshttps://doi.org/10.1093/sysbio/sys062openalex-snapshot
Dendroscope 3: An Interactive Tool for Rooted Phylogenetic Trees and Networks
inferred← citeshttps://doi.org/10.1093/sysbio/syt012openalex-snapshot
Statistical Inference of Allopolyploid Species Networks in the Presence of Incomplete Lineage Sorting
inferred← citeshttps://doi.org/10.1093/sysbio/syv004openalex-snapshot
Assignment of Homoeologs to Parental Genomes in Allopolyploids for Species Tree Inference, with an Example from Fumaria (Papaveraceae)
inferred← citeshttps://doi.org/10.1101/129361openalex-snapshot
Bayesian phylogenetic analysis for diploid and allotetraploid species networks
inferred← citeshttps://doi.org/10.1101/2020.01.09.900571openalex-snapshot
A New Tree-Based Methodological Framework to Infer the Evolutionary History of Mesopolyploid Lineages: An Application to the Brassiceae Tribe (Brassicaceae)
inferred← citeshttps://doi.org/10.1101/2020.09.04.283093openalex-snapshot
Inferring Patterns of Hybridization and Polyploidy in the Plant Genus Penstemon (Plantaginaceae)
inferred← citeshttps://doi.org/10.1101/2025.11.19.689290openalex-snapshot
Hidden in Plain Sight. How Ks histogram dynamics can reveal and obscure ancient whole genome duplications
inferred← citeshttps://doi.org/10.1111/2041-210x.12694openalex-snapshot
A permutation approach for inferring species networks from gene trees in polyploid complexes by minimising deep coalescences
inferred← citeshttps://doi.org/10.1111/j.1558-5646.2011.01424.xopenalex-snapshot
THE PROMISCUOUS AND THE CHASTE: FREQUENT ALLOPOLYPLOID SPECIATION AND ITS GENOMIC CONSEQUENCES IN AMERICAN DAISIES (MELAMPODIUM SECT. MELAMPODIUM; ASTERACEAE)
inferred← citeshttps://doi.org/10.1111/jse.12530openalex-snapshot
Exploring the reticulate evolution in the Asplenium pekinense complex and the A. varians complex (Aspleniaceae)
inferred← citeshttps://doi.org/10.1111/mec.13538openalex-snapshot
A high frequency of allopolyploid speciation in the gymnospermous genus E phedraand its possible association with some biological and ecological features
inferred← citeshttps://doi.org/10.1111/nph.14812openalex-snapshot
Improved transcriptome sampling pinpoints 26 ancient and more recent polyploidy events in Caryophyllales, including two allopolyploidy events
inferred← citeshttps://doi.org/10.1146/annurev-ecolsys-110316-022729openalex-snapshot
Phylogenetics of Allopolyploids
inferred← citeshttps://doi.org/10.1186/1471-2148-12-104openalex-snapshot
Unraveling reticulate evolution in North American Dryopteris (Dryopteridaceae)
inferred← citeshttps://doi.org/10.1186/1471-2148-9-216openalex-snapshot
Inferring polyploid phylogenies from multiply-labeled gene trees
inferred← citeshttps://doi.org/10.1186/1748-7188-9-16openalex-snapshot
Enumerating all maximal frequent subtrees in collections of phylogenetic trees
inferred← citeshttps://doi.org/10.1186/s12862-017-1019-7openalex-snapshot
Evaluating allopolyploid origins in strawberries (Fragaria) using haplotypes generated from target capture sequencing
inferred← citeshttps://doi.org/10.12705/624.6openalex-snapshot
Species diversity and reticulate evolution in the Asplenium normale complex (Aspleniaceae) in China and adjacent areas
inferred← citeshttps://doi.org/10.1371/journal.pone.0067384openalex-snapshot
Metschnikowia Species Share a Pool of Diverse rRNA Genes Differing in Regions That Determine Hairpin-Loop Structures and Evolve by Reticulation
inferred← citeshttps://doi.org/10.1371/journal.pone.0103622openalex-snapshot
Do Triplets Have Enough Information to Construct the Multi-Labeled Phylogenetic Tree?
inferred← citeshttps://doi.org/10.3732/ajb.1100208openalex-snapshot
Establishing the phylogenetic origin, history, and age of the narrow endemic Viola guadalupensis (Violaceae)
inferred← citeshttps://doi.org/10.70675/d824f3fdza4e5z4129z84d4z87e78b25d21dopenalex-snapshot
Histoire évolutive d’un groupe mésopolyploïde chez les Brassicaceae : approches transcriptomiques et phylogénomiques pour évaluer les conséquences de la polyploïdie sur l’évolution du système d’auto-incompatibilité
inferred← citeshttps://doi.org/10.7287/peerj.6399v0.1/reviews/1openalex-snapshot
Peer Review #1 of "Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.6399v0.1/reviews/2openalex-snapshot
Peer Review #2 of "Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.6399v0.1/reviews/3openalex-snapshot
Peer Review #3 of "Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.6399v0.2/reviews/1openalex-snapshot
Peer Review #1 of "Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics (v0.2)"
inferred← citeshttps://doi.org/10.7287/peerj.6399v0.2/reviews/3openalex-snapshot
Peer Review #3 of "Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics (v0.2)"
inferred← citeshttps://doi.org/10.7717/peerj.6399openalex-snapshot
Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics
inferred← citeshttps://doi.org/10.9734/arrb/2014/8230openalex-snapshot
Phylogenetic Networks: A Review of Methods to Display Evolutionary History
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