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MonoPhy : a simple R package to find and visualize monophyly issues

https://doi.org/10.7717/peerj-cs.56
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1016/0095-8956(71)90020-7openalex-snapshot
Comparison of labeled trees with valency three
inferredcites →https://doi.org/10.1016/0300-9629(81)90319-4openalex-snapshot
Comparative immunological study of albumins of Anolis lizards of the Caribbean islands
inferredcites →https://doi.org/10.1017/s0094837300010460openalex-snapshot
Probabilities of origination, persistence, and extinction of families of marine invertebrate life
inferredcites →https://doi.org/10.1038/298297a0openalex-snapshot
Phylogenetic origins and adaptive evolution of avian and mammalian haemoglobin genes
inferredcites →https://doi.org/10.1038/ismej.2011.139openalex-snapshot
An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea
inferredcites →https://doi.org/10.1038/nature12872openalex-snapshot
Three keys to the radiation of angiosperms into freezing environments
inferredcites →https://doi.org/10.1093/bioinformatics/btg412openalex-snapshot
APE: Analyses of Phylogenetics and Evolution in R language
inferredcites →https://doi.org/10.1093/bioinformatics/btq706openalex-snapshot
phangorn: phylogenetic analysis in R
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a026160openalex-snapshot
Markov Chasin Monte Carlo Algorithms for the Bayesian Analysis of Phylogenetic Trees
inferredcites →https://doi.org/10.1111/j.1096-0031.1988.tb00465.xopenalex-snapshot
CLADISTIC TESTS OF ADAPTATIONAL HYPOTHESES
inferredcites →https://doi.org/10.1111/j.1558-5646.1985.tb00420.xopenalex-snapshot
CONFIDENCE LIMITS ON PHYLOGENIES: AN APPROACH USING THE BOOTSTRAP
inferredcites →https://doi.org/10.1111/j.1558-5646.1989.tb02565.xopenalex-snapshot
PHYLOGENIES AND THE ANALYSIS OF EVOLUTIONARY SEQUENCES, WITH EXAMPLES FROM SEED PLANTS
inferredcites →https://doi.org/10.1111/j.1558-5646.1992.tb02071.xopenalex-snapshot
USING PHYLOGENETIC TREES TO STUDY SPECIATION AND EXTINCTION
inferredcites →https://doi.org/10.1111/j.2041-210x.2011.00169.xopenalex-snapshot
phytools: an R package for phylogenetic comparative biology (and other things)
inferredcites →https://doi.org/10.1111/j.2041-210x.2012.00234.xopenalex-snapshot
Diversitree: comparative phylogenetic analyses of diversification in R
inferredcites →https://doi.org/10.1111/nph.13234openalex-snapshot
As old as the mountains: the radiations of the Ericaceae
inferredcites →https://doi.org/10.1146/annurev.es.18.110187.002421openalex-snapshot
INTRASPECIFIC PHYLOGEOGRAPHY: The Mitochondrial DNA Bridge Between Population Genetics and Systematics
inferredcites →https://doi.org/10.1186/1471-2105-8-402openalex-snapshot
Automated group assignment in large phylogenetic trees using GRUNT: GRouping, Ungrouping, Naming Tool
inferredcites →https://doi.org/10.1186/1748-7188-7-8openalex-snapshot
Reconciling taxonomy and phylogenetic inference: formalism and algorithms for describing discord and inferring taxonomic roots
inferredcites →https://doi.org/10.12688/f1000research.2-191.v1openalex-snapshot
taxize: taxonomic search and retrieval in R
inferredcites →https://doi.org/10.1371/journal.pone.0089543openalex-snapshot
Automatic Detection of Key Innovations, Rate Shifts, and Diversity-Dependence on Phylogenetic Trees
inferredcites →https://doi.org/10.32614/cran.package.rcolorbreweropenalex-snapshot
RColorBrewer: ColorBrewer Palettes
inferredcites →https://doi.org/10.32614/r.manualsopenalex-snapshot
R: A Language and Environment for Statistical Computing
inferredcites →https://doi.org/10.5061/dryad.63q27.2openalex-snapshot
Data from: Three keys to the radiation of angiosperms into freezing environments
inferredcites →https://doi.org/10.5061/dryad.t3fg2openalex-snapshot
Data from: As old as the mountains: the radiations of the Ericaceae
inferredcites →https://doi.org/10.63172/838762tqtlrwopenalex-snapshot
The phylogeny and relationships of the ratite birds as indicated by DNA-DNA hybridization

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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The monocotyledonous underground: global climatic and phylogenetic patterns of geophyte diversity
inferred← citeshttps://doi.org/10.1002/ppp3.70264openalex-snapshot
Hybridization patterns and research effort in Asteraceae, a megadiverse and economically important plant family
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inferred← citeshttps://doi.org/10.1007/s10682-022-10177-6openalex-snapshot
Size as a complex trait and the scaling relationships of its components across teleosts
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Evolutionary radiation of Polaromonas from mountain glaciers downstream
inferred← citeshttps://doi.org/10.1016/j.ympev.2020.106815openalex-snapshot
Is dispersal mode a driver of diversification and geographical distribution in the tropical plant family Melastomataceae?
inferred← citeshttps://doi.org/10.1016/j.ympev.2020.106862openalex-snapshot
Supermatrix phylogeny resolves goby lineages and reveals unstable root of Gobiaria
inferred← citeshttps://doi.org/10.1016/j.ympev.2021.107287openalex-snapshot
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inferred← citeshttps://doi.org/10.1016/j.ympev.2024.108177openalex-snapshot
Phylogenomic analyses of Blattodea combining traditional methods, incremental tree-building, and quality-aware support
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Two distinct host-specialized fungal species cause white-nose disease in bats
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Does Evolutionary History Correlate with Contemporary Extinction Risk by Influencing Range Size Dynamics?
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Curating BOLD records via Bayesian phylogenetic assignments enables harmonization of regional subgeneric classifications and cryptic species detection within the genus Tachina (Diptera: Tachinidae)
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inferred← citeshttps://doi.org/10.1093/sysbio/syab038openalex-snapshot
DNA Barcodes Combined with Multilocus Data of Representative Taxa Can Generate Reliable Higher-Level Phylogenies
inferred← citeshttps://doi.org/10.1093/sysbio/syad078openalex-snapshot
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inferred← citeshttps://doi.org/10.1093/sysbio/syaf080openalex-snapshot
Efficient Inference of Macrophylogenies: Insights from the Avian Tree of Life
inferred← citeshttps://doi.org/10.1101/053116openalex-snapshot
Seed size and its rate of evolution correlate with species diversification across angiosperms
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Age, Origin, and Biogeography: Unveiling the Factors Behind the Diversification of Dung Beetles
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inferred← citeshttps://doi.org/10.1101/2025.04.29.651190openalex-snapshot
300 billion years of angiosperm evolution at risk of extinction
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Plant DNA‐barcode library and community phylogeny for a semi‐arid East African savanna
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Historical Biogeography of Sub‐Saharan African Spleenworts
inferred← citeshttps://doi.org/10.1111/nph.17227openalex-snapshot
Pollen sterols are associated with phylogeny and environment but not with pollinator guilds
inferred← citeshttps://doi.org/10.1111/nph.70470openalex-snapshot
Pollen sterols are highly diverse but phylogenetically conserved
inferred← citeshttps://doi.org/10.1111/pala.12324openalex-snapshot
New crinoids from the Baltic region (Estonia): fossil tip‐dating phylogenetics constrains the origin and Ordovician–Silurian diversification of the Flexibilia (Echinodermata)
inferred← citeshttps://doi.org/10.1111/zsc.12251openalex-snapshot
Molecular support for morphology‐based family‐rank taxa: The contrasting cases of two families of Proseriata (Platyhelminthes)
inferred← citeshttps://doi.org/10.1126/science.adk7898openalex-snapshot
The global loss of avian functional and phylogenetic diversity from anthropogenic extinctions
inferred← citeshttps://doi.org/10.1126/science.adz0773openalex-snapshot
High risk of extinction across the flowering plant tree of life
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Species-level bacterial community profiling of the healthy sinonasal microbiome using Pacific Biosciences sequencing of full-length 16S rRNA genes
inferred← citeshttps://doi.org/10.1186/s40168-025-02329-xopenalex-snapshot
Functionally distinct core microbes of Tricholoma matsutake revealed by cross-study analysis
inferred← citeshttps://doi.org/10.1600/036364422x16512564801560openalex-snapshot
Synthesizing Existing Phylogenetic Data to Advance Phylogenetic Research in Orobanchaceae
inferred← citeshttps://doi.org/10.1600/036364423x16758877666039openalex-snapshot
Ecological and Evolutionary Origin ofCostus flammulus(Costaceae): A New Species from the Montane Cloud Forests of the Volcanic Cordilleras in Northern Costa Rica
inferred← citeshttps://doi.org/10.32614/cran.package.monophyopenalex-snapshot
MonoPhy: Explore Monophyly of Taxonomic Groups in a Phylogeny
inferred← citeshttps://doi.org/10.3389/fpls.2022.909768openalex-snapshot
An open and continuously updated fern tree of life
inferred← citeshttps://doi.org/10.3390/d12080288openalex-snapshot
Building a Robust, Densely-Sampled Spider Tree of Life for Ecosystem Research
inferred← citeshttps://doi.org/10.3897/phytokeys.177.62915openalex-snapshot
Evaluating the monophyly of Mammillaria series Supertextae (Cactaceae)
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