Partitionfinder: combined selection of partitioning schemes and substitution models for phylogenetic analyses.

By Robert Lanfear, B. Calcott, Simon Y. W. Ho, Stéphane Guindon. Molecular biology and evolution, 2012

5,480 citations recorded by the source corpus.

Subfields: Genetics, Molecular Biology, Paleontology

View Paper: https://www.semanticscholar.org/paper/117fe0bd485a0125f7d4dfdb1ac902c298994423

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Citations in the corpus

The beetle tree of life reveals that Coleoptera survived end‐Permian mass extinction to diversify during the Cretaceous terrestrial revolution (2015, methodology): “0.1 (Lanfear et al., 2012) for selection of data partitioning schemes and best-fitting models of nucleotide substitution for each partition.”
Anchored hybrid enrichment provides new insights into the phylogeny and evolution of longhorned beetles (Cerambycidae) (2018, methodology): “…evolution and has been determined to account for among-site heterogeneity in the rates and patterns of evolution of sequence alignments (e.g. Lanfear et al., 2012) which has been shown to improve various aspects of phylogenetic inference (e.g. see Poux et al., 2008; Rota & Wahlberg, 2012;…”
Phylogenetics, divergence times and diversification from three genomic partitions in monocots (2015, methodology): “We used PartitionFinder (Lanfear et al., 2012) to partition our data.”
New insights into the phylogeny, systematics and DNA barcoding of Nemertea (2014, neutral): “1 (Lanfear et al. 2012).”
W-IQ-TREE: a fast online phylogenetic tool for maximum likelihood analysis (2016, methodology): “For phylogenomic data, W-IQ-TREE determines the best-fit partitioning scheme using a fast implementation of PartitionFinder (5).”
Phylogeny and classification of Cucujoidea and the recognition of a new superfamily Coccinelloidea (Coleoptera: Cucujiformia) (2015, methodology): “We used PartitionFinder 1.0.1 (Lanfear et al., 2012) to simultaneously select the best-fit partitioning scheme and the corresponding nucleotide substitution models for our data.”
Higher level molecular phylogeny of darkling beetles (Coleoptera: Tenebrionidae) (2014, background): “1 (Lanfear et al., 2012), which allows simultaneous assessment of partition schemes and best-fit models of substitution.”
High-Throughput Genomic Data in Systematics and Phylogenetics (2013, background): “F or p er so na l u se o nl y. ES44CH06-Lemmon ARI 29 October 2013 10:2 reducing systematic error for large data sets because they allow optimal partitioning strategies to be efficiently and accurately selected from predefined character sets (e.g., Lanfear et al. 2012).”
PartitionFinder 2: New Methods for Selecting Partitioned Models of Evolution for Molecular and Morphological Phylogenetic Analyses. (2016, methodology): “The original version of PartitionFinder (Lanfear et al. 2012) proposed algorithms to automate the selection of a partitioning scheme given a set of user-defined data blocks as input.”
Testing the effect of palaeodrainages versus habitat stability on genetic divergence in riverine systems: study of a Neotropical fish of the Brazilian coastal Atlantic Forest (2015, methodology): “, 2012) under a coalescent constant size prior and HKY+G model that was selected using Akaike’s information criterion (AIC) in PartitionFinder (Lanfear et al., 2012).”