Phylocom: software for the analysis of phylogenetic community structure and trait evolution

By Campbell O. Webb, David D. Ackerly, Steven W. Kembel. Bioinform., 2008

544 citations recorded by the source corpus.

Subfields: Genetics, Nature and Landscape Conservation, Paleontology

View Paper: https://www.semanticscholar.org/paper/aa9ba88ff68eaa1cae7ced1b97a237c3c8ffbef8

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In Genetics

In Nature and Landscape Conservation

In Paleontology

Citations in the corpus

Phylogenetic community structure in Minnesota oak savanna is influenced by spatial extent and environmental variation (2009, background): “Topology Branch length Branch length new ages Test Mean obs. rank SE Obs. rank Obs. rank LMS 995.9 0.6 913 999 50 quantile 994.8 3.6 574 999 75 quantile 991.8 0.5 520 999 9”
Fungi ahoy! Diversity on marine wooden substrata in the high North (2014, methodology): “To reveal whether fungal communities are phylogenetically clustered we calculated phylogenetic community measures, PD, net relatedness index (NRI) and nearest taxon index (NTI), in Phylocom version 4.2 (Webb, 2000; Webb et al., 2002, 2008).”
The macroecology of animal versus wind pollination: ecological factors are more important than historical climate stability (2016, unknown): “Phylogenetic information was extracted at genus level from Phylomatic (R20120829 stored tree, Webb and Donoghue 2005) and the tree generated by using Phylocom (Webb et al. 2008).”
Diversity hotspots and conservation gaps for the Chinese endemic seed flora (2016, methodology): “The branch lengths of our phylogenetic tree were adjusted by using the BLADJ algorithm (Webb et al., 2008) with known molecular and fossil dates (Wikstrom et al.”
Morphological traits and water use strategies in seedlings of Mediterranean coexisting species (2010, unknown): “A phylogenetic tree was assembled based on the supertree available in the ‘‘Phylocom’’ software (Webb et al. 2008) and considering the phylogeny of Fabaceae (Pardo et al.”
Dispersal-Based Microbial Community Assembly Decreases Biogeochemical Function (2017, methodology): “This was done by calculating the abundance-weighted β-mean-nearest-taxon-distance (βMNTD) [35,36].”
Stochastic Community Assembly: Does It Matter in Microbial Ecology? (2017, background): “, all observed taxa have equal probabilities of being present in a community) (211, 212, 218) or proportional (205, 209, 210, 212, 216) or fixed (31, 204, 217, 219, 220) to the observed frequency.”